Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000295.1 Hibiscus syriacus cultivar Beakdansim tig00000541_pilon, whole genome shotgun sequence
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: 2017499
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 4 of 9
Found at i:644460 original size:19 final size:19
Alignment explanation
Indices: 644414--644461 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
644404 CCGAGTTGGT
* *
644414 TGAGTTGAGCCGAATTGAC
1 TGAGTTGAGTCGAAGTGAC
*
644433 CGAGTTGAGTCGAAGTGAC
1 TGAGTTGAGTCGAAGTGAC
*
644452 TGAGATGAGT
1 TGAGTTGAGT
644462 TGTCATTGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.12, G:0.35, T:0.25
Consensus pattern (19 bp):
TGAGTTGAGTCGAAGTGAC
Found at i:646140 original size:27 final size:26
Alignment explanation
Indices: 646110--646239 Score: 107
Period size: 27 Copynumber: 4.8 Consensus size: 26
646100 AAGATGACTG
646110 AAATACCCATGAAATCTAAAATGACCA
1 AAATACCCAT-AAATCTAAAATGACCA
* * * *
646137 AAATGCCCCTAAATTTCAAAATGCCCA
1 AAATACCCATAAATCT-AAAATGACCA
* * * *
646164 GAACACCCATCAACTCTAAAATAACCA
1 AAATACCCAT-AAATCTAAAATGACCA
*
646191 AAATACCCCTAAATTCTAAAATGACCA
1 AAATACCCATAAA-TCTAAAATGACCA
* * *
646218 AAACACCCTTCAAATCCAAAAT
1 AAATACCCAT-AAATCTAAAAT
646240 TACAGAGATG
Statistics
Matches: 79, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
26 7 0.09
27 65 0.82
28 7 0.09
ACGTcount: A:0.48, C:0.28, G:0.05, T:0.19
Consensus pattern (26 bp):
AAATACCCATAAATCTAAAATGACCA
Found at i:646200 original size:54 final size:54
Alignment explanation
Indices: 646114--646239 Score: 164
Period size: 54 Copynumber: 2.3 Consensus size: 54
646104 TGACTGAAAT
* * * * *
646114 ACCCATGAAATCTAAAATGACCAAAATGCCCCTAAATT-TCAAAATGCCCAGAAC
1 ACCCATCAAATCTAAAATAACCAAAATACCCCTAAATTCT-AAAATGACCAAAAC
*
646168 ACCCATCAACTCTAAAATAACCAAAATACCCCTAAATTCTAAAATGACCAAAAC
1 ACCCATCAAATCTAAAATAACCAAAATACCCCTAAATTCTAAAATGACCAAAAC
* *
646222 ACCCTTCAAATCCAAAAT
1 ACCCATCAAATCTAAAAT
646240 TACAGAGATG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 61 0.98
55 1 0.02
ACGTcount: A:0.47, C:0.29, G:0.05, T:0.19
Consensus pattern (54 bp):
ACCCATCAAATCTAAAATAACCAAAATACCCCTAAATTCTAAAATGACCAAAAC
Found at i:653059 original size:26 final size:28
Alignment explanation
Indices: 653006--653060 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
652996 CTATTTTACT
*
653006 ACAACATTATTTTTTATATTTATTTAAA
1 ACAACATTATTTGTTATATTTATTTAAA
653034 ACAACAGTTA-TTGTTA-ATTT-TTTAAA
1 ACAACA-TTATTTGTTATATTTATTTAAA
653060 A
1 A
653061 AGTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
27 4 0.16
28 11 0.44
29 3 0.12
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (28 bp):
ACAACATTATTTGTTATATTTATTTAAA
Found at i:659941 original size:26 final size:28
Alignment explanation
Indices: 659888--659942 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
659878 CTATTTTACT
*
659888 ACAACATTATTTTTTATATTTATTTAAA
1 ACAACATTATTTGTTATATTTATTTAAA
659916 ACAACAATTA-TTGTTA-ATTT-TTTAAA
1 ACAAC-ATTATTTGTTATATTTATTTAAA
659942 A
1 A
659943 AGTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
27 4 0.16
28 10 0.40
29 4 0.16
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (28 bp):
ACAACATTATTTGTTATATTTATTTAAA
Found at i:663361 original size:26 final size:28
Alignment explanation
Indices: 663308--663362 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
663298 CTATTTTACT
*
663308 ACAACATTATTTTTTATATTTATTTAAA
1 ACAACATTATTTGTTATATTTATTTAAA
663336 ACAACAATTA-TTGTTA-ATTT-TTTAAA
1 ACAAC-ATTATTTGTTATATTTATTTAAA
663362 A
1 A
663363 AGTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
27 4 0.16
28 10 0.40
29 4 0.16
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (28 bp):
ACAACATTATTTGTTATATTTATTTAAA
Found at i:666782 original size:26 final size:28
Alignment explanation
Indices: 666729--666783 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
666719 CTATTTTACT
*
666729 ACAACATTATTTTTTATATTTATTTAAA
1 ACAACATTATTTGTTATATTTATTTAAA
666757 ACAACAATTA-TTGTTA-ATTT-TTTAAA
1 ACAAC-ATTATTTGTTATATTTATTTAAA
666783 A
1 A
666784 AGTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
27 4 0.16
28 10 0.40
29 4 0.16
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (28 bp):
ACAACATTATTTGTTATATTTATTTAAA
Found at i:670221 original size:26 final size:28
Alignment explanation
Indices: 670168--670222 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
670158 CTATTTTACT
*
670168 ACAACATTATTTTTTATATTTATTTAAA
1 ACAACATTATTTGTTATATTTATTTAAA
670196 ACAACAATTA-TTGTTA-ATTT-TTTAAA
1 ACAAC-ATTATTTGTTATATTTATTTAAA
670222 A
1 A
670223 AGTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
27 4 0.16
28 10 0.40
29 4 0.16
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (28 bp):
ACAACATTATTTGTTATATTTATTTAAA
Found at i:687790 original size:27 final size:26
Alignment explanation
Indices: 687747--687800 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
687737 CTATTTTACT
* *
687747 ACAACATTATTTTTTATATTTTTTAAA
1 ACAACATTATTTATTAT-TTTTTAAAA
687774 ACAACAGTTA-TTATTATTTTTTAAAA
1 ACAACA-TTATTTATTATTTTTTAAAA
687800 A
1 A
687801 GTTTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 12 0.50
28 3 0.12
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (26 bp):
ACAACATTATTTATTATTTTTTAAAA
Found at i:693501 original size:26 final size:28
Alignment explanation
Indices: 693448--693502 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
693438 CTATTTTACT
*
693448 ACAACATTATTTTTTATATTTATTTAAA
1 ACAACATTATTTGTTATATTTATTTAAA
693476 ACAACAGTTA-TTGTTA-ATTT-TTTAAA
1 ACAACA-TTATTTGTTATATTTATTTAAA
693502 A
1 A
693503 AGTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
27 4 0.16
28 11 0.44
29 3 0.12
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (28 bp):
ACAACATTATTTGTTATATTTATTTAAA
Found at i:696647 original size:32 final size:31
Alignment explanation
Indices: 696611--696687 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
696601 CGGGGCCGTG
*
696611 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
696643 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
696674 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
696688 GTCACATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:696670 original size:63 final size:63
Alignment explanation
Indices: 696564--696687 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
696554 CCCTAAGGGA
* * ** *
696564 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
696627 ACATCTTAGGGCC-GCAGGGCCTACCCGAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAG-ATAGATCTCAGGGCCGCAGAGCCTACCTAAGA
696688 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 48 0.92
64 3 0.06
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:703903 original size:32 final size:31
Alignment explanation
Indices: 703867--703943 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
703857 CGGGGCCGTG
*
703867 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
703899 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
703930 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
703944 GTCACATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:704824 original size:7 final size:7
Alignment explanation
Indices: 704812--704849 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
704802 GTCAAAGAAA
704812 GTCAACG
1 GTCAACG
704819 GTCAACG
1 GTCAACG
704826 GTCAACG
1 GTCAACG
704833 GTCAACG
1 GTCAACG
704840 GTCAACG
1 GTCAACG
704847 GTC
1 GTC
704850 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:704856 original size:5 final size:5
Alignment explanation
Indices: 704846--704902 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
704836 AACGGTCAAC
* *
704846 GGTCG GGTCG GGTCG GGTCAAC GGTC- GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
704894 GGTCG GGTC
1 GGTCG GGTC
704903 AGACCGGTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 32 0.73
7 8 0.18
ACGTcount: A:0.07, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:704867 original size:43 final size:43
Alignment explanation
Indices: 704818--704902 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
704808 GAAAGTCAAC
704818 GGTCAACGGTC-AAC-GGTCAACGGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGAACGGGTC--CGGTCAACGGTCGGGTCGGGTCG
** *
704861 GGTCAACGGTCGGTCGGGTCGGGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGAACGGGTCCGGTCAACGGTCGGGTCGGGTC
704903 AGACCGGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 32 0.86
44 1 0.03
45 4 0.11
ACGTcount: A:0.14, C:0.25, G:0.44, T:0.18
Consensus pattern (43 bp):
GGTCAACGGTCGAACGGGTCCGGTCAACGGTCGGGTCGGGTCG
Found at i:704871 original size:17 final size:18
Alignment explanation
Indices: 704851--704903 Score: 72
Period size: 17 Copynumber: 2.8 Consensus size: 18
704841 TCAACGGTCG
704851 GGTCGGGTCGGGTCAACGGTC
1 GGTCGGGTCGGGTCAA--G-C
704872 GGTCGGGTCGGGTCAA-C
1 GGTCGGGTCGGGTCAAGC
704889 GGTCGGGTCGGGTCA
1 GGTCGGGTCGGGTCA
704904 GACCGGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.50
21 16 0.50
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (18 bp):
GGTCGGGTCGGGTCAAGC
Found at i:704913 original size:26 final size:22
Alignment explanation
Indices: 704839--704902 Score: 121
Period size: 21 Copynumber: 3.0 Consensus size: 22
704829 AACGGTCAAC
704839 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
704861 GGTCAACGGTC-GGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
704882 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
704903 AGACCGGTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 21 0.51
22 20 0.49
ACGTcount: A:0.09, C:0.23, G:0.48, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:704917 original size:9 final size:9
Alignment explanation
Indices: 704899--704997 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
704889 GGTCGGGTCG
*
704899 GGTCAGACC
1 GGTCAAACC
704908 GGTCAAACC
1 GGTCAAACC
* *
704917 GATTCAGACC
1 G-GTCAAACC
704927 GGTCAAACC
1 GGTCAAACC
*
704936 GGTTCGAACC
1 GG-TCAAACC
*
704946 GGTTGAAACC
1 GG-TCAAACC
704956 GGTCAAACC
1 GGTCAAACC
704965 GGTCAGAACC
1 GGTCA-AACC
*
704975 GGTTGAAAACC
1 GG-T-CAAACC
704986 GGTCAAACC
1 GGTCAAACC
704995 GGT
1 GGT
704998 TTCCAGCAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
9 36 0.49
10 30 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:704923 original size:19 final size:19
Alignment explanation
Indices: 704901--704998 Score: 101
Period size: 19 Copynumber: 5.1 Consensus size: 19
704891 TCGGGTCGGG
*
704901 TCAGACCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGGT
704920 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
704939 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
*
704958 TCAAACCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
* *
704978 TGAAAACCGGTCAAACCGGT
1 T-CAGACCGGTCAAACCGGT
704998 T
1 T
704999 TCCAGCAGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
18 3 0.04
19 38 0.56
20 17 0.25
21 10 0.15
ACGTcount: A:0.30, C:0.29, G:0.26, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:704956 original size:29 final size:31
Alignment explanation
Indices: 704924--704998 Score: 129
Period size: 29 Copynumber: 2.5 Consensus size: 31
704914 ACCGATTCAG
704924 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
704953 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
704983 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
704999 TCCAGCAGCC
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 2 0.05
29 24 0.56
30 16 0.37
31 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.16
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:706395 original size:26 final size:28
Alignment explanation
Indices: 706342--706396 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
706332 CTATTTTACT
*
706342 ACAACATTATTTTTTATATTTATTTAAA
1 ACAACATTATTTGTTATATTTATTTAAA
706370 ACAACAGTTA-TTGTTA-ATTT-TTTAAA
1 ACAACA-TTATTTGTTATATTTATTTAAA
706396 A
1 A
706397 AGTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
27 4 0.16
28 11 0.44
29 3 0.12
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (28 bp):
ACAACATTATTTGTTATATTTATTTAAA
Found at i:709443 original size:16 final size:16
Alignment explanation
Indices: 709422--709452 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
709412 ACAGTTATTA
709422 TTATTTTTTAAAAAGT
1 TTATTTTTTAAAAAGT
*
709438 TTATTTTTTGAAAAG
1 TTATTTTTTAAAAAG
709453 AATTGACAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
TTATTTTTTAAAAAGT
Found at i:712653 original size:3 final size:3
Alignment explanation
Indices: 712645--712710 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
712635 AATTATTTTT
* *
712645 TAA TAA TAA TAA TAA T-A TATA TAA TAA TAA TAA TTA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
712690 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
712711 ATAAAATGAG
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:713008 original size:17 final size:17
Alignment explanation
Indices: 712951--713009 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
712941 TTGAACATGC
712951 TCTTCTCATTGTGAACT
1 TCTTCTCATTGTGAACT
* *
712968 TCTTATTC-TTCAGATG-AGT
1 TCTT-CTCATT--G-TGAACT
712987 TCTTCTCATTGTGAACT
1 TCTTCTCATTGTGAACT
713004 TCTTCT
1 TCTTCT
713010 GGAAATGCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
16 2 0.06
17 15 0.47
18 4 0.12
19 9 0.28
20 2 0.06
ACGTcount: A:0.17, C:0.22, G:0.12, T:0.49
Consensus pattern (17 bp):
TCTTCTCATTGTGAACT
Found at i:713196 original size:113 final size:113
Alignment explanation
Indices: 713063--713508 Score: 519
Period size: 113 Copynumber: 3.9 Consensus size: 113
713053 GCAAATGGTC
* * *
713063 GAACAAGCTCTTCTCATTATGAACTTCATCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
*
713128 CTCTCTGGAAA-AGTTAATCCATCGAGTGATGAATTCGAGCGAAAAGTT
66 CTCTCTGGAAAGAGTTAATCCATCGAATGATGAATTC-AGCGAAAAGTT
713176 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
* * * *
713241 CTTTCTGGAAATA-CTGATCCATCGAATGATGAATTCAAGCGAAAAGTT
66 CTCTCTGGAAAGAGTTAATCCATCGAATGATGAATTC-AGCGAAAAGTT
713289 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
* * *
713354 TTCTATGGAAAAGCTGATGTTGATCTATCTCCTTCTG--TGATAGAATT-ATGC-AAAAGGTT
66 CTCTCTGG-AAA---GA-GTT-A---A--TCCATC-GAATGAT-GAATTCA-GCGAAAA-GTT
* * *
713413 GAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
** * * *
713478 CTAACTGGAAA-TGTTGATCCATTGAATGATG
66 CTCTCTGGAAAGAGTTAATCCATCGAATGATG
713509 GATTTTAATC
Statistics
Matches: 288, Mismatches: 26, Indels: 39
0.82 0.07 0.11
Matches are distributed among these distances:
111 1 0.00
112 5 0.02
113 177 0.61
114 5 0.02
117 1 0.00
118 3 0.01
119 1 0.00
123 9 0.03
124 75 0.26
125 10 0.03
126 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (113 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
CTCTCTGGAAAGAGTTAATCCATCGAATGATGAATTCAGCGAAAAGTT
Found at i:725426 original size:20 final size:20
Alignment explanation
Indices: 725401--725440 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
725391 TAAATATAAT
725401 ATTATAAGAGA-TTTAATTTA
1 ATTATAAGA-ATTTTAATTTA
*
725421 ATTATATGAATTTTAATTTA
1 ATTATAAGAATTTTAATTTA
725441 TAATTAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
ATTATAAGAATTTTAATTTA
Found at i:727636 original size:3 final size:3
Alignment explanation
Indices: 727628--727685 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
727618 AATTATTTTT
* *
727628 TAA TAA TAA TAA TAA TCTA TAA TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
727674 TAA TAA TAA TAA
1 TAA TAA TAA TAA
727686 ATAAAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 48 0.96
4 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:733304 original size:26 final size:28
Alignment explanation
Indices: 733251--733305 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
733241 CTATTTTACT
*
733251 ACAACATTATTTTTTATATTTATTTAAA
1 ACAACATTATTTGTTATATTTATTTAAA
733279 ACAACAGTTA-TTGTTA-ATTT-TTTAAA
1 ACAACA-TTATTTGTTATATTTATTTAAA
733305 A
1 A
733306 AGTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
27 4 0.16
28 11 0.44
29 3 0.12
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (28 bp):
ACAACATTATTTGTTATATTTATTTAAA
Found at i:734185 original size:32 final size:31
Alignment explanation
Indices: 734147--734224 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
734137 TTGGGTCCAT
* *
734147 AGGGCCTACCTAAGAACACATCTTAGGGCTGC
1 AGGGCCTACCTAAGAA-ACATCTCAGGGCCGC
** **
734179 AGGGCCTACCCGAGAATGATCTCAGGGCCGC
1 AGGGCCTACCTAAGAAACATCTCAGGGCCGC
*
734210 AGAGCCTACCTAAGA
1 AGGGCCTACCTAAGA
734225 GTCACATTAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 23 0.62
32 14 0.38
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.15
Consensus pattern (31 bp):
AGGGCCTACCTAAGAAACATCTCAGGGCCGC
Found at i:741225 original size:24 final size:24
Alignment explanation
Indices: 741198--741258 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
741188 TAACAAATCT
*
741198 AAATCCATGTCAAGTATCATATAA
1 AAATCCAGGTCAAGTATCATATAA
* **
741222 AAATTCAGGTCAAGTATCATATTT
1 AAATCCAGGTCAAGTATCATATAA
*
741246 GAATCCAGGTCAA
1 AAATCCAGGTCAA
741259 CAATCAGGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (24 bp):
AAATCCAGGTCAAGTATCATATAA
Found at i:741992 original size:29 final size:28
Alignment explanation
Indices: 741959--742143 Score: 113
Period size: 29 Copynumber: 6.4 Consensus size: 28
741949 TATTTTACAT
*
741959 AAATAGCACCCCTTTTTAAATAATAACCA
1 AAATAGCA-CCCTTTTTAAATAATTACCA
* * *
741988 AAATAACACCCTTATCAAATTAATTACCA
1 AAATAGCACCCTTTTTAAA-TAATTACCA
* *
742017 AAATAGCA-CCTTTTTGAATTAATTCCCA
1 AAATAGCACCCTTTTT-AAATAATTACCA
* * ** *
742045 AAATAGCATCCATTTTGATTTAATTCCCA
1 AAATAGCA-CCCTTTTTAAATAATTACCA
* * * *
742074 GAATATCACCTTTTTTGAAAAAAAATTACCA
1 AAATAGCACCCTTTTT---AAATAATTACCA
* *
742105 AAATAGCA-CCTATTTTGAATTAATTCCCA
1 AAATAGCACCCT-TTTT-AAATAATTACCA
*
742134 GAATAGCACC
1 AAATAGCACC
742144 AAAATCGAAT
Statistics
Matches: 119, Mismatches: 28, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
28 36 0.30
29 57 0.48
30 8 0.07
31 18 0.15
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (28 bp):
AAATAGCACCCTTTTTAAATAATTACCA
Found at i:742159 original size:89 final size:88
Alignment explanation
Indices: 742009--742171 Score: 256
Period size: 89 Copynumber: 1.8 Consensus size: 88
741999 TTATCAAATT
** * *
742009 AATTACCAAAATAGCACCTTTTTGAATTAATTCCCAAAATAGCATCCATTTTGATTTAATTCCCA
1 AATTACCAAAATAGCACCTTTTTGAATTAATTCCCAAAATAGCATCCAAATCGAATTAATTCCCA
742074 GAATATCACCTTTTTTGAAAAAA
66 GAATATCACCTTTTTTGAAAAAA
*
742097 AATTACCAAAATAGCACCTATTTTGAATTAATTCCCAGAATAGCA-CCAAAATCGAATTAATTCC
1 AATTACCAAAATAGCACCT-TTTTGAATTAATTCCCAAAATAGCATCC-AAATCGAATTAATTCC
742161 CAGAATATCAC
64 CAGAATATCAC
742172 TCGTCAACGA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
88 21 0.31
89 47 0.69
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (88 bp):
AATTACCAAAATAGCACCTTTTTGAATTAATTCCCAAAATAGCATCCAAATCGAATTAATTCCCA
GAATATCACCTTTTTTGAAAAAA
Found at i:742210 original size:22 final size:22
Alignment explanation
Indices: 742182--742224 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
742172 TCGTCAACGA
*
742182 TCAACGGTTGGGTCGGGTCGGG
1 TCAACGGTCGGGTCGGGTCGGG
742204 TCAACGGTCGGGTCGGGTCGG
1 TCAACGGTCGGGTCGGGTCGG
742225 ACAGGTTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.49, T:0.21
Consensus pattern (22 bp):
TCAACGGTCGGGTCGGGTCGGG
Found at i:744718 original size:29 final size:29
Alignment explanation
Indices: 744676--744746 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
744666 ATATTGTCAC
744676 CCCAGAATGTCACCTTTTTCAAAATAATT
1 CCCAGAATGTCACCTTTTTCAAAATAATT
* *
744705 CCCAAAATGTCACCTTTTTCAAAATATTT
1 CCCAGAATGTCACCTTTTTCAAAATAATT
744734 CCCAGAATGTCAC
1 CCCAGAATGTCAC
744747 TGGCTCGGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (29 bp):
CCCAGAATGTCACCTTTTTCAAAATAATT
Found at i:748704 original size:27 final size:27
Alignment explanation
Indices: 748650--748703 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
748640 CTATTTTACT
*
748650 ACAACATTATTTTTATATTTATTTAAA
1 ACAACATTATTGTTATATTTATTTAAA
748677 ACAACAGTTATTGTTA-ATTT-TTTAAA
1 ACAACA-TTATTGTTATATTTATTTAAA
748703 A
1 A
748704 AGTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 7 0.28
27 10 0.40
28 8 0.32
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
ACAACATTATTGTTATATTTATTTAAA
Found at i:750678 original size:42 final size:42
Alignment explanation
Indices: 750619--750704 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
750609 ATCACACATC
* *
750619 TAATCCTTGCGTGTGGGCTTCATCCACTGCTTAAAATTGTCA
1 TAATCCTTACGTGTGGGCTTCATCCACTGCTTAAAATCGTCA
750661 TAATCCTTACGTGTGGGCTTCATCCACTGCTTAAAATCGTCA
1 TAATCCTTACGTGTGGGCTTCATCCACTGCTTAAAATCGTCA
750703 TA
1 TA
750705 CCCCAATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (42 bp):
TAATCCTTACGTGTGGGCTTCATCCACTGCTTAAAATCGTCA
Found at i:754810 original size:28 final size:28
Alignment explanation
Indices: 754778--754848 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
754768 TTATTTTACT
754778 ACAACATTATTTTTTA-TATTTATTTAAA
1 ACAACATTATTTTTTATTA-TTATTTAAA
* *
754806 ACAACATTAATTATTATTATTATTTAAA
1 ACAACATTATTTTTTATTATTATTTAAA
*
754834 A-AAAATTATTTTTTA
1 ACAACATTATTTTTTA
754849 GAAGAATTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 11 0.30
28 24 0.65
29 2 0.05
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.51
Consensus pattern (28 bp):
ACAACATTATTTTTTATTATTATTTAAA
Found at i:759079 original size:149 final size:149
Alignment explanation
Indices: 758916--759218 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
758906 CACAAAACAA
758916 ATTTAATTAAGATATTAATATATAGTCTTTAATAATTTATATTAAATTTAATTCATGTGTTTTGG
1 ATTTAATTAAGATATTAATATATAGTCTTTAATAATTTATATTAAATTTAATTCATGTGTTTTGG
*
758981 TAGAAAAAATATGAGCACTTCCATTTATAATTATAATTTAAAGTTTTTAAAAGTATATTTAAAAA
66 TAGAAAAAATATGAGCACTTCCATTTATAATTATAATTTAAAGTTTTCAAAAGTATATTTAAAAA
759046 CAAAATATTCAATTAAATG
131 CAAAATATTCAATTAAATG
759065 ATTTAATTAAGATATTAATATATAGTCTTTAATAATTTATATTAAATTTAATTCATGTGTTTTGG
1 ATTTAATTAAGATATTAATATATAGTCTTTAATAATTTATATTAAATTTAATTCATGTGTTTTGG
* *
759130 TAGAAAAAATATGAGCTCTTCCATTTATGATTATAATTTAAAGTTTTCAAAAGTATATTTAAAAA
66 TAGAAAAAATATGAGCACTTCCATTTATAATTATAATTTAAAGTTTTCAAAAGTATATTTAAAAA
759195 CAAAATATTCAATTAAATG
131 CAAAATATTCAATTAAATG
759214 -TTTAA
1 ATTTAA
759219 CTGTAAGTAA
Statistics
Matches: 151, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
148 5 0.03
149 146 0.97
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (149 bp):
ATTTAATTAAGATATTAATATATAGTCTTTAATAATTTATATTAAATTTAATTCATGTGTTTTGG
TAGAAAAAATATGAGCACTTCCATTTATAATTATAATTTAAAGTTTTCAAAAGTATATTTAAAAA
CAAAATATTCAATTAAATG
Found at i:762880 original size:16 final size:16
Alignment explanation
Indices: 762861--762892 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
762851 AACAATTATT
762861 TTTATTTTTTAAAAAG
1 TTTATTTTTTAAAAAG
*
762877 TTTATTTTTTGAAAAG
1 TTTATTTTTTAAAAAG
762893 AATTAAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
TTTATTTTTTAAAAAG
Found at i:766486 original size:137 final size:137
Alignment explanation
Indices: 766285--767287 Score: 1117
Period size: 138 Copynumber: 7.3 Consensus size: 137
766275 GAAAATAATT
* * * * * *
766285 TAATTATTAACCTAGTCAATTTTAAACACTTATTGATTCAAATAACTAAATTGGAACCTCGAGCA
1 TAATTATTAACCTAGTCAATTTTAACCAATTATTGAATCGAATAATTAAAATGGAACCTCGAGCA
* * *
766350 AAAGCGATGACCAAATTAAAAATTCCCTAAATGAAAGGACAAAGTTTGAAATTAAGCCTAAAGAT
66 AAAGCGATGACCAAATTAAAAATTCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAG-T
*
766415 GGAGACTC
130 GGAGGCTC
* *
766423 TAA-TATTAACCTAGTCAATTTTAATCAATTATTGGATCGAATAATTAAAATGGAACCTCGAGCA
1 TAATTATTAACCTAGTCAATTTTAACCAATTATTGAATCGAATAATTAAAATGGAACCTCGAGCA
* * * * * *
766487 ACAGCGAGGACCAAATTAAAAATTCCCATAAGTTAAAGGACTGAGTTTGAAAATAAGCCTAAAGT
66 AAAGCGATGACCAAATTAAAAATTCCC-TAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAGT
*
766552 GGAGGCTT
130 GGAGGCTC
* * * *
766560 TAATTATTAACCAAGTCAATTTAAACCAATTTATTGAATCAAATAATTAAAATGGAACCTCAAGC
1 TAATTATTAACCTAGTCAATTTTAACCAA-TTATTGAATCGAATAATTAAAATGGAACCTCGAGC
* * * *
766625 -AAAG-GTAAGAACCAAATTAAAAATCCCCTAAATTAAAGGACTAAGTATGAAATTAAACTTAAA
65 AAAAGCG-ATG-ACCAAATTAAAAATTCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAA
766688 GTGGAGGCTC
128 GTGGAGGCTC
* * * *
766698 TAATTATTAACCTAGTAAATTTTAACCAATTCATTGAATTGAATAATTAAAAT-GAACCTTGAGA
1 TAATTATTAACCTAGTCAATTTTAACCAATT-ATTGAATCGAATAATTAAAATGGAACCTCGAGC
* *
766762 AAAAGCGATGACCAAATTAAAAATTCCCCTAAATTAAAAGATTAAGTATGAAATTAAGCCTAAAG
65 AAAAGCGATGACCAAATTAAAAATT-CCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAG
*
766827 TAGAGGCTC
129 TGGAGGCTC
* * * * * *
766836 TAATTGTTAACCAAGTCAATTGTAACCAATTTATTGAATTGGATAATTAAAATGAAACCAT-GAG
1 TAATTATTAACCTAGTCAATTTTAACCAA-TTATTGAATCGAATAATTAAAATGGAACC-TCGAG
* ** * * *
766900 AAAAAGTAAGGACCAAATTCAAAATCCCCCTAAATTAAAGGACTAA-TATG-AATTAAGCCTAAA
64 CAAAAGCGATGACCAAATTAAAAAT-TCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAA
766963 GTGGAGGCTC
128 GTGGAGGCTC
* * * *
766973 TAATTATTAATCTAGTCAATTTTAACCAATTTATTAAATCAAATAATTAAAATGGAACCTTGAGC
1 TAATTATTAACCTAGTCAATTTTAACCAA-TTATTGAATCGAATAATTAAAATGGAACCTCGAGC
* * * * *
767038 AAAAGCGATAACAAAATTAAAAAATCCCCTAAATTAAAAGATTAAGTATGAAAATTAAGCCTAAA
65 AAAAGCGATGACCAAATT-AAAAATTCCCTAAATTAAAGGACTAAGTATG-AAATTAAGCCTAAA
*
767103 GTGAAGGCTC
128 GTGGAGGCTC
* * *** * * * *
767113 TAATTATTATCCTATTCAATTTTAGTTAATTTTTTAATCGAATAATTAAAATGAAACCTTGAGCA
1 TAATTATTAACCTAGTCAATTTTAACCAATTATTGAATCGAATAATTAAAATGGAACCTCGAGCA
* * * * *
767178 AAAGCGA-GAACC-AATATAAGAATTCCGCTAAATTAAAGGACTAACTATGGAATTAAACTTAAA
66 AAAGCGATG-ACCAAAT-TAAAAATTCC-CTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAA
*
767241 GT-GAGGCTT
128 GTGGAGGCTC
* * * *
767250 TAATTATTAACCTACTCCATTTTAATCAATTATGGAAT
1 TAATTATTAACCTAGTCAATTTTAACCAATTATTGAAT
767288 ATTCATCTAA
Statistics
Matches: 734, Mismatches: 110, Indels: 43
0.83 0.12 0.05
Matches are distributed among these distances:
136 1 0.00
137 255 0.35
138 274 0.37
139 158 0.22
140 46 0.06
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (137 bp):
TAATTATTAACCTAGTCAATTTTAACCAATTATTGAATCGAATAATTAAAATGGAACCTCGAGCA
AAAGCGATGACCAAATTAAAAATTCCCTAAATTAAAGGACTAAGTATGAAATTAAGCCTAAAGTG
GAGGCTC
Found at i:771327 original size:42 final size:42
Alignment explanation
Indices: 771264--771350 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
771254 TTCCCCAAAA
* * **
771264 TCCCGTGTTTGTTTCATGTAATTCGTTTTTTGGAAAATGTTT
1 TCCCGCGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
771306 TCCCGCGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
1 TCCCGCGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
771348 TCC
1 TCC
771351 AGTGTTTGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.47
Consensus pattern (42 bp):
TCCCGCGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
Found at i:771617 original size:26 final size:24
Alignment explanation
Indices: 771555--771617 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
771545 CATTTTCATC
771555 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
771579 AAAATATAT-TTATTAATAT-TTAT
1 AAAATATATATTATTAAAATATT-T
771602 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
771618 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:771619 original size:22 final size:23
Alignment explanation
Indices: 771572--771635 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
771562 TAATTATTAA
* *
771572 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
771593 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
771616 -ATATTTTTAATATTATAATA
1 AATATTTATAATAATATAATA
771636 AAATAATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 11 0.30
22 22 0.59
23 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:771634 original size:30 final size:32
Alignment explanation
Indices: 771583--771642 Score: 97
Period size: 30 Copynumber: 1.9 Consensus size: 32
771573 ATATTTAAAA
*
771583 TATATTTATTAATATTTATAATAATATAATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
771615 TATATTT-TTAATA-TTATAATAAAATAAT
1 TATATTTATTAATATTTATAATAAAATAAT
771643 CAATTCTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 14 0.52
31 6 0.22
32 7 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:771739 original size:28 final size:30
Alignment explanation
Indices: 771672--771782 Score: 104
Period size: 30 Copynumber: 3.8 Consensus size: 30
771662 TAAGATATTA
* *
771672 TATTTTTAT-TTTAATAATTATATAATAAT
1 TATTTATATATTTAATAATGATATAATAAT
* *
771701 TTTTTATATATTTAATAATGA-ATACT-AT
1 TATTTATATATTTAATAATGATATAATAAT
* *
771729 TATTTATATATTTAATATTAATATAATAAT
1 TATTTATATATTTAATAATGATATAATAAT
* * *
771759 CTAATAATAT-TTTAATAAAGATAT
1 -TATTTATATATTTAATAATGATAT
771783 TTAAAATATA
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
28 20 0.31
29 15 0.23
30 23 0.35
31 7 0.11
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
TATTTATATATTTAATAATGATATAATAAT
Found at i:771797 original size:23 final size:23
Alignment explanation
Indices: 771771--771815 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
771761 AATAATATTT
771771 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
771794 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
771816 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:772150 original size:14 final size:14
Alignment explanation
Indices: 772116--772156 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
772106 AAATATAATT
*
772116 CATTTTACGGAAAA
1 CATTTTCCGGAAAA
772130 CATTTTCCGGAAAA
1 CATTTTCCGGAAAA
* *
772144 CGTTTTCCAGAAA
1 CATTTTCCGGAAA
772157 TTTAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (14 bp):
CATTTTCCGGAAAA
Found at i:772194 original size:15 final size:15
Alignment explanation
Indices: 772168--772224 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
772158 TTAATTAATT
772168 TTCCAG-AATTCAAA
1 TTCCAGTAATTCAAA
**
772182 TTCCAGTAATTCATT
1 TTCCAGTAATTCAAA
*
772197 TTTCAGTAATTCAAA
1 TTCCAGTAATTCAAA
772212 TTCCAGTAATTCA
1 TTCCAGTAATTCA
772225 TTTTCTAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (15 bp):
TTCCAGTAATTCAAA
Found at i:772208 original size:30 final size:29
Alignment explanation
Indices: 772159--772234 Score: 116
Period size: 30 Copynumber: 2.6 Consensus size: 29
772149 TCCAGAAATT
*
772159 TAATTAATTTTCCAGAATTCAAATTCCAG
1 TAATTCATTTTCCAGAATTCAAATTCCAG
*
772188 TAATTCATTTTTCAGTAATTCAAATTCCAG
1 TAATTCATTTTCCAG-AATTCAAATTCCAG
*
772218 TAATTCATTTTCTAGAA
1 TAATTCATTTTCCAGAA
772235 AATCAATTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 15 0.36
30 27 0.64
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.42
Consensus pattern (29 bp):
TAATTCATTTTCCAGAATTCAAATTCCAG
Found at i:772827 original size:107 final size:107
Alignment explanation
Indices: 772687--772898 Score: 361
Period size: 107 Copynumber: 2.0 Consensus size: 107
772677 CAAGAAGGAT
* * *
772687 TTTATGTGTATGTTAAAATTTGCTTTTAAAATTGAAACAATGTGGGGATTTGAATGTGATGATTG
1 TTTACGTGTATGTTAAAATTTGCTTTTAAAATTGAAACAATGTGAGGATTTAAATGTGATGATTG
772752 GTTGATTCCATATTTTGGTACTTTACTGGTACATATGGTAAC
66 GTTGATTCCATATTTTGGTACTTTACTGGTACATATGGTAAC
* * *
772794 TTTACGTGTATGTTGAAATTTGGTTTTAAAATTGAAACAATGTGAGGATTTAAATGTGTTGATTG
1 TTTACGTGTATGTTAAAATTTGCTTTTAAAATTGAAACAATGTGAGGATTTAAATGTGATGATTG
*
772859 GTTGATTCTATATTTTGGTACTTTACTGGTACATATGGTA
66 GTTGATTCCATATTTTGGTACTTTACTGGTACATATGGTA
772899 CTTGTGGTCA
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 98 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.44
Consensus pattern (107 bp):
TTTACGTGTATGTTAAAATTTGCTTTTAAAATTGAAACAATGTGAGGATTTAAATGTGATGATTG
GTTGATTCCATATTTTGGTACTTTACTGGTACATATGGTAAC
Found at i:776224 original size:23 final size:23
Alignment explanation
Indices: 776178--776268 Score: 121
Period size: 23 Copynumber: 4.0 Consensus size: 23
776168 CCAAAGTGCA
*
776178 ACATAG-AATGTCTCGAAGGACC
1 ACATAGAAATGTCCCGAAGGACC
* * * *
776200 ACATAGATATTTCCTGATGGACC
1 ACATAGAAATGTCCCGAAGGACC
*
776223 ACGTAGAAATGTCCCGAAGGACC
1 ACATAGAAATGTCCCGAAGGACC
776246 ACATAGAAATGTCCCGAAGGACC
1 ACATAGAAATGTCCCGAAGGACC
776269 GCGTAAAACC
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
22 6 0.11
23 51 0.89
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (23 bp):
ACATAGAAATGTCCCGAAGGACC
Found at i:779237 original size:66 final size:63
Alignment explanation
Indices: 779157--779317 Score: 205
Period size: 66 Copynumber: 2.5 Consensus size: 63
779147 AATTAAATTG
* * * *
779157 AACATCAAATGCATTTCATGCATCGATGCACATACCATGCATCGATGCACTGAGGATTTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-
779222 A
63 A
* * *
779223 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGA
* *
779287 AACATCGAATGCACTTGATGCATCGTTGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
779318 TAAGGGTCTA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
63 1 0.01
64 29 0.34
65 2 0.02
66 51 0.60
67 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGA
Found at i:785134 original size:21 final size:22
Alignment explanation
Indices: 785091--785163 Score: 85
Period size: 21 Copynumber: 3.3 Consensus size: 22
785081 CCTAACAGTT
*
785091 CATCGATGCATCCTTGAATGTG
1 CATCGATACATCCTTGAATGTG
* *
785113 CATCGATACA-CCATGAAGGTG
1 CATCGATACATCCTTGAATGTG
* *
785134 CACCGATGCATGCCTTGAATGTG
1 CATCGATACAT-CCTTGAATGTG
785157 CATCGAT
1 CATCGAT
785164 GCACAAGGCC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 17 0.41
22 9 0.22
23 15 0.37
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (22 bp):
CATCGATACATCCTTGAATGTG
Found at i:785157 original size:23 final size:22
Alignment explanation
Indices: 785091--785166 Score: 100
Period size: 23 Copynumber: 3.5 Consensus size: 22
785081 CCTAACAGTT
785091 CATCGATGCATCCTTGAATGTG
1 CATCGATGCATCCTTGAATGTG
* * *
785113 CATCGATACA-CCATGAAGGTG
1 CATCGATGCATCCTTGAATGTG
*
785134 CACCGATGCATGCCTTGAATGTG
1 CATCGATGCAT-CCTTGAATGTG
785157 CATCGATGCA
1 CATCGATGCA
785167 CAAGGCCATG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 17 0.39
22 9 0.20
23 18 0.41
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (22 bp):
CATCGATGCATCCTTGAATGTG
Found at i:785159 original size:44 final size:42
Alignment explanation
Indices: 785069--785163 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 42
785059 TTGTGCTTCA
* *
785069 TGCATCGATACACCTAACAGTTCATCGATGCATCCTTGAATG
1 TGCATCGATACACCTAACAGTGCACCGATGCATCCTTGAATG
*
785111 TGCATCGATACACCATGAA-GGTGCACCGATGCATGCCTTGAATG
1 TGCATCGATACACC-T-AACAGTGCACCGATGCAT-CCTTGAATG
785155 TGCATCGAT
1 TGCATCGAT
785164 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 20 0.43
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (42 bp):
TGCATCGATACACCTAACAGTGCACCGATGCATCCTTGAATG
Found at i:785184 original size:43 final size:42
Alignment explanation
Indices: 785091--785188 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 42
785081 CCTAACAGTT
* *
785091 CATCGATGCATCCTTGAATGTGCATCGATACACCATGAAGGTG
1 CATCGATGCATCCTTGAATGTGCATCGATACACAAGGAA-GTG
* * *
785134 CACCGATGCATGCCTTGAATGTGCATCGATGCACAAGGCCA-TG
1 CATCGATGCAT-CCTTGAATGTGCATCGATACACAAGG-AAGTG
785177 CATCGATGCATC
1 CATCGATGCATC
785189 TATCGGGTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
42 1 0.02
43 22 0.47
44 23 0.49
45 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (42 bp):
CATCGATGCATCCTTGAATGTGCATCGATACACAAGGAAGTG
Found at i:787883 original size:66 final size:63
Alignment explanation
Indices: 787753--787963 Score: 226
Period size: 64 Copynumber: 3.3 Consensus size: 63
787743 TTTATCAAAG
* * * * **
787753 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGAATTAAATTG-AACATCGAATGCAT
1 TGATGCATCGATGCA-CAA-CCATGCATCGATGCACTAAGGA-TATTTTGAAACATCGAATGCAT
787817 T
63 T
* * *
787818 TCATGCATCGATGCACATACCATGCATGGATGCACTAAGGATTTTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTAAGGATATTT-TG-AAACATCGAATGCAT
787883 T
63 T
* ** * *
787884 TGATGCATCGATGCATCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTAAGGATATTTTGAAACATCGAATGCATT
787948 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
787964 TCTTAGTGCA
Statistics
Matches: 124, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
63 3 0.02
64 52 0.42
65 16 0.13
66 51 0.41
67 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTAAGGATATTTTGAAACATCGAATGCATT
Found at i:787961 original size:64 final size:66
Alignment explanation
Indices: 787803--787963 Score: 220
Period size: 66 Copynumber: 2.5 Consensus size: 66
787793 AATTAAATTG
* * *
787803 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATGGATGCACTAAGGATTTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTAAGGATATTTATGA
787868 A
66 A
* ** *
787869 AACATCGAATGCATTTGATGCATCGATGCATCA-GCCATGCATCGATGCACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCA-CATACCATGCATCGATGCACTAAGGATATTTATG
787932 -A
65 AA
*
787933 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
787964 TCTTAGTGCA
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
63 1 0.01
64 30 0.35
65 2 0.02
66 51 0.59
67 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (66 bp):
AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTAAGGATATTTATGA
A
Found at i:787963 original size:17 final size:19
Alignment explanation
Indices: 787935--787983 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
787925 TATTTTGAAA
787935 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
787953 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
787972 CACCGATGCACT
1 CATCGATGCACT
787984 AAGGGAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:791255 original size:23 final size:23
Alignment explanation
Indices: 791228--791285 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
791218 CGTCATGAAT
* * *
791228 GACCACCTAGATATGTCCCGAAG
1 GACCACGTAGAAATGTCCCGAAA
791251 GACCACGTAGAAATGTCCCGAAA
1 GACCACGTAGAAATGTCCCGAAA
791274 GACCACGTAGAA
1 GACCACGTAGAA
791286 CCCTTGACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.36, C:0.28, G:0.22, T:0.14
Consensus pattern (23 bp):
GACCACGTAGAAATGTCCCGAAA
Found at i:793773 original size:4 final size:4
Alignment explanation
Indices: 793766--793890 Score: 56
Period size: 4 Copynumber: 32.2 Consensus size: 4
793756 ATAGTAAGTA
*
793766 AAAT AAAT ATAA- AAA- AAAT AAA- GAA- AAAT AAA- AAAT ATATAT AAAT
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-A-AT AAAT
* *
793812 AAAAC AAAT -AAT AAAA ATAAT -AAT AAA- AAAGT -AA- AAAT AATAT
1 -AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAA-T AAAT AAAT AA-AT
* * *
793855 ATAT AAAT AAAT AAA- AAAT AAAA AAAT AAAA AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
793891 GTAAATATAT
Statistics
Matches: 93, Mismatches: 12, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
3 26 0.28
4 52 0.56
5 12 0.13
6 3 0.03
ACGTcount: A:0.77, C:0.01, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:793794 original size:10 final size:9
Alignment explanation
Indices: 793764--793888 Score: 74
Period size: 10 Copynumber: 12.9 Consensus size: 9
793754 AAATAGTAAG
793764 TAAAATAAATA
1 TAAAA-AAA-A
793775 TAAAAAAAA
1 TAAAAAAAA
793784 TAAAGAAAAA
1 TAAA-AAAAA
793794 TAAAAAATATA
1 TAAAAAA-A-A
*
793805 TATAAATAAA
1 TA-AAAAAAA
* *
793815 -ACAAATAA
1 TAAAAAAAA
*
793823 TAAAAATAA
1 TAAAAAAAA
793832 TAATAAAAAA
1 TAA-AAAAAA
*
793842 GTAAAAATAA
1 -TAAAAAAAA
* *
793852 TATATATAAA
1 TA-AAAAAAA
793862 TAAATAAAAA
1 TAAA-AAAAA
793872 -ATAAAAAAA
1 TA-AAAAAAA
793881 TAAAAAAA
1 TAAAAAAA
793889 TAGTAAATAT
Statistics
Matches: 91, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
8 4 0.04
9 34 0.37
10 37 0.41
11 12 0.13
12 4 0.04
ACGTcount: A:0.77, C:0.01, G:0.02, T:0.21
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:793810 original size:38 final size:37
Alignment explanation
Indices: 793765--793886 Score: 113
Period size: 38 Copynumber: 3.1 Consensus size: 37
793755 AATAGTAAGT
793765 AAAATAAATATAAAAAAAATAAAGAAAAATAAAAAATA
1 AAAATAAATATAAAAAAAATAAA-AAAAATAAAAAATA
* *
793803 TATATAAATA-AAACAAATAATAAAAATAATAATAAAAAAGTA
1 AAAATAAATATAAA-AAA-AAT-AAAA-AA-AATAAAAAA-TA
* *
793845 AAAATAATATATATAAATAAATAAAAAATA-AAAAAATA
1 AAAATAA-ATATA-AAAAAAATAAAAAAAATAAAAAATA
793883 AAAA
1 AAAA
793887 AATAGTAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
37 3 0.04
38 17 0.25
39 10 0.14
40 6 0.09
41 11 0.16
42 11 0.16
43 6 0.09
44 3 0.04
45 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.02, T:0.20
Consensus pattern (37 bp):
AAAATAAATATAAAAAAAATAAAAAAAATAAAAAATA
Found at i:793815 original size:47 final size:49
Alignment explanation
Indices: 793742--793915 Score: 164
Period size: 48 Copynumber: 3.6 Consensus size: 49
793732 TAAGATAAAG
* *
793742 AAAGCAAAAATAA-A-ATAGTAAGTAAAATAAATATAAAAAAAATAAAGAA
1 AAAGTAAAAATAATATATA-TAAATAAAATAAATATAAAAAAAATAAA-AA
* *
793791 AAA-T-AAAA-AATATATATAAATAAAACAAATAATAAAAATAATAATAAA
1 AAAGTAAAAATAATATATATAAATAAAATAAAT-ATAAAAAAAATAA-AAA
*
793839 AAAGTAAAAATAATATATATAAAT-AAATAAA-AAATAAAAAAATAAAAA
1 AAAGTAAAAATAATATATATAAATAAAATAAATATA-AAAAAAATAAAAA
* * *
793887 AATAGTAAATATATTTATATATATATAAA
1 AA-AGTAAAAATA-ATATATATAAATAAA
793916 TTAATAAAAC
Statistics
Matches: 104, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
46 2 0.02
47 17 0.16
48 27 0.26
49 23 0.22
50 20 0.19
51 15 0.14
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (49 bp):
AAAGTAAAAATAATATATATAAATAAAATAAATATAAAAAAAATAAAAA
Found at i:793879 original size:97 final size:95
Alignment explanation
Indices: 793712--793975 Score: 234
Period size: 97 Copynumber: 2.7 Consensus size: 95
793702 AAATGGAGAA
* * * *
793712 AAAACAAATTAAATAAAAGATAA-GATAAAGAAAGCAAAAATAA-A-ATAGTAAGTAAAATAAAT
1 AAAACAAATT-AATAAAA-ATAATAATAAA-AAAGTAAAAATAATATATA-TAAATAAAA-AAAA
793774 ATAAAAAAAATAAAGAAAAATAAAAAATATATATAAAT
61 AT-AAAAAAAT-AA-AAAAATAAAAAATATATATAAAT
793812 AAAACAAA-TAATAAAAATAATAATAAAAAAGTAAAAATAATATATATAAATAAATAAAAAATAA
1 AAAACAAATTAATAAAAATAATAATAAAAAAGTAAAAATAATATATATAAATAAA-AAAAAATAA
** * *
793876 AAAAATAAAAAAATAGTAAATATATTTATAT
65 AAAAATAAAAAAATAAAAAATATATATAAAT
* * * * * * *
793907 ATATATAAATTAATAAAACTGATAATAAAAAAAT-AATAT-ATATATATAATCTAAAAAATAAAA
1 A-AAACAAATTAATAAAAATAATAATAAAAAAGTAAAAATAATATATATAA-AT-AAAAA-AAAA
793970 TAAAAA
62 TAAAAA
793976 TATATACTAA
Statistics
Matches: 140, Mismatches: 15, Indels: 21
0.80 0.09 0.12
Matches are distributed among these distances:
95 30 0.21
96 14 0.10
97 58 0.41
98 25 0.18
99 5 0.04
100 8 0.06
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (95 bp):
AAAACAAATTAATAAAAATAATAATAAAAAAGTAAAAATAATATATATAAATAAAAAAAAATAAA
AAAATAAAAAAATAAAAAATATATATAAAT
Found at i:793972 original size:30 final size:30
Alignment explanation
Indices: 793936--794000 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
793926 TGATAATAAA
* * *
793936 AAAATAATATATATATA-TAATCTAAAAAAT
1 AAAATAA-AAATATATACTAAACTAAAAAAG
*
793966 AAAATAAAAATATATACTAAAGTAAAAAAG
1 AAAATAAAAATATATACTAAACTAAAAAAG
793996 AAAAT
1 AAAAT
794001 GCATAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (30 bp):
AAAATAAAAATATATACTAAACTAAAAAAG
Found at i:795140 original size:33 final size:34
Alignment explanation
Indices: 795067--795150 Score: 116
Period size: 35 Copynumber: 2.5 Consensus size: 34
795057 CGAGGGTTTG
* *
795067 GTGTTTCAAGAGAAACATTTTCAATGGTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGG-TTTTTTT
* *
795102 TTGTTTCAAGAGAAATAATTTCAAAGG-TTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
795135 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
795151 TGTATTCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 20 0.47
35 23 0.53
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (34 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
Found at i:795217 original size:36 final size:36
Alignment explanation
Indices: 795168--795236 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
795158 AAAGATTGAA
*
795168 GTTTCAAGGGAAACTATCTCAAGAGAGATAAAATTT
1 GTTTCAAGAGAAACTATCTCAAGAGAGATAAAATTT
*
795204 GTTTCAAGAGAAACTGTCTCAAGAGAGATAAAA
1 GTTTCAAGAGAAACTATCTCAAGAGAGATAAAA
795237 ACTTCCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (36 bp):
GTTTCAAGAGAAACTATCTCAAGAGAGATAAAATTT
Found at i:795250 original size:34 final size:35
Alignment explanation
Indices: 795177--795259 Score: 105
Period size: 36 Copynumber: 2.4 Consensus size: 35
795167 AGTTTCAAGG
* ** * *
795177 GAAACTATCTCAAGAGAGATAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGATAAAA-TACTTCCAAAA
795213 GAAACTGTCTCAAGAGAGATAAAA-ACTTCCAAAA
1 GAAACTGTCTCAAGAGAGATAAAATACTTCCAAAA
795247 GAAACTGTCTCAA
1 GAAACTGTCTCAA
795260 AGGAGACGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 19 0.45
36 23 0.55
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.23
Consensus pattern (35 bp):
GAAACTGTCTCAAGAGAGATAAAATACTTCCAAAA
Found at i:795382 original size:36 final size:36
Alignment explanation
Indices: 795335--795621 Score: 133
Period size: 36 Copynumber: 8.3 Consensus size: 36
795325 AAGTTTATGC
* *
795335 TTCAAGAGAAACTATCTCAAGGGAGACAATATTTGT
1 TTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGT
* * * **
795371 TTCAAGGGAAACTATCTCATGAGTGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGT
* * * *
795407 TTCAAGGGAAA-TGTTTTCAA---TG-----TTTATGT
1 TTCAAGGGAAACT-ATCTCAAGGGAGACAAAATT-TGT
* *
795436 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
1 TTCAAGGGAAACTATCTCAAGGGAGACAAAA-TTTGT
* * **
795473 TTCAAGGGAACCTATCTCAAGAGAGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGT
* * * * *
795509 CTCAAGGGAAA-TGTTTTCAA---TG-----TTTATGT
1 TTCAAGGGAAACT-ATCTCAAGGGAGACAAAATT-TGT
* *
795538 TCCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGT
1 TTCAAGGGAAACTATCTCAAGGGAGACAAAA-TTTGT
* * * * *
795575 TTCAAGGGAAACTACCCCAAGCGAGATAAAATTTAT
1 TTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGT
795611 TTCAAGGGAAA
1 TTCAAGGGAAA
795622 TGTTTTCAAT
Statistics
Matches: 181, Mismatches: 46, Indels: 48
0.66 0.17 0.17
Matches are distributed among these distances:
28 4 0.02
29 30 0.17
30 2 0.01
32 2 0.01
33 3 0.02
35 2 0.01
36 76 0.42
37 58 0.32
38 4 0.02
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (36 bp):
TTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGT
Found at i:795491 original size:37 final size:37
Alignment explanation
Indices: 795433--795505 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
795423 TCAATGTTTA
* *
795433 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
795470 TGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
795506 CATCTCAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
Found at i:795507 original size:102 final size:102
Alignment explanation
Indices: 795317--795673 Score: 554
Period size: 102 Copynumber: 3.5 Consensus size: 102
795307 CAAAGGTAAC
* * *
795317 TGTTTTCAAAGTTTATGCTTCAAGAGAAACTATCTCAAGGGAGACAATA-TTTGTTTCAAGGGAA
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAA
* *
795381 ACTATCTCATGAGTGACAAAATTCATTTCAAGGGAAA
66 ACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
*
795418 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAA
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAA
* *
795483 CCTATCTCAAGAGAGACAAAATTCATCTCAAGGGAAA
66 ACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
*
795520 TGTTTTCAATGTTTATGTTCCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAA
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAA
* * * * *
795585 ACTACCCCAAGCGAGATAAAATTTATTTCAAGGGAAA
66 ACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
* * *
795622 TGTTTTCAATGTTTATGTTTCAAGAGAGACTGTCTCAAGGGAGATAAAATTT
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
795674 AGTTCTAAAA
Statistics
Matches: 234, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
101 45 0.19
102 189 0.81
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (102 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAA
ACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
Found at i:795606 original size:37 final size:36
Alignment explanation
Indices: 795535--795621 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 36
795525 TCAATGTTTA
* * * * *
795535 TGTTCCAAGAGAAACTATCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTACCCCAAGCGAGACAAAA-TT
*
795572 TGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATT
1 TGTTTCAAGGGAAACTACCCCAAGCGAGACAAAATT
*
795608 TATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
795622 TGTTTTCAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 15 0.35
37 28 0.65
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTACCCCAAGCGAGACAAAATT
Found at i:796085 original size:105 final size:106
Alignment explanation
Indices: 795902--796148 Score: 284
Period size: 105 Copynumber: 2.3 Consensus size: 106
795892 TGTATTGTTC
*
795902 CGAGTCCAATATCCTCCGTCGTGAAGTTAAAATTGGCTCTGGAACAAAGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGTCGTGAAGTTAAAATTGGCTCTGAAACAAAGAAATTGTTTGTTGACA
* * *
795967 ACCAGCAGCCCCTTTGTTGTGAAGTTGAGCTTGTGCTGTCT
66 ACCAGCAGCCCCTTCGTTGTGAAGTTAAACTTGTGCTGTCT
* * ****
796008 CGAGTCCAATATCCTTCG-CTGTGAAGTT-GAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTCCGTC-GTGAAGTTAAAATTGGCTCTGAAACAAAGAAATTGTTTGTTGAC
* * *
796071 AACCAGTCA-TCCCTTCGTTGTGGAGTTAAACTTGTGTTGTCT
65 AACCAG-CAGCCCCTTCGTTGTGAAGTTAAACTTGTGCTGTCT
* ** * *
796113 CGAGTGGCACGATCCTCCGTCGTGGAGTTGAAATTG
1 CGAGT-CCAATATCCTCCGTCGTGAAGTTAAAATTG
796149 CAGGTGGCCC
Statistics
Matches: 117, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
105 68 0.58
106 43 0.37
107 6 0.05
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (106 bp):
CGAGTCCAATATCCTCCGTCGTGAAGTTAAAATTGGCTCTGAAACAAAGAAATTGTTTGTTGACA
ACCAGCAGCCCCTTCGTTGTGAAGTTAAACTTGTGCTGTCT
Found at i:796778 original size:32 final size:32
Alignment explanation
Indices: 796706--796779 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
796696 GTTGAATACC
* *
796706 CAAAGATG-CCCAATATTCGATGTTGAATCTA
1 CAAAGATGCCCCAACATTCGATATTGAATCTA
* * * *
796737 AAAAAATGCCCCAACATTTGATATTGAATCTT
1 CAAAGATGCCCCAACATTCGATATTGAATCTA
796769 CAAAGATGCCC
1 CAAAGATGCCC
796780 TCATTGTTCC
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 6 0.18
32 28 0.82
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (32 bp):
CAAAGATGCCCCAACATTCGATATTGAATCTA
Found at i:797872 original size:14 final size:14
Alignment explanation
Indices: 797844--797880 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
797834 TTTTCTTCAA
*
797844 TTTTC-CTTTGTTT
1 TTTTCTCTTTGCTT
797857 TTTTCTCTTTGCTT
1 TTTTCTCTTTGCTT
797871 TTTTCTCTTT
1 TTTTCTCTTT
797881 TTTTCTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.76
Consensus pattern (14 bp):
TTTTCTCTTTGCTT
Found at i:801039 original size:21 final size:19
Alignment explanation
Indices: 800990--801075 Score: 68
Period size: 19 Copynumber: 4.4 Consensus size: 19
800980 AATAGTAAGT
*
800990 AAAATAAATATAAAAAAATA
1 AAAATAAA-ACAAAAAAATA
*
801010 AAGAA-AAAAGAAAAAAATA
1 AA-AATAAAACAAAAAAATA
*
801029 TATAAATAAAACAAATAAAT-
1 -A-AAATAAAACAAAAAAATA
* *
801049 AAAATAATAATAAAAAAGTA
1 AAAATAA-AACAAAAAAATA
801069 AAAATAA
1 AAAATAA
801076 TATATATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.11
19 19 0.35
20 15 0.28
21 14 0.26
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATAAAACAAAAAAATA
Found at i:801105 original size:7 final size:8
Alignment explanation
Indices: 800999--801108 Score: 62
Period size: 8 Copynumber: 13.1 Consensus size: 8
800989 TAAAATAAAT
800999 ATAAAAAA
1 ATAAAAAA
801007 ATAAAGAAAAA
1 AT--A-AAAAA
*
801018 AGAAAAAA
1 ATAAAAAA
* *
801026 ATATATAA
1 ATAAAAAA
801034 ATAAAACAA
1 ATAAAA-AA
801043 ATAAATAAA
1 ATAAA-AAA
*
801052 AT--AATA
1 ATAAAAAA
801058 ATAAAAAA
1 ATAAAAAA
*
801066 GTAAAAATA
1 ATAAAAA-A
* * *
801075 ATATATAT
1 ATAAAAAA
*
801083 ATATATAAA
1 ATA-AAAAA
801092 ATAAAAAA
1 ATAAAAAA
801100 ATAAAAAA
1 ATAAAAAA
801108 A
1 A
801109 ATAGTATATA
Statistics
Matches: 75, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
6 4 0.05
7 1 0.01
8 41 0.55
9 21 0.28
10 2 0.03
11 6 0.08
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (8 bp):
ATAAAAAA
Found at i:801159 original size:2 final size:2
Alignment explanation
Indices: 801154--801204 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
801144 ATAAAAAATA
* *
801154 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT CT A- AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
801194 AT AT AT AT AT A
1 AT AT AT AT AT A
801205 CTAAAGTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:801216 original size:26 final size:24
Alignment explanation
Indices: 801166--801215 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
801156 ATATATATAT
*
801166 ATATATATATATATATAATCTAAA
1 ATATATATATATATATAAACTAAA
*
801190 ATATATATATATATACTAAAGTAAA
1 ATATATATATATATA-TAAACTAAA
801215 A
1 A
801216 AAGAAAATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATATATATATATATAAACTAAA
Found at i:803824 original size:15 final size:17
Alignment explanation
Indices: 803804--803835 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
803794 ATGAAATAGA
803804 AAATTCT-TA-TACTTG
1 AAATTCTCTATTACTTG
803819 AAATTCTCTATTACTTG
1 AAATTCTCTATTACTTG
803836 GTATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (17 bp):
AAATTCTCTATTACTTG
Found at i:805617 original size:11 final size:11
Alignment explanation
Indices: 805601--805626 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
805591 ATTTGGAAAG
805601 AAATTGTTTTC
1 AAATTGTTTTC
805612 AAATTGTTTTC
1 AAATTGTTTTC
805623 AAAT
1 AAAT
805627 CGGATGAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (11 bp):
AAATTGTTTTC
Found at i:809518 original size:30 final size:31
Alignment explanation
Indices: 809446--809519 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 31
809436 AAATGGATTT
* *
809446 GTTTAGTAACCAAATTATAAATTTGGTAAAA
1 GTTTAGGAACCAAAGTATAAATTTGGTAAAA
*
809477 -TTT-GGTGACCAAAGTATAAACTTT-G-AAAA
1 GTTTAGG-AACCAAAGTATAAA-TTTGGTAAAA
809506 GTTTAGGAACCAAA
1 GTTTAGGAACCAAA
809520 ATGTAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
29 5 0.14
30 25 0.71
31 5 0.14
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.31
Consensus pattern (31 bp):
GTTTAGGAACCAAAGTATAAATTTGGTAAAA
Found at i:810728 original size:24 final size:24
Alignment explanation
Indices: 810701--810746 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
810691 GCATGACATG
* *
810701 GTACATATATGTTTTATACATCGT
1 GTACATAGATGCTTTATACATCGT
*
810725 GTACCTAGATGCTTTATACATC
1 GTACATAGATGCTTTATACATC
810747 ATCTGGAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (24 bp):
GTACATAGATGCTTTATACATCGT
Found at i:812929 original size:17 final size:17
Alignment explanation
Indices: 812907--812942 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
812897 GGGTTTTATG
*
812907 GAAATTGGTATGGAATT
1 GAAATTGATATGGAATT
812924 GAAATTGATATGGAATT
1 GAAATTGATATGGAATT
812941 GA
1 GA
812943 TAGTAGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (17 bp):
GAAATTGATATGGAATT
Found at i:814808 original size:24 final size:24
Alignment explanation
Indices: 814781--814901 Score: 102
Period size: 24 Copynumber: 5.0 Consensus size: 24
814771 TTTGTGTACA
*
814781 TTCTACGCGGCACTTTATGTGCAT
1 TTCTATGCGGCACTTTATGTGCAT
* * *
814805 TTCTATGTGTCACTTTATGTGCAA
1 TTCTATGCGGCACTTTATGTGCAT
** *
814829 TTCTACACGACACTTTATGTGCAAT
1 TTCTATGCGGCACTTTATGTGC-AT
* * * *
814854 TT-TATGTGGAACTATATGTGCAA
1 TTCTATGCGGCACTTTATGTGCAT
*
814877 TCCTATGCGGCACTATT-TGTGCAT
1 TTCTATGCGGCACT-TTATGTGCAT
814901 T
1 T
814902 CAGGAAATTC
Statistics
Matches: 73, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
23 2 0.03
24 67 0.92
25 4 0.05
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (24 bp):
TTCTATGCGGCACTTTATGTGCAT
Found at i:814898 original size:48 final size:49
Alignment explanation
Indices: 814783--814899 Score: 141
Period size: 48 Copynumber: 2.4 Consensus size: 49
814773 TGTGTACATT
** * *
814783 CTACGCGGCACTTTATGTGC-ATTTCTATGTGTCACTTTATGTGCAATT
1 CTACGCGGCACTTTATGTGCAATTTCTATGTGGAACTATATGTGCAATC
* *
814831 CTACACGACACTTTATGTGCAATTT-TATGTGGAACTATATGTGCAATC
1 CTACGCGGCACTTTATGTGCAATTTCTATGTGGAACTATATGTGCAATC
*
814879 CTATGCGGCACTATT-TGTGCA
1 CTACGCGGCACT-TTATGTGCA
814900 TTCAGGAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
48 52 0.90
49 6 0.10
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (49 bp):
CTACGCGGCACTTTATGTGCAATTTCTATGTGGAACTATATGTGCAATC
Found at i:817918 original size:45 final size:44
Alignment explanation
Indices: 817867--818134 Score: 243
Period size: 45 Copynumber: 6.5 Consensus size: 44
817857 TTTTATACCG
817867 ATAATGCACCCATATGCATTTAAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTT-AGCTATGGCATCCTTTCATGCCA
** *
817912 ATAATGCACCCATATGCA-TTA--T-T--C-T--TTT-ATTTCG
1 ATAATGCACCCATATGCATTTAGCTATGGCATCCTTTCATGCCA
* ** *
817946 GTAATGCACATATATGCATTTCAGCTATGGAATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTT-AGCTATGGCATCCTTTCATGCCA
817991 ATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCA-TTTAGCTATGGCATCCTTTCATGCCA
* * * *
818036 ATAATGCAACCGTATGCA-TTA--T-T----T--TTTTATGCCG
1 ATAATGCACCCATATGCATTTAGCTATGGCATCCTTTCATGCCA
* *
818070 ATAATGCACCCATATGCATTTCTGTTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTT-AGCTATGGCATCCTTTCATGCCA
818115 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
818135 ATTCTTTTAT
Statistics
Matches: 177, Mismatches: 23, Indels: 46
0.72 0.09 0.19
Matches are distributed among these distances:
34 42 0.24
35 7 0.04
36 2 0.01
37 1 0.01
38 3 0.02
39 2 0.01
40 2 0.01
41 2 0.01
42 1 0.01
43 5 0.03
44 5 0.03
45 102 0.58
46 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (44 bp):
ATAATGCACCCATATGCATTTAGCTATGGCATCCTTTCATGCCA
Found at i:817932 original size:79 final size:79
Alignment explanation
Indices: 817813--818010 Score: 333
Period size: 79 Copynumber: 2.5 Consensus size: 79
817803 GCATTTTATT
*
817813 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACAC
817878 ATATGCATTTAAGC
66 ATATGCATTTAAGC
** * *
817892 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATTTCGGTAATGCACAT
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACAC
*
817957 ATATGCATTTCAGC
66 ATATGCATTTAAGC
*
817971 TATGGAATCCTTTCATGCCAATAATGCACCCATATGCATT
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
818011 TTAGCTATGG
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 112 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (79 bp):
TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACAC
ATATGCATTTAAGC
Found at i:818001 original size:124 final size:124
Alignment explanation
Indices: 817867--818134 Score: 428
Period size: 124 Copynumber: 2.2 Consensus size: 124
817857 TTTTATACCG
*
817867 ATAATGCACCCATATGCATTTAAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTAAGCTATGGCATCCTTTCATGCCAATAATGCAACCATATGCATT
** * *
817932 ATTCTTTTATTTCGGTAATGCACATATATGCATTTCAGCTATGGAATCCTTTCATGCCA
66 ATTCTTTTATGCCGATAATGCACACATATGCATTTCAGCTATGGAATCCTTTCATGCCA
* *
817991 ATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCATGCCAATAATGCAACCGTATGCATT
1 ATAATGCACCCATATGCATTTAAGCTATGGCATCCTTTCATGCCAATAATGCAACCATATGCATT
* * * * *
818056 ATTTTTTTATGCCGATAATGCACCCATATGCATTTCTGTTATGGCATCCTTTCATGCCA
66 ATTCTTTTATGCCGATAATGCACACATATGCATTTCAGCTATGGAATCCTTTCATGCCA
818115 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
818135 ATTCTTTTAT
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 132 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (124 bp):
ATAATGCACCCATATGCATTTAAGCTATGGCATCCTTTCATGCCAATAATGCAACCATATGCATT
ATTCTTTTATGCCGATAATGCACACATATGCATTTCAGCTATGGAATCCTTTCATGCCA
Found at i:818068 original size:79 final size:79
Alignment explanation
Indices: 817980--818144 Score: 260
Period size: 79 Copynumber: 2.1 Consensus size: 79
817970 CTATGGAATC
*
817980 CTTTCATGCCAATAATGCACCCATATGCATTT-TAGCTATGGCATCCTTTCATGCCAATAATGCA
1 CTTTTATGCCAATAATGCACCCATATGCATTTCT-GCTATGGCATCCTTTCATGCCAATAATGCA
*
818044 ACCGTATGCATTATT
65 ACCATATGCATTATT
* * * *
818059 TTTTTATGCCGATAATGCACCCATATGCATTTCTGTTATGGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCTGCTATGGCATCCTTTCATGCCAATAATGCAA
818124 CCATATGCATTATT
66 CCATATGCATTATT
818138 CTTTTAT
1 CTTTTAT
818145 TCATTCGTTC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 77 0.99
80 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (79 bp):
CTTTTATGCCAATAATGCACCCATATGCATTTCTGCTATGGCATCCTTTCATGCCAATAATGCAA
CCATATGCATTATT
Found at i:820134 original size:40 final size:40
Alignment explanation
Indices: 820084--820163 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
820074 CAACAAAGCT
*
820084 AACGTCGAAAAGTTTTTCACTAACCTTCGATGGTAAACAA
1 AACGTCGAAAAGTTTTTCACTAACCTTCAATGGTAAACAA
820124 AACGTCGAAAAGTTTTTCACTAACCTTCAATGGTAAACAA
1 AACGTCGAAAAGTTTTTCACTAACCTTCAATGGTAAACAA
820164 CAAGCCCCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.28
Consensus pattern (40 bp):
AACGTCGAAAAGTTTTTCACTAACCTTCAATGGTAAACAA
Found at i:821911 original size:12 final size:12
Alignment explanation
Indices: 821886--821955 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
821876 ACAGAGATAT
* *
821886 CAGAAATCAAAA
1 CAGAATTCAGAA
821898 CAGAATTCAGAA
1 CAGAATTCAGAA
* *
821910 CA-TATATCATAA
1 CAGAAT-TCAGAA
* *
821922 CAGAATCCAGAT
1 CAGAATTCAGAA
*
821934 CAGAAATCAGAA
1 CAGAATTCAGAA
821946 CAGAATTCAG
1 CAGAATTCAG
821956 GTAATGTATC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:821923 original size:24 final size:24
Alignment explanation
Indices: 821891--821978 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 24
821881 GATATCAGAA
*
821891 ATCAAAACAGAATTCAGAACATAT
1 ATCATAACAGAATTCAGAACATAT
* * * *
821915 ATCATAACAGAATCCAGATCAGAA
1 ATCATAACAGAATTCAGAACATAT
* * *
821939 ATCAGAACAGAATTCAGGTA-ATGT
1 ATCATAACAGAATTCA-GAACATAT
821963 ATCATAACAGAATTCA
1 ATCATAACAGAATTCA
821979 AGTCGAAAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 49 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (24 bp):
ATCATAACAGAATTCAGAACATAT
Found at i:821940 original size:48 final size:48
Alignment explanation
Indices: 821884--821975 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
821874 AAACAGAGAT
821884 ATCAGAAATCAAAACAGAATTCA-GAACATATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGGAA-ATATATCATAACAGAATCCAG
* * *
821932 ATCAGAAATCAGAACAGAATTCAGGTAATGTATCATAACAGAAT
1 ATCAGAAATCAAAACAGAATTCAGGAAATATATCATAACAGAAT
821976 TCAAGTCGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 38 0.95
49 2 0.05
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGGAAATATATCATAACAGAATCCAG
Found at i:821989 original size:48 final size:48
Alignment explanation
Indices: 821884--821992 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 48
821874 AAACAGAGAT
* *
821884 ATCAGAAATCAAAACAGAATTCAGAACATATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGAACATATATCATAACAGAATCAAG
* *
821932 ATCAGAAATCAGAACAGAATTCAGGTA-ATGTATCATAACAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCA-GAACATATATCATAACAGAA-TCAAG
821981 -TC-GAAAATCAGA
1 ATCAG-AAATCAGA
821993 TAAAATATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
47 1 0.02
48 47 0.87
49 6 0.11
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGAACATATATCATAACAGAATCAAG
Found at i:824280 original size:17 final size:17
Alignment explanation
Indices: 824258--824298 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
824248 GGTCAATAGT
*
824258 GGTCAACGCCGGTCAAC
1 GGTCAACGCAGGTCAAC
824275 GGTCAACGCAGGTCAAC
1 GGTCAACGCAGGTCAAC
824292 GGTCAAC
1 GGTCAAC
824299 AGTTGACCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.27, C:0.32, G:0.29, T:0.12
Consensus pattern (17 bp):
GGTCAACGCAGGTCAAC
Found at i:827067 original size:46 final size:46
Alignment explanation
Indices: 827007--827102 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
826997 CGTTAAATTT
827007 CATTTTATTTATGGCATCCTTTCATCCCTGAAAGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATCCCTGAAAGCATCCTTTCATG
* * *
827053 CATTTTGTTTATGGCATCCTTTCATGCCTTAAAGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATCCCTGAAAGCATCCTTTCATG
827099 CATT
1 CATT
827103 AAAGCATCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.43
Consensus pattern (46 bp):
CATTTTATTTATGGCATCCTTTCATCCCTGAAAGCATCCTTTCATG
Found at i:827091 original size:20 final size:20
Alignment explanation
Indices: 827066--827122 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
827056 TTTGTTTATG
*
827066 GCATCCTTTCATGCCTTAAA
1 GCATCCTTTCATGCATTAAA
827086 GCATCCTTTCATGCATTAAA
1 GCATCCTTTCATGCATTAAA
827106 GCATCCTTTCATGCATT
1 GCATCCTTTCATGCATT
827123 TTATTTATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.37
Consensus pattern (20 bp):
GCATCCTTTCATGCATTAAA
Found at i:827096 original size:66 final size:66
Alignment explanation
Indices: 827020--827146 Score: 218
Period size: 66 Copynumber: 1.9 Consensus size: 66
827010 TTTATTTATG
* *
827020 GCATCCTTTCATCCCTGAAAGCATCCTTTCATGCATTTTGTTTATGGCATCCTTTCATGCCTTAA
1 GCATCCTTTCATCCATGAAAGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAA
827085 A
66 A
* *
827086 GCATCCTTTCATGCATTAAAGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCC
1 GCATCCTTTCATCCATGAAAGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCC
827147 AATAATGCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (66 bp):
GCATCCTTTCATCCATGAAAGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAA
A
Found at i:827326 original size:45 final size:44
Alignment explanation
Indices: 827262--827405 Score: 173
Period size: 45 Copynumber: 3.5 Consensus size: 44
827252 TTTTTTGCTG
827262 ATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAGCTATG-CATCCTTTCATGCCA
* * *
827307 ATAATGTACCCATATGCA-TT-A--T-T--AT--TTT-ATGTCG
1 ATAATGCACCCATATGCATTTCAGCTATGCATCCTTTCATGCCA
827341 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAGCTAT-GCATCCTTTCATGCCA
827386 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
827406 ATTCTTTTAT
Statistics
Matches: 82, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
34 21 0.26
35 5 0.06
36 1 0.01
37 2 0.02
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 2 0.02
43 1 0.01
44 5 0.06
45 41 0.50
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (44 bp):
ATAATGCACCCATATGCATTTCAGCTATGCATCCTTTCATGCCA
Found at i:827369 original size:79 final size:79
Alignment explanation
Indices: 827128--827415 Score: 427
Period size: 79 Copynumber: 3.6 Consensus size: 79
827118 GCATTTTATT
*
827128 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGAT-GGTAATGCACC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATG-TCGATAATGCACC
* **
827192 CATATGCTTTTCATA
65 CATATGCATTTCAGC
* * * * *
827207 TATGGCATCCTTTCATGCAAATAATACACCCATATGCAGTATT-TTTTTTTTGCTGATAATGCAC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGT-C-GATAATGCAC
827271 CCATATGCATTTCAGC
64 CCATATGCATTTCAGC
* * *
827287 TATGACATCCTTTCATGCCAATAATGTACCCATATGCATTATTATTTTATGTCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
827352 ATATGCATTTCAGC
66 ATATGCATTTCAGC
827366 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAT
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAT
827416 TCATTCATTC
Statistics
Matches: 186, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
77 1 0.01
78 5 0.03
79 113 0.61
80 61 0.33
81 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (79 bp):
TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
ATATGCATTTCAGC
Found at i:829523 original size:40 final size:40
Alignment explanation
Indices: 829477--829598 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
829467 CTATTATTTA
829477 CTCTTTATTTTTACTTTGATCTGATTCAGTTCTATTTTGG
1 CTCTTTATTTTTACTTTGATCTGATTCAGTTCTATTTTGG
829517 CTCTTTATTTTTACTTTGATCTGATTCAGTTCTATTTTGG
1 CTCTTTATTTTTACTTTGATCTGATTCAGTTCTATTTTGG
**
829557 CTCTTTATTTTTACTTTGATCTGATTTGGTTCTATTTTGG
1 CTCTTTATTTTTACTTTGATCTGATTCAGTTCTATTTTGG
829597 CT
1 CT
829599 TATTTTCATG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.14, C:0.15, G:0.13, T:0.58
Consensus pattern (40 bp):
CTCTTTATTTTTACTTTGATCTGATTCAGTTCTATTTTGG
Found at i:841638 original size:54 final size:54
Alignment explanation
Indices: 841555--841780 Score: 292
Period size: 55 Copynumber: 4.1 Consensus size: 54
841545 CACACATTAA
* * *
841555 GCCGATATGGTCGTTCATAAACATATTATGAATTATGTGG-GTTGCACAGTTAGT
1 GCCGATACGGTCGTTCATAAACATATTATGAATT-TGTGGTTTTGCACACTTAGT
* *
841609 ACCGATACGGTCGTTCATAAACATATTATGAATTCTATGGTTTTGCACACTTAGT
1 GCCGATACGGTCGTTCATAAACATATTATGAATT-TGTGGTTTTGCACACTTAGT
* * **
841664 GTCGATACTGTTATTCATAAACATATTATGAATTTCGTGGTTTTGCACACTTAGT
1 GCCGATACGGTCGTTCATAAACATATTATGAATTT-GTGGTTTTGCACACTTAGT
* * *
841719 GCCAATATGGTCGTTCATAAACATATTATGAATTTCGTGGTTTTACACACTTAGT
1 GCCGATACGGTCGTTCATAAACATATTATGAATTT-GTGGTTTTGCACACTTAGT
*
841774 GCTGATA
1 GCCGATA
841781 GTACACACAG
Statistics
Matches: 149, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
54 37 0.25
55 112 0.75
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (54 bp):
GCCGATACGGTCGTTCATAAACATATTATGAATTTGTGGTTTTGCACACTTAGT
Found at i:844531 original size:46 final size:46
Alignment explanation
Indices: 844459--844600 Score: 214
Period size: 46 Copynumber: 3.1 Consensus size: 46
844449 TGTGTTATTC
* *
844459 TATATGCTATTATACATTTCATTTATGGCATCATTTCATGCCCTTT
1 TATACGCTATTATACATTTCATTTATGGCATCCTTTCATGCCCTTT
* *
844505 TATACGCTATTATACATTTCAATTATGGCATCCTTTCATGCCTTTT
1 TATACGCTATTATACATTTCATTTATGGCATCCTTTCATGCCCTTT
* * *
844551 TACACACTACTATACATTTCATTTATGGCATCCTTTCATG-CCTTT
1 TATACGCTATTATACATTTCATTTATGGCATCCTTTCATGCCCTTT
844596 TATAC
1 TATAC
844601 AATGTTATCC
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 8 0.09
46 78 0.91
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.45
Consensus pattern (46 bp):
TATACGCTATTATACATTTCATTTATGGCATCCTTTCATGCCCTTT
Found at i:844763 original size:81 final size:81
Alignment explanation
Indices: 844627--845025 Score: 597
Period size: 81 Copynumber: 4.9 Consensus size: 81
844617 GTACATCTAG
* * *
844627 TCTTTTACTCAAAGGTAATTAACCTTTCATCTAACTGTCATAATTGACATC-TTTCTGTCAACTG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CATTTCTGTCAAATG
*
844691 CACAGCTAGGCTACTAA
65 CACAGCTAGGCTATTAA
* *
844708 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACATTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
844773 ACAGCTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* *
844789 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
844854 ACAACTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* *
844870 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
** *
844935 ATGGCTAGGATATTAA
66 ACAGCTAGGCTATTAA
* * *
844951 TCTTTTATTCAAAGGTATTTAACCTATT-ATCTAACTGACATAATTGACACCA-TTATGTCAAAT
1 TCTTTTACTCAAAGGTATTTAACCT-TTCATCTAACTGGCATAATTGACA-CATTTCTGTCAAAT
845014 GCACAGCTAGGC
64 GCACAGCTAGGC
845026 CTCCAAGGCA
Statistics
Matches: 292, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
80 1 0.00
81 288 0.99
82 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
ACAGCTAGGCTATTAA
Found at i:845093 original size:67 final size:67
Alignment explanation
Indices: 844979--845357 Score: 517
Period size: 67 Copynumber: 5.6 Consensus size: 67
844969 TTAACCTATT
* * * * * * *
844979 ATCTAACTGACATAATTGACACCATTATGTCAAATGCACAGCTAGGCCTCCAAGGCACTTAGCCA
1 ATCTAACTGGCATGATTGACACCTTTCTGTC-AATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
845044 TTC
65 TTC
** *
845047 ATCTAACTGGCATGATTGGTACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCTTT
1 ATCTAACTGGCATGATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTT
*
845112 TT
66 TC
** * * *
845114 ATCTAACTAACATGATTGACACCTTTCTGTCAATGCACAATTAGGCCTCAAAGACACTTGGCCTT
1 ATCTAACTGGCATGATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTT
845179 TC
66 TC
* *
845181 ATCTAA-TCGGCATGATTGACACCGTTCTGTCAATGCACAATTAGGCCTCAAAGGCACTTAGCCT
1 ATCTAACT-GGCATGATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
845245 TTC
65 TTC
* * * * *
845248 ATCTAACTGGCATGATTGACATCTTTTTGTCAATGCACAGTCAGGCCTCAAAGGCACTTAGTCGT
1 ATCTAACTGGCATGATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTT
845313 TC
66 TC
*
845315 ATCTAACTGGCATGATTGACACCTTTCTGTCAATGCACCGTTA
1 ATCTAACTGGCATGATTGACACCTTTCTGTCAATGCACAGTTA
845358 TGGCTTTAAT
Statistics
Matches: 273, Mismatches: 36, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
66 1 0.00
67 246 0.90
68 26 0.10
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (67 bp):
ATCTAACTGGCATGATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTT
TC
Found at i:845628 original size:57 final size:57
Alignment explanation
Indices: 845537--845736 Score: 233
Period size: 57 Copynumber: 3.5 Consensus size: 57
845527 AAATTCATAT
* * ** *
845537 AATTTCTTA-GTTTTTGCACA-TAAAGTTCTTATACAGAAATTCATAATCAAATTATG
1 AATTTCTTATCTTTTTGCACACT-AAGTGCCCATACAGAAATTCATAAACAAATTATG
* * * *
845593 AATTTCTTAACTTTTTGCACACTCATTGCCCATACAGAAATTCATAAACAATTTATG
1 AATTTCTTATCTTTTTGCACACTAAGTGCCCATACAGAAATTCATAAACAAATTATG
* * * *
845650 AATTTCTTATCTTTTTTCACACAAAGTGCCCATACATAAATTCATAAAAAAATTATG
1 AATTTCTTATCTTTTTGCACACTAAGTGCCCATACAGAAATTCATAAACAAATTATG
* * *
845707 AACTTCTTATGTTTTTGCACACTTAGTGCC
1 AATTTCTTATCTTTTTGCACACTAAGTGCC
845737 ATTATGTAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
56 9 0.07
57 111 0.92
58 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (57 bp):
AATTTCTTATCTTTTTGCACACTAAGTGCCCATACAGAAATTCATAAACAAATTATG
Found at i:848752 original size:55 final size:55
Alignment explanation
Indices: 848618--849019 Score: 585
Period size: 55 Copynumber: 7.3 Consensus size: 55
848608 TTCTTTGAGG
* * *
848618 TGCACA-TGTAGTGTTGATACGATCGTTCATAAACATATTATGAATTCCATGG-GT
1 TGCACACT-TAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
* * *
848672 TGCACACTTAGTGTCGATACGGTCGTTGATAAACATGTTATGATTTCCATGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
* * *
848727 TGCACACTTAGTGTCGATACGGTCG-TGATAAACATATTATGAATTCTATGGGTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
*
848781 TGCACACTTAGTGTTGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
* * ***
848836 TGCACACTTAGTGTCGATATGGTCGTTCATAAAAATATTATGAATTTTGTGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
* *
848891 TGTACACTTAGTGTCGATACGGTTGTTCATAAACATATTATGAATTCCATGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
* * **
848946 TGTACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTCATACTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
849001 TGCACACTTAGTGTCGATA
1 TGCACACTTAGTGTCGATA
849020 GTACACATAG
Statistics
Matches: 313, Mismatches: 32, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
54 94 0.30
55 219 0.70
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (55 bp):
TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
Found at i:851133 original size:23 final size:23
Alignment explanation
Indices: 851076--851182 Score: 85
Period size: 23 Copynumber: 4.7 Consensus size: 23
851066 AAGTGCCATG
851076 TAGAATTG-CACCGAAGTG-CCACA
1 TAGAATTGTC-CCGAAG-GACCACA
** *
851099 TAGTTTTGTCCCGAAGGACCTCA
1 TAGAATTGTCCCGAAGGACCACA
* * *
851122 TAGAATTTTCCCTAAAGGACCACG
1 TAGAATTGTCCC-GAAGGACCACA
* * *
851146 TAGAAATGTCCTGAATGACCACA
1 TAGAATTGTCCCGAAGGACCACA
851169 TAG-ATTGTCCCGAA
1 TAGAATTGTCCCGAA
851183 TGATTGCATA
Statistics
Matches: 64, Mismatches: 17, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
22 10 0.16
23 36 0.56
24 18 0.28
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (23 bp):
TAGAATTGTCCCGAAGGACCACA
Found at i:851359 original size:28 final size:28
Alignment explanation
Indices: 851328--851394 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
851318 ATAGGGTATC
*
851328 TTCACGTAGAACGTTTTCACTTAGCACA
1 TTCACGTAGAACATTTTCACTTAGCACA
*
851356 TTCACGTAGAACATTTTCACTTTGCACA
1 TTCACGTAGAACATTTTCACTTAGCACA
*
851384 TTCATGTAGAA
1 TTCACGTAGAA
851395 TATTATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (28 bp):
TTCACGTAGAACATTTTCACTTAGCACA
Found at i:854434 original size:101 final size:101
Alignment explanation
Indices: 854329--854526 Score: 220
Period size: 101 Copynumber: 2.0 Consensus size: 101
854319 TATTGTAATT
* * * * * * * *
854329 TTTTTAATTTAA-AAAT-TATAATTTTTGGACTATTTATTTTGATTTTACATATTTAGTTATATT
1 TTTTTAA-TTAAGAAATATA-AATTATTAGACTAATTATTTTGATTTTACAGATTAAATCATATA
*
854392 TGAGTAGTTTGGTAAGTTTAGTTTAAATTATATTTTTA
64 TGAGTAGTTTGGTAAGCTTAGTTTAAATTATATTTTTA
* * * *
854430 TTTTTTATTAAGTAATATAAATTATTAGACTAATTATTTTTATTTTACAGATTAAATCGTATATG
1 TTTTTAATTAAGAAATATAAATTATTAGACTAATTATTTTGATTTTACAGATTAAATCATATATG
* * *
854495 AGTGGTTTGGTAAGCTTAGTTTATATTTTATT
66 AGTAGTTTGGTAAGCTTAGTTTAAATTATATT
854527 GTTTTGTTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
100 4 0.05
101 73 0.92
102 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.54
Consensus pattern (101 bp):
TTTTTAATTAAGAAATATAAATTATTAGACTAATTATTTTGATTTTACAGATTAAATCATATATG
AGTAGTTTGGTAAGCTTAGTTTAAATTATATTTTTA
Found at i:856752 original size:22 final size:23
Alignment explanation
Indices: 856712--856754 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
856702 ATATTAAATA
*
856712 AAATATTGAAATTATTCACATAG
1 AAATATTGAAATTAATCACATAG
*
856735 AAATA-TGATATTAATCACAT
1 AAATATTGAAATTAATCACAT
856755 TCATTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (23 bp):
AAATATTGAAATTAATCACATAG
Found at i:856850 original size:31 final size:27
Alignment explanation
Indices: 856784--856856 Score: 137
Period size: 27 Copynumber: 2.7 Consensus size: 27
856774 AAAAATATCC
856784 ATCACATTCATTCAAATATTGATATTA
1 ATCACATTCATTCAAATATTGATATTA
*
856811 ATCACATTCATTCAATTATTGATATTA
1 ATCACATTCATTCAAATATTGATATTA
856838 ATCACATTCATTCAAATAT
1 ATCACATTCATTCAAATAT
856857 AACATCAACA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.41
Consensus pattern (27 bp):
ATCACATTCATTCAAATATTGATATTA
Found at i:859524 original size:16 final size:16
Alignment explanation
Indices: 859503--859541 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
859493 AATTTGTGAC
859503 ATATTAGATTAAAATT
1 ATATTAGATTAAAATT
*
859519 ATATTAGATTAAAGTT
1 ATATTAGATTAAAATT
859535 ACTATTA
1 A-TATTA
859542 TTATTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (16 bp):
ATATTAGATTAAAATT
Found at i:859617 original size:37 final size:41
Alignment explanation
Indices: 859578--859662 Score: 107
Period size: 45 Copynumber: 2.0 Consensus size: 41
859568 TTTATCATTT
* *
859578 TTACTACAAATACTAAATCAATATTATTTTAACATTTTTAGC
1 TTACTAGAAA-ACAAAATCAATATTATTTTAACATTTTTAGC
859620 ATTTTTACTAGAAAACAAAATCAATATTATTTTAACATTTTTA
1 ----TTACTAGAAAACAAAATCAATATTATTTTAACATTTTTA
859663 ACATTTTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
45 28 0.76
46 9 0.24
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (41 bp):
TTACTAGAAAACAAAATCAATATTATTTTAACATTTTTAGC
Found at i:859653 original size:45 final size:46
Alignment explanation
Indices: 859566--859735 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
859556 AAAATAATTG
* *
859566 TTTTTATCATTTTTACTACAAATACTAAATCAATATTATTTTAACA
1 TTTTTAACATTTTTACTAGAAATACTAAATCAATATTATTTTAACA
* *
859612 TTTTTAGCATTTTTACTAGAAA-ACAAAATCAATATTATTTTAACA
1 TTTTTAACATTTTTACTAGAAATACTAAATCAATATTATTTTAACA
*
859657 TTTTTAACATTTTTACTAGAAATACTAAATCAA-ATT-TTGATCTAA-T
1 TTTTTAACATTTTTACTAGAAATACTAAATCAATATTATT--T-TAACA
* *
859703 TATTTTAATA-TTTTACTATAAATACTAAATCAA
1 T-TTTTAACATTTTTACTAGAAATACTAAATCAA
859736 ATGTTGGTCA
Statistics
Matches: 111, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
44 2 0.02
45 46 0.41
46 53 0.48
47 10 0.09
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (46 bp):
TTTTTAACATTTTTACTAGAAATACTAAATCAATATTATTTTAACA
Found at i:859718 original size:46 final size:47
Alignment explanation
Indices: 859658--859751 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 47
859648 ATTTTAACAT
* *
859658 TTTTAACATTTTTACTAGAAATACTAAATCAAATTTTGATCTAATTA
1 TTTTAACATTTTTACTAGAAATACTAAATCAAATGTTGATCAAATTA
* * *
859705 TTTTAATA-TTTTACTATAAATACTAAATCAAATGTTGGTCAAATTA
1 TTTTAACATTTTTACTAGAAATACTAAATCAAATGTTGATCAAATTA
859751 T
1 T
859752 ACTAATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 35 0.83
47 7 0.17
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (47 bp):
TTTTAACATTTTTACTAGAAATACTAAATCAAATGTTGATCAAATTA
Found at i:859910 original size:16 final size:17
Alignment explanation
Indices: 859879--859910 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
859869 ATAACTACTT
859879 ATTATTAAATTATAATA
1 ATTATTAAATTATAATA
859896 ATTATTAAA-TATAAT
1 ATTATTAAATTATAAT
859911 TAAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATTAAATTATAATA
Done.