Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 103 of 250
Found at i:33423308 original size:27 final size:27
Alignment explanation
Indices: 33423228--33423310 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
33423218 TAAATTGTAC
* *
33423228 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
33423256 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
33423283 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
33423310 A
1 A
33423311 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:33423311 original size:29 final size:27
Alignment explanation
Indices: 33423200--33423311 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
33423190 CATGAGATTG
** * *
33423200 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
33423229 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
33423257 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
33423284 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
33423312 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:33431646 original size:112 final size:112
Alignment explanation
Indices: 33431444--33431667 Score: 403
Period size: 112 Copynumber: 2.0 Consensus size: 112
33431434 CCGTGGACCA
*
33431444 TTTTGGTATAATGGCTTGTATATTTTGAGTATGACATGTATAGCATTATAATCATTTTCTTTATA
1 TTTTGGTATAATGGCTTGTATATTTTGAGTATGACATGTATAGCATTATAATCATTTTCTGTATA
33431509 TGATCTTATGATATGGCTATTGGGTGGTAAAGAAATGTTTGGTAATG
66 TGATCTTATGATATGGCTATTGGGTGGTAAAGAAATGTTTGGTAATG
* * *
33431556 TTTTTGTATAGTGGCTTGTATATTTTGAGTATGACATGTATAGCATTATAATCATTTTGTGTATA
1 TTTTGGTATAATGGCTTGTATATTTTGAGTATGACATGTATAGCATTATAATCATTTTCTGTATA
*
33431621 TGATCTTATGATATGGCTATTGGGTGGTAAGGAAATGTTTGGTAATG
66 TGATCTTATGATATGGCTATTGGGTGGTAAAGAAATGTTTGGTAATG
33431668 ATTAGCCATT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.45
Consensus pattern (112 bp):
TTTTGGTATAATGGCTTGTATATTTTGAGTATGACATGTATAGCATTATAATCATTTTCTGTATA
TGATCTTATGATATGGCTATTGGGTGGTAAAGAAATGTTTGGTAATG
Found at i:33438930 original size:33 final size:34
Alignment explanation
Indices: 33438884--33438953 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
33438874 AGGCCCACAT
* * *
33438884 TGTTACTGCATAGGGCTTAGGCCCAGACTG-TAC
1 TGTTACTGAATAGGGCTCAGGCCCAGACCGTTAC
*
33438917 TGTTATTGAATAGGGCTCAGGCCCAGACCGTTAC
1 TGTTACTGAATAGGGCTCAGGCCCAGACCGTTAC
33438951 TGT
1 TGT
33438954 ATGCATTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 26 0.81
34 6 0.19
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (34 bp):
TGTTACTGAATAGGGCTCAGGCCCAGACCGTTAC
Found at i:33443728 original size:25 final size:24
Alignment explanation
Indices: 33443681--33443849 Score: 193
Period size: 25 Copynumber: 7.0 Consensus size: 24
33443671 GCTTTATCAT
33443681 ATAACTGGAGGC-T-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* * *
33443704 AGTAACTTGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
33443729 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
* *
33443754 ATAATTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
33443779 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
* *
33443804 ATAACTGGGGCATAAGCTC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
33443827 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33443850 GCACTTCCTC
Statistics
Matches: 126, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
23 23 0.18
24 35 0.28
25 68 0.54
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:33443921 original size:9 final size:9
Alignment explanation
Indices: 33443907--33443963 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
33443897 ATCTCATGTG
33443907 CATATCATA
1 CATATCATA
*
33443916 CATATCATGTG
1 CATATCA--TA
33443927 CATATCATA
1 CATATCATA
* *
33443936 CATGTCATGTG
1 CATATCA--TA
33443947 CATATCATA
1 CATATCATA
33443956 CATATCAT
1 CATATCAT
33443964 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:33443923 original size:20 final size:20
Alignment explanation
Indices: 33443895--33443965 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
33443885 GCATTTATGA
*
33443895 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
33443915 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
33443935 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
33443955 ACATATCATGT
1 ACATATCATGT
33443966 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:33443930 original size:11 final size:11
Alignment explanation
Indices: 33443900--33443954 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
33443890 TATGAACATC
33443900 TCATGTGCATA
1 TCATGTGCATA
*
33443911 TCA--TACATA
1 TCATGTGCATA
33443920 TCATGTGCATA
1 TCATGTGCATA
* *
33443931 TCA--TACATG
1 TCATGTGCATA
33443940 TCATGTGCATA
1 TCATGTGCATA
33443951 TCAT
1 TCAT
33443955 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:33444030 original size:25 final size:25
Alignment explanation
Indices: 33444002--33444049 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33443992 ATATATAAAC
* *
33444002 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
*
33444027 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
33444050 CTTGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:33445352 original size:27 final size:27
Alignment explanation
Indices: 33445322--33445658 Score: 207
Period size: 27 Copynumber: 12.4 Consensus size: 27
33445312 GTAAATCTAC
* * *
33445322 AAACCAAGGGTATTTCAGTAATGTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
33445349 AAACCAATGGTATTTTTA-TAATTTTTAG
1 AAACCAAGGGTA-TTTTAGTAA-TTTTAT
* *
33445377 AAAGTCAAGGGTATTTCT-GTAATTTTGT
1 AAA-CCAAGGGTATTT-TAGTAATTTTAT
* * * *
33445405 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
*** ** * *
33445432 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
33445459 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTTAGTAATTTTAT
* * * *
33445486 AAACTAGGGGTATTTTTGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
33445513 AAACCAGGGGTATTTTAGCAATTTTAT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* * *
33445540 AGACC-AGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
*
33445566 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *** *
33445593 AAATCGAA-GGTAAAATAGTAATTCTAT
1 AAA-CCAAGGGTATTTTAGTAATTTTAT
** ** *
33445620 AAATTAAGGGTAAATTAGTAATTCTAT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
33445647 AAATCGAGGGTA
1 AAACCAAGGGTA
33445659 AAACAGTAAT
Statistics
Matches: 253, Mismatches: 46, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
26 26 0.10
27 192 0.76
28 24 0.09
29 11 0.04
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTAT
Found at i:33445659 original size:27 final size:27
Alignment explanation
Indices: 33445580--33445712 Score: 113
Period size: 27 Copynumber: 4.9 Consensus size: 27
33445570 CAAGGGTATT
* * *
33445580 TTAGTAATTTTGTAAATCGAAGGTAAA
1 TTAGTAATTCTATAAATCGAGGGTAAA
* **
33445607 ATAGTAATTCTATAAATTAAGGGTAAA
1 TTAGTAATTCTATAAATCGAGGGTAAA
33445634 TTAGTAATTCTATAAATCGAGGGTAAA
1 TTAGTAATTCTATAAATCGAGGGTAAA
** * * * **
33445661 ACAGTAATTATGTAAATTGAGGGTACT
1 TTAGTAATTCTATAAATCGAGGGTAAA
* * * *
33445688 TTGGTAATTTTACAAGTCGAGGGTA
1 TTAGTAATTCTATAAATCGAGGGTA
33445713 TTTCAATAAT
Statistics
Matches: 82, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (27 bp):
TTAGTAATTCTATAAATCGAGGGTAAA
Found at i:33445695 original size:54 final size:54
Alignment explanation
Indices: 33445571--33445712 Score: 167
Period size: 54 Copynumber: 2.6 Consensus size: 54
33445561 TTTGTAAACC
* * * * *
33445571 AAGGGTATTTTAGTAATTTTGTAAATCGAAGGTAAAATAGTAATTCTATAAATT
1 AAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAGTAATTATATAAATT
* * *
33445625 AAGGGTAAATTAGTAATTCTATAAATCGAGGGTAAAACAGTAATTATGTAAATT
1 AAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAGTAATTATATAAATT
* * * * *
33445679 GAGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 AAGGGTAATTTAGTAATTTTATAAATCGAGGGTA
33445713 TTTCAATAAT
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.35
Consensus pattern (54 bp):
AAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAGTAATTATATAAATT
Found at i:33448483 original size:31 final size:31
Alignment explanation
Indices: 33448445--33448508 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
33448435 CCTTTTCATA
33448445 TTTCATATTTCATAACACT-GAGCCGAAGCCT
1 TTTCATATTTCATAACACTAG-GCCGAAGCCT
**
33448476 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
33448507 TT
1 TT
33448509 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:33448779 original size:25 final size:25
Alignment explanation
Indices: 33448723--33448864 Score: 229
Period size: 25 Copynumber: 5.8 Consensus size: 25
33448713 CCTCTTTTAG
* *
33448723 TAACT-GGGCAAAAGCCCTTT-TTA
1 TAACTGGGGCATAAGCCCTTTATCA
33448746 TAACTGGGGCATAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCCTTTATCA
*
33448771 TAACTGGGGCATAAGCCCTTCATCA
1 TAACTGGGGCATAAGCCCTTTATCA
33448796 TAACTGGGGCATAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCCTTTATCA
33448821 TAACTGGGGCATAAGCCCTTTA--A
1 TAACTGGGGCATAAGCCCTTTATCA
33448844 TAACTGGGGCATAAGCCCTTT
1 TAACTGGGGCATAAGCCCTTT
33448865 TGCACTTCCT
Statistics
Matches: 113, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
23 27 0.24
24 14 0.12
25 72 0.64
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
TAACTGGGGCATAAGCCCTTTATCA
Found at i:33448937 original size:9 final size:9
Alignment explanation
Indices: 33448923--33448979 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
33448913 ATCTCATGTG
33448923 CATATCATA
1 CATATCATA
*
33448932 CATATCATGTG
1 CATATCA--TA
33448943 CATATCATA
1 CATATCATA
* *
33448952 CATGTCATGTG
1 CATATCA--TA
33448963 CATATCATA
1 CATATCATA
33448972 CATATCAT
1 CATATCAT
33448980 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:33448939 original size:20 final size:20
Alignment explanation
Indices: 33448911--33448981 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
33448901 GCATTTATGA
*
33448911 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
33448931 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
33448951 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
33448971 ACATATCATGT
1 ACATATCATGT
33448982 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:33448946 original size:11 final size:11
Alignment explanation
Indices: 33448916--33448970 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
33448906 TATGAACATC
33448916 TCATGTGCATA
1 TCATGTGCATA
*
33448927 TCA--TACATA
1 TCATGTGCATA
33448936 TCATGTGCATA
1 TCATGTGCATA
* *
33448947 TCA--TACATG
1 TCATGTGCATA
33448956 TCATGTGCATA
1 TCATGTGCATA
33448967 TCAT
1 TCAT
33448971 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:33449046 original size:25 final size:25
Alignment explanation
Indices: 33449018--33449065 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
33449008 ATATATAAAC
* *
33449018 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
33449043 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
33449066 CATGTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:33450430 original size:27 final size:27
Alignment explanation
Indices: 33450310--33450633 Score: 169
Period size: 27 Copynumber: 12.0 Consensus size: 27
33450300 TTTCACCCTA
* * * *
33450310 CAAGGGTGTTTTGGTAAATCTACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * * *
33450336 CGAAGGGTATTTCAGTAATGTTGTAAAC
1 C-AAGGGTATTTTGGTAATTTTATAAAT
* ** *
33450364 CAATGGTATTTTTATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-T
* *
33450393 CAAAGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAT
*
33450420 CAAGGGTATTTTCGTAATTTTATAAATT
1 CAAGGGTATTTTGGTAATTTTATAAA-T
* * **
33450448 GAA-GGTATTTCGGTAA-CATA-AAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * * *
33450472 TGA-GGTATTTCGGTAATTTCATAAAA
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
33450498 CTAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* * *
33450525 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTATAAAT
* * * *
33450553 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
33450579 CCAGTGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
33450606 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
33450633 C
1 C
33450634 GATGGTAAAA
Statistics
Matches: 229, Mismatches: 55, Indels: 27
0.74 0.18 0.09
Matches are distributed among these distances:
24 15 0.07
25 4 0.02
26 27 0.12
27 131 0.57
28 38 0.17
29 13 0.06
30 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:33450534 original size:79 final size:78
Alignment explanation
Indices: 33450396--33450542 Score: 179
Period size: 79 Copynumber: 1.9 Consensus size: 78
33450386 AGAAAGTCAA
* ** * * *
33450396 AGGTATTTCTGTAATTTTGTAAATCAAGGGTATTTTCGTAATTTTATAAATTGAAGGTATTTCGG
1 AGGTATTTCGGTAATTTCATAAAACAAGGGTATTTTCGTAATTTTACAAATAGAAGGTATTTCGG
33450461 TAACATAAAATTG
66 TAACATAAAATTG
* * * *
33450474 AGGTATTTCGGTAATTTCATAAAACTAGTGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
1 AGGTATTTCGGTAATTTCATAAAACAAG-GGTATTTTCGTAATTTTACAAA-TAGAAGGTATTTC
33450538 GGTAA
64 GGTAA
33450543 TTTTACAAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 23 0.40
79 32 0.56
80 2 0.04
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (78 bp):
AGGTATTTCGGTAATTTCATAAAACAAGGGTATTTTCGTAATTTTACAAATAGAAGGTATTTCGG
TAACATAAAATTG
Found at i:33450606 original size:53 final size:54
Alignment explanation
Indices: 33450475--33450626 Score: 189
Period size: 53 Copynumber: 2.8 Consensus size: 54
33450465 ATAAAATTGA
* * * * * *
33450475 GGTATTTCGGTAATTTCATAAAACTAGTGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCAAG-GGTATTTTAGTAATTTTACAAACCAGG
* * *
33450530 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACCA-G
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGG
* *
33450583 TGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTT
33450627 GTAAATCGAT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 41 0.49
54 21 0.25
55 22 0.26
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGG
Found at i:33450649 original size:27 final size:27
Alignment explanation
Indices: 33450619--33450715 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
33450609 GGGTATTTTA
* *
33450619 GTAATTTTGTAAATCGATGGTAAAACT
1 GTAATTCTGTAAATCGAGGGTAAAACT
* **
33450646 GTAATTCAGTAAATTAAGGGTAAAA-T
1 GTAATTCTGTAAATCGAGGGTAAAACT
* * *
33450672 AGTAATTCTATAAATCTAGGGTAAAACG
1 -GTAATTCTGTAAATCGAGGGTAAAACT
33450700 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
33450716 GGAGTACTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.98
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACT
Found at i:33453512 original size:32 final size:31
Alignment explanation
Indices: 33453472--33453536 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 31
33453462 CCTTTTCATA
*
33453472 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
33453503 TTTCAATATTTCATATTACTAGGCCGAAGCCT
1 TTTC-ATATTTCATAACACTAGGCCGAAGCCT
33453535 TT
1 TT
33453537 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 4 0.13
32 26 0.87
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:33453782 original size:24 final size:24
Alignment explanation
Indices: 33453729--33453898 Score: 211
Period size: 25 Copynumber: 7.0 Consensus size: 24
33453719 GCTTTATCAT
*
33453729 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* * *
33453753 AGTAACTTGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
33453778 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
33453803 ATAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
33453828 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
33453853 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
33453876 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33453899 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
23 20 0.15
24 33 0.25
25 77 0.59
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:33453970 original size:9 final size:9
Alignment explanation
Indices: 33453956--33454049 Score: 91
Period size: 9 Copynumber: 9.9 Consensus size: 9
33453946 ATCTCATGTG
33453956 CATATCATA
1 CATATCATA
*
33453965 CATATCATGTG
1 CATATCA--TA
33453976 CATATCATA
1 CATATCATA
33453985 CATATCATA
1 CATATCATA
33453994 CATATCATA
1 CATATCATA
*
33454003 CATATCATGTG
1 CATATCA--TA
33454014 CATATCATA
1 CATATCATA
* *
33454023 CATGTCATGTG
1 CATATCA--TA
33454034 CATATCAT-
1 CATATCATA
33454042 CATATCAT
1 CATATCAT
33454050 GTTTACAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
8 8 0.11
9 41 0.57
11 23 0.32
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:33453972 original size:20 final size:20
Alignment explanation
Indices: 33453944--33454051 Score: 168
Period size: 20 Copynumber: 5.5 Consensus size: 20
33453934 GCATTTATGA
*
33453944 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
33453964 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
33453984 ACATATCA--TACATATCAT
1 ACATATCATGTGCATATCAT
33454002 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
33454022 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
33454042 -CATATCATGT
1 ACATATCATGT
33454052 TTACAAAATC
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
18 17 0.21
19 9 0.11
20 55 0.68
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:33453998 original size:38 final size:39
Alignment explanation
Indices: 33453956--33454051 Score: 151
Period size: 38 Copynumber: 2.5 Consensus size: 39
33453946 ATCTCATGTG
33453956 CATATCATACATATCATGTGCATATCATACATATCA-TA
1 CATATCATACATATCATGTGCATATCATACATATCAGTA
* *
33453994 CATATCATACATATCATGTGCATATCATACATGTCATGTG
1 CATATCATACATATCATGTGCATATCATACATATCA-GTA
33454034 CATATCAT-CATATCATGT
1 CATATCATACATATCATGT
33454052 TTACAAAATC
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
38 35 0.65
39 10 0.19
40 9 0.17
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.35
Consensus pattern (39 bp):
CATATCATACATATCATGTGCATATCATACATATCAGTA
Found at i:33454115 original size:25 final size:25
Alignment explanation
Indices: 33454087--33454134 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
33454077 ATATATAAAC
* *
33454087 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
33454112 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
33454135 CATGTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:33455513 original size:54 final size:54
Alignment explanation
Indices: 33455371--33455658 Score: 216
Period size: 55 Copynumber: 5.4 Consensus size: 54
33455361 TTTCATCCTA
* * * * * *
33455371 CAAGGGTGTTTTGGTAAATCTACAAA-CCAAGGTATTTCAGTAA-TTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAATTCAAGGTATTTCTGTAATTTTGTAAAC
* * * *
33455423 CAATGGTATTTTA-TAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAA-TTTTACAAATTCAA-GGTATTTCTGTAATTTTGTAAAC
* * * * ** *
33455478 CAAGGGTATTTTCGTAATTTTATAAATTGAAGGTATTTCGGTAATTTCATAAAA
1 CAAGGGTATTTTAGTAATTTTACAAATTCAAGGTATTTCTGTAATTTTGTAAAC
* * * * * **
33455532 CTAGTGGTATTATGGTAATTTTACAAACT-AGGGGTATTT-TGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTACAAATTCA-AGGTATTTCT-GTAATTTTGTAAAC
* * *
33455587 CAAGGGTATTTTAGCAATTTTACAGA--CCAGGTATTT-TGGTAATTTTGTAAA-
1 CAAGGGTATTTTAGTAATTTTACAAATTCAAGGTATTTCT-GTAATTTTGTAAAC
33455638 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
33455659 GTAAATCGAG
Statistics
Matches: 189, Mismatches: 38, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
51 23 0.12
52 36 0.19
53 3 0.02
54 53 0.28
55 71 0.38
56 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTAGTAATTTTACAAATTCAAGGTATTTCTGTAATTTTGTAAAC
Found at i:33455648 original size:26 final size:27
Alignment explanation
Indices: 33455371--33455672 Score: 190
Period size: 27 Copynumber: 11.3 Consensus size: 27
33455361 TTTCATCCTA
* * * * *
33455371 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * *
33455398 CAA-GGTATTTCAGTAA-TTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
33455423 CAATGGTATTTT-ATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-T
*
33455451 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAT
*
33455478 CAAGGGTATTTTCGTAATTTTATAAATT
1 CAAGGGTATTTTGGTAATTTTATAAA-T
* * * *
33455506 GAA-GGTATTTCGGTAATTTCATAAAA
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
33455532 CTAGTGGTATTATGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* * *
33455559 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTATAAAT
* * * *
33455587 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
33455613 CCA-GGTATTTTGGTAATTTTGTAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
33455638 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
33455665 CGAGGGTA
1 CAAGGGTA
33455673 AAACTGTAAT
Statistics
Matches: 219, Mismatches: 43, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
25 31 0.14
26 42 0.19
27 102 0.47
28 40 0.18
29 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:33455681 original size:27 final size:27
Alignment explanation
Indices: 33455651--33455745 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
33455641 GGGTATTTTA
*
33455651 GTAATTTTGTAAATCGAGGGTAAAACT
1 GTAATTCTGTAAATCGAGGGTAAAACT
*
33455678 GTAATTCTGTAAAT-AAGGGT-AAA-T
1 GTAATTCTGTAAATCGAGGGTAAAACT
* * *
33455702 AGTAATTCTATAAATCTAGGGTAAAACG
1 -GTAATTCTGTAAATCGAGGGTAAAACT
33455730 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
33455746 GGAGTACTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
24 1 0.02
25 16 0.28
26 10 0.18
27 30 0.53
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACT
Found at i:33455723 original size:52 final size:53
Alignment explanation
Indices: 33455624--33455743 Score: 161
Period size: 52 Copynumber: 2.3 Consensus size: 53
33455614 CAGGTATTTT
* * ** * *
33455624 GGTAATTTTGTAAACAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATAAGGGTATAATAGTAATTCTATAAATCGAGGGTAAAAC
* *
33455677 TGTAATTCTGTAAATAAGGGTA-AATAGTAATTCTATAAATCTAGGGTAAAAC
1 GGTAATTCTGTAAATAAGGGTATAATAGTAATTCTATAAATCGAGGGTAAAAC
33455729 GGTAATTCTGTAAAT
1 GGTAATTCTGTAAAT
33455744 CGGGAGTACT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
52 39 0.67
53 19 0.33
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (53 bp):
GGTAATTCTGTAAATAAGGGTATAATAGTAATTCTATAAATCGAGGGTAAAAC
Found at i:33458821 original size:24 final size:24
Alignment explanation
Indices: 33458768--33458937 Score: 211
Period size: 25 Copynumber: 7.0 Consensus size: 24
33458758 GTTTTATCAT
*
33458768 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* * *
33458792 AGTAACTTGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
33458817 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
33458842 ATAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
33458867 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
33458892 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
33458915 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33458938 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
23 20 0.15
24 33 0.25
25 77 0.59
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:33459009 original size:9 final size:9
Alignment explanation
Indices: 33458995--33459051 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
33458985 ATCTCATGTG
33458995 CATATCATA
1 CATATCATA
*
33459004 CATATCATGTG
1 CATATCA--TA
33459015 CATATCATA
1 CATATCATA
* *
33459024 CATGTCATGTG
1 CATATCA--TA
33459035 CATATCATA
1 CATATCATA
33459044 CATATCAT
1 CATATCAT
33459052 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:33459011 original size:20 final size:20
Alignment explanation
Indices: 33458983--33459053 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
33458973 GCATTTATGA
*
33458983 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
33459003 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
33459023 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
33459043 ACATATCATGT
1 ACATATCATGT
33459054 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:33459018 original size:11 final size:11
Alignment explanation
Indices: 33458988--33459042 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
33458978 TATGAACATC
33458988 TCATGTGCATA
1 TCATGTGCATA
*
33458999 TCA--TACATA
1 TCATGTGCATA
33459008 TCATGTGCATA
1 TCATGTGCATA
* *
33459019 TCA--TACATG
1 TCATGTGCATA
33459028 TCATGTGCATA
1 TCATGTGCATA
33459039 TCAT
1 TCAT
33459043 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:33459118 original size:25 final size:25
Alignment explanation
Indices: 33459090--33459137 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
33459080 ATATATAAAC
* *
33459090 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
33459115 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
33459138 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:33459976 original size:20 final size:20
Alignment explanation
Indices: 33459938--33459991 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
33459928 AGGCATATGC
*
33459938 CCATGTGAA-ATAGGGACACGA
1 CCATGTGAACA-A-GGACACAA
*
33459959 CCGTGTGAACAAGGACACAA
1 CCATGTGAACAAGGACACAA
33459979 CCATGTGAACAAG
1 CCATGTGAACAAG
33459992 TCGTGTAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 19 0.66
21 9 0.31
22 1 0.03
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.13
Consensus pattern (20 bp):
CCATGTGAACAAGGACACAA
Found at i:33463433 original size:27 final size:26
Alignment explanation
Indices: 33463393--33463471 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
33463383 GCATGGCTAG
* *
33463393 CAGAACAGATATTGTGAG-AGAGTCAC
1 CAGAATAGATATTGTG-GCAGAGCCAC
33463419 CAGATATAGATATTGTGGCAGAGCCAC
1 CAGA-ATAGATATTGTGGCAGAGCCAC
* * *
33463446 CAGAATAGATAATGTAGCAAAGCCAC
1 CAGAATAGATATTGTGGCAGAGCCAC
33463472 TTAATAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 24 0.52
27 22 0.48
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGAATAGATATTGTGGCAGAGCCAC
Found at i:33463664 original size:22 final size:22
Alignment explanation
Indices: 33463630--33463694 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
33463620 GCAAATACGT
*
33463630 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
33463652 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
33463674 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
33463695 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:33464098 original size:27 final size:27
Alignment explanation
Indices: 33464068--33464553 Score: 544
Period size: 27 Copynumber: 18.0 Consensus size: 27
33464058 TACCTCACGA
* * *
33464068 GGGTATCTCAGTAATTTTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
33464095 GGGTATTTCAGCATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
33464122 GGGTATTTCGGTAATTCTATCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
33464149 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
33464176 GGGTATTTC-GATAATTCTACCTTATAG
1 GGGTATTTCAG-TAATTCTACCCTACAG
*
33464203 GGGTATTTCAATAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
33464230 TGGTATTTC-GATAATTCTACCTTACAG
1 GGGTATTTCAG-TAATTCTACCCTACAG
*
33464257 GGGTATTTCAGTAATTTTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * *
33464284 GGGTATTTCGGTAATTCTATCTTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
33464311 GAGTATTTCAGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
** * *
33464338 GGGTATTTTGGTAATTCTACCTTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
33464365 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
33464392 TGGTATTTCCGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
33464419 GGGTATTTCGGTAATTCTACCTTACAT
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * *
33464446 GAGTGTTTCGGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
33464473 GGGTATTTCAGTAATTCTACCCTGCAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* **
33464500 GGGTATTTCGGTAATTCTACATTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
33464527 GGGTATTTCAATAATGCTAGCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
33464554 ATATGAGATT
Statistics
Matches: 380, Mismatches: 75, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.00
27 378 0.99
28 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:33464125 original size:54 final size:54
Alignment explanation
Indices: 33464067--33464552 Score: 618
Period size: 54 Copynumber: 9.0 Consensus size: 54
33464057 TTACCTCACG
* * * * * * *
33464067 AGGGTATCTCAGTAATTTTACCCTATAGGGGTATTTCAGCATTTCTACCCTACA
1 AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACA
* *
33464121 AGGGTATTTCGGTAATTCTATCC-TATAGGGGTATTTTAGTAATTCTACCCTACA
1 AGGGTATTTCGGTAATTCTA-CCTTACAGGGGTATTTCAGTAATTCTACCCTACA
* * * *
33464175 GGGGTATTTCGATAATTCTACCTTATAGGGGTATTTCAATAATTCTACCCTAC-
1 AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACA
* *
33464228 AGTGGTATTTCGATAATTCTACCTTACAGGGGTATTTCAGTAATTTTACCCTACA
1 AG-GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACA
* * * * *
33464283 GGGGTATTTCGGTAATTCTATCTTACAAGAGTATTTCAGTAATTCTACCCTATA
1 AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACA
* * *
33464337 GGGGTATTTTGGTAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTAC-
1 AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACA
* * *
33464390 AGTGGTATTTCCGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTACA
1 AG-GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACA
* * * *
33464445 TGAGTGTTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTGCA
1 AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACA
* * * *
33464499 AGGGTATTTCGGTAATTCTACATTACAGGGGTATTTCAATAATGCTAGCCTACA
1 AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACA
33464553 GATATGAGAT
Statistics
Matches: 380, Mismatches: 46, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
53 4 0.01
54 372 0.98
55 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACA
Found at i:33466345 original size:18 final size:18
Alignment explanation
Indices: 33466304--33466359 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
33466294 CTTAGCCCAT
* *
33466304 TACAGTAACAGTAAACAA
1 TACAGTAACAGTAAATAG
* *
33466322 TGCAGTAACAGTAATTAG
1 TACAGTAACAGTAAATAG
*
33466340 TACAGTAACAGTAAGTAG
1 TACAGTAACAGTAAATAG
33466358 TA
1 TA
33466360 TGCAAGTCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.23
Consensus pattern (18 bp):
TACAGTAACAGTAAATAG
Found at i:33466721 original size:27 final size:27
Alignment explanation
Indices: 33466689--33466902 Score: 245
Period size: 27 Copynumber: 8.0 Consensus size: 27
33466679 AAATATACAT
* **
33466689 CACATAAGGGCAAAACAGTTATCCTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
33466716 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
33466743 CTCATAAGGGCAAAACCGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
33466770 C-CATAAGGGCAAAACCGTCATTTTAA
1 CACATAAGGGCAAAACAGTCATTTTAC
*
33466796 CACATAAGGG-AAAAGCAGTCATTTTGC
1 CACATAAGGGCAAAA-CAGTCATTTTAC
* * *
33466823 CACATAAGGGAAAAACTGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
*
33466850 CACATAAGGGCAAAATCA-TCATTTTAA
1 CACATAAGGGCAAAA-CAGTCATTTTAC
* * *
33466877 TACATAATGGCAAAACAATCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
33466903 ACTTATAGGG
Statistics
Matches: 163, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
26 31 0.19
27 127 0.78
28 5 0.03
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:33466829 original size:80 final size:80
Alignment explanation
Indices: 33466687--33466902 Score: 254
Period size: 80 Copynumber: 2.7 Consensus size: 80
33466677 ATAAATATAC
* * ** * * *
33466687 ATCACATAAGGGCAAAACAGTTATCCTACCACATAAGGGCAAAATAGTCATTTTACCTCATAAGG
1 ATCACATAAGGGCAAAACCGTCATTTTAACACATAAGGG-AAAACAGTCATTTTACCACATAAGG
*
33466752 GCAAAACCGTCATTTT
65 GAAAAACCGTCATTTT
* *
33466768 A-CCCATAAGGGCAAAACCGTCATTTTAACACATAAGGGAAAAGCAGTCATTTTGCCACATAAGG
1 ATCACATAAGGGCAAAACCGTCATTTTAACACATAAGGGAAAA-CAGTCATTTTACCACATAAGG
*
33466832 GAAAAACTGTCATTTT
65 GAAAAACCGTCATTTT
* * * * *
33466848 ATCACATAAGGGCAAAATCATCATTTTAATACATAATGGCAAAACAATCATTTTA
1 ATCACATAAGGGCAAAACCGTCATTTTAACACATAA-GGGAAAACAGTCATTTTA
33466903 ACTTATAGGG
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
79 4 0.04
80 64 0.56
81 40 0.35
82 6 0.05
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (80 bp):
ATCACATAAGGGCAAAACCGTCATTTTAACACATAAGGGAAAACAGTCATTTTACCACATAAGGG
AAAAACCGTCATTTT
Found at i:33466983 original size:53 final size:54
Alignment explanation
Indices: 33466924--33467033 Score: 152
Period size: 53 Copynumber: 2.1 Consensus size: 54
33466914 TATTACAATA
* * *
33466924 ATTTTACCCTATAAGGGTATTAT-AGTCATTTTACCTTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATAAGGGTATT-TCAGTCATATTACCCTATGGGGGTATTTCGGTC
**
33466977 ATTTTACCCTATGGGGGTATTTCAGTCATATTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATAAGGGTATTTCAGTCATATTACCCTATGGGGGTATTTCGGTC
33467031 ATT
1 ATT
33467034 ATATCGTCCC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
52 1 0.02
53 33 0.66
54 16 0.32
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (54 bp):
ATTTTACCCTATAAGGGTATTTCAGTCATATTACCCTATGGGGGTATTTCGGTC
Found at i:33467025 original size:27 final size:27
Alignment explanation
Indices: 33466895--33467033 Score: 138
Period size: 27 Copynumber: 5.2 Consensus size: 27
33466885 GGCAAAACAA
* * * * *
33466895 TCATTTTAACTTATAGGGGTATTACAA
1 TCATTTTACCCTATGGGGGTATTTCAG
* **
33466922 TAATTTTACCCTATAAGGGTATTAT-AG
1 TCATTTTACCCTATGGGGGTATT-TCAG
* **
33466949 TCATTTTACCTTAT-GGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCAG
33466975 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
* *
33467002 TCATATTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
33467029 TCATT
1 TCATT
33467034 ATATCGTCCC
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.01
26 21 0.23
27 71 0.76
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCAG
Found at i:33471755 original size:43 final size:43
Alignment explanation
Indices: 33471592--33471755 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
33471582 ACATTAGGTT
*
33471592 ATCGATATGTGATTACATGTAAGAACATGTCTGGGACATTA-GC
1 ATCGATATGTGATTACATGTAAGACCATGTCTGGGACA-TAGGC
* * * * *
33471635 ATTG-TATTGAGATTACGTGTAAGACCATGTTTGGGACATTGGC
1 ATCGATA-TGTGATTACATGTAAGACCATGTCTGGGACATAGGC
* * * * * *
33471678 AT-GTTAT-TAGATTTCGTGTCAGACCCTGTCTGGGACAGAGGC
1 ATCGATATGT-GATTACATGTAAGACCATGTCTGGGACATAGGC
* *
33471720 ATCGATATGTGATAACATGTAAGACCATATCTGGGA
1 ATCGATATGTGATTACATGTAAGACCATGTCTGGGA
33471756 TATGTCATTG
Statistics
Matches: 95, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
42 34 0.36
43 60 0.63
44 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (43 bp):
ATCGATATGTGATTACATGTAAGACCATGTCTGGGACATAGGC
Found at i:33475250 original size:37 final size:37
Alignment explanation
Indices: 33475200--33475273 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
33475190 TGTCGATGTC
*
33475200 GTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGATTT
1 GTTGTGATTAGCC--ATGAGATGTGGCTTATAATGATTT
33475237 GTTGT-ATGTAGCCATGAGATGTGGCTTATAATGATTT
1 GTTGTGAT-TAGCCATGAGATGTGGCTTATAATGATTT
33475274 TGTCTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 3 0.09
36 4 0.12
37 26 0.79
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (37 bp):
GTTGTGATTAGCCATGAGATGTGGCTTATAATGATTT
Found at i:33481137 original size:42 final size:41
Alignment explanation
Indices: 33481028--33481140 Score: 109
Period size: 44 Copynumber: 2.7 Consensus size: 41
33481018 TTCCAATATG
** * **
33481028 TGATTTCGTGTAAGACCACATCTGGGATGTTGGCATCAATT
1 TGATTTCGTGTAAGACCATGTCTGGGATATCAGCATCAATT
* * *
33481069 TGAAATTTACGTGTAAAATCATGTCTGGGATATCAGCATCGTATT
1 TG--ATTT-CGTGTAAGACCATGTCTGGGATATCAGCATC-AATT
*
33481114 TGATTTCGTGTAAGACCTTGTCTGGGA
1 TGATTTCGTGTAAGACCATGTCTGGGA
33481141 CGTTGGCATT
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.04
42 18 0.32
43 8 0.14
44 24 0.42
45 5 0.09
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGGATATCAGCATCAATT
Found at i:33481645 original size:88 final size:88
Alignment explanation
Indices: 33481491--33481658 Score: 264
Period size: 88 Copynumber: 1.9 Consensus size: 88
33481481 TTTTGAAAGC
* * * *
33481491 TTACTTTGTGTGTGTTTGTATTATTTTATAGATCATCGAAGCTACCGGAAGATCGGGAATCGTCG
1 TTACTTTGTGTGTGTTTGCATTATTTTATAGATCATCGAAGCTACCGGAACATCGAGAATCATCG
33481556 AGGATCATCACCACAACATTATT
66 AGGATCATCACCACAACATTATT
* * * *
33481579 TTACTTTTTGTGTGTTTGCATTGTTTTATAGATCATCGAAGCTACCGGAACCTCGAGAATTATCG
1 TTACTTTGTGTGTGTTTGCATTATTTTATAGATCATCGAAGCTACCGGAACATCGAGAATCATCG
33481644 AGGATCATCACCACA
66 AGGATCATCACCACA
33481659 CTATCAAACT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 72 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (88 bp):
TTACTTTGTGTGTGTTTGCATTATTTTATAGATCATCGAAGCTACCGGAACATCGAGAATCATCG
AGGATCATCACCACAACATTATT
Found at i:33496800 original size:39 final size:39
Alignment explanation
Indices: 33496681--33496803 Score: 174
Period size: 39 Copynumber: 3.2 Consensus size: 39
33496671 GGACTTTAGC
* * * *
33496681 CCGGACATATTTCCAGCACGTAGCTTGTGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCTTGCGGACCTTAAGT
* * *
33496720 CCAGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCTTGCGGACCTTAAGT
*
33496759 CCGGATATAATTCCAGCACATAGCTTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCTTGCGGACCTTAAGT
33496798 CCGGAT
1 CCGGAT
33496804 GAACATCACT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCTTGCGGACCTTAAGT
Found at i:33501923 original size:14 final size:14
Alignment explanation
Indices: 33501904--33501931 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33501894 CTTCAAGGAA
33501904 TGATAAATTAATAT
1 TGATAAATTAATAT
33501918 TGATAAATTAATAT
1 TGATAAATTAATAT
33501932 AAATTATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TGATAAATTAATAT
Found at i:33507535 original size:42 final size:43
Alignment explanation
Indices: 33507426--33507594 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 43
33507416 CCGAGATGAG
* *
33507426 ATTACATATAAGACCATGTCTGGGACATTGGCAT--TGTATTGCA
1 ATTACGTATAAGACCATGTCTGGGACATTGGCATCAT-TA-TGCT
* * *
33507469 ATTATGTGTAAGACCATATCTGGGACATTGGCATCATTATGCT
1 ATTACGTATAAGACCATGTCTGGGACATTGGCATCATTATGCT
* *
33507512 ATTACG-ATAAGACCATGTCTGGGACATTGGCATCGTTAT-AT
1 ATTACGTATAAGACCATGTCTGGGACATTGGCATCATTATGCT
* * * * * *
33507553 GATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCAATATG
1 -ATTACGTATAAGACCATGTCTGGGACATTGGCATCATTATG
33507595 TGATAACATG
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 35 0.34
43 65 0.62
44 2 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (43 bp):
ATTACGTATAAGACCATGTCTGGGACATTGGCATCATTATGCT
Found at i:33507578 original size:85 final size:84
Alignment explanation
Indices: 33507433--33507594 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 84
33507423 GAGATTACAT
* *
33507433 ATAAGACCATGTCTGGGACATTGGCATTGTATTGCAATTATGTGTAAGACCATATCTGGGACATT
1 ATAAGACCATGTCTGGGACATTGGCATCGTATTG-AATTATGTGTAAGACCATATCTGGGACAGT
*
33507498 GGCATCATTATGCTATTACG
65 GGCATCAATATGCTATTACG
* * *
33507518 ATAAGACCATGTCTGGGACATTGGCATCGTTATATG-ATT-TCGTGTAAGACCCTGTTTGGGACA
1 ATAAGACCATGTCTGGGACATTGGCATCG-TAT-TGAATTAT-GTGTAAGACCATATCTGGGACA
33507581 GTGGCATCAATATG
63 GTGGCATCAATATG
33507595 TGATAACATG
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
84 1 0.01
85 62 0.91
86 3 0.04
87 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (84 bp):
ATAAGACCATGTCTGGGACATTGGCATCGTATTGAATTATGTGTAAGACCATATCTGGGACAGTG
GCATCAATATGCTATTACG
Found at i:33507607 original size:43 final size:43
Alignment explanation
Indices: 33507475--33507613 Score: 120
Period size: 43 Copynumber: 3.3 Consensus size: 43
33507465 TGCAATTATG
* * * **
33507475 TGTAAGACCATATCTGGGACATTGGCATC-AT-TATGCTATTA
1 TGTAAGACCATGTCTGGGACAGTGGCATCAATATATGATAACA
* * ** ** *
33507516 CGATAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
1 TG-TAAGACCATGTCTGGGACAGTGGCATCAATATATGATAACA
* * *
33507560 TGTAAGACCCTGTTTGGGACAGTGGCATCAATATGTGATAACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCAATATATGATAACA
33507603 TGTAAGACCAT
1 TGTAAGACCAT
33507614 ATTCGGGATA
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 26 0.34
43 43 0.56
44 7 0.09
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCAATATATGATAACA
Found at i:33515177 original size:14 final size:13
Alignment explanation
Indices: 33515158--33515188 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
33515148 AACGATAAAA
33515158 TTTCTTAACGAAAT
1 TTTCTTAACG-AAT
33515172 TTTCTTAACGAAT
1 TTTCTTAACGAAT
33515185 TTTC
1 TTTC
33515189 ACACCAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.48
Consensus pattern (13 bp):
TTTCTTAACGAAT
Found at i:33520058 original size:82 final size:82
Alignment explanation
Indices: 33519972--33520122 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 82
33519962 TAGTAAATAT
* * * *
33519972 TAATTTTAATTGATATATAAATGTAACACTAATTAAATTATAATTAATTTAAAATAATATCTAAT
1 TAATTTTAATTGATATATAAATATAACACTAATTAAATTACAATTAATATAAAATAATATCTAAA
33520037 AATACTCCAATAAATTG
66 AATACTCCAATAAATTG
* * * *
33520054 TAATTTTAATTTATATATAACTATAACACTAATTAAATTACAATTAATATAGAATAATATTTAAA
1 TAATTTTAATTGATATATAAATATAACACTAATTAAATTACAATTAATATAAAATAATATCTAAA
33520119 AATA
66 AATA
33520123 TTTAATCTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 61 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (82 bp):
TAATTTTAATTGATATATAAATATAACACTAATTAAATTACAATTAATATAAAATAATATCTAAA
AATACTCCAATAAATTG
Found at i:33522574 original size:20 final size:19
Alignment explanation
Indices: 33522549--33522589 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
33522539 ATCTCCTTCA
33522549 AGCTCAACT-AGCTCAATCTT
1 AGCTCAA-TGAGCTCAAT-TT
33522569 AGCTCAATGAGCTCAATTT
1 AGCTCAATGAGCTCAATTT
33522588 AG
1 AG
33522590 TTTACTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (19 bp):
AGCTCAATGAGCTCAATTT
Found at i:33525316 original size:14 final size:16
Alignment explanation
Indices: 33525282--33525315 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33525272 AGAAAAGTGA
33525282 AAAAGAGAGAGAAAAG
1 AAAAGAGAGAGAAAAG
*
33525298 AAAAGTGAGA-AAAAG
1 AAAAGAGAGAGAAAAG
33525313 AAA
1 AAA
33525316 GGAAAACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (16 bp):
AAAAGAGAGAGAAAAG
Found at i:33529960 original size:43 final size:44
Alignment explanation
Indices: 33529912--33530008 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 44
33529902 CCCACTTTTT
*
33529912 TATTTTCA-TTACTTTTAAAATGT-TATTTAATAA-ATTATAAAAA
1 TATTTT-ATTTACTTTTAAAATATATATTTAA-AATATTATAAAAA
* * *
33529955 TATTTTATTTATTTTTAAAATATATTTTTAAAATTTTATAAAAA
1 TATTTTATTTACTTTTAAAATATATATTTAAAATATTATAAAAA
*
33529999 TATATTATTT
1 TATTTTATTT
33530009 TATAGATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.02
43 21 0.46
44 24 0.52
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (44 bp):
TATTTTATTTACTTTTAAAATATATATTTAAAATATTATAAAAA
Found at i:33529980 original size:13 final size:13
Alignment explanation
Indices: 33529964--33529988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33529954 ATATTTTATT
33529964 TATTTTTAAAATA
1 TATTTTTAAAATA
33529977 TATTTTTAAAAT
1 TATTTTTAAAAT
33529989 TTTATAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTTAAAATA
Found at i:33530010 original size:26 final size:24
Alignment explanation
Indices: 33529971--33530023 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
33529961 ATTTATTTTT
33529971 AAAATATATTTTTA-AAATTTTATA
1 AAAATATATTTTTATAAATTTTA-A
*
33529995 AAAATATATTATTTTATAGATTTTAA
1 AAAATATA-T-TTTTATAAATTTTAA
33530021 AAA
1 AAA
33530024 TAAACACGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 1 0.04
26 9 0.36
27 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAATATATTTTTATAAATTTTAA
Found at i:33530480 original size:16 final size:17
Alignment explanation
Indices: 33530442--33530479 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
33530432 TTAAACATTG
33530442 AAAAATATATTGTTTTC
1 AAAAATATATTGTTTTC
33530459 AAAAATATATAT-TTTTC
1 AAAAATATAT-TGTTTTC
33530476 AAAA
1 AAAA
33530480 TCATTTTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (17 bp):
AAAAATATATTGTTTTC
Found at i:33531786 original size:21 final size:22
Alignment explanation
Indices: 33531762--33531805 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
33531752 CCAAATTCTC
* *
33531762 TCAAATTTTTCTC-AATTTTTG
1 TCAAAGTTGTCTCTAATTTTTG
33531783 TCAAAGTTGTCTCTAATTTTTG
1 TCAAAGTTGTCTCTAATTTTTG
33531805 T
1 T
33531806 AAAAAAGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.55
Consensus pattern (22 bp):
TCAAAGTTGTCTCTAATTTTTG
Found at i:33532960 original size:7 final size:7
Alignment explanation
Indices: 33532940--33532975 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
33532930 CATAATAAAA
33532940 TAGTCATT
1 TAGT-ATT
*
33532948 TCGTATT
1 TAGTATT
33532955 TAGTATT
1 TAGTATT
33532962 TAGTATT
1 TAGTATT
33532969 TAGTATT
1 TAGTATT
33532976 ACCTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 23 0.88
8 3 0.12
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.56
Consensus pattern (7 bp):
TAGTATT
Found at i:33533601 original size:18 final size:18
Alignment explanation
Indices: 33533578--33533620 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
33533568 TGCCAAATGC
*
33533578 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
33533596 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
33533614 GTTTCCT
1 GTATCCT
33533621 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:33536900 original size:51 final size:50
Alignment explanation
Indices: 33536769--33536917 Score: 192
Period size: 49 Copynumber: 3.0 Consensus size: 50
33536759 CACTTGTAGC
* * *
33536769 CAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGA
1 CAAAGTTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
* *** *
33536819 CCAA-TTATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACATGTGA
1 CAAAGTTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
* *
33536868 TCAAAGTTATCGGGTACGCATAGTAGCATGCACTTAGTACTACACATGCG
1 -CAAAGTTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCG
33536918 GCCAATTTAC
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 38 0.46
50 6 0.07
51 38 0.46
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (50 bp):
CAAAGTTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
Found at i:33538593 original size:6 final size:6
Alignment explanation
Indices: 33538584--33538731 Score: 88
Period size: 6 Copynumber: 23.8 Consensus size: 6
33538574 TACCAGAACT
* *
33538584 AGAATC AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * *
33538633 AGAATC AGAATT AG-GTGAC AGAATC AAAACC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC A-G-AATC
* * * *
33538683 CGAATC AAAATC AGAATC AGTATC AGGTAA-C AGAATC AAAAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC -AGAATC AGAAT
33538732 GTGAATGCAA
Statistics
Matches: 107, Mismatches: 22, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
5 6 0.06
6 83 0.78
7 14 0.13
8 4 0.04
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:33538624 original size:31 final size:31
Alignment explanation
Indices: 33538589--33538731 Score: 187
Period size: 31 Copynumber: 4.6 Consensus size: 31
33538579 GAACTAGAAT
* * *
33538589 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
* * *
33538620 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
* *
33538651 CAGAATCAAAACCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
* *
33538682 CCGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
33538713 CAGAATCAAAAATCAGAAT
1 CAGAATC-AAAATCAGAAT
33538732 GTGAATGCAA
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 92 0.89
32 11 0.11
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGAATCAGGTAA
Found at i:33538899 original size:27 final size:26
Alignment explanation
Indices: 33538868--33538969 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
33538858 GCTCAGTTAT
* *
33538868 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
33538895 TAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
33538921 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
33538949 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
33538970 TTAACAAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.09
27 52 0.79
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:33539164 original size:22 final size:22
Alignment explanation
Indices: 33539139--33539192 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
33539129 TGGCACACAA
33539139 CCATAATCAGGTTGGA-ACAAAG
1 CCATAATCAGGTT-GACACAAAG
*
33539161 CCAT-ATGTAGGTTGACACAAAG
1 CCATAAT-CAGGTTGACACAAAG
33539183 CCATAATCAG
1 CCATAATCAG
33539193 AAGGCTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 4 0.15
22 21 0.78
23 2 0.07
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (22 bp):
CCATAATCAGGTTGACACAAAG
Found at i:33539638 original size:27 final size:27
Alignment explanation
Indices: 33539577--33539638 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
33539567 AGTCACTTGG
*
33539577 CCACAAGGGCAAAATAGTCATTTAACA
1 CCACAAGGGCAAAATAGTAATTTAACA
** * * *
33539604 CCTTAAGGGCAAAATGGTAATTTTACC
1 CCACAAGGGCAAAATAGTAATTTAACA
33539631 CCACAAGG
1 CCACAAGG
33539639 TATCTTGGTA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (27 bp):
CCACAAGGGCAAAATAGTAATTTAACA
Found at i:33539651 original size:26 final size:27
Alignment explanation
Indices: 33539618--33539679 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
33539608 AAGGGCAAAA
**
33539618 TGGTAATTTTACCCCACAA-GGTATCT
1 TGGTAATTCCACCCCACAAGGGTATCT
* *
33539644 TGGTAATTCCACCCTACAAGGGTATTT
1 TGGTAATTCCACCCCACAAGGGTATCT
*
33539671 TAGTAATTC
1 TGGTAATTC
33539680 TACTCTATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
TGGTAATTCCACCCCACAAGGGTATCT
Found at i:33539676 original size:27 final size:27
Alignment explanation
Indices: 33539620--33539822 Score: 158
Period size: 27 Copynumber: 7.2 Consensus size: 27
33539610 GGGCAAAATG
* * * *
33539620 GTAATTTTACCCCACAA-GGTATCTTG
1 GTAATTCTACCCTACAAGGGTATTTTA
*
33539646 GTAATTCCACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
* *
33539673 GTAATTCTACTCTATAAGGGTATTTCAGTTATTA
1 GTAATTCTACCCTACAAGGG----T-A-TT-TTA
**
33539707 CGATAATTCTACCCTACAAGGGTATTTCG
1 -G-TAATTCTACCCTACAAGGGTATTTTA
* **
33539736 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTTA
* *
33539763 GTAATTCTACCCTACAGGGGTA-TTTC
1 GTAATTCTACCCTACAAGGGTATTTTA
* *
33539789 GATATTTCTACCCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTTA
33539817 GTAATT
1 GTAATT
33539823 TTGTAAATCG
Statistics
Matches: 145, Mismatches: 20, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
26 17 0.12
27 94 0.65
28 4 0.03
29 1 0.01
30 2 0.01
31 2 0.01
32 2 0.01
33 2 0.01
34 3 0.02
35 1 0.01
36 17 0.12
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTTA
Found at i:33539784 original size:90 final size:89
Alignment explanation
Indices: 33539621--33539788 Score: 230
Period size: 90 Copynumber: 1.9 Consensus size: 89
33539611 GGCAAAATGG
* * *
33539621 TAATTTTACCCCACAAGGTATCTTGGTAATTCCACCCTACAAGGGTATTTTAGTAATTCTACTCT
1 TAATTCTACCCCACAAGGTATCTTGGTAATTCCACCCTACAAGGGTATTTCAGTAATTCTACCCT
*
33539686 ATAAGGGTATTTCAGTTATTACGA
66 ACAAGGGTATTTCAGTTATTACGA
* * * *
33539710 TAATTCTACCCTACAAGGGTAT-TTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
1 TAATTCTACCCCACAA-GGTATCTT-GGTAATTCCACCCTACAAGGGTATTTCAGTAATTCTACC
*
33539774 CTACAGGGGTATTTC
64 CTACAAGGGTATTTC
33539789 GATATTTCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
89 16 0.24
90 52 0.76
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (89 bp):
TAATTCTACCCCACAAGGTATCTTGGTAATTCCACCCTACAAGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCAGTTATTACGA
Found at i:33539798 original size:54 final size:54
Alignment explanation
Indices: 33539710--33539822 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 54
33539700 GTTATTACGA
* * *
33539710 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAG
* *
33539764 TAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAG
33539818 TAATT
1 TAATT
33539823 TTGTAAATCG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAG
Found at i:33539902 original size:27 final size:26
Alignment explanation
Indices: 33539872--33540289 Score: 122
Period size: 27 Copynumber: 15.5 Consensus size: 26
33539862 GGTACTTTGG
*
33539872 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAATC-AGGGTATTTCAA
* ** * *
33539899 TAATTTTATAGGTCGAGGGTATTTTAG
1 TAATTTTACAAATC-AGGGTATTTCAA
* ***
33539926 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCA-GGGTATTTCAA
*
33539953 TAATTTTACAAACCAAGGGTATTTCAA
1 TAATTTTACAAATC-AGGGTATTTCAA
* ***
33539980 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCA-GGGTATTTCAA
* * ***
33540007 TAATCTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATCA-GGGTATTTCAA
* * *
33540034 TAATTTTATAAA-CAAAGGGTATTTTAG
1 TAATTTTACAAATC--AGGGTATTTCAA
***
33540061 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATC-A-GGGTATTTCAA
** * ***
33540088 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAATC-AGGGTATTTCAA
* ***
33540115 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATCA-GGGTATTTCAA
* * * *
33540142 TGATTTTATAAACCAAGGGTATTAT-AG
1 TAATTTTACAAATC-AGGGTATT-TCAA
* ***
33540169 TAATTTTACAAACCAAGGGTATTTTTGG
1 TAATTTTACAAATC-AGGGTA-TTTCAA
** * * *
33540197 TAATTTTGTAAACCAAGGGTATTTTAG
1 TAATTTTACAAATC-AGGGTATTTCAA
* ***
33540224 TAATTTTACAAACCAGTGGTATTTTGG
1 TAATTTTACAAATCAG-GGTATTTCAA
** * * *
33540251 TAATTTTGTAAACCAAGGGTATTTTAG
1 TAATTTTACAAATC-AGGGTATTTCAA
33540278 TAATTTTACAAA
1 TAATTTTACAAA
33540290 CTGGGGGTAT
Statistics
Matches: 327, Mismatches: 50, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
26 7 0.02
27 290 0.89
28 30 0.09
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (26 bp):
TAATTTTACAAATCAGGGTATTTCAA
Found at i:33540000 original size:81 final size:81
Alignment explanation
Indices: 33539861--33540364 Score: 542
Period size: 81 Copynumber: 6.2 Consensus size: 81
33539851 TGTAAATTAG
* ** * * * * *** *
33539861 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTATAGGTC-GAGGGTATTTTA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAG-GGGTATTTTG
* * *
33539925 GTAATTTCACAAATCAG
65 GTAATTTTACAAACCAA
* * * *
33539942 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTCACAAATCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGG
* *
33540007 TAATCTTACAAACCAG
66 TAATTTTACAAACCAA
* * *
33540023 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGG
**
33540088 TAATTTTGTAAACCAA
66 TAATTTTACAAACCAA
* * * * * * *
33540104 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTATAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGG
33540169 TAATTTTACAAACCAA
66 TAATTTTACAAACCAA
** *
33540185 GGGTATTTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTG
1 GGGTA-TTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTG
**
33540250 GTAATTTTGTAAACCAA
65 GTAATTTTACAAACCAA
* *** * ** * *
33540267 GGGTATTTTAGTAATTTTACAAACTGGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGG
* *
33540332 TAATTTTACAAACTAG
66 TAATTTTACAAACCAA
*
33540348 GGGTGTTTTGGTAATTT
1 GGGTATTTTGGTAATTT
33540365 GGTAAAGTAA
Statistics
Matches: 356, Mismatches: 65, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
81 286 0.80
82 70 0.20
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGG
TAATTTTACAAACCAA
Found at i:33540290 original size:27 final size:27
Alignment explanation
Indices: 33539914--33540364 Score: 526
Period size: 27 Copynumber: 16.7 Consensus size: 27
33539904 TTATAGGTCG
* * *
33539914 AGGGTATTTTAGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
33539941 GGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
*** * *
33539968 AGGGTATTTCAATAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
33539995 GGGGTATTTTGGTAATCTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
33540022 GGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
33540049 AGGGTATTTTAGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
* **
33540076 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
33540103 AGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
33540130 GGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
33540157 AGGGTATTATAGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
**
33540184 AGGGTATTTTTGGTAATTTTGTAAACCA
1 AGGGTA-TTTTGGTAATTTTACAAACCA
*
33540212 AGGGTATTTTAGTAATTTTACAAACC-
1 AGGGTATTTTGGTAATTTTACAAACCA
**
33540238 AGTGGTATTTTGGTAATTTTGTAAACCA
1 AG-GGTATTTTGGTAATTTTACAAACCA
* **
33540266 AGGGTATTTTAGTAATTTTACAAACTG
1 AGGGTATTTTGGTAATTTTACAAACCA
* ** *
33540293 GGGGTATTTTGGTAATTTTGTAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
33540320 AGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
33540347 GGGGTGTTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
33540365 GGTAAAGTAA
Statistics
Matches: 356, Mismatches: 65, Indels: 6
0.83 0.15 0.01
Matches are distributed among these distances:
26 2 0.01
27 329 0.92
28 25 0.07
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCA
Found at i:33540345 original size:54 final size:54
Alignment explanation
Indices: 33539915--33540370 Score: 597
Period size: 54 Copynumber: 8.4 Consensus size: 54
33539905 TATAGGTCGA
* *** * * * *
33539915 GGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
*** *** * * * *
33539969 GGGTATTTCAATAATTTCACAAATCAGGGGTATTTTGGTAATCTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
33540023 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
*
33540077 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * *
33540131 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTATAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
33540185 GGGTATTTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTA-TTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* **
33540240 TGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTGG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
33540294 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
33540348 GGGTGTTTTGGTAATTTGGTAAA
1 GGGTATTTTGGTAATTTTGTAAA
33540371 GTAAAGTATT
Statistics
Matches: 364, Mismatches: 37, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
54 315 0.87
55 49 0.13
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:33542843 original size:125 final size:125
Alignment explanation
Indices: 33542600--33542906 Score: 483
Period size: 125 Copynumber: 2.5 Consensus size: 125
33542590 AGTCTAAGGC
* *
33542600 TTTTTCAAATACTACTGTAGCAAAAGAGAGTCCACGTGGGAGCTTTTTTCCGCAATTTTGCTAAC
1 TTTTTCAAATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTAAC
* *
33542665 AGTGCATCCTTCTTAAAGCGTTTTTGACATTATTTGTTCAGAAACATCTTCTCAAATTTA
66 AGTGCATCCTTCTTAAAGCGTTTTTGACATTATTTATTCAAAAACATCTTCTCAAATTTA
* * *
33542725 TTTTATCAAATACTAC-ATAGTAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
1 TTTT-TCAAATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTAA
*
33542789 CAGTGCATCCTTCTTGAAGCGTTTTTGACATTATTTATTCAAAAACATCTTCTCAAATTTA
65 CAGTGCATCCTTCTTAAAGCGTTTTTGACATTATTTATTCAAAAACATCTTCTCAAATTTA
***
33542850 TTTTTTTTGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGC-TTTTTCCGTAATT
1 -TTTTTCAAATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATT
33542907 AATAGTAAAT
Statistics
Matches: 166, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
125 126 0.76
126 40 0.24
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (125 bp):
TTTTTCAAATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTAAC
AGTGCATCCTTCTTAAAGCGTTTTTGACATTATTTATTCAAAAACATCTTCTCAAATTTA
Found at i:33543133 original size:158 final size:157
Alignment explanation
Indices: 33542934--33543838 Score: 1367
Period size: 158 Copynumber: 5.7 Consensus size: 157
33542924 ATAAATCCTA
* * *
33542934 AAAAATCCTAAACCCTAATTTAATTAATTTTTTAAAATTTCATAGTTAATTTAATTAATTAACCC
1 AAAAATCCTAAACCCTAATTTAATTGATTTTTT-TATTTTCATAGTTAATTTAATTAATTAACCC
33542999 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTAA
65 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTAA
*
33543064 TCTTAAAACAATCAAAAACCTTAACCTT
130 TCTTAAAACAATCAAAAACCCTAACCTT
* *
33543092 AAAAACCCTAAACCTTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAATTAACCC
1 AAAAATCCTAAACCCTAATTTAATTGA-TTTTTTTATTTTCATAGTTAATTTAATTAATTAACCC
*
33543157 TCAACTCTAATTAAATTAA-TTTT-CCTTAAAAAACACTAAAGCCCTAAACCACTAAAACCCTAA
65 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTAA
*
33543220 TCCTAAAACAATCAAAAACCCTAA-CTT
130 TCTTAAAACAATCAAAAACCCTAACCTT
* *
33543247 AAAAACCCTAAACCCTAATTTAATTGA-TTTTTTATTTTCATAGTTAATTTAATTTATTAACCCT
1 AAAAATCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCT
* *
33543311 CAACTCTAATTAAATTAATTTTTCCCTGAAAAATACTAAAACACTAAAACCCTAAACCACTGAAA
66 CAACTCTAATTAAATTAATTTTTCCCT------TA-AAAAACACTAAAACCCTAAACCACTAAAA
* *
33543376 CCCTAATCTTAAAACAATCAAAAACCTTAATCTT
124 CCCTAATCTTAAAACAATCAAAAACCCTAACCTT
* *
33543410 AAAAATCCTAAACCCTAATTTAATTGATTTTTTTAGTTTCATAGTTAATTTAATTAATTAACCAT
1 AAAAATCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCT
* * *
33543475 CAACTCTAATTAAATTAATTTTTCCCTTAACAAACACTAAAACCCTAAACTATTAAAACCCTAAT
66 CAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTAAT
* *
33543540 CCTAAAACAATAAAAAACCCTAACCTT
131 CTTAAAACAATCAAAAACCCTAACCTT
33543567 AAAAAATCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTTAAAATTAA
1 -AAAAATCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAA-TT--AATTAA
* * * *
33543632 CCCTTAACTCTAATTAAATTAA-TTTTCCCTTAAAAAATACTAAAACCCTAAACCATTACAACCC
62 CCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCC
* *
33543696 TAATCTTAAAATAATAAAAAACCCTAACCTT
127 TAATCTTAAAACAATCAAAAACCCTAACCTT
*
33543727 AAAAAATCCTAAACCCTAATTTAATTGATTTTTTTAGTTTCATAGTTAATTTAATTAATTAACCC
1 -AAAAATCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCC
33543792 TCAACTCTAA-TAAATTAATTTTTCCCTTAAAAATACA--AAAACCCTAA
65 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAA-ACACTAAAACCCTAA
33543839 TCTTAAAACA
Statistics
Matches: 689, Mismatches: 40, Indels: 38
0.90 0.05 0.05
Matches are distributed among these distances:
153 54 0.08
154 4 0.01
155 32 0.05
156 79 0.11
157 90 0.13
158 128 0.19
159 10 0.01
160 120 0.17
161 28 0.04
162 54 0.08
163 29 0.04
164 61 0.09
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (157 bp):
AAAAATCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCT
CAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTAAT
CTTAAAACAATCAAAAACCCTAACCTT
Found at i:33543365 original size:16 final size:16
Alignment explanation
Indices: 33543346--33543381 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33543336 CTGAAAAATA
33543346 CTAAAACACTAAAACC
1 CTAAAACACTAAAACC
* *
33543362 CTAAACCACTGAAACC
1 CTAAAACACTAAAACC
33543378 CTAA
1 CTAA
33543382 TCTTAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.33, G:0.03, T:0.14
Consensus pattern (16 bp):
CTAAAACACTAAAACC
Found at i:33543422 original size:22 final size:23
Alignment explanation
Indices: 33543373--33543432 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
33543363 TAAACCACTG
33543373 AAACCCTAATCTTAAAACAATCAA
1 AAACCCTAATCTT-AAACAATCAA
* **
33543397 AAACCTTAATCTTAAA-AATCCT
1 AAACCCTAATCTTAAACAATCAA
33543419 AAACCCTAAT-TTAA
1 AAACCCTAATCTTAA
33543433 TTGATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 13 0.41
23 3 0.09
24 12 0.38
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (23 bp):
AAACCCTAATCTTAAACAATCAA
Found at i:33543837 original size:140 final size:142
Alignment explanation
Indices: 33543691--33543995 Score: 481
Period size: 140 Copynumber: 2.2 Consensus size: 142
33543681 AAACCATTAC
* *
33543691 AACCCTAATCTTAAAATAATAAAAAACCCTAACCTT-AAAAAATCCTAAACCCTAATTTAATTGA
1 AACCCTAATCTTAAAACAATAAAAAACCCTAA-CTTAAAAAAACCCTAAACCCTAATTTAATTGA
*
33543755 TTTTTTTAGTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAA-TAAATTAATTTTTCCCT
65 TTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCT
*
33543819 TAA-AAATACAAA
130 TAATAAACACAAA
*
33543831 AACCCTAATCTTAAAACAATCAAAAACCCTAACTTAAAAAAACCCTAAACCCTAATTTAATTGAT
1 AACCCTAATCTTAAAACAATAAAAAACCCTAACTTAAAAAAACCCTAAACCCTAATTTAATTGAT
*
33543896 TTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTTCCTT
66 TTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTT
* *
33543961 AATAACCACTAA
131 AATAAACACAAA
* *
33543973 AACCCTAAACCTTAAAACCATAA
1 AACCCT-AATCTTAAAACAATAA
33543996 CCCTAAAGTA
Statistics
Matches: 150, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
139 3 0.02
140 103 0.69
141 19 0.13
142 12 0.08
143 13 0.09
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.35
Consensus pattern (142 bp):
AACCCTAATCTTAAAACAATAAAAAACCCTAACTTAAAAAAACCCTAAACCCTAATTTAATTGAT
TTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTT
AATAAACACAAA
Found at i:33543843 original size:23 final size:22
Alignment explanation
Indices: 33543820--33543871 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 22
33543810 TTTTTCCCTT
33543820 AAAAATACAAAAACCCTAATCTTA
1 AAAAAT-CAAAAACCCTAA-CTTA
33543844 AAACAATCAAAAACCCTAACTTA
1 AAA-AATCAAAAACCCTAACTTA
33543867 AAAAA
1 AAAAA
33543872 ACCCTAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 2 0.07
23 7 0.26
24 15 0.56
25 3 0.11
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAAATCAAAAACCCTAACTTA
Found at i:33543880 original size:23 final size:23
Alignment explanation
Indices: 33543817--33543890 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
33543807 TAATTTTTCC
*
33543817 CTTAAAAATA-CAAAAACCCTAA
1 CTTAAAAAAACCAAAAACCCTAA
* *
33543839 TCTTAAAACAATCAAAAACCCTAA
1 -CTTAAAAAAACCAAAAACCCTAA
**
33543863 CTTAAAAAAACCCTAAACCCTAA
1 CTTAAAAAAACCAAAAACCCTAA
*
33543886 TTTAA
1 CTTAA
33543891 TTGATTTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 31 0.72
24 12 0.28
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (23 bp):
CTTAAAAAAACCAAAAACCCTAA
Found at i:33545050 original size:15 final size:15
Alignment explanation
Indices: 33545026--33545058 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
33545016 GATGTAATTG
*
33545026 TAAATTTTTATATTT
1 TAAATATTTATATTT
33545041 TAAATATTTATATTT
1 TAAATATTTATATTT
33545056 TAA
1 TAA
33545059 TATAAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TAAATATTTATATTT
Found at i:33546236 original size:64 final size:64
Alignment explanation
Indices: 33546167--33546288 Score: 226
Period size: 64 Copynumber: 1.9 Consensus size: 64
33546157 CTAACTTCAA
33546167 CAACACTATTGTTTTCAGCTAATCCATTTTGCAAGATGTCAACTAAAAGAGCATTATACTTTAG
1 CAACACTATTGTTTTCAGCTAATCCATTTTGCAAGATGTCAACTAAAAGAGCATTATACTTTAG
* *
33546231 CAACACTATTGTTTTCAGCTAATCCATTTTGTAGGATGTCAACTAAAAGAGCATTATA
1 CAACACTATTGTTTTCAGCTAATCCATTTTGCAAGATGTCAACTAAAAGAGCATTATA
33546289 ACTCTCCAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (64 bp):
CAACACTATTGTTTTCAGCTAATCCATTTTGCAAGATGTCAACTAAAAGAGCATTATACTTTAG
Found at i:33548290 original size:16 final size:17
Alignment explanation
Indices: 33548269--33548300 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
33548259 TCTTCCCCTT
33548269 TCTTTTCTTT-TTTTTC
1 TCTTTTCTTTATTTTTC
33548285 TCTTTTCTTTATTTTT
1 TCTTTTCTTTATTTTT
33548301 TTTTTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TCTTTTCTTTATTTTTC
Found at i:33552566 original size:9 final size:9
Alignment explanation
Indices: 33552552--33552610 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
33552542 ATAAGTATAA
*
33552552 AATTAATCG
1 AATTAACCG
*
33552561 AATTAATCG
1 AATTAACCG
* *
33552570 AATTACCCA
1 AATTAACCG
33552579 AATT-ACCG
1 AATTAACCG
33552587 AAATTAACCG
1 -AATTAACCG
33552597 AATTAACCG
1 AATTAACCG
33552606 AATTA
1 AATTA
33552611 TCCAAATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
8 2 0.05
9 37 0.86
10 4 0.09
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:33552582 original size:18 final size:18
Alignment explanation
Indices: 33552561--33552619 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
33552551 AAATTAATCG
* *
33552561 AATTAATCGAATTACCCA
1 AATTAACCGAATTAACCA
*
33552579 AATT-ACCGAAATTAACCG
1 AATTAACCG-AATTAACCA
*
33552597 AATTAACCGAATTATCCA
1 AATTAACCGAATTAACCA
33552615 AATTA
1 AATTA
33552620 TTTGTATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 3 0.09
18 27 0.79
19 4 0.12
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (18 bp):
AATTAACCGAATTAACCA
Found at i:33552582 original size:27 final size:28
Alignment explanation
Indices: 33552551--33552619 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 28
33552541 AATAAGTATA
* * *
33552551 AAATTAATCG-AATTAATCGAATTACCC
1 AAATTAACCGAAATTAACCGAATTAACC
33552578 AAATT-ACCGAAATTAACCGAATTAACC
1 AAATTAACCGAAATTAACCGAATTAACC
* *
33552605 GAATTATCC-AAATTA
1 AAATTAACCGAAATTA
33552620 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.09
27 30 0.86
28 2 0.06
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (28 bp):
AAATTAACCGAAATTAACCGAATTAACC
Found at i:33552593 original size:36 final size:36
Alignment explanation
Indices: 33552551--33552619 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
33552541 AATAAGTATA
* *
33552551 AAATTAATCGAATTAATCGAATTACCCAAATTACCG
1 AAATTAACCGAATTAACCGAATTACCCAAATTACCG
*
33552587 AAATTAACCGAATTAACCGAATTATCCAAATTA
1 AAATTAACCGAATTAACCGAATTACCCAAATTA
33552620 TTTGTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (36 bp):
AAATTAACCGAATTAACCGAATTACCCAAATTACCG
Found at i:33552620 original size:9 final size:9
Alignment explanation
Indices: 33552551--33552619 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
33552541 AATAAGTATA
*
33552551 AAATTAATC
1 AAATTAACC
* *
33552560 GAATTAATC
1 AAATTAACC
* *
33552569 GAATTACCC
1 AAATTAACC
33552578 AAATT-ACC
1 AAATTAACC
33552586 GAAATTAACC
1 -AAATTAACC
*
33552596 GAATTAACC
1 AAATTAACC
* *
33552605 GAATTATCC
1 AAATTAACC
33552614 AAATTA
1 AAATTA
33552620 TTTGTATAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 2 0.04
9 45 0.90
10 3 0.06
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (9 bp):
AAATTAACC
Found at i:33552650 original size:6 final size:6
Alignment explanation
Indices: 33552639--33552679 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
33552629 AATAATATGT
33552639 TTTTTA TTTTTA TTTTTA GTTTTTGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTTT-A TTTTTA TTTTTA TTT
33552680 ATTAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 22 0.67
7 10 0.30
8 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:33552662 original size:20 final size:20
Alignment explanation
Indices: 33552637--33552676 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33552627 AAAATAATAT
*
33552637 GTTTTTTATTTTTATTTTTA
1 GTTTTTGATTTTTATTTTTA
33552657 GTTTTTGATTTTTATTTTTA
1 GTTTTTGATTTTTATTTTTA
33552677 TTTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (20 bp):
GTTTTTGATTTTTATTTTTA
Found at i:33552720 original size:13 final size:13
Alignment explanation
Indices: 33552704--33552728 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33552694 AATTTTTATG
33552704 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
33552717 ATTGGGTTGGGT
1 ATTGGGTTGGGT
33552729 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:33552728 original size:18 final size:18
Alignment explanation
Indices: 33552705--33552742 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
33552695 ATTTTTATGA
33552705 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
33552723 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
33552741 TT
1 TT
33552743 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:33554495 original size:31 final size:31
Alignment explanation
Indices: 33554460--33554535 Score: 152
Period size: 31 Copynumber: 2.5 Consensus size: 31
33554450 TTAATGACTC
33554460 AGTGACTAAAATGTTACAACACGATAATGTA
1 AGTGACTAAAATGTTACAACACGATAATGTA
33554491 AGTGACTAAAATGTTACAACACGATAATGTA
1 AGTGACTAAAATGTTACAACACGATAATGTA
33554522 AGTGACTAAAATGT
1 AGTGACTAAAATGT
33554536 AACCTGTGAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (31 bp):
AGTGACTAAAATGTTACAACACGATAATGTA
Found at i:33560321 original size:32 final size:32
Alignment explanation
Indices: 33560285--33560352 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
33560275 ATTCCCAATT
*
33560285 TTTTTCAAAAGTTAACCTAAATTTACCCTTGG
1 TTTTTCAAAAGTTAACCAAAATTTACCCTTGG
*
33560317 TTTTTCAAAAGTTAACCAAAATTTAGCCTTGG
1 TTTTTCAAAAGTTAACCAAAATTTACCCTTGG
33560349 TTTT
1 TTTT
33560353 ATTTTTTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (32 bp):
TTTTTCAAAAGTTAACCAAAATTTACCCTTGG
Found at i:33562791 original size:16 final size:16
Alignment explanation
Indices: 33562770--33562809 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
33562760 GTTTTGGGTT
33562770 TTCTTTATGTTTTTTA
1 TTCTTTATGTTTTTTA
33562786 TTCTTTATGTTTTTTA
1 TTCTTTATGTTTTTTA
33562802 TTCTTTAT
1 TTCTTTAT
33562810 TATTCTGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (16 bp):
TTCTTTATGTTTTTTA
Found at i:33565575 original size:45 final size:45
Alignment explanation
Indices: 33565488--33565605 Score: 179
Period size: 45 Copynumber: 2.7 Consensus size: 45
33565478 CTGACATTTC
* *
33565488 GCCTGTTAGGCTCGAA-GCCCG-ATA-TCATTTCACTGGCATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGT-ATTTCACCGGCATTATA
33565531 GCCTGCTAGGCTCGAAGGCCCGAATAGTATTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGTATTTCACCGGCATTATA
*
33565576 GCCTGCTAGGCTCAAAGGCCCGAATAGTAT
1 GCCTGCTAGGCTCGAAGGCCCGAATAGTAT
33565606 CACCGTACAA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
43 15 0.22
44 5 0.07
45 48 0.70
46 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAGGCCCGAATAGTATTTCACCGGCATTATA
Found at i:33573286 original size:41 final size:41
Alignment explanation
Indices: 33573241--33573371 Score: 92
Period size: 41 Copynumber: 3.1 Consensus size: 41
33573231 AAAACATGTC
33573241 ATAAACATGTTGGGGTAGTGCATTATGTATGGATTAATAAA
1 ATAAACATGTTGGGGTAGTGCATTATGTATGGATTAATAAA
* * ** * *
33573282 ATAAAGA-GCAT-GGGT-G-GACAAGATGTTATGG-CTAAAAACA
1 ATAAACATG-TTGGGGTAGTG-CATTATG-TATGGATTAATAA-A
*
33573322 TGTCATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ----ATAAACATGTTGGGGTAGTGCATTATGTATGGATTAATAAA
33573367 ATAAA
1 ATAAA
33573372 GGGCATGGGC
Statistics
Matches: 64, Mismatches: 13, Indels: 26
0.62 0.13 0.25
Matches are distributed among these distances:
38 1 0.02
39 11 0.17
40 11 0.17
41 12 0.19
44 7 0.11
45 10 0.16
46 11 0.17
47 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (41 bp):
ATAAACATGTTGGGGTAGTGCATTATGTATGGATTAATAAA
Found at i:33573330 original size:44 final size:44
Alignment explanation
Indices: 33573202--33573330 Score: 103
Period size: 39 Copynumber: 3.0 Consensus size: 44
33573192 GGCCGGCCAT
33573202 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAA
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAA
* * ** * *
33573246 CATG-TTGGGGTAGTG-CATTATG-TATGGATTAATAA-A----ATAAA
1 GA-GCAT-GGGT-G-GACAAGATGTTATGG-CTAAAAACATGTCATAAA
33573287 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAA
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAA
33573331 CATGTTGGGG
Statistics
Matches: 60, Mismatches: 12, Indels: 26
0.61 0.12 0.27
Matches are distributed among these distances:
38 1 0.02
39 11 0.18
40 11 0.18
41 7 0.12
44 7 0.12
45 11 0.18
46 11 0.18
47 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (44 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAA
Found at i:33573345 original size:85 final size:85
Alignment explanation
Indices: 33573202--33573380 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
33573192 GGCCGGCCAT
33573202 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
33573267 GTATGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
33573287 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33573352 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
33573372 GGGCATGGG
1 GAGCATGGG
33573381 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:33575669 original size:47 final size:47
Alignment explanation
Indices: 33575595--33575911 Score: 409
Period size: 47 Copynumber: 6.6 Consensus size: 47
33575585 ACCCGTATAT
*
33575595 ATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * **
33575642 GTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCTGTATATAT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C-----ATGC
*
33575695 ATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
33575742 GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * *
33575789 GTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATAC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * * ** *
33575836 ATATATGAGATATGGTTGAATGGCCAATGTGATGAATGTGAACATGA
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * *
33575883 ATATATGTGGTAAGGCCGAATGGCTAATG
1 ATATGTGTGATAAGGCCGAATGGCCAATG
33575912 CGAAACGTGT
Statistics
Matches: 237, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
47 194 0.82
48 1 0.00
52 1 0.00
53 41 0.17
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:33575715 original size:100 final size:98
Alignment explanation
Indices: 33575570--33575911 Score: 457
Period size: 94 Copynumber: 3.6 Consensus size: 98
33575560 TTAGGATTTT
*
33575570 ATGTGATGAATGTGAACCCGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*
33575635 AACATGCGTATGTGTGATAAGGCCGAATGACCA
66 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
33575668 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAACCTG--TATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATG
33575733 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
64 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** * *
33575768 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * * * * **
33575829 AACATACATATATGAGATATGGTTGAATGGCCA
66 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
33575862 ATGTGATGAATGTGAACATG-A-ATATAT--GTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATG
33575912 CGAAACGTGT
Statistics
Matches: 218, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
94 101 0.46
96 3 0.01
97 1 0.00
98 19 0.09
99 1 0.00
100 93 0.43
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (98 bp):
ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
AACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:33575748 original size:23 final size:23
Alignment explanation
Indices: 33575721--33575795 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
33575711 CGAATGGCCA
33575721 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
33575744 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
33575768 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
33575791 ATGTG
1 ATGTG
33575796 TGATAAGGCT
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:33575808 original size:25 final size:25
Alignment explanation
Indices: 33575733--33575808 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
33575723 GTGATGAATG
33575733 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
* * * *
33575758 CG-A-ATG-GCCA-ATGTGATGAATG-
1 TGAACATGCG-TATGTGTGAT-AAGGC
33575780 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
33575805 TGAA
1 TGAA
33575809 TGGCCAATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 8 0.22
23 8 0.22
24 8 0.22
25 12 0.33
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (25 bp):
TGAACATGCGTATGTGTGATAAGGC
Found at i:33575974 original size:46 final size:46
Alignment explanation
Indices: 33575885--33575975 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
33575875 GAACATGAAT
* * * *
33575885 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
33575931 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
33575976 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:33576301 original size:37 final size:37
Alignment explanation
Indices: 33576120--33576300 Score: 292
Period size: 37 Copynumber: 4.9 Consensus size: 37
33576110 GGAAATATAT
33576120 TCCGGGTAAGA-CCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
33576156 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
33576193 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
33576230 TCCGGGTAAGCCCCGATGACTACGCGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
33576267 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
33576301 TCGTCTGAGC
Statistics
Matches: 134, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 10 0.07
37 124 0.93
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:33577625 original size:40 final size:40
Alignment explanation
Indices: 33577570--33577934 Score: 577
Period size: 40 Copynumber: 9.1 Consensus size: 40
33577560 GAGAATTGAG
*
33577570 AGTGATATATCCGGGCTAAGTCCCGAGGAGTATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
33577610 AGTGATATATCCGGGCTAAGTCCCGAAGAGTATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
33577650 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
33577690 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
33577730 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
33577770 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
33577810 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** *
33577850 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * * * *
33577890 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
33577930 AGTGA
1 AGTGA
33577935 CGTGTATTCG
Statistics
Matches: 300, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 300 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:33578202 original size:58 final size:57
Alignment explanation
Indices: 33578133--33578241 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
33578123 CGAATGATTA
* *
33578133 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
33578191 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
33578242 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:33579833 original size:85 final size:85
Alignment explanation
Indices: 33579690--33579868 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
33579680 GGCCGGCCAT
33579690 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33579755 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
33579775 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33579840 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
33579860 GGGCATGGG
1 GAGCATGGG
33579869 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:33582145 original size:47 final size:47
Alignment explanation
Indices: 33582081--33582350 Score: 378
Period size: 47 Copynumber: 5.6 Consensus size: 47
33582071 ACCCGTATAT
33582081 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* **
33582128 GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATAT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C---ATGC
*
33582179 ATATATTCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATAT-GT-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
33582228 GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * * *
33582275 ATATATGAGATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGA
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * *
33582322 ATATATGTGGTAAGGCCGAATGGCTAATG
1 ATATGTGTGATAAGGCCGAATGGCCAATG
33582351 CGAAACGTGT
Statistics
Matches: 199, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
47 149 0.75
48 2 0.01
49 5 0.03
51 5 0.03
52 2 0.01
53 36 0.18
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:33582203 original size:100 final size:97
Alignment explanation
Indices: 33582056--33582350 Score: 443
Period size: 100 Copynumber: 3.0 Consensus size: 97
33582046 TTAGGATTTT
*
33582056 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA-CCGTATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
33582121 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
65 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
33582154 ATGTGATGAATGTGAACCTGTATATATATATTCGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAACC-GTATATATATA-T-GTGATAAGGCCGAATGGCCAATGTGATGAATG
33582219 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
63 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * *
33582254 ATGTGATGAATGTGAA-C--ATGCATATATGAGATAGGGCCGAATGGCCAATGTGATGAATGTGA
1 ATGTGATGAATGTGAACCGTATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
** * * *
33582316 ACATGAATATATGTGGTAAGGCCGAATGGCTA
66 ACATGCGTATGTGTGATAAGGCCGAATGGCCA
33582348 ATG
1 ATG
33582351 CGAAACGTGT
Statistics
Matches: 184, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
94 63 0.34
95 1 0.01
96 7 0.04
97 2 0.01
98 26 0.14
99 2 0.01
100 83 0.45
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (97 bp):
ATGTGATGAATGTGAACCGTATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
ACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:33582413 original size:46 final size:46
Alignment explanation
Indices: 33582324--33582414 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
33582314 GAACATGAAT
* * * *
33582324 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
33582370 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
33582415 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:33582609 original size:37 final size:37
Alignment explanation
Indices: 33582559--33582666 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
33582549 GGAAATATAT
33582559 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
33582596 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
33582633 TCCAGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
33582667 TCGTCTGAGC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Done.