Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008506.1 Hibiscus syriacus cultivar Beakdansim tig00111358_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: 1253200
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 5 of 6
Found at i:905992 original size:21 final size:21
Alignment explanation
Indices: 905964--906020 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
905954 ATCTGACTTG
905964 TTAT-TGACTTGATATGATAT
1 TTATCTGACTTGATATGATAT
905984 TTATCTGACTTGATATGATAT
1 TTATCTGACTTGATATGATAT
906005 TTATCTGACTTGATAT
1 TTATCTGACTTGATAT
906021 TTACATGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.11
21 32 0.89
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (21 bp):
TTATCTGACTTGATATGATAT
Found at i:906331 original size:23 final size:24
Alignment explanation
Indices: 906301--906350 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
906291 TTTTCATGTA
906301 ATAATTAA-TTAATAA-TTT-AAAT
1 ATAATTAACTTAA-AATTTTAAAAT
906323 ATAATTTAACTTAAAATTTTAAAAT
1 ATAA-TTAACTTAAAATTTTAAAAT
906348 ATA
1 ATA
906351 CATATAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.17
23 6 0.25
24 7 0.29
25 7 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATTAACTTAAAATTTTAAAAT
Found at i:906452 original size:20 final size:21
Alignment explanation
Indices: 906424--906462 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
906414 TTTTTAAAAA
* *
906424 AAAAGTTTGTTTTTTTTTGGG
1 AAAAGTTTGATTTTATTTGGG
906445 AAAA-TTTGATTTTATTTG
1 AAAAGTTTGATTTTATTTG
906463 AGAATTTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (21 bp):
AAAAGTTTGATTTTATTTGGG
Found at i:906887 original size:26 final size:26
Alignment explanation
Indices: 906837--906887 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
906827 TATATATACT
* *
906837 TATATATGTACTTATGTACACACATA
1 TATATATATACTTATGCACACACATA
* *
906863 TATATATATACTTGTGCACATACAT
1 TATATATATACTTATGCACACACAT
906888 CACATTACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (26 bp):
TATATATATACTTATGCACACACATA
Found at i:906904 original size:40 final size:37
Alignment explanation
Indices: 906860--906947 Score: 140
Period size: 40 Copynumber: 2.3 Consensus size: 37
906850 ATGTACACAC
906860 ATATATATATATACTTGTGCACATACATCACATTACTTAT
1 ATATATATATATACTTGTGCACATACATCACA-TA--TAT
*
906900 ATATATATATATACTTGTGTACATACATCACATATAT
1 ATATATATATATACTTGTGCACATACATCACATATAT
906937 ATATATATATA
1 ATATATATATA
906948 CTTATATATA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
37 14 0.30
39 2 0.04
40 31 0.66
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (37 bp):
ATATATATATATACTTGTGCACATACATCACATATAT
Found at i:906938 original size:2 final size:2
Alignment explanation
Indices: 906931--907019 Score: 110
Period size: 2 Copynumber: 44.5 Consensus size: 2
906921 CATACATCAC
* * *
906931 AT AT AT AT AT AT AT AT ACT -T AT AT AT AT AT AC AT AC AT AC AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
*
906973 AT GT AT AT ACT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
907015 AT AT A
1 AT AT A
907020 CGTATGCACA
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.03
2 71 0.95
3 2 0.03
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:911181 original size:19 final size:20
Alignment explanation
Indices: 911138--911183 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
911128 TACTATGCTG
* *
911138 GAAATTTATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
911158 GAAATTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
911177 GAAATTG
1 GAAATTG
911184 GGTTATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:911268 original size:31 final size:31
Alignment explanation
Indices: 911232--911301 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
911222 CATAAATATG
911232 GAGAAGTTGGGAACTTAAATGAAAGTTTCAT
1 GAGAAGTTGGGAACTTAAATGAAAGTTTCAT
911263 GAGAAGTTGGGAACTTAAATGAAAGTTTCAT
1 GAGAAGTTGGGAACTTAAATGAAAGTTTCAT
*
911294 GTGAAGTT
1 GAGAAGTT
911302 TGGATAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (31 bp):
GAGAAGTTGGGAACTTAAATGAAAGTTTCAT
Found at i:912625 original size:21 final size:21
Alignment explanation
Indices: 912601--912657 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
912591 TTTTCGTACC
912601 AGTACTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
912622 AGTACTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
*
912643 AGTACTTTTTGTACT
1 AGTACTTTGTGTACT
912658 ATGACACTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.19, C:0.11, G:0.25, T:0.46
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGGAGT
Found at i:918574 original size:21 final size:21
Alignment explanation
Indices: 918548--918587 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
918538 CCCCCTTTGA
*
918548 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
918569 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
918588 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:921902 original size:21 final size:20
Alignment explanation
Indices: 921878--921930 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
921868 TTATAATATA
*
921878 ATAAATAAAATAATAAGCATT
1 ATAAATAAAATAAT-AGCACT
**
921899 ATAAATATTATAATAGCACT
1 ATAAATAAAATAATAGCACT
*
921919 ATGAATAAAATA
1 ATAAATAAAATA
921931 TAATGAAGTG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (20 bp):
ATAAATAAAATAATAGCACT
Found at i:921925 original size:20 final size:21
Alignment explanation
Indices: 921878--921925 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
921868 TTATAATATA
** *
921878 ATAAATAAAATAATAAGCATT
1 ATAAATATTATAATAAGCACT
921899 ATAAATATTATAAT-AGCACT
1 ATAAATATTATAATAAGCACT
*
921919 ATGAATA
1 ATAAATA
921926 AAATATAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (21 bp):
ATAAATATTATAATAAGCACT
Found at i:922480 original size:29 final size:28
Alignment explanation
Indices: 922447--922645 Score: 129
Period size: 29 Copynumber: 7.0 Consensus size: 28
922437 TTTCGGTTAT
922447 GGTGTTATTTTTGTAATTATTTTTAAAA
1 GGTGTTATTTTTGTAATTATTTTTAAAA
922475 GTGTGTTATTTTTGT-ATTAATTTTTAAAAAA
1 G-GTGTTATTTTTGTAATT-ATTTTT--AAAA
** *
922506 GGTGTTATTTTCATAATTAATTTTAAAA
1 GGTGTTATTTTTGTAATTATTTTTAAAA
* * *
922534 CGGTGATATTTTGGTAATTATTGTTAAAA
1 -GGTGTTATTTTTGTAATTATTTTTAAAA
** * * *
922563 CAATGATA-TTTTG---GTATTGTTAAAA
1 -GGTGTTATTTTTGTAATTATTTTTAAAA
* * * *
922588 TAGTGCTATTTTGGTAATTATTGTTAAAA
1 -GGTGTTATTTTTGTAATTATTTTTAAAA
* * *
922617 CGGTGATATTTTGGTAATTATTGTTAAAA
1 -GGTGTTATTTTTGTAATTATTTTTAAAA
922646 ACAGTGATAT
Statistics
Matches: 141, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
25 16 0.11
26 4 0.03
28 12 0.09
29 85 0.60
30 16 0.11
31 8 0.06
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.49
Consensus pattern (28 bp):
GGTGTTATTTTTGTAATTATTTTTAAAA
Found at i:922544 original size:59 final size:59
Alignment explanation
Indices: 922447--922562 Score: 146
Period size: 59 Copynumber: 2.0 Consensus size: 59
922437 TTTCGGTTAT
** * * * *
922447 GGTGTTATTTTTGTAATTATTTTTAAAAGTGTGTTATTTTTGT-ATTAATTTTTAAAAAA
1 GGTGTTATTTTCATAATTAATTTTAAAAGTGTGATATTTTGGTAATT-ATTGTTAAAAAA
922506 GGTGTTATTTTCATAATTAATTTTAAAACG-GTGATATTTTGGTAATTATTGTTAAAA
1 GGTGTTATTTTCATAATTAATTTTAAAA-GTGTGATATTTTGGTAATTATTGTTAAAA
922563 CAATGATATT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 45 0.92
60 4 0.08
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.52
Consensus pattern (59 bp):
GGTGTTATTTTCATAATTAATTTTAAAAGTGTGATATTTTGGTAATTATTGTTAAAAAA
Found at i:922689 original size:26 final size:27
Alignment explanation
Indices: 922523--922691 Score: 93
Period size: 29 Copynumber: 6.2 Consensus size: 27
922513 TTTTCATAAT
* *
922523 TAATT-TT-AAAACGGTGATATTTTGG
1 TAATTGTTAAAAACAGTGATATTTTAG
* *
922548 TAATTATTGTT-AAAACAATGATATTTTGG
1 T-A--ATTGTTAAAAACAGTGATATTTTAG
* * *
922577 T-ATTGTT-AAAATAGTGCTATTTTGG
1 TAATTGTTAAAAACAGTGATATTTTAG
* *
922602 TAATTATTGTT-AAAACGGTGATATTTTGG
1 T-A--ATTGTTAAAAACAGTGATATTTTAG
922631 TAATTATTGTTAAAAACAGTGATATTTTAG
1 T-A--ATTGTTAAAAACAGTGATATTTTAG
* *
922661 TAATTGTTTAAAA-ATTGATATTTCT-G
1 TAATTGTTAAAAACAGTGATATTT-TAG
922687 TAATT
1 TAATT
922692 TTTTTATTGT
Statistics
Matches: 122, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
25 23 0.19
26 16 0.13
27 11 0.09
28 3 0.02
29 52 0.43
30 17 0.14
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (27 bp):
TAATTGTTAAAAACAGTGATATTTTAG
Found at i:928620 original size:20 final size:20
Alignment explanation
Indices: 928595--928665 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
928585 CACTATTCTG
* *
928595 GAAATTTATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
928615 GAAATTGATGTTAGAATGTT
1 GAAATTGATGTTAGAATGTT
*
928635 GAAACTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
928654 GAAATTGA-GTTA
1 GAAATTGATGTTA
928666 TTTTGGGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
18 4 0.09
19 8 0.17
20 35 0.74
ACGTcount: A:0.35, C:0.01, G:0.25, T:0.38
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:933963 original size:2 final size:2
Alignment explanation
Indices: 933956--933983 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
933946 ATTATCAATA
933956 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
933984 GGTAATTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:934755 original size:68 final size:68
Alignment explanation
Indices: 934646--934783 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 68
934636 GCAAGTCCAC
*
934646 TAGTCCAAGAGTGTAAGAAAGAGGGGGAAAGAAGGGAAATGTGGGTAATAATGCGATTGCAAAGG
1 TAGTCCAAGAGTGTAAGAAAGAGGGGGAAAGAAAGGAAATGTGGGTAATAATGCGATTGCAAAGG
934711 GTA
66 GTA
*
934714 TAGTCCAAGAGTGTGAGAAAGAGGGGGAAAGAAAGGAAATGTGGGTAATAATGCGATTGCAAAGG
1 TAGTCCAAGAGTGTAAGAAAGAGGGGGAAAGAAAGGAAATGTGGGTAATAATGCGATTGCAAAGG
934779 GTA
66 GTA
934782 TA
1 TA
934784 ATCAATCCGT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.40, C:0.06, G:0.36, T:0.18
Consensus pattern (68 bp):
TAGTCCAAGAGTGTAAGAAAGAGGGGGAAAGAAAGGAAATGTGGGTAATAATGCGATTGCAAAGG
GTA
Found at i:934993 original size:19 final size:19
Alignment explanation
Indices: 934948--934995 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
934938 GGATATTTTA
934948 ATTC-TATTTTAAATTATG
1 ATTCATATTTTAAATTATG
*
934966 ATTCTTATTTTAAATTAAT-
1 ATTCATATTTTAAATT-ATG
*
934985 CTTCATATTTT
1 ATTCATATTTT
934996 TGAATGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 20 0.77
20 2 0.08
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTCATATTTTAAATTATG
Found at i:935717 original size:29 final size:29
Alignment explanation
Indices: 935680--935751 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
935670 ACCCAATGTA
935680 TTAAA-TTCAGTGAGGAAATTAAAAACTT
1 TTAAAGTTCAGTGAGGAAATTAAAAACTT
* *
935708 TTAAAGTTCAGTGAGGAAATTGAAAATTT
1 TTAAAGTTCAGTGAGGAAATTAAAAACTT
935737 TTAAAGTTCAGTGAG
1 TTAAAGTTCAGTGAG
935752 CAAAATAGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (29 bp):
TTAAAGTTCAGTGAGGAAATTAAAAACTT
Found at i:936685 original size:3 final size:3
Alignment explanation
Indices: 936677--936725 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
936667 ATTTTGTTTA
* * *
936677 TAT TAT TAT TAT AAT TAT TAT TAC TAT TAT T-T TAT TAT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
936724 TA
1 TA
936726 AATTACAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:936911 original size:25 final size:25
Alignment explanation
Indices: 936882--936975 Score: 188
Period size: 25 Copynumber: 3.8 Consensus size: 25
936872 ACCCACCAGA
936882 TTAGGGTTTCAAACCCTAAATCAGT
1 TTAGGGTTTCAAACCCTAAATCAGT
936907 TTAGGGTTTCAAACCCTAAATCAGT
1 TTAGGGTTTCAAACCCTAAATCAGT
936932 TTAGGGTTTCAAACCCTAAATCAGT
1 TTAGGGTTTCAAACCCTAAATCAGT
936957 TTAGGGTTTCAAACCCTAA
1 TTAGGGTTTCAAACCCTAA
936976 TCCCCAACTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 69 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (25 bp):
TTAGGGTTTCAAACCCTAAATCAGT
Found at i:950415 original size:16 final size:16
Alignment explanation
Indices: 950396--950430 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
950386 AAAAAAAAGG
950396 AAATGAAAAA-AATGAA
1 AAATGAAAAAGAA-GAA
950412 AAATGAAAAAGAAGAA
1 AAATGAAAAAGAAGAA
950428 AAA
1 AAA
950431 AAATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (16 bp):
AAATGAAAAAGAAGAA
Found at i:950429 original size:15 final size:14
Alignment explanation
Indices: 950374--950429 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 14
950364 TATTATACTT
**
950374 AAAAAAA-AAAAAA
1 AAAAAAAGAAAATG
*
950387 AAAAAAAGGAAATG
1 AAAAAAAGAAAATG
950401 AAAAAAATGAAAAATG
1 AAAAAAA-G-AAAATG
950417 AAAAAGAAGAAAA
1 AAAAA-AAGAAAA
950430 AAAATAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 7 0.20
14 10 0.29
15 5 0.14
16 11 0.31
17 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (14 bp):
AAAAAAAGAAAATG
Found at i:951654 original size:141 final size:141
Alignment explanation
Indices: 951384--951643 Score: 398
Period size: 141 Copynumber: 1.8 Consensus size: 141
951374 AACATCAACT
951384 GACCAGATCTCCTCATCACGTAGGAGAATGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
1 GACCAGATCTCCTCATCACGTAGGAGAATGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
* * ** *
951449 GGAACCGAGTTATCACCCTTCCTAACGATGGCCAGAGTTCTTCATCATGTATGAACCATGTCATC
66 GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
951514 TACCCTTAGAC
131 TACCCTTAGAC
** *
951525 GACCAGA-CTTCCTCATCACGTAGGAGCCGTGTCAACATTA-GATAATCAGCCGTCCTCATCACG
1 GACCAGATC-TCCTCATCACGTAGGAG-AATGTCAACATTAGGATAACCAGCCGTCCTCATCACG
* *
951588 TAGGAACCGAGTTATCACCCTTCTTAAAGATGACCAGAACTCTTCATCGCGTATGA
64 TAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGA
951644 GTCGTGTCAT
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
140 1 0.01
141 95 0.89
142 11 0.10
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (141 bp):
GACCAGATCTCCTCATCACGTAGGAGAATGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
TACCCTTAGAC
Found at i:951907 original size:3 final size:3
Alignment explanation
Indices: 951899--951947 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
951889 ATTTTGTTTA
* * *
951899 TAT TAT TAT TAT AAT TAT TAT TAC TAT TAT T-T TAT TAT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
951946 TA
1 TA
951948 AATTACAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:952133 original size:25 final size:25
Alignment explanation
Indices: 952104--952222 Score: 238
Period size: 25 Copynumber: 4.8 Consensus size: 25
952094 ACCCACCAGA
952104 TTAGGGTTTCAAACCCTAAATCAGT
1 TTAGGGTTTCAAACCCTAAATCAGT
952129 TTAGGGTTTCAAACCCTAAATCAGT
1 TTAGGGTTTCAAACCCTAAATCAGT
952154 TTAGGGTTTCAAACCCTAAATCAGT
1 TTAGGGTTTCAAACCCTAAATCAGT
952179 TTAGGGTTTCAAACCCTAAATCAGT
1 TTAGGGTTTCAAACCCTAAATCAGT
952204 TTAGGGTTTCAAACCCTAA
1 TTAGGGTTTCAAACCCTAA
952223 TCCCCAACTA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 94 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (25 bp):
TTAGGGTTTCAAACCCTAAATCAGT
Found at i:954940 original size:13 final size:14
Alignment explanation
Indices: 954922--954958 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
954912 TTAATATCAT
954922 TTTAATA-AAAATA
1 TTTAATATAAAATA
954935 TTTAATATTAAAATA
1 TTTAATA-TAAAATA
954950 TTTAATATA
1 TTTAATATA
954959 CATATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.32
14 2 0.09
15 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTAATATAAAATA
Found at i:954990 original size:16 final size:14
Alignment explanation
Indices: 954963--955002 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
954953 AATATACATA
*
954963 TAATATTAT-TTTAG
1 TAATATTATATTT-T
954977 TAATATTATATTTT
1 TAATATTATATTTT
954991 TAATATTATATT
1 TAATATTATATT
955003 AATATGTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
TAATATTATATTTT
Found at i:955122 original size:27 final size:30
Alignment explanation
Indices: 955084--955151 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
955074 TACTAGTGAG
* *
955084 TAATATTAATTTA-TA-TATG-TAATATTAA
1 TAATAATAATTTAGTATTATGTTAATA-AAA
955112 T-ATAATAATTTAGTATTATGTTAATAAAA
1 TAATAATAATTTAGTATTATGTTAATAAAA
955141 TAATAATAATT
1 TAATAATAATT
955152 AAATTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 10 0.29
28 3 0.09
29 7 0.21
30 14 0.41
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (30 bp):
TAATAATAATTTAGTATTATGTTAATAAAA
Found at i:955421 original size:14 final size:14
Alignment explanation
Indices: 955404--955452 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
955394 TTCTCAAAAA
955404 ATGTAATTCATTTT
1 ATGTAATTCATTTT
* *
955418 ATGTAAAATAATTTT
1 ATGT-AATTCATTTT
**
955433 AAATAATTCATTTT
1 ATGTAATTCATTTT
955447 ATGTAA
1 ATGTAA
955453 AATAATCTTC
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (14 bp):
ATGTAATTCATTTT
Found at i:955449 original size:29 final size:30
Alignment explanation
Indices: 955407--955483 Score: 111
Period size: 29 Copynumber: 2.6 Consensus size: 30
955397 TCAAAAAATG
*
955407 TAATTCATTTTATGTAAAATAAT-TTTAAA
1 TAATTCATTTTATGTAAAATAATCTTCAAA
*
955436 TAATTCATTTTATGTAAAATAATCTTCAAG
1 TAATTCATTTTATGTAAAATAATCTTCAAA
* *
955466 TAATTGATTTTACGTAAA
1 TAATTCATTTTATGTAAA
955484 TTATTTTCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 23 0.53
30 20 0.47
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (30 bp):
TAATTCATTTTATGTAAAATAATCTTCAAA
Found at i:956162 original size:19 final size:22
Alignment explanation
Indices: 956133--956181 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
956123 TATTTAAAAT
956133 AATATAAAACT-T-TAAAAG-TG
1 AATA-AAAACTATATAAAAGATG
*
956153 ATTAAAAACTATATAAAAGATG
1 AATAAAAACTATATAAAAGATG
956175 AATAAAA
1 AATAAAA
956182 GTTTTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.25
20 4 0.17
21 6 0.25
22 8 0.33
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (22 bp):
AATAAAAACTATATAAAAGATG
Found at i:957057 original size:26 final size:25
Alignment explanation
Indices: 956972--957059 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 25
956962 TATATAGTGG
* *
956972 TATATA-TTTTATTAAATAGTATATTA
1 TATATAGTTTTA-AAAATAATATA-TA
*
956998 GATATAGTTTTTAAAATAGTATATATATA
1 TATATAG-TTTTAAAA-A-TA-ATATATA
957027 TTATATAGTTTTAAAAATAATATACTA
1 -TATATAGTTTTAAAAATAATATA-TA
957054 TATATA
1 TATATA
957060 TATAATTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
26 16 0.31
27 6 0.12
28 7 0.14
29 12 0.24
30 10 0.20
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (25 bp):
TATATAGTTTTAAAAATAATATATA
Found at i:957070 original size:31 final size:29
Alignment explanation
Indices: 956986--957082 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 29
956976 TATTTTATTA
* *
956986 AATAGTATAT-TAGATATAGTTTTTAAAAT
1 AATA-TATATATATATATAATTTTTAAAAT
* * *
957015 AGTATATATATATTATATAGTTTTAAAAAT
1 AATATATATATA-TATATAATTTTTAAAAT
957045 AATATACTATATATATATAATTTTTAAAAT
1 AATATA-TATATATATATAATTTTTAAAAT
957075 AAGTATAT
1 AA-TATAT
957083 TACATTGTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
28 5 0.09
29 5 0.09
30 38 0.66
31 10 0.17
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.45
Consensus pattern (29 bp):
AATATATATATATATATAATTTTTAAAAT
Found at i:958098 original size:21 final size:21
Alignment explanation
Indices: 958069--958109 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
958059 ACAATCAGCA
* *
958069 GAAAAAAAGAGAGGGGAAAAC
1 GAAAAAAAGAAAGAGGAAAAC
*
958090 GAAAGAAAGAAAGAGGAAAA
1 GAAAAAAAGAAAGAGGAAAA
958110 ATGAAAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (21 bp):
GAAAAAAAGAAAGAGGAAAAC
Found at i:962227 original size:21 final size:21
Alignment explanation
Indices: 962152--962247 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
962142 TTGAGGGTTC
* * *
962152 TATGTGGTCTTTTGGGACATA
1 TATGTGGTCCTTTGGAACACA
** * *
962173 TATGTAATCCTTTGGATCATA
1 TATGTGGTCCTTTGGAACACA
* * *
962194 TATGCGGTTCTTTGGGACACA
1 TATGTGGTCCTTTGGAACACA
* * *
962215 TATTTGGTCCTTTGGAATATA
1 TATGTGGTCCTTTGGAACACA
962236 TATGTGGTCCTT
1 TATGTGGTCCTT
962248 AAGGAGAATT
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.43
Consensus pattern (21 bp):
TATGTGGTCCTTTGGAACACA
Found at i:986668 original size:21 final size:19
Alignment explanation
Indices: 986644--986824 Score: 128
Period size: 21 Copynumber: 8.8 Consensus size: 19
986634 CATATTCGCA
*
986644 TTGCGATAGTCCAAGTTCGTG
1 TTGCGATAGTCCAAATTC--G
* *
986665 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAATT--CG
**
986686 TTGCGATTTTCCAAATTCGCG
1 TTGCGATAGTCCAAATT--CG
* *
986707 TTGCGATTTATTCCAAATTTG
1 TTGCGA--TAGTCCAAATTCG
*
986728 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAATT--CG
* *
986749 TTGCGATTTATTACAAATTCG
1 TTGCGA--TAGTCCAAATTCG
*
986770 TTGCGATAGTCCAAGTTCG
1 TTGCGATAGTCCAAATTCG
*
986789 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAATTCG
986810 TTGCGATAGTCCAAA
1 TTGCGATAGTCCAAA
986825 ATCGCAACGA
Statistics
Matches: 131, Mismatches: 19, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
19 33 0.25
21 79 0.60
23 19 0.15
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGCGATAGTCCAAATTCG
Found at i:986690 original size:42 final size:40
Alignment explanation
Indices: 986644--986823 Score: 195
Period size: 42 Copynumber: 4.3 Consensus size: 40
986634 CATATTCGCA
* * *
986644 TTGCGATAGTCCAAGTTCGTGTTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTATTC-AAATT--CG
** * *
986686 TTGCGATTTTCCAAATTCGCGTTGCGATTTATTCCAAATTTG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATT-CAAATTCG
986728 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATT-CAAATTCG
986770 TTGCGATAGTCCAAGTT--CGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATT-CAAATTCG
986810 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
986824 AATCGCAACG
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
40 36 0.30
42 78 0.64
44 7 0.06
45 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTATTCAAATTCG
Found at i:986804 original size:63 final size:61
Alignment explanation
Indices: 986630--986795 Score: 192
Period size: 63 Copynumber: 2.6 Consensus size: 61
986620 CGCATTGCGA
* * *
986630 TTTACATATTCGCATTGCGATAGTCCAAGTTCGTGTTGCGATAGTCGAAGTTCGCGTTGCGA-T
1 TTTACAAATTC-CGTTGCGATAGTCCAAGTTC--GTTGCGATAGTCCAAGTTCGCGTTGCGATT
* * * *
986693 TTTCCAAATTCGCGTTGCGATTTATTCCAAATTTGTTGCGATAGTCCAAGTTCGCGTTGCGATT
1 TTTACAAATTC-CGTTGCGA--TAGTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATT
986757 TATTACAAATT-CGTTGCGATAGTCCAAGTTCGTTGCGAT
1 T-TTACAAATTCCGTTGCGATAGTCCAAGTTCGTTGCGAT
986796 TTATTCCAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
61 17 0.19
63 52 0.59
64 2 0.02
65 17 0.19
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (61 bp):
TTTACAAATTCCGTTGCGATAGTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATT
Found at i:987765 original size:42 final size:42
Alignment explanation
Indices: 987703--987981 Score: 272
Period size: 42 Copynumber: 6.7 Consensus size: 42
987693 TGCGATTTTG
* * * *
987703 GACTATCGCAACGTATTTGGAATAAATCGCAATGCAAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
987745 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
987787 GACTATCGCAACGAACTTGTAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * *
987829 GACTATCGCAACGCGAACTTGGACT--ATCGCAA--CGAATTTG
1 GACTATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTC
* * * * *
987869 GAATAAATCGCAACGCGAACTTCGACT--ATCGCAA--TGAACTTG
1 GACT--ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTC
* *
987911 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * *
987953 GGCTATCGCAACAAATTTGG-A-AAATCGCA
1 GACTATCGCAACGAACTTGGAATAAATCGCA
987982 TTGCGATAGT
Statistics
Matches: 209, Mismatches: 20, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
38 9 0.04
40 31 0.15
41 1 0.00
42 158 0.76
44 10 0.05
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:987936 original size:61 final size:62
Alignment explanation
Indices: 987770--987964 Score: 311
Period size: 63 Copynumber: 3.1 Consensus size: 62
987760 CTTGGAATAA
* * *
987770 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGTAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAAC-CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
987833 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAAC-CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
* * *
987896 ATCGCAA-TGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGGCT
1 ATCGCAACCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
987957 ATCGCAAC
1 ATCGCAAC
987965 AAATTTGGAA
Statistics
Matches: 125, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
61 58 0.46
63 67 0.54
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (62 bp):
ATCGCAACCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
Found at i:987941 original size:21 final size:19
Alignment explanation
Indices: 987700--987964 Score: 179
Period size: 21 Copynumber: 12.8 Consensus size: 19
987690 CGTTGCGATT
* *
987700 TTGGACTATCGCAACGTAT
1 TTGGACTATCGCAACGAAC
* *
987719 TTGGAATAAATCGCAATGCAAAC
1 TTGGACT--ATCGCAA--CGAAC
*
987742 TTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
*
987761 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
987784 TTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
* *
987803 TTGTAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
987826 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAA--CGAAC
*
987847 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
987866 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
* *
987889 TTCGACTATCGCAATGAAC
1 TTGGACTATCGCAACGAAC
*
987908 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
987927 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
987950 TTGGGCTATCGCAAC
1 TTGGACTATCGCAAC
987965 AAATTTGGAA
Statistics
Matches: 195, Mismatches: 31, Indels: 40
0.73 0.12 0.15
Matches are distributed among these distances:
19 61 0.31
21 90 0.46
23 44 0.23
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:988006 original size:21 final size:21
Alignment explanation
Indices: 987977--988029 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
987967 ATTTGGAAAA
*
987977 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
*
987998 TCGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
988019 TCGCGTTGCGA
1 TCGCGTTGCGA
988030 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:992764 original size:132 final size:132
Alignment explanation
Indices: 992504--992763 Score: 330
Period size: 132 Copynumber: 2.0 Consensus size: 132
992494 AATTTTTCAA
** * *
992504 ATTTGATCTTCCCTGAAGAGCAGTGGAGAAAATCTACCCCGATTCAATCTTTCCTAAAGAGTAGT
1 ATTTGATCTTCCCTGAAGAAAAGTGAAGAAAATCTACCCCGATTCAATCTTTCCTAAAGAATAGT
* *
992569 GCAATGAATAAAAGTTTCCAAGTATGATCTTCCCTAAAGAGTAGCGAAGCATAACTCTTTTTTTC
66 GCAATGAATAAAAGTTTACAAGTATGATATTCCCTAAAGAGTAGCGAAGCATAACTCTTTTTTTC
992634 GG
131 GG
* * *
992636 ATTTGATCTTCCCTGAAGAAAAGAT-AAGTAAATCTACCTCGATTCAATC-TTCTTTGAAA-AAT
1 ATTTGATCTTCCCTGAAGAAAAG-TGAAGAAAATCTACCCCGATTCAATCTTTC-CT-AAAGAAT
* * * * * *
992698 AGTGGAGTGAATCAAAGTTTACAGGTATGATATTCCCTAAAGAGTGGCGAAGCATATC-CTTTTT
63 AGTGCAATGAATAAAAGTTTACAAGTATGATATTCCCTAAAGAGTAGCGAAGCATAACTCTTTTT
992762 TT
128 TT
992764 TTCATATTTG
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
131 11 0.10
132 95 0.86
133 4 0.04
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (132 bp):
ATTTGATCTTCCCTGAAGAAAAGTGAAGAAAATCTACCCCGATTCAATCTTTCCTAAAGAATAGT
GCAATGAATAAAAGTTTACAAGTATGATATTCCCTAAAGAGTAGCGAAGCATAACTCTTTTTTTC
GG
Found at i:992946 original size:41 final size:41
Alignment explanation
Indices: 992891--993048 Score: 122
Period size: 41 Copynumber: 3.8 Consensus size: 41
992881 TCCAAAACTG
* *
992891 ATCTTCCCTGAAGAGCAGTGAAACTAATCCAC-CTCAATTCT
1 ATCTTCCCTAAAGAGCAGTGAAACTAATCAACTC-CAATTCT
* * ** * * *
992932 ATCTTCTCTAAAGAGTAACG-AAGTGAATCAAGTTTTCCAGATTCG
1 ATCTTCCCTAAAGAGCAGTGAAACT-AATCAA---CTCCA-ATTCT
* *
992977 ATCTTCCCTAAAGAGTAGTGAAACTAATCGACTCCAATTCT
1 ATCTTCCCTAAAGAGCAGTGAAACTAATCAACTCCAATTCT
* * *
993018 ATATTCTCTAAAGAGCAGTGAAATTAATCAA
1 ATCTTCCCTAAAGAGCAGTGAAACTAATCAA
993049 GTTTTCCAGA
Statistics
Matches: 89, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
40 3 0.03
41 50 0.56
42 4 0.04
44 2 0.02
45 27 0.30
46 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (41 bp):
ATCTTCCCTAAAGAGCAGTGAAACTAATCAACTCCAATTCT
Found at i:993072 original size:86 final size:86
Alignment explanation
Indices: 992803--993074 Score: 320
Period size: 86 Copynumber: 3.2 Consensus size: 86
992793 TACCTGGATT
* * * *
992803 TGATCTTCCCTGAAGAGCTA-T-AAAGCAAATCGA-TCCCAAATCTATCTTCTTTAAAGAGTAGT
1 TGATCTTCCCTAAAGAG-TAGTGAAA-CTAATCGACT-CCAATTCTATCTTCTCTAAAGAGTAGT
* * *
992865 GAAGTGAATCAAATTTTCCAAAAC
63 GAAGTGAATCAAGTTTTCCAGATC
* * * **
992889 TGATCTTCCCTGAAGAGCAGTGAAACTAATCCAC-CTCAATTCTATCTTCTCTAAAGAGTAACGA
1 TGATCTTCCCTAAAGAGTAGTGAAACTAATCGACTC-CAATTCTATCTTCTCTAAAGAGTAGTGA
992953 AGTGAATCAAGTTTTCCAGAT-
65 AGTGAATCAAGTTTTCCAGATC
* *
992974 TCGATCTTCCCTAAAGAGTAGTGAAACTAATCGACTCCAATTCTATATTCTCTAAAGAGCAGTGA
1 T-GATCTTCCCTAAAGAGTAGTGAAACTAATCGACTCCAATTCTATCTTCTCTAAAGAGTAGTGA
* *
993039 AATTAATCAAGTTTTCCAGATC
65 AGTGAATCAAGTTTTCCAGATC
993061 TGATCTTCCCTAAA
1 TGATCTTCCCTAAA
993075 AAACAACGGA
Statistics
Matches: 160, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
85 3 0.02
86 152 0.95
87 5 0.03
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (86 bp):
TGATCTTCCCTAAAGAGTAGTGAAACTAATCGACTCCAATTCTATCTTCTCTAAAGAGTAGTGAA
GTGAATCAAGTTTTCCAGATC
Found at i:993396 original size:26 final size:26
Alignment explanation
Indices: 993333--993453 Score: 83
Period size: 26 Copynumber: 4.7 Consensus size: 26
993323 AAATATATGT
993333 ATAGTAT-TT-TATATATTAT-TAAA
1 ATAGTATATTATATATATTATATAAA
**
993356 ATA-TATAATGGTATATATTATATAAA
1 ATAGTAT-ATTATATATATTATATAAA
* *
993382 ATAGTATATTATATAAAGTT-TTTAAA
1 ATAGTATATTATATATA-TTATATAAA
*
993408 ATAGTATATATATTATATAGTTTTA-AAA
1 ATAGTATAT-TA-TATATA-TTATATAAA
* * *
993436 ATAATGTACTATATATAT
1 ATAGTATATTATATATAT
993454 ATAACTTTTA
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
22 3 0.04
23 3 0.04
24 1 0.01
25 11 0.14
26 34 0.43
27 9 0.11
28 17 0.22
29 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (26 bp):
ATAGTATATTATATATATTATATAAA
Found at i:993420 original size:30 final size:30
Alignment explanation
Indices: 993386--993475 Score: 107
Period size: 30 Copynumber: 3.0 Consensus size: 30
993376 TATAAAATAG
993386 TATATTATATAAAGTTTTTAAAAT-AGTATA
1 TATATTATAT-AAGTTTTTAAAATAAGTATA
*
993416 TATATTATAT-AGTTTTAAAAATAATGTACTA
1 TATATTATATAAGTTTTTAAAATAA-GTA-TA
*
993447 TATA-TATATAA-CTTTTAAAATAAGTATA
1 TATATTATATAAGTTTTTAAAATAAGTATA
993475 T
1 T
993476 TACATTCTAG
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
28 14 0.26
29 4 0.08
30 28 0.53
31 7 0.13
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.46
Consensus pattern (30 bp):
TATATTATATAAGTTTTTAAAATAAGTATA
Found at i:993474 original size:26 final size:25
Alignment explanation
Indices: 993378--993475 Score: 72
Period size: 26 Copynumber: 3.5 Consensus size: 25
993368 ATATATTATA
*
993378 TAAAATAGTATAT-TATATAAAGTTTT
1 TAAAATAGTATATATATAT-AA-CTTT
*
993404 TAAAATAGTATATATATTATATAGTTT
1 TAAAATAGTATATATA-TATA-ACTTT
993431 TAAAAATAATGTACTATATATATATAACTTT
1 T-AAAAT-A-G---TATATATATATAACTTT
993462 TAAAATAAGTATAT
1 TAAAAT-AGTATAT
993476 TACATTCTAG
Statistics
Matches: 61, Mismatches: 2, Indels: 18
0.75 0.02 0.22
Matches are distributed among these distances:
26 18 0.30
27 7 0.11
28 9 0.15
29 2 0.03
30 8 0.13
31 5 0.08
32 4 0.07
33 8 0.13
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (25 bp):
TAAAATAGTATATATATATAACTTT
Found at i:995146 original size:22 final size:22
Alignment explanation
Indices: 995121--995163 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
995111 TGTAAATAGT
*
995121 TAATATTATATATATATATATA
1 TAATATTATATATACATATATA
*
995143 TAATATTATATGTACATATAT
1 TAATATTATATATACATATAT
995164 TTTATTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TAATATTATATATACATATATA
Found at i:997651 original size:32 final size:32
Alignment explanation
Indices: 997601--997682 Score: 110
Period size: 32 Copynumber: 2.6 Consensus size: 32
997591 AATACCCTTG
* * *
997601 TGCAGTATCTGAATGCAACACTGATTATACTA
1 TGCATTATCTGAATGCAACACTAACTATACTA
* * *
997633 TGCATTATATGAATGCAACACTAACTATATTG
1 TGCATTATCTGAATGCAACACTAACTATACTA
997665 TGCATTATCTGAATGCAA
1 TGCATTATCTGAATGCAA
997683 ATCTGACTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (32 bp):
TGCATTATCTGAATGCAACACTAACTATACTA
Found at i:997999 original size:19 final size:19
Alignment explanation
Indices: 997975--998013 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
997965 GATTTTATTA
*
997975 TTTATTT-CATTATAATTTT
1 TTTATTTGC-TTAGAATTTT
997994 TTTATTTGCTTAGAATTTT
1 TTTATTTGCTTAGAATTTT
998013 T
1 T
998014 ATTAGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTATTTGCTTAGAATTTT
Found at i:998040 original size:22 final size:22
Alignment explanation
Indices: 998008--998051 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
997998 TTTGCTTAGA
998008 ATTTTTATTAGT-GTTTTAATT
1 ATTTTTATTAGTAGTTTTAATT
*
998029 ATTTATTATTAGTATTTTTAATT
1 ATTT-TTATTAGTAGTTTTAATT
998052 TACTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 8 0.40
23 8 0.40
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (22 bp):
ATTTTTATTAGTAGTTTTAATT
Found at i:1005108 original size:20 final size:20
Alignment explanation
Indices: 1005085--1005141 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
1005075 TGTTCATGTG
1005085 GTATCGATACTCAGGGGTTA
1 GTATCGATACTCAGGGGTTA
*
1005105 GTATTGATACTCAGGGGTTA
1 GTATCGATACTCAGGGGTTA
1005125 GTATCGATACTC-GGGGT
1 GTATCGATACTCAGGGGT
1005142 CCCAAATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 5 0.14
20 30 0.86
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.32
Consensus pattern (20 bp):
GTATCGATACTCAGGGGTTA
Found at i:1006098 original size:18 final size:19
Alignment explanation
Indices: 1006075--1006112 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
1006065 TCGTAAACTC
1006075 TGTATTATTA-TTTTATGT
1 TGTATTATTATTTTTATGT
1006093 TGTATTATTATTTTTATGT
1 TGTATTATTATTTTTATGT
1006112 T
1 T
1006113 TTGGAGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (19 bp):
TGTATTATTATTTTTATGT
Found at i:1008243 original size:21 final size:21
Alignment explanation
Indices: 1008201--1008243 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1008191 TTTCTGGGCT
*
1008201 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1008222 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1008243 A
1 A
1008244 ATGAACATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1010035 original size:103 final size:103
Alignment explanation
Indices: 1009910--1010127 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
1009900 GTCGAGGGTC
1009910 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
1009975 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGAATATGATTCTTAAGGAATGA
* *
1010013 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1010078 TTGATCCCTAGTATATGAATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGAATATGATTCTTAAGGAATGA
1010116 TATGTGGTCCTT
1 TATGTGGTCCTT
1010128 ATAGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGAATATGATTCTTAAGGAATGA
Found at i:1010170 original size:23 final size:23
Alignment explanation
Indices: 1010137--1010211 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
1010127 TATAGACATT
1010137 ATTATAT--GGCACTACGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* *
1010158 ATTCTATGCGGCACTCCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* *
1010181 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
1010204 ATTATATG
1 ATTATATG
1010212 AGCTGTGGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.13
23 41 0.87
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (23 bp):
ATTATATGCGGCACTACGGTGCA
Found at i:1015191 original size:23 final size:23
Alignment explanation
Indices: 1015158--1015209 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1015148 TATGGACATT
1015158 ATTATAT--GGCACTACGGCGCA
1 ATTATATGCGGCACTACGGCGCA
* * *
1015179 ATTCTATGCGGCACTTCGGTGCA
1 ATTATATGCGGCACTACGGCGCA
1015202 ATTATATG
1 ATTATATG
1015210 AGCTGTGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 6 0.24
23 19 0.76
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (23 bp):
ATTATATGCGGCACTACGGCGCA
Found at i:1019427 original size:39 final size:39
Alignment explanation
Indices: 1019373--1019450 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
1019363 GTGGTAACCT
*
1019373 TAAAAAATATTATGATGTAAGCTTTACGCTGCATTGTGA
1 TAAAAAATATTATGATGCAAGCTTTACGCTGCATTGTGA
** *
1019412 TAAAAAATATTATGATGCCGGCTTTACGCTGTATTGTGA
1 TAAAAAATATTATGATGCAAGCTTTACGCTGCATTGTGA
1019451 CCGCAATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (39 bp):
TAAAAAATATTATGATGCAAGCTTTACGCTGCATTGTGA
Found at i:1021322 original size:47 final size:49
Alignment explanation
Indices: 1021235--1021333 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 49
1021225 AGTTGAATAA
*
1021235 AAAAAATTTTGAATTGATGAATTTTATTTTATAATTTAAATTTTAT-TT
1 AAAAAATTTTGAATTGATGAATTTTATTTTATAATTTAAATTTAATATT
* **
1021283 AAAAAATTTTGAGTTGATTTATTTTAATTTT-T-ATTTAAATTTAATATT
1 AAAAAATTTTGAATTGATGAATTTT-ATTTTATAATTTAAATTTAATATT
1021331 AAA
1 AAA
1021334 TATTTATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
47 12 0.27
48 28 0.62
49 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (49 bp):
AAAAAATTTTGAATTGATGAATTTTATTTTATAATTTAAATTTAATATT
Found at i:1040975 original size:45 final size:45
Alignment explanation
Indices: 1040906--1041188 Score: 377
Period size: 45 Copynumber: 6.3 Consensus size: 45
1040896 CCATGAGTGA
* * * *
1040906 CACCTTTTATACCAATAATGCACCGTTATGGATTTTCATTTATGG
1 CACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
* * * *
1040951 AACCATTTATGCCTATAATGCACCGTTATGCATCTTCATTTGTGG
1 CACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
* **
1040996 CACCATTTATGCCGATAATGCATTGTTATGCATTTTCATTTGTGG
1 CACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
* ***
1041041 AACCTTTTATATTGATAATGCACCGTTATGCATTTTCATTTGTGG
1 CACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
* * *
1041086 CACCTTTTATGCCGATAATGCACCGTTATGTATTTTTATTTGTAG
1 CACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
* * *
1041131 CACCTTTTATGTCGATAATTCACCGTTATGCATTTTCATTTTTGG
1 CACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
1041176 CACCTTTTATGCC
1 CACCTTTTATGCC
1041189 AATTCATAGA
Statistics
Matches: 205, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 205 1.00
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (45 bp):
CACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
Found at i:1042394 original size:45 final size:44
Alignment explanation
Indices: 1042320--1042423 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
1042310 AATGAGAGAT
*
1042320 TTAGGAAATAAGTTGGTAATGATGGTAATAGCTCCAACATAGTC
1 TTAGGAAATAAGTTGGTAATGATGGTAATAGATCCAACATAGTC
1042364 TTAGGAAATAAGTTAGGTAAT-ACTGGTAATAGATCCAACATAG--
1 TTAGGAAATAAGTT-GGTAATGA-TGGTAATAGATCCAACATAGTC
*
1042407 TGAGAGAAATAAGTTGG
1 TTAG-GAAATAAGTTGG
1042424 AATTCCAACA
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
43 5 0.09
44 25 0.45
45 25 0.45
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (44 bp):
TTAGGAAATAAGTTGGTAATGATGGTAATAGATCCAACATAGTC
Found at i:1042416 original size:44 final size:43
Alignment explanation
Indices: 1042322--1042423 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 43
1042312 TGAGAGATTT
* *
1042322 AGGAAATAAGTTGGTAATGATGGTAATAGCTCCAACATAGTCTT
1 AGGAAATAAGTTGGTAATGATGGTAATAGATCCAACATAG-CTG
1042366 AGGAAATAAGTTAGGTAAT-ACTGGTAATAGATCCAACATAG-TG
1 AGGAAATAAGTT-GGTAATGA-TGGTAATAGATCCAACATAGCTG
1042409 AGAGAAATAAGTTGG
1 AG-GAAATAAGTTGG
1042424 AATTCCAACA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
43 5 0.09
44 23 0.43
45 25 0.47
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (43 bp):
AGGAAATAAGTTGGTAATGATGGTAATAGATCCAACATAGCTG
Found at i:1053133 original size:2 final size:2
Alignment explanation
Indices: 1053126--1053156 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1053116 ATTCACTGAA
1053126 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1053157 AGAAAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1053406 original size:40 final size:40
Alignment explanation
Indices: 1053356--1053431 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
1053346 CACACATACC
* *
1053356 CACACAATGATGTCAATATTAACTTAATATTATTAACACA
1 CACACAATGATGTCAATATTAACTAAATACTATTAACACA
*
1053396 CACATAATGATGTCAATATTAACTAAATACTATTAA
1 CACACAATGATGTCAATATTAACTAAATACTATTAA
1053432 ATTCAACTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.33
Consensus pattern (40 bp):
CACACAATGATGTCAATATTAACTAAATACTATTAACACA
Found at i:1056873 original size:2 final size:2
Alignment explanation
Indices: 1056866--1056898 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1056856 TTACCGGATG
1056866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1056899 GTTGATTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1057642 original size:40 final size:40
Alignment explanation
Indices: 1057545--1057698 Score: 193
Period size: 40 Copynumber: 3.8 Consensus size: 40
1057535 TTTTCCTAAT
* * ** *
1057545 TCGCAATGCAAATACGTAAATTACAACGCGAATTTGGAAAA
1 TCGCAATGCGAATACGTAAATCACAACGCGAA-TACGTAAA
* *
1057586 TCGCAATGCGATTACGTAAATCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCACAACGCGAATACGTAAA
*
1057626 TCGCAATGCGAATACGTAAATCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCACAACGCGAATACGTAAA
* *
1057666 TCGCAACGCGAAT-CTGTAAATCGCAACGCGAAT
1 TCGCAATGCGAATAC-GTAAATCACAACGCGAAT
1057699 CTGACTATCG
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 72 0.71
41 28 0.28
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCACAACGCGAATACGTAAA
Found at i:1057701 original size:20 final size:20
Alignment explanation
Indices: 1057545--1057698 Score: 175
Period size: 20 Copynumber: 7.7 Consensus size: 20
1057535 TTTTCCTAAT
*
1057545 TCGCAATGCAAATACGTAAA
1 TCGCAATGCGAATACGTAAA
** * ** *
1057565 TTACAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
1057586 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1057606 TCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1057626 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1057646 TCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1057666 TCGCAACGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
*
1057686 TCGCAACGCGAAT
1 TCGCAATGCGAAT
1057699 CTGACTATCG
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
19 1 0.01
20 98 0.88
21 13 0.12
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1057708 original size:20 final size:20
Alignment explanation
Indices: 1057665--1057731 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
1057655 GAATACGTAA
*
1057665 ATCGCAACGCGAATCTGTA-A
1 ATCGCAACGCGAATCTG-ACT
1057685 ATCGCAACGCGAATCTGACT
1 ATCGCAACGCGAATCTGACT
** *
1057705 ATCGCAACTAGATTCTGACT
1 ATCGCAACGCGAATCTGACT
1057725 ATCGCAA
1 ATCGCAA
1057732 TACTGAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.02
20 41 0.98
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAATCTGACT
Found at i:1058607 original size:24 final size:24
Alignment explanation
Indices: 1058575--1058628 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1058565 GTATTCGAAA
1058575 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1058599 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1058623 TTTGAT
1 TTTGAT
1058629 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1061067 original size:20 final size:20
Alignment explanation
Indices: 1061042--1061130 Score: 135
Period size: 20 Copynumber: 4.5 Consensus size: 20
1061032 CAACGCGGAA
1061042 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
1061062 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
1061082 ATCGCAACGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
*
1061102 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
1061122 ATCGCAACG
1 ATCGCAACG
1061131 AGAGAATCGT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 59 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:1061101 original size:40 final size:40
Alignment explanation
Indices: 1061042--1061130 Score: 162
Period size: 40 Copynumber: 2.2 Consensus size: 40
1061032 CAACGCGGAA
1061042 ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
1 ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
1061082 ATCGCAACGCGGAAT-TGACTATCGCAACACGGAAATGACT
1 ATCGCAACGC-GAATATGACTATCGCAACACGGAAATGACT
1061122 ATCGCAACG
1 ATCGCAACG
1061131 AGAGAATCGT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 44 0.92
41 4 0.08
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
Found at i:1061164 original size:33 final size:33
Alignment explanation
Indices: 1061113--1061197 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
1061103 TCGCAACACG
** *
1061113 GAAATGACTATCGCAACGAGAGAATCGTAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
* *
1061146 GAAATGAAAATCGTAACGAGTGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1061179 GAAAGTGAAAATCGCAACG
1 GAAA-TGAAAATCGCAACG
1061198 CGAATTTAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
33 32 0.71
34 13 0.29
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.16
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:1061187 original size:18 final size:19
Alignment explanation
Indices: 1061164--1061201 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1061154 AATCGTAACG
*
1061164 AGTG-AATCGCAATGCGAA
1 AGTGAAATCGCAACGCGAA
1061182 AGTGAAAATCGCAACGCGAA
1 AGTG-AAATCGCAACGCGAA
1061202 TTTAGTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.13
Consensus pattern (19 bp):
AGTGAAATCGCAACGCGAA
Found at i:1061253 original size:14 final size:14
Alignment explanation
Indices: 1061234--1061287 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
1061224 CATTTTCGCA
1061234 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
1061248 TTGCGATTATCATTTCG
1 TTGCGA-T-TC-TCTCG
1061265 TATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
1061281 TTGCGAT
1 TTGCGAT
1061288 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
15 1 0.03
16 6 0.18
17 6 0.18
18 1 0.03
19 6 0.18
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:1061270 original size:33 final size:33
Alignment explanation
Indices: 1061212--1061307 Score: 131
Period size: 33 Copynumber: 2.8 Consensus size: 33
1061202 TTTAGTTTCG
*
1061212 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTATCA-TTTCGCATTGCGATTCTCT
*
1061246 CGTTGCGATTATCATTTCGTATTGCGATTCTCT
1 CGTTGCGATTATCATTTCGCATTGCGATTCTCT
*
1061279 CGTTGCGA-TAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTA-TCATTT-CGCATTGCGAT
1061308 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
32 2 0.04
33 32 0.57
34 22 0.39
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTATCATTTCGCATTGCGATTCTCT
Found at i:1061432 original size:14 final size:14
Alignment explanation
Indices: 1061413--1061449 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1061403 CATCAATTAA
1061413 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1061427 ACAAATCATCTTTT
1 ACAAATCAACATTT
1061441 ACAAATCAA
1 ACAAATCAA
1061450 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1062919 original size:21 final size:21
Alignment explanation
Indices: 1062834--1062920 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
1062824 GAATGTTGGG
* * *
1062834 AGGGACCTCTTCAACGATGAC
1 AGGGGCCTCTTGAACGATGAT
* * **
1062855 AGTGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTGAACGATGAT
* **
1062876 AGGGGACTCTTGAGGGATGAT
1 AGGGGCCTCTTGAACGATGAT
*
1062897 AGGGGCCTCTTGAACGATAAT
1 AGGGGCCTCTTGAACGATGAT
1062918 AGG
1 AGG
1062921 TGAGTCGGGC
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAT
Found at i:1063501 original size:20 final size:20
Alignment explanation
Indices: 1063400--1063486 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
1063390 GAAACTTAAA
1063400 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
1063420 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
1063440 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * **
1063460 ATCACAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1063480 ATCGCAA
1 ATCGCAA
1063487 TGTGAATTTG
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1064407 original size:64 final size:65
Alignment explanation
Indices: 1064291--1064451 Score: 150
Period size: 64 Copynumber: 2.5 Consensus size: 65
1064281 TTGTATGAAT
** ** * *
1064291 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAAAATAAAAACATCAAATGCAATTG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCTCCATCAAAATAAAAACATCAAATACAATTG
** * **
1064355 GTGCATCGATGCATAAGTAGTGCATCGATGCATC-CCATCAATAAT-ACTACATCGAATACCTTT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCTCCATCAA-AATAAAAACATCAAATACAATT
*
1064418 T
65 G
* *
1064419 ATGCA-CTGATGCATCAGTAGTGCATCGATGCAT
1 GTGCATC-GATGCATAAGTAGTGCATCGATGCAT
1064452 ACCTTCATTA
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
63 1 0.01
64 75 0.94
65 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATCTCCATCAAAATAAAAACATCAAATACAATTG
Found at i:1064777 original size:12 final size:12
Alignment explanation
Indices: 1064759--1064794 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1064749 TATATATGTT
1064759 CATGTGATATGA
1 CATGTGATATGA
*
1064771 TATGTGATATGA
1 CATGTGATATGA
*
1064783 CCTGTGATATGA
1 CATGTGATATGA
1064795 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:1064959 original size:15 final size:15
Alignment explanation
Indices: 1064939--1064996 Score: 116
Period size: 15 Copynumber: 3.9 Consensus size: 15
1064929 GAGGATATAA
1064939 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
1064954 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
1064969 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
1064984 TAGTCCTTCGGGA
1 TAGTCCTTCGGGA
1064997 TGTAAGAGTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.14, C:0.26, G:0.33, T:0.28
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:1071658 original size:12 final size:13
Alignment explanation
Indices: 1071641--1071675 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
1071631 ATATATGTTC
1071641 ATGTGATATGA-T
1 ATGTGATATGACT
1071653 ATGTGATATGACT
1 ATGTGATATGACT
1071666 -TGTGATATGA
1 ATGTGATATGA
1071676 GAACATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 21 0.95
13 1 0.05
ACGTcount: A:0.31, C:0.03, G:0.26, T:0.40
Consensus pattern (13 bp):
ATGTGATATGACT
Found at i:1072562 original size:34 final size:34
Alignment explanation
Indices: 1072521--1072676 Score: 127
Period size: 34 Copynumber: 4.4 Consensus size: 34
1072511 TGCGATTTTC
1072521 ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
1 ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
*
1072555 AATTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCA
1 ATTTCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCA
* * * * * * **
1072595 TTTTCGCGTTGCTATT-TTGTTGTTGTGAT-TTTT
1 ATTTCGCATTGCGATTCTT-TCGTTGCGATAGTCA
*
1072628 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
* *
1072662 TTTTCGCGTTGCGAT
1 ATTTCGCATTGCGAT
1072677 AGTCATTTTC
Statistics
Matches: 92, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
33 22 0.24
34 35 0.38
35 2 0.02
36 4 0.04
38 6 0.07
40 23 0.25
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (34 bp):
ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
Found at i:1072595 original size:20 final size:20
Alignment explanation
Indices: 1072543--1072699 Score: 117
Period size: 20 Copynumber: 8.5 Consensus size: 20
1072533 GATTCTTTCG
**
1072543 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
1072563 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1072583 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
1072603 TTGC--TA-T--TTTGTTG--
1 TTGCGATAGTCATTT-TCGCA
* ** *
1072617 TTGTGATTTTTA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1072636 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
1072650 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
1072670 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
1072690 TTGCGATAGT
1 TTGCGATAGT
1072700 AAACTATTCT
Statistics
Matches: 111, Mismatches: 12, Indels: 28
0.74 0.08 0.19
Matches are distributed among these distances:
14 10 0.09
15 3 0.03
16 9 0.08
17 5 0.05
18 8 0.07
19 6 0.05
20 70 0.63
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1074603 original size:20 final size:20
Alignment explanation
Indices: 1074557--1074646 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
1074547 TCTGAAACTT
*
1074557 AAAATCACAACACGAAAATG
1 AAAATCGCAACACGAAAATG
1074577 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
1074597 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** *
1074617 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
1074636 AAAATCGCAAC
1 AAAATCGCAAC
1074647 GACAGAATCG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
19 12 0.20
20 48 0.80
ACGTcount: A:0.47, C:0.23, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:1075047 original size:22 final size:22
Alignment explanation
Indices: 1074985--1075050 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
1074975 TGACCGTGAT
* *
1074985 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
1075007 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1075029 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1075051 GGATGTCGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:1075291 original size:20 final size:20
Alignment explanation
Indices: 1075266--1075332 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
1075256 GCATTGCGAT
1075266 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
* ** *
1075286 TTGCGATTTTCCAAATTCGCG
1 TTGCGATTTACGTAA-TCGCA
*
1075307 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCA
1075327 TTGCGA
1 TTGCGA
1075333 ATTAGGAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACGTAATCGCA
Found at i:1075353 original size:21 final size:21
Alignment explanation
Indices: 1075329--1075374 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1075319 TATTCGCATT
1075329 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
1075350 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
1075371 GCGA
1 GCGA
1075375 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:1081477 original size:30 final size:30
Alignment explanation
Indices: 1081432--1081494 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
1081422 GTTATAATTA
* *
1081432 ATTCATATTTTAACTTAGAACATATATTT-T
1 ATTCATATCTTAACTTA-AAAATATATTTCT
*
1081462 ATTCTTATCTTAACTTAAAAATATATTTCT
1 ATTCATATCTTAACTTAAAAATATATTTCT
1081492 ATT
1 ATT
1081495 TTAACTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTCATATCTTAACTTAAAAATATATTTCT
Found at i:1081488 original size:24 final size:23
Alignment explanation
Indices: 1081461--1081648 Score: 110
Period size: 24 Copynumber: 7.5 Consensus size: 23
1081451 ACATATATTT
*
1081461 TATTCTTATCTTAACTTAAAAATA
1 TATT-TTATTTTAACTTAAAAATA
1081485 TATTTCTATTTTAAC-TAAAAATA
1 TATTT-TATTTTAACTTAAAAATA
* *
1081508 TATTTAATAATTTAAGTTAAGAATATAA
1 TATTT--TATTTTAACTTAA-AA-AT-A
** * * *
1081536 TATATTTAATAATAAGTTATAATTA
1 TAT-TTT-ATTTTAACTTAAAAATA
*
1081561 -ATTCATATTTTAACTTAGAACATATA
1 TATT-TTATTTTAACTTA-AA-A-ATA
*
1081587 TTTTATTCTTATCTTAACTTAAAAATA
1 ---TATT-TTATTTTAACTTAAAAATA
1081614 TATTTCTATTTTAACTTAAAAATA
1 TATTT-TATTTTAACTTAAAAATA
1081638 TATTTTATTTT
1 TATTTTATTTT
1081649 TATCTTAACT
Statistics
Matches: 129, Mismatches: 18, Indels: 35
0.71 0.10 0.19
Matches are distributed among these distances:
23 30 0.23
24 49 0.38
25 5 0.04
26 5 0.04
27 8 0.06
28 13 0.10
29 4 0.03
30 15 0.12
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (23 bp):
TATTTTATTTTAACTTAAAAATA
Found at i:1081610 original size:129 final size:130
Alignment explanation
Indices: 1081376--1081642 Score: 520
Period size: 129 Copynumber: 2.1 Consensus size: 130
1081366 CCTTAATTTT
1081376 AATA-ATTTAATAATTTAAGTTAAGAATATAATATATTTAATAATAAGTTATAATTAATTCATAT
1 AATATATTTAATAATTTAAGTTAAGAATATAATATATTTAATAATAAGTTATAATTAATTCATAT
1081440 TTTAACTTAGAACATATATTTTATTCTTATCTTAACTTAAAAATATATTTCTATTTTAAC-TAAA
66 TTTAACTTAGAACATATATTTTATTCTTATCTTAACTTAAAAATATATTTCTATTTTAACTTAAA
1081504 AATATATTTAATAATTTAAGTTAAGAATATAATATATTTAATAATAAGTTATAATTAATTCATAT
1 AATATATTTAATAATTTAAGTTAAGAATATAATATATTTAATAATAAGTTATAATTAATTCATAT
1081569 TTTAACTTAGAACATATATTTTATTCTTATCTTAACTTAAAAATATATTTCTATTTTAACTTAAA
66 TTTAACTTAGAACATATATTTTATTCTTATCTTAACTTAAAAATATATTTCTATTTTAACTTAAA
1081634 AATATATTT
1 AATATATTT
1081643 TATTTTTATC
Statistics
Matches: 137, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
128 4 0.03
129 120 0.88
130 13 0.09
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (130 bp):
AATATATTTAATAATTTAAGTTAAGAATATAATATATTTAATAATAAGTTATAATTAATTCATAT
TTTAACTTAGAACATATATTTTATTCTTATCTTAACTTAAAAATATATTTCTATTTTAACTTAAA
Found at i:1081649 original size:24 final size:24
Alignment explanation
Indices: 1081439--1081656 Score: 104
Period size: 24 Copynumber: 8.5 Consensus size: 24
1081429 TTAATTCATA
*
1081439 TTTTAACTTAGAACATATATTTTATTCT
1 TTTTAACTTA-AAAATATATTTTA---T
1081467 TATCTTAACTTAAAAATATATTTCTA-
1 T-T-TTAACTTAAAAATATATTT-TAT
*
1081493 TTTTAAC-TAAAAATATATTTAAT
1 TTTTAACTTAAAAATATATTTTAT
* * *
1081516 AATTTAAGTTAAGAATATAATATATTTAA
1 -TTTTAACTTAA-AA-AT-ATAT-TTTAT
** * * * *
1081545 TAATAAGTT-ATAAT-TAATTCAT
1 TTTTAACTTAAAAATATATTTTAT
*
1081567 ATTTTAACTTAGAACATATATTTTATTCT
1 -TTTTAACTTA-AAAATATATTTTA---T
1081596 TATCTTAACTTAAAAATATATTTCTA-
1 T-T-TTAACTTAAAAATATATTT-TAT
1081622 TTTTAACTTAAAAATATATTTTAT
1 TTTTAACTTAAAAATATATTTTAT
*
1081646 TTTTATCTTAA
1 TTTTAACTTAA
1081657 CTAAAAAAAA
Statistics
Matches: 147, Mismatches: 22, Indels: 46
0.68 0.10 0.21
Matches are distributed among these distances:
22 4 0.03
23 23 0.16
24 39 0.27
25 10 0.07
26 10 0.07
27 3 0.02
28 12 0.08
29 26 0.18
30 20 0.14
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTTAACTTAAAAATATATTTTAT
Found at i:1081702 original size:32 final size:31
Alignment explanation
Indices: 1081612--1081702 Score: 87
Period size: 32 Copynumber: 2.9 Consensus size: 31
1081602 AACTTAAAAA
* * *
1081612 TATATTTCTAT-TTTAACTTAAAAA-TATAT
1 TATATTTTTATCTTAAATTTAAAAATTATAT
* * **
1081641 TTTATTTTTATCTTAACTAAAAAAAATTATAT
1 TATATTTTTATCTTAAAT-TTAAAAATTATAT
1081673 TATATTTTTATCTTAAATTTAAAATATTAT
1 TATATTTTTATCTTAAATTTAAAA-ATTAT
1081703 CATAATAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
29 9 0.19
30 3 0.06
31 9 0.19
32 26 0.55
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (31 bp):
TATATTTTTATCTTAAATTTAAAAATTATAT
Found at i:1081740 original size:30 final size:30
Alignment explanation
Indices: 1081706--1081881 Score: 171
Period size: 30 Copynumber: 5.9 Consensus size: 30
1081696 ATATTATCAT
* *
1081706 AATAAAATATAAATATTAAGTTAAGATAAG
1 AATAAAATATAATTTTTAAGTTAAGATAAG
* * *
1081736 AATAAATTATATTTTTTAATTTAAGATAAAG
1 AATAAAATATAATTTTTAAGTTAAGAT-AAG
** *
1081767 GCTAAAATAT-ATTTTTAAGTTAAAATAAG
1 AATAAAATATAATTTTTAAGTTAAGATAAG
* * *
1081796 AATACAATAT-ATTTTTAGGTTAAGACAAG
1 AATAAAATATAATTTTTAAGTTAAGATAAG
* * *
1081825 AATAAAATAT-ATTTAATAAGTTAATATAAA
1 AATAAAATATAATTT-TTAAGTTAAGATAAG
1081855 AATAAAATAT-ATTTTTAATGTTAAGAT
1 AATAAAATATAATTTTTAA-GTTAAGAT
1081882 GTAAAATTAA
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
29 42 0.36
30 66 0.56
31 10 0.08
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (30 bp):
AATAAAATATAATTTTTAAGTTAAGATAAG
Found at i:1081919 original size:18 final size:18
Alignment explanation
Indices: 1081868--1081920 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
1081858 AAAATATATT
1081868 TTTAATGTTAAGATGTAAA
1 TTTAA-GTTAAGATGTAAA
* * ** *
1081887 ATTAATTTATTATGTGAA
1 TTTAAGTTAAGATGTAAA
1081905 TTTAAGTTAAGATGTA
1 TTTAAGTTAAGATGTA
1081921 TAAAATATTA
Statistics
Matches: 24, Mismatches: 10, Indels: 1
0.69 0.29 0.03
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (18 bp):
TTTAAGTTAAGATGTAAA
Found at i:1082377 original size:16 final size:16
Alignment explanation
Indices: 1082356--1082401 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
1082346 AATATTGAAA
1082356 CTTGAACTCAAAAAGG
1 CTTGAACTCAAAAAGG
1082372 CTTGAACTCAAAAAGG
1 CTTGAACTCAAAAAGG
1082388 CTTGAACTCAAAAA
1 CTTGAACTCAAAAA
1082402 AAAATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (16 bp):
CTTGAACTCAAAAAGG
Found at i:1084920 original size:16 final size:16
Alignment explanation
Indices: 1084899--1084929 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1084889 ATAAATTAAA
*
1084899 TTAATGATTTTCATTG
1 TTAATGATGTTCATTG
1084915 TTAATGATGTTCATT
1 TTAATGATGTTCATT
1084930 AGTACTCGTC
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:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (16 bp):
TTAATGATGTTCATTG
Found at i:1086059 original size:16 final size:19
Alignment explanation
Indices: 1086018--1086066 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
1086008 AACCAATAAG
*
1086018 GTAATATAATATTTTCATA
1 GTAATATTATATTTTCATA
*
1086037 GTAATATTATATTTTAATA
1 GTAATATTATATTTTCATA
* *
1086056 ATATTATTATA
1 GTAATATTATA
1086067 AAATATAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (19 bp):
GTAATATTATATTTTCATA
Found at i:1086280 original size:21 final size:20
Alignment explanation
Indices: 1086194--1086351 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
1086184 AAATGACCAA
**
1086194 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1086213 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1086233 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1086253 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1086274 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* * **
1086295 CAAATTTGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1086315 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1086336 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1086352 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 41 0.40
21 45 0.44
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1086380 original size:20 final size:20
Alignment explanation
Indices: 1086318--1086511 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
1086308 CGATTTTCCA
* ** *
1086318 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1086338 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1086358 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1086378 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1086398 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1086418 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
1086438 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTATCCGT
* * *
1086458 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
1086478 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
1086499 AAATCGCAACGCG
1 AAATCGCAACGCG
1086512 ATATTTAAAG
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1086402 original size:60 final size:60
Alignment explanation
Indices: 1086318--1086511 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
1086308 CGATTTTCCA
* ** * *
1086318 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
1086378 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * **
1086438 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
1086499 AAATCGCAACGCG
1 AAATCGCAACGCG
1086512 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:1086933 original size:33 final size:33
Alignment explanation
Indices: 1086894--1086964 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1086884 TTCACTTAGA
*
1086894 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1086927 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1086960 TTTCA
1 TTTCA
1086965 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1087070 original size:21 final size:21
Alignment explanation
Indices: 1087044--1087133 Score: 114
Period size: 21 Copynumber: 4.4 Consensus size: 21
1087034 TGCAGAAGAG
1087044 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGATAAATGAAAA
* **
1087065 TCGCAACGAGA-GAATGACTA
1 TCGCAACGAGATAAATGAAAA
*
1087085 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGATAAATGAAAA
*
1087106 TCGCAACGCGAT--ATGAAAA
1 TCGCAACGAGATAAATGAAAA
1087125 TCGCAACGA
1 TCGCAACGA
1087134 CAGAATCGCA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.25
20 17 0.29
21 27 0.46
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (21 bp):
TCGCAACGAGATAAATGAAAA
Found at i:1087180 original size:19 final size:19
Alignment explanation
Indices: 1087158--1087241 Score: 88
Period size: 19 Copynumber: 4.7 Consensus size: 19
1087148 GAAACCAAAA
*
1087158 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1087177 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
1087191 TCTCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1087210 TCGCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
1087229 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1087242 CTCTCGTTGC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.19
16 2 0.04
17 3 0.06
19 38 0.72
ACGTcount: A:0.10, C:0.21, G:0.25, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1087241 original size:52 final size:52
Alignment explanation
Indices: 1087158--1087257 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
1087148 GAAACCAAAA
*
1087158 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTGGTT
1 TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTGGTT
*
1087210 TCGCGTTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTT
1 TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTT
1087258 CATTTCAACC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.24, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTGGTT
Found at i:1088785 original size:12 final size:12
Alignment explanation
Indices: 1088768--1088792 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1088758 TCTTCGGGGA
1088768 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1088780 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1088792 C
1 C
1088793 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1089724 original size:20 final size:20
Alignment explanation
Indices: 1089696--1089925 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 20
1089686 AAATTTTAGT
* * *
1089696 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1089716 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1089736 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1089756 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1089776 GTTGCGATTTACAGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1089796 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
1089816 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
1089836 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1089856 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1089876 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1089896 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1089916 GTTGCGATTT
1 GTTGCGATTT
1089926 TGGAAAATCG
Statistics
Matches: 180, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 179 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1089756 original size:40 final size:40
Alignment explanation
Indices: 1089696--1089925 Score: 252
Period size: 40 Copynumber: 5.8 Consensus size: 40
1089686 AAATTTTAGT
* * *
1089696 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTATC
* *
1089736 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTATC
*
1089776 GTTGCGATTTACAGATACGCGTTGCGATATACGGA-TA-C
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTATC
** *
1089814 GCATTGCGATTTACCCATACGCGTTGCGATTTACGGA-TACAC
1 G--TTGCGATTTACAGATACGCGTTGCGATTTACGGATTA-TC
* * **
1089856 GTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACG-GATTATC
* * *
1089896 GTTGCGATTTTCATATTCGCGTTGCGATTT
1 GTTGCGATTTACAGATACGCGTTGCGATTT
1089926 TGGAAAATCG
Statistics
Matches: 168, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 160 0.95
41 2 0.01
42 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (40 bp):
GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTATC
Found at i:1089942 original size:21 final size:21
Alignment explanation
Indices: 1089912--1089994 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1089902 ATTTTCATAT
*
1089912 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1089933 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1089954 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1089975 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1089995 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1089985 original size:42 final size:43
Alignment explanation
Indices: 1089892--1089990 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1089882 ATTTATGTGT
* *
1089892 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
1089933 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
1089975 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1089991 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:1090508 original size:2 final size:2
Alignment explanation
Indices: 1090501--1090537 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1090491 GAGACCGTTG
*
1090501 CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1090538 ATGTTTTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:1096385 original size:26 final size:25
Alignment explanation
Indices: 1096347--1096396 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
1096337 AAATAATCTA
*
1096347 ATATAATATACACTTACATAAAAAT
1 ATATAATAGACACTTACATAAAAAT
1096372 ATATGAATAGACACTTACATAAAAA
1 ATAT-AATAGACACTTACATAAAAA
1096397 ATAACAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (25 bp):
ATATAATAGACACTTACATAAAAAT
Found at i:1101614 original size:17 final size:15
Alignment explanation
Indices: 1101592--1101634 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
1101582 CTAAAAATAA
1101592 TTAAAATATATATAATT
1 TTAAAATATAT-T-ATT
1101609 TTAAAATAT-TTATT
1 TTAAAATATATTATT
1101623 TTAAAA-ATATTA
1 TTAAAATATATTA
1101635 GAAAATGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 12 0.48
15 1 0.04
16 1 0.04
17 9 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAAAATATATTATT
Found at i:1101633 original size:15 final size:15
Alignment explanation
Indices: 1101592--1101634 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
1101582 CTAAAAATAA
1101592 TTAAAATATATATAATT
1 TTAAAA-ATAT-TAATT
*
1101609 TT-AAAATATTTATT
1 TTAAAAATATTAATT
1101623 TTAAAAATATTA
1 TTAAAAATATTA
1101635 GAAAATGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.26
15 12 0.52
16 3 0.13
17 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAAAAATATTAATT
Found at i:1103206 original size:3 final size:3
Alignment explanation
Indices: 1103198--1103249 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
1103188 ATTAATTTAT
1103198 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
1103244 TAA TAA
1 TAA TAA
1103250 AAGTAAACTG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1103426 original size:45 final size:45
Alignment explanation
Indices: 1103375--1104270 Score: 1486
Period size: 45 Copynumber: 19.8 Consensus size: 45
1103365 GATGGAAGTG
1103375 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1103420 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* *
1103465 TTGAAAACATCATGCACTGAAGGACTTACAGATGACTCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* * *
1103510 TTGAAAACATCATGCCCTGAAGGGATTACAGATGGCCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
**
1103555 TTGAAAACATCATGCACTGAATAGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
1103600 TTGAAAAAATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1103645 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
* *
1103691 TTGAAAACATCATGCACTGAAGGGCTTACAGATAACTCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
* *
1103737 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAATGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1103782 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
*
1103828 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
1103873 TTGAAAACATCATTCACTGAAGGGCTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
* *
1103919 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAATGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
1103964 TTGAAAACATCATGAACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
1104009 TTGAAAACATCATGCACTGAAGGGCTTACAGATGGCCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
*
1104055 TTGATAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
*
1104101 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* *
1104146 TTGAAAACATCATGCACTGAAGGGCTTATAGATGACCTGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
* *
1104192 TTGAAAACATCATGCACTGAAGGACTTACAGATAACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* * *
1104237 TTGAAAAGATCATGCACTGAAGGACTTATAGATG
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATG
1104271 TGGGAAATAG
Statistics
Matches: 797, Mismatches: 49, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
45 498 0.62
46 299 0.38
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (45 bp):
TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
Found at i:1103784 original size:91 final size:91
Alignment explanation
Indices: 1103375--1104270 Score: 1523
Period size: 91 Copynumber: 9.9 Consensus size: 91
1103365 GATGGAAGTG
*
1103375 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGA
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGA
1103440 AGGGCTTACAGATGACCCGAAGG-TT
66 AGGGCTTACAGATGACCCGAAGGTTT
* *
1103465 TTGAAAACATCATGCACTGAAGGACTTACAGATGACTCGAAGGTTTTGAAAACATCATGCCCTGA
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGA
* *
1103530 AGGGATTACAGATGGCCCGAAGG-TT
66 AGGGCTTACAGATGACCCGAAGGTTT
* *
1103555 TTGAAAACATCATGCACTGAA-TAGCTTACAGATGACCCGAAGGTTTTGAAAAAATCATGCACTG
1 TTGAAAACATCATGCACTGAAGGA-CTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1103619 AAGGGCTTACAGATGACCCGAAGG-TT
65 AAGGGCTTACAGATGACCCGAAGGTTT
*
1103645 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTG
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAAACATCATGCACTG
* *
1103710 AAGGGCTTACAGATAACTCGAAGGTTT
65 AAGGGCTTACAGATGACCCGAAGGTTT
*
1103737 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAATGTTTTGAAAACATCATGCACTGA
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGA
1103802 AGGGCTTACAGATGACCCGAAGGTTT
66 AGGGCTTACAGATGACCCGAAGGTTT
*
1103828 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATTCACTGA
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGA
1103893 AGGGCTTACAGATGACCCGAAGGTTT
66 AGGGCTTACAGATGACCCGAAGGTTT
* *
1103919 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAATGTTTTGAAAACATCATGAACTGA
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGA
1103984 AGGGCTTACAGATGACCCGAAGG-TT
66 AGGGCTTACAGATGACCCGAAGGTTT
* * *
1104009 TTGAAAACATCATGCACTGAAGGGCTTACAGATGGCCCGAAGGTTTTTGATAACATCATGCACTG
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAAACATCATGCACTG
1104074 AAGGGCTTACAGATGACCCGAAGGTTT
65 AAGGGCTTACAGATGACCCGAAGGTTT
1104101 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGA
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGA
* *
1104166 AGGGCTTATAGATGACCTGAAGGTTT
66 AGGGCTTACAGATGACCCGAAGGTTT
* *
1104192 TTGAAAACATCATGCACTGAAGGACTTACAGATAACCCGAAGGTTTTGAAAAGATCATGCACTGA
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGA
* *
1104257 AGGACTTATAGATG
66 AGGGCTTACAGATG
1104271 TGGGAAATAG
Statistics
Matches: 762, Mismatches: 38, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
89 1 0.00
90 249 0.33
91 426 0.56
92 86 0.11
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (91 bp):
TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGA
AGGGCTTACAGATGACCCGAAGGTTT
Done.