Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 125 of 427
Found at i:33078480 original size:38 final size:38
Alignment explanation
Indices: 33078408--33078508 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 38
33078398 ATTTGATGTG
* * *
33078408 TATCCGGGCTTAAAGACCCGCAGACATCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCATCGGGCTGGTAAAA
* **
33078448 TATCCGGGTTAAATCCCGCAGGCTTCGGGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCATCGGGCTGGTAAAA
** *
33078486 TATCAAGGATAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
33078509 CTAGTGCTGG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 39 0.75
39 5 0.10
40 8 0.15
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCATCGGGCTGGTAAAA
Found at i:33078991 original size:43 final size:43
Alignment explanation
Indices: 33078524--33078978 Score: 822
Period size: 43 Copynumber: 10.6 Consensus size: 43
33078514 GCTGGTATTA
*
33078524 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
33078567 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
33078610 TATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
33078653 TATTCGGGCCTTCGTGCCTCGCAGGCTTCGTGCCGGCGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
33078696 TATT-GGGCCTTCGTGCCTAGCAGGCTTCATGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
33078738 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
33078781 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
33078824 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
33078867 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
33078910 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
33078953 TATTTGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
33078979 GTAATGCCGG
Statistics
Matches: 395, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
42 38 0.10
43 357 0.90
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:33080586 original size:8 final size:8
Alignment explanation
Indices: 33080573--33080598 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
33080563 ATTTGTGGTA
33080573 AATTTGTG
1 AATTTGTG
33080581 AATTTGTG
1 AATTTGTG
33080589 AATTTGTG
1 AATTTGTG
33080597 AA
1 AA
33080599 AATGTGGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (8 bp):
AATTTGTG
Found at i:33081059 original size:16 final size:16
Alignment explanation
Indices: 33081038--33081093 Score: 103
Period size: 16 Copynumber: 3.5 Consensus size: 16
33081028 TGTTTGGTTG
33081038 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
33081054 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
33081070 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
33081086 GCTGTAAT
1 GCTGTAAT
33081094 AAGTAATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:33081128 original size:46 final size:44
Alignment explanation
Indices: 33081075--33081168 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
33081065 ATAGAGCTGT
*
33081075 AATGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTGTTTGGTTGAATGG
****
33081121 AATGGAATAGAACTGTAATAGTATTTTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGG
33081165 AATG
1 AATG
33081169 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 22 0.51
45 3 0.07
46 18 0.42
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGG
Found at i:33085139 original size:25 final size:25
Alignment explanation
Indices: 33085111--33085249 Score: 154
Period size: 25 Copynumber: 5.6 Consensus size: 25
33085101 TTACTGATAC
* *
33085111 TCAGCTCGTATGAGCTTACCGTTAT
1 TCAGCTCGTAGGAGCTTACCATTAT
* *
33085136 TCAGCTTGAAGGAGCTTACCATTAT
1 TCAGCTCGTAGGAGCTTACCATTAT
* *
33085161 TCAGCTTGAAGGAGCTTACCATTAT
1 TCAGCTCGTAGGAGCTTACCATTAT
* *
33085186 TCAGCTCGGAGGAGCTTACCGTTAT
1 TCAGCTCGTAGGAGCTTACCATTAT
* * *
33085211 TCAGCTTGGAAGAGCTTACCATT-T
1 TCAGCTCGTAGGAGCTTACCATTAT
* *
33085235 ACAGCTCGTATGAGC
1 TCAGCTCGTAGGAGC
33085250 ATCCATGTAC
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
24 12 0.12
25 88 0.88
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (25 bp):
TCAGCTCGTAGGAGCTTACCATTAT
Found at i:33087170 original size:28 final size:28
Alignment explanation
Indices: 33087079--33087212 Score: 168
Period size: 28 Copynumber: 4.9 Consensus size: 28
33087069 AATTTTGGGT
* *
33087079 CAAAATTGTAAAATCTAAAAAAT-AGGG
1 CAAAATTGTAAAATCTGAAAAATAATGG
* *
33087106 GAAAACTGTAAAATCT-AAAAATAATGG
1 CAAAATTGTAAAATCTGAAAAATAATGG
* *
33087133 -AAAAGTTGTAAAATCTGAAAAGTAGTGG
1 CAAAA-TTGTAAAATCTGAAAAATAATGG
33087161 CAAAATTGTAAAATCTGAAAAATAATGG
1 CAAAATTGTAAAATCTGAAAAATAATGG
33087189 CAAAATTGTAAAATCT-AACAAATA
1 CAAAATTGTAAAATCTGAA-AAATA
33087213 GTGGACACAC
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
26 10 0.11
27 29 0.31
28 51 0.54
29 4 0.04
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (28 bp):
CAAAATTGTAAAATCTGAAAAATAATGG
Found at i:33087188 original size:56 final size:54
Alignment explanation
Indices: 33087079--33087213 Score: 191
Period size: 56 Copynumber: 2.5 Consensus size: 54
33087069 AATTTTGGGT
*
33087079 CAAAATTGTAAAATCTAAAAAATAGGGGAAAACTGTAAAATCTAAAAATAATGG
1 CAAAATTGTAAAATCTAAAAAATAGGGCAAAACTGTAAAATCTAAAAATAATGG
* * *
33087133 -AAAAGTTGTAAAATCTGAAAAGTAGTGGCAAAATTGTAAAATCTGAAAAATAATGG
1 CAAAA-TTGTAAAATCTAAAAAATAG-GGCAAAACTGTAAAATCT-AAAAATAATGG
*
33087189 CAAAATTGTAAAATCTAACAAATAG
1 CAAAATTGTAAAATCTAAAAAATAG
33087214 TGGACACACG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
53 4 0.06
54 18 0.26
55 16 0.23
56 28 0.40
57 4 0.06
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.24
Consensus pattern (54 bp):
CAAAATTGTAAAATCTAAAAAATAGGGCAAAACTGTAAAATCTAAAAATAATGG
Found at i:33091327 original size:40 final size:40
Alignment explanation
Indices: 33091283--33091394 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
33091273 ATCACGATTT
* * *
33091283 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACT-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAAAT-CTCA
* *
33091323 GCACAATTGCCTTCGGGTCTTAACCCGGATATAAATTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAAATCTCA
* * *
33091363 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
33091395 CATTCAATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.02
40 61 0.98
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAAATCTCA
Found at i:33094818 original size:50 final size:48
Alignment explanation
Indices: 33094743--33095065 Score: 233
Period size: 50 Copynumber: 6.8 Consensus size: 48
33094733 TGGGGTAAAT
* *
33094743 TGCCGATGTCATGTCCCAAACATGGTCTTACACTAGCTCTCGCATATCTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-CATATC-G
* * *
33094793 TGCCGATGCCATGTCCCAGACATGGTCTTACGCTAGCTCTTACATATCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCCATAT-CG
* ** * *
33094843 TGCTGATGCCATAACCTAGACATGGTCTTACACTGACGC-CACTCATA--G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-A-GCTCTC-CATATCG
* * * * *
33094891 T--CGAT-CCATGTCCCAAACAT-GTCTTACACTGGCT-TACGTTTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCATATCG
* * * * *
33094934 AGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCACT-CATCTCAA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCATATC-G
* * *
33094981 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAACA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCATATCG
* *
33095028 TGGCCAATG-CATGTCCCAGATAT-GTCTTACACTAGCTC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
33095066 ACACCAGTGA
Statistics
Matches: 218, Mismatches: 38, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 1 0.00
44 10 0.05
45 11 0.05
46 58 0.27
47 29 0.13
48 25 0.11
50 70 0.32
51 8 0.04
52 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCATATCG
Found at i:33094953 original size:46 final size:45
Alignment explanation
Indices: 33094892--33095060 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 45
33094882 CACTCATAGT
* * * *
33094892 CGATCCATGTCCCAAACATGTCTTACACTGGCTTACGTTTCGAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTT-CATCTCAAGGC
* * *
33094938 CGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTCAATGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGC-TTCATCTCAAGGC
* ** *
33094984 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATGGC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TCATCTCAAGGC
* * *
33095032 CAATGCATGTCCCAGATATGTCTTACACT
1 CGATGCATGTCCCAAACATGTCTTACACT
33095061 AGCTCACACC
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
46 52 0.50
47 27 0.26
48 24 0.23
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTTCATCTCAAGGC
Found at i:33095038 original size:94 final size:95
Alignment explanation
Indices: 33094744--33095063 Score: 284
Period size: 94 Copynumber: 3.4 Consensus size: 95
33094734 GGGGTAAATT
* * *
33094744 GCCGATGTCATGTCCCAAACATGGTCTTACACTAGCTCTCGCATATCTGTGCCGATGCCATGTCC
1 GCCGATG-CATGTCCCAAACATGGTCTTACACTAGCACT--CATCTC-ATGCCGATGCCATGTCC
* * *
33094809 CAGACATGGTCTTACGCTAGCTCTTACATATCCAT-
62 CAGACATGGTCTTACACTGGCTC-TACATA-ACATG
* ** * * * *
33094844 GCTGATGCCATAACCTAGACATGGTCTTACACT-G-ACGCCA-CTCATAGTCGAT-CCATGTCCC
1 GCCGATG-CATGTCCCAAACATGGTCTTACACTAGCAC-TCATCTCAT-GCCGATGCCATGTCCC
* * **
33094905 AAACAT-GTCTTACACTGGCT-TACGTTTCGA-G
63 AGACATGGTCTTACACTGGCTCTACATAAC-ATG
33094936 GCCGATGCATGTCCCAAACAT-GTCTTACACTAGCACTCATCTCAATGCCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAAACATGGTCTTACACTAGCACTCATCTC-ATGCCGATGCCATGTCCCAG
33095000 ACATGGTCTTACACTGGCTCT-CATAACATG
65 ACATGGTCTTACACTGGCTCTACATAACATG
* * *
33095030 GCCAATGCATGTCCCAGATAT-GTCTTACACTAGC
1 GCCGATGCATGTCCCAAACATGGTCTTACACTAGC
33095064 TCACACCAGT
Statistics
Matches: 177, Mismatches: 31, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
90 10 0.06
91 14 0.08
92 21 0.12
93 17 0.10
94 61 0.34
95 16 0.09
96 7 0.04
97 2 0.01
98 1 0.01
99 1 0.01
100 27 0.15
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (95 bp):
GCCGATGCATGTCCCAAACATGGTCTTACACTAGCACTCATCTCATGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCTCTACATAACATG
Found at i:33095082 original size:46 final size:44
Alignment explanation
Indices: 33094793--33095071 Score: 118
Period size: 46 Copynumber: 6.0 Consensus size: 44
33094783 CGCATATCTG
* *
33094793 TGCCGATGCCATGTCCCAGACATGGTCTTACGCTAGCTCTTACATATCCA
1 TGCCAATGCCATGTCCCAGACAT-GTCTTACACTAGCTC--AC--A-CCA
** ** * *
33094843 TGCTGATGCCATAACCTAGACATGGTCTTACACTGACGC-CAC-TCA
1 TGCCAATGCCATGTCCCAGACAT-GTCTTACACT-A-GCTCACACCA
* * * * * * *
33094888 TAGTCGAT-CCATGTCCCAAACATGTCTTACACTGGCTTACGTTTCGA
1 T-GCCAATGCCATGTCCCAGACATGTCTTACACTAGCTCAC---ACCA
* * * * *
33094935 GGCCGATG-CATGTCCCAAACATGTCTTACACTAGCACTCATCTCAA
1 TGCCAATGCCATGTCCCAGACATGTCTTACACTAG--CTCA-CACCA
* * * *
33094981 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACA
1 TGCCAATGCCATGTCCCAGACAT-GTCTTACACTAG--CTCACACCA
*
33095028 TGGCCAATG-CATGTCCCAGATATGTCTTACACTAGCTCACACCA
1 T-GCCAATGCCATGTCCCAGACATGTCTTACACTAGCTCACACCA
33095072 GTGACCCAAT
Statistics
Matches: 180, Mismatches: 34, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 17 0.09
45 14 0.08
46 55 0.31
47 29 0.16
48 25 0.14
49 3 0.02
50 29 0.16
51 2 0.01
52 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (44 bp):
TGCCAATGCCATGTCCCAGACATGTCTTACACTAGCTCACACCA
Found at i:33097905 original size:18 final size:18
Alignment explanation
Indices: 33097882--33097916 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33097872 TCCTGGGTGG
33097882 TAATCCATTACCAACTCA
1 TAATCCATTACCAACTCA
* *
33097900 TAATCCTTTATCAACTC
1 TAATCCATTACCAACTC
33097917 TAACCATCGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATCCATTACCAACTCA
Found at i:33102535 original size:50 final size:50
Alignment explanation
Indices: 33102460--33102573 Score: 192
Period size: 50 Copynumber: 2.3 Consensus size: 50
33102450 GGTAAATTGT
* ** *
33102460 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATTCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGCATACCCATGC
33102510 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGCATACCCATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGCATACCCATGC
33102560 CGATGCCATGTCCC
1 CGATGCCATGTCCC
33102574 TGCCGATTCC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGCATACCCATGC
Found at i:33102579 original size:17 final size:17
Alignment explanation
Indices: 33102557--33102592 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
33102547 CGCATACCCA
33102557 TGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCC
*
33102574 TGCCGATTCCATGTCCC
1 TGCCGATGCCATGTCCC
33102591 TG
1 TG
33102593 ACATGGTCTT
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:0.11, C:0.39, G:0.22, T:0.28
Consensus pattern (17 bp):
TGCCGATGCCATGTCCC
Found at i:33102615 original size:67 final size:67
Alignment explanation
Indices: 33102507--33102642 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 67
33102497 CGCATATTCG
33102507 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGCATACCCATGCCGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGCATACCCATGCCGATGCCATGTC
33102572 CC
66 CC
* *
33102574 TGCCGATTCCATGTCCCTGACATGGTCTTACACTAGCACTCGCATACCCATGCCGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGCATACCCATGCCGATGCCATGTC
33102639 CC
66 CC
33102641 TG
1 TG
33102643 ACATGGTCTT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (67 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGCATACCCATGCCGATGCCATGTC
CC
Found at i:33114902 original size:40 final size:40
Alignment explanation
Indices: 33114842--33115005 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
33114832 CGGGATTTAA
* ** *
33114842 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
33114882 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
33114922 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
33114962 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
33115002 CCGG
1 CCGG
33115006 TATCATTCAA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 100 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:33114989 original size:80 final size:80
Alignment explanation
Indices: 33114828--33115005 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
33114818 GAGTCACGTA
* * * * **
33114828 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
* *
33114892 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
33114907 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
33114971 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
33114987 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33115006 TATCATTCAA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 11 0.13
80 69 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:33123094 original size:38 final size:40
Alignment explanation
Indices: 33122938--33123099 Score: 175
Period size: 40 Copynumber: 4.1 Consensus size: 40
33122928 CGGGATTTAA
* * * *
33122938 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
33122978 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* *
33123018 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
33123058 CCGGATA-ATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
33123096 CCGG
1 CCGG
33123100 TATCATTCAA
Statistics
Matches: 102, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
38 28 0.27
39 2 0.02
40 72 0.71
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:33131813 original size:28 final size:28
Alignment explanation
Indices: 33131746--33131817 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
33131736 ATAGTGAATC
* * *
33131746 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAACT
33131775 CGCACACTTAGTGCTATAGA-ATCAAACT
1 CGCACACTTAGTGCTATAGATATC-AACT
33131803 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33131818 GTACAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.46
29 19 0.49
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAACT
Found at i:33134842 original size:41 final size:41
Alignment explanation
Indices: 33134770--33135030 Score: 391
Period size: 41 Copynumber: 6.4 Consensus size: 41
33134760 CGTTTTACCA
* *
33134770 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
* * ***
33134810 AAAACGCTGCTAAAAATAAGAGCAATAGCGGCG-TTTTACC
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
*
33134850 AAAAGCGCCGCTAAGAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAA-CGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
* * * *
33134892 AAAGCGCTGCTAGAAATCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
33134933 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
33134974 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
33135015 AAAACGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
33135031 GTTTAGGGTT
Statistics
Matches: 198, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
40 23 0.12
41 168 0.85
42 7 0.04
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
Found at i:33134914 original size:82 final size:81
Alignment explanation
Indices: 33134739--33135029 Score: 383
Period size: 82 Copynumber: 3.6 Consensus size: 81
33134729 CAAAAAATTG
*
33134739 TAAAACAT-AGAGCAATAGCGGCG-TTTTACCAAAAACGCCGCTAAAA-ACAGAGCAATAGCGGC
1 TAAAA-ATAAGAGCAATAGCGGCGCTTTTACC-AAAACGCCGCTAAAATA-AGAGCATTAGCGGC
33134801 GCTTTTGGTAAAACGCTGC
63 GCTTTTGGTAAAACGCTGC
33134820 TAAAAATAAGAGCAATAGCGGCG-TTTTACCAAAAGCGCCGCTAAGAATAAGAGCATTAGCGGCG
1 TAAAAATAAGAGCAATAGCGGCGCTTTTACCAAAA-CGCCGCTAA-AATAAGAGCATTAGCGGCG
*
33134884 CTTTTGGTAAAGCGCTGC
64 CTTTTGGTAAAACGCTGC
* * * ***
33134902 TAGAAATCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATAAGAGCATTAGCGGCGC
1 TAAAAATAAGAGCAATAGCGGCGCTTTTACCAAAACGCCGCT-AAAATAAGAGCATTAGCGGCGC
*
33134967 TTTTGGTAAAACGCCGC
65 TTTTGGTAAAACGCTGC
* ***
33134984 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 TAAAAATAAGAGCAATAGCGGCGCTTTTACCAAAACGCCGCTAAAA
33135030 AGTTTAGGGT
Statistics
Matches: 192, Mismatches: 12, Indels: 12
0.89 0.06 0.06
Matches are distributed among these distances:
80 6 0.03
81 40 0.21
82 135 0.70
83 11 0.06
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (81 bp):
TAAAAATAAGAGCAATAGCGGCGCTTTTACCAAAACGCCGCTAAAATAAGAGCATTAGCGGCGCT
TTTGGTAAAACGCTGC
Found at i:33135128 original size:21 final size:22
Alignment explanation
Indices: 33135104--33135147 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
33135094 GGTTTATGTA
*
33135104 TTATGGTTTAAGGGTT-GGGGT
1 TTATGATTTAAGGGTTAGGGGT
33135125 TTATGATTTAAGGGTTAGGGGT
1 TTATGATTTAAGGGTTAGGGGT
33135147 T
1 T
33135148 AGGGGTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (22 bp):
TTATGATTTAAGGGTTAGGGGT
Found at i:33135146 original size:7 final size:7
Alignment explanation
Indices: 33135136--33135162 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33135126 TATGATTTAA
33135136 GGGTTAG
1 GGGTTAG
33135143 GGGTTAG
1 GGGTTAG
33135150 GGGTTAG
1 GGGTTAG
33135157 GGGTTA
1 GGGTTA
33135163 ATACTTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.56, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:33135410 original size:21 final size:21
Alignment explanation
Indices: 33135384--33135427 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
33135374 TTATGGTTAG
* *
33135384 GGGATATAGTTTAGGGTTTAA
1 GGGATATACTTTAGGGATTAA
33135405 GGGATATACTTTAGGGATTAA
1 GGGATATACTTTAGGGATTAA
33135426 GG
1 GG
33135428 TTATAGGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.34, T:0.34
Consensus pattern (21 bp):
GGGATATACTTTAGGGATTAA
Found at i:33135755 original size:11 final size:11
Alignment explanation
Indices: 33135739--33135785 Score: 58
Period size: 11 Copynumber: 4.0 Consensus size: 11
33135729 AATTTCCCCG
33135739 ATTTCCCCCAA
1 ATTTCCCCCAA
33135750 ATTTCCCCCAA
1 ATTTCCCCCAA
*
33135761 CTTCTTCTCCCCAA
1 -AT-TTC-CCCCAA
33135775 ATTTCCCCCAA
1 ATTTCCCCCAA
33135786 CTTCTTCTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 17 0.55
12 4 0.13
13 4 0.13
14 6 0.19
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (11 bp):
ATTTCCCCCAA
Found at i:33135772 original size:25 final size:25
Alignment explanation
Indices: 33135744--33135800 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
33135734 CCCCGATTTC
33135744 CCCCAAATTTCCCCCAACTTCTTCT
1 CCCCAAATTTCCCCCAACTTCTTCT
33135769 CCCCAAATTTCCCCCAACTTCTTCT
1 CCCCAAATTTCCCCCAACTTCTTCT
33135794 CCCCAAA
1 CCCCAAA
33135801 AATTTTTACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.23, C:0.49, G:0.00, T:0.28
Consensus pattern (25 bp):
CCCCAAATTTCCCCCAACTTCTTCT
Found at i:33135774 original size:14 final size:14
Alignment explanation
Indices: 33135755--33135799 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
33135745 CCCAAATTTC
33135755 CCCCAACTTCTTCT
1 CCCCAACTTCTTCT
*
33135769 CCCCAA-AT-TTC-
1 CCCCAACTTCTTCT
33135780 CCCCAACTTCTTCT
1 CCCCAACTTCTTCT
33135794 CCCCAA
1 CCCCAA
33135800 AAATTTTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 6 0.23
12 4 0.15
13 4 0.15
14 12 0.46
ACGTcount: A:0.20, C:0.51, G:0.00, T:0.29
Consensus pattern (14 bp):
CCCCAACTTCTTCT
Found at i:33137985 original size:36 final size:36
Alignment explanation
Indices: 33137945--33138016 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
33137935 TCTAAATATG
33137945 GATGTCATTTCTATCCCTTTTTCTATATCTAAGAAA
1 GATGTCATTTCTATCCCTTTTTCTATATCTAAGAAA
33137981 GATGTCATTTCTATCCCTTTTTCTATATCTAAGAAA
1 GATGTCATTTCTATCCCTTTTTCTATATCTAAGAAA
33138017 ACTGACATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.44
Consensus pattern (36 bp):
GATGTCATTTCTATCCCTTTTTCTATATCTAAGAAA
Found at i:33138682 original size:14 final size:13
Alignment explanation
Indices: 33138659--33138688 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
33138649 ATTACTATAA
33138659 TAATTATATGAAG
1 TAATTATATGAAG
33138672 TAATATATATGAAG
1 TAAT-TATATGAAG
33138686 TAA
1 TAA
33138689 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:33139067 original size:183 final size:183
Alignment explanation
Indices: 33138759--33139127 Score: 666
Period size: 183 Copynumber: 2.0 Consensus size: 183
33138749 GATATAGTTC
* *
33138759 CATGTGTCTATATTAGTGAATTAATGTTGTATATGTTTCAGTTACTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTGCTTCCTACTCCTCCTGCA
* *
33138824 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAACTGCCATTTAATCTTCGAATTAATATTTGGTACTAATATAGATAAA
33138889 GTTTTCATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTCATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
* *
33138942 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTACTCCTCCTGCA
1 CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTGCTTCCTACTCCTCCTGCA
*
33139007 GCTATTGGTTCAACTGAAACTGCCATTTAATCTTCGAATTAATATTTGGTACTAATATAGATAAA
66 ACTATTGGTTCAACTGAAACTGCCATTTAATCTTCGAATTAATATTTGGTACTAATATAGATAAA
*
33139072 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTCATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
33139125 CAT
1 CAT
33139128 CTGTTCTAGG
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 178 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (183 bp):
CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTGCTTCCTACTCCTCCTGCA
ACTATTGGTTCAACTGAAACTGCCATTTAATCTTCGAATTAATATTTGGTACTAATATAGATAAA
GTTTTCATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
Found at i:33141182 original size:21 final size:21
Alignment explanation
Indices: 33141149--33141199 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
33141139 ACAACTTAGA
*
33141149 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
33141170 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
33141191 GCAGAGGCA
1 GCAGAGGCA
33141200 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:33141619 original size:43 final size:43
Alignment explanation
Indices: 33141595--33141858 Score: 384
Period size: 43 Copynumber: 6.1 Consensus size: 43
33141585 GTAAAAAAAG
* * *
33141595 CGCCGCTAAAAGCCTTGACCTTTAGCGGCACTTTTACCACAAA
1 CGCCGCTAAAAGCCTAGACCTTTAGCGGCGCTTTTCCCACAAA
*
33141638 CGCCGCTAAAAACCTAGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTAGACCTTTAGCGGCGCTTTTCCCACAAA
* * * *
33141681 CGCTGCTAAAAACCTAGAGCTTTAGCGGCGTTTTTCCCACAAA
1 CGCCGCTAAAAGCCTAGACCTTTAGCGGCGCTTTTCCCACAAA
*
33141724 CGCCGCTAAAAGCCTAGACCTTTACCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTAGACCTTTAGCGGCGCTTTTCCCACAAA
* *
33141767 CGCCGCTAAAAGCCTTGAGCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTAGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
33141810 CGTCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTTCCCAATAAA
1 CGCCGCTAAAAGCCTAGACCTTTAGCGGCGC-TTTTCCC-ACAAA
33141855 CGCC
1 CGCC
33141859 ACAAATTTTT
Statistics
Matches: 200, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 186 0.93
44 7 0.04
45 7 0.04
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTAGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:33146796 original size:43 final size:42
Alignment explanation
Indices: 33146664--33146818 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
33146654 CTAAGATTAT
* *
33146664 GTGTAAGACCATATCTGGGATATGGTATCAATACGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTTC
* *
33146706 GTGTAAGACCATATTTGGGATATGGCATCGATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTTC
** *
33146748 GTGTAAGACCATCGCTGGGCTATTGGCATCGATACGAGA-TTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATACGAGACTT-C
* *
33146791 ATGTAAGACTATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
33146819 TGGTATGGTA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 64 0.66
43 33 0.34
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTTC
Found at i:33146810 original size:85 final size:84
Alignment explanation
Indices: 33146664--33146818 Score: 213
Period size: 85 Copynumber: 1.8 Consensus size: 84
33146654 CTAAGATTAT
* * * *
33146664 GTGTAAGACCATATCTGGGATATGGTATCAATACGAGACTTCGTGTAAGACCATATTTGGGATAT
1 GTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTTCATGTAAGACCATATCTGGGATAT
33146729 GGCATCGATATGAGACTTC
66 GGCATCGATATGAGACTTC
* * * *
33146748 GTGTAAGACCATCGCTGGGCTATTGGCATCGATACGAGA-TTACATGTAAGACTATATCTGGGAT
1 GTGTAAGACCATAGCTGGGATA-TGGCATCAATACGAGACTT-CATGTAAGACCATATCTGGGAT
33146812 ATGGCAT
64 ATGGCAT
33146819 TGGTATGGTA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 21 0.34
85 40 0.66
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTTCATGTAAGACCATATCTGGGATAT
GGCATCGATATGAGACTTC
Found at i:33157110 original size:40 final size:40
Alignment explanation
Indices: 33156944--33157093 Score: 201
Period size: 40 Copynumber: 3.8 Consensus size: 40
33156934 TTGGAATGAT
* * *** *
33156944 ATCCGGGCTAAGACCCGAAGGGATTCGTGCGAGTTGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAA
*
33156984 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAA
* *
33157024 ATCCGGGTTAAGACCCGAAGGCATTTGTGCAAGTTACCAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAA
* *
33157064 ATCCGGGTTAAGACCCGAAGGCAATCGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC
33157094 GAATCACTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAA
Found at i:33157286 original size:40 final size:40
Alignment explanation
Indices: 33157227--33157413 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
33157217 CATTGGAATG
* * * *
33157227 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
33157267 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
33157307 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
33157347 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
33157387 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
33157414 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:33157329 original size:80 final size:80
Alignment explanation
Indices: 33157227--33157380 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
33157217 CATTGGAATG
* * ** *
33157227 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
33157292 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
33157307 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
33157372 ATCGTGCGA
66 ATCGTGCGA
33157381 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:33157335 original size:285 final size:285
Alignment explanation
Indices: 33156825--33157398 Score: 997
Period size: 285 Copynumber: 2.0 Consensus size: 285
33156815 CTCCTTGTGT
33156825 GCTATTGAGCCGAAATTGTAAAGGTTTGATAAATATTTTGTGTTAGAGCCTTAGTAACAAAAATG
1 GCTATTGAGCCGAAATTGTAAAGGTTTGATAAATATTTTGTGTTAGAGCCTTAGTAACAAAAATG
33156890 AATTATGGATGTGTCTTGATTATTGATATATGTGTAAATGAACATTGGAATGATATCCGGGCTAA
66 AATTATGGATGTGTCTTGATTATTGATATATGTGTAAATGAACATTGGAATGATATCCGGGCTAA
* * ** *
33156955 GACCCGAAGGGATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTA
131 GACCCGAAGGAATTCATGCGAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTA
*
33157020 CCAAATCCGGGTTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGG
196 CCAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGG
33157085 CAATCGTGCGAATCACTATAACCGG
261 CAATCGTGCGAATCACTATAACCGG
* *
33157110 GCTATTGAGCCGAAATTGTAAAGGTTTGATAAATATTTTGTGTTAGAGTCTTAGTAACGAAAATG
1 GCTATTGAGCCGAAATTGTAAAGGTTTGATAAATATTTTGTGTTAGAGCCTTAGTAACAAAAATG
33157175 AATTATGGATGTGTCTTGATTATTGATATATGTGTAAATGAACATTGGAATGATATCCGGGCTAA
66 AATTATGGATGTGTCTTGATTATTGATATATGTGTAAATGAACATTGGAATGATATCCGGGCTAA
* * *
33157240 GTCCCGAAGGCAATT-ATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
131 GACCCGAAGG-AATTCATGCGAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTT
*** *
33157304 GTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAG
195 ACCAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAG
33157369 GCAATCGTGCGAATCACTATAACCGG
260 GCAATCGTGCGAATCACTATAACCGG
33157395 GCTA
1 GCTA
33157399 GGTCCCGAAG
Statistics
Matches: 273, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
285 270 0.99
286 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (285 bp):
GCTATTGAGCCGAAATTGTAAAGGTTTGATAAATATTTTGTGTTAGAGCCTTAGTAACAAAAATG
AATTATGGATGTGTCTTGATTATTGATATATGTGTAAATGAACATTGGAATGATATCCGGGCTAA
GACCCGAAGGAATTCATGCGAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTA
CCAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGG
CAATCGTGCGAATCACTATAACCGG
Found at i:33157395 original size:80 final size:80
Alignment explanation
Indices: 33157231--33157413 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
33157221 GGAATGATAT
* ** * *
33157231 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
33157296 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
33157311 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
33157376 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
33157391 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
33157414 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:33162427 original size:14 final size:14
Alignment explanation
Indices: 33162408--33162435 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33162398 GATAGTGATC
33162408 ATATTAATCATTAA
1 ATATTAATCATTAA
33162422 ATATTAATCATTAA
1 ATATTAATCATTAA
33162436 GAAGACGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATTAATCATTAA
Found at i:33163522 original size:62 final size:59
Alignment explanation
Indices: 33163450--33163566 Score: 146
Period size: 59 Copynumber: 1.9 Consensus size: 59
33163440 AGTGATTATC
* *
33163450 TTAAAATTAAA-TTAAATTAAATGTTTATCTTGTAGATAAACATTATATTATTTTAATAAGAT
1 TTAAAATTAAATTTAAATTAAA-ATTTATC-T-T-GATAAACATTATATTAATTTAATAAGAT
* * *
33163512 TTAATATTAAATTTAATTTAAAATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAAAATTAAATTTAAATTAAAATTTATCTTGATAAACATTATATTAATTTAATA
33163567 TTAAAATGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 1 0.02
62 16 0.33
63 9 0.18
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (59 bp):
TTAAAATTAAATTTAAATTAAAATTTATCTTGATAAACATTATATTAATTTAATAAGAT
Found at i:33167857 original size:28 final size:28
Alignment explanation
Indices: 33167817--33167873 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
33167807 TCAATCATAG
33167817 TGGGACAGTTTCTAAGAAACAAGACTTT
1 TGGGACAGTTTCTAAGAAACAAGACTTT
33167845 TGGGACAGTTTCTAAGAAACAAGACTTT
1 TGGGACAGTTTCTAAGAAACAAGACTTT
33167873 T
1 T
33167874 TTATCTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (28 bp):
TGGGACAGTTTCTAAGAAACAAGACTTT
Found at i:33171453 original size:33 final size:32
Alignment explanation
Indices: 33171382--33171457 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
33171372 ATCTATATGC
* *
33171382 GTAAGACCATAGCTGGGCTATGGAATTCTGAT
1 GTAAGACCATAACTGGGCTATGGAATACTGAT
* *
33171414 GATAAGACCATAACTGGGTTATGGCACTAC-GAAT
1 G-TAAGACCATAACTGGGCTATGG-AATACTG-AT
33171448 GTAAGACCAT
1 GTAAGACCAT
33171458 GGCAGGGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 1 0.03
33 30 0.81
34 6 0.16
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGGGCTATGGAATACTGAT
Found at i:33171482 original size:103 final size:101
Alignment explanation
Indices: 33171211--33171459 Score: 340
Period size: 103 Copynumber: 2.5 Consensus size: 101
33171201 TGAATTGACG
* * * *
33171211 GATAAG-CCATAATTGAGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAATTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTATCT
* *
33171275 ATATGTAAGACCATAGCTCAGCTATGGCATTTTATT
66 ATATGTAAGACCATAGCTCAGCTATGGAATTTGATT
* *
33171311 GAAAAGACCATAATTGGGTTATGGCACTTTGAACGTAAGACCATGGTTGGACCATGGCAGTATCT
1 GATAAGACCATAATTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTATCT
**
33171376 ATATGCGTAAGACCATAGCTGGGCTATGGAATTCTGA-T
66 ATAT--GTAAGACCATAGCTCAGCTATGGAATT-TGATT
* * *
33171414 GATAAGACCATAACTGGGTTATGGCACTACGAATGTAAGACCATGG
1 GATAAGACCATAATTGGGTTATGGCACTATGAACGTAAGACCATGG
33171460 CAGGGTCATG
Statistics
Matches: 130, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
100 5 0.04
101 57 0.44
103 66 0.51
104 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (101 bp):
GATAAGACCATAATTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTATCT
ATATGTAAGACCATAGCTCAGCTATGGAATTTGATT
Found at i:33171503 original size:66 final size:69
Alignment explanation
Indices: 33171346--33171506 Score: 154
Period size: 66 Copynumber: 2.4 Consensus size: 69
33171336 ACTTTGAACG
* * * * *
33171346 TAAGACCATGGTTGGACCATGGCAGTATCTATATGCGTAAGACCATAGCTGGGCTATGGAATTCT
1 TAAGACCATAGTTGGACTATGGCACTATCGATAT-CGTAAGACCATAGCAGGGCTATGGAATTCT
33171411 GATGA
65 GATGA
** ** *
33171416 TAAGACCATAACTGGGTTATGGCACTA-CGA-AT-GTAAGACCATGGCAGGG-TCATGGCAATTC
1 TAAGACCATAGTTGGACTATGGCACTATCGATATCGTAAGACCATAGCAGGGCT-ATGG-AATTC
33171477 AT-AT-A
64 -TGATGA
33171482 TAAGACCATAGTTGGACTATGGCAC
1 TAAGACCATAGTTGGACTATGGCAC
33171507 AAAGAAAACG
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
65 1 0.01
66 41 0.55
67 7 0.09
68 3 0.04
69 2 0.03
70 20 0.27
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (69 bp):
TAAGACCATAGTTGGACTATGGCACTATCGATATCGTAAGACCATAGCAGGGCTATGGAATTCTG
ATGA
Found at i:33174496 original size:14 final size:13
Alignment explanation
Indices: 33174473--33174504 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
33174463 TTTAATGAGA
33174473 TATTTTATTATTT
1 TATTTTATTATTT
33174486 TATTGTTATTATTT
1 TATT-TTATTATTT
33174500 TATTT
1 TATTT
33174505 AGTATATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (13 bp):
TATTTTATTATTT
Found at i:33174836 original size:40 final size:40
Alignment explanation
Indices: 33174792--33174870 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
33174782 AGACTTCAAC
33174792 ATATTTTTTAAGTTGATATTATTGAAAAAGCATAAAAATG
1 ATATTTTTTAAGTTGATATTATTGAAAAAGCATAAAAATG
33174832 ATATTTTTTAAGTTGATATTATTGAAAAAGCATAAAAAT
1 ATATTTTTTAAGTTGATATTATTGAAAAAGCATAAAAAT
33174871 AATGTTAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (40 bp):
ATATTTTTTAAGTTGATATTATTGAAAAAGCATAAAAATG
Found at i:33176102 original size:97 final size:97
Alignment explanation
Indices: 33175994--33176180 Score: 329
Period size: 97 Copynumber: 1.9 Consensus size: 97
33175984 AACACTAGGG
*
33175994 GACACACAGCCGTGTATGTGACTATGTGTCACACATGGCTGAGACACGCCCGTGTCTCTGCCCAT
1 GACACACAGCCGTGTACGTGACTATGTGTCACACATGGCTGAGACACGCCCGTGTCTCTGCCCAT
*
33176059 GTGGGCAAAAATAGACTATTTACAAAGTCAAT
66 GTGGGAAAAAATAGACTATTTACAAAGTCAAT
* **
33176091 GACACACAGCCGTGTACGTGACTGTGTGTCACACATGGCTGAGACACGCCCGTGTCTCTGCCTGT
1 GACACACAGCCGTGTACGTGACTATGTGTCACACATGGCTGAGACACGCCCGTGTCTCTGCCCAT
33176156 GTGGGAAAAAATAGACTATTTACAA
66 GTGGGAAAAAATAGACTATTTACAA
33176181 GCCAAATTGC
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 85 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (97 bp):
GACACACAGCCGTGTACGTGACTATGTGTCACACATGGCTGAGACACGCCCGTGTCTCTGCCCAT
GTGGGAAAAAATAGACTATTTACAAAGTCAAT
Found at i:33181121 original size:21 final size:20
Alignment explanation
Indices: 33181093--33181131 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
33181083 CAAAACTTGT
33181093 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
33181113 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
33181132 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:33190985 original size:35 final size:35
Alignment explanation
Indices: 33190939--33191008 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
33190929 CGGCCTTAGC
33190939 ACATAGGCATGTGCCATGGCCATATGCCCCTATTT
1 ACATAGGCATGTGCCATGGCCATATGCCCCTATTT
33190974 ACATAGGCATGTGCCATGGCCATATGCCCCTATTT
1 ACATAGGCATGTGCCATGGCCATATGCCCCTATTT
33191009 TGCTAATGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (35 bp):
ACATAGGCATGTGCCATGGCCATATGCCCCTATTT
Found at i:33192931 original size:40 final size:40
Alignment explanation
Indices: 33192886--33193052 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
33192876 CGGAATATAA
33192886 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
33192926 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
33192966 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
33193006 CCGGATATAATTC-C-AGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAA-TCACTAGCACAAATGCCTTCGGGTCTTAGC
33193045 CCGGATAT
1 CCGGATAT
33193053 CATTCAATTT
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 30 0.28
40 77 0.71
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:33195307 original size:37 final size:37
Alignment explanation
Indices: 33195258--33195342 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
33195248 TTTGAGTACG
* **
33195258 TGTAAGATCATAGATGGGCTATGGCATCGTAATGACA
1 TGTAAGACCATAGATGGGCTATGGCATCGTAACCACA
* * * * *
33195295 TGTAAGACCATAGCTTGGCTATGGCTTTGTAACCTCA
1 TGTAAGACCATAGATGGGCTATGGCATCGTAACCACA
33195332 TGTAAGACCAT
1 TGTAAGACCAT
33195343 GTTTGGGACA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (37 bp):
TGTAAGACCATAGATGGGCTATGGCATCGTAACCACA
Found at i:33195382 original size:48 final size:48
Alignment explanation
Indices: 33195330--33195742 Score: 583
Period size: 48 Copynumber: 8.6 Consensus size: 48
33195320 TTTGTAACCT
* *
33195330 CATGTAAGACCATGTTTGGGACATGACATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* *
33195378 CATGTAAGACCATGTCCGGGACATGGCATTGGCATTGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
33195426 CATATAAGACCATGTCTGGAACATGGCATTGGCATCGATAGGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * **
33195474 CAAGTAAGACTATATCTGGGACATGGCATTGGCATATATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
*
33195522 CATGTAAGACCATGTCTGGGACATGGCACTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* ** *
33195570 CACGTAAGACCACATTTGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * *
33195618 CATGTAAGACCATGTCTGAGACATGGTATTGGCATCTATATGTGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
* * * * **
33195666 CATGTAAAACCATATCTGGGATATGGCGTTGGCATCGATATGTGATTT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
*
33195714 CGTGTAAGACCATGTCTGGGACATGGCAT
1 CATGTAAGACCATGTCTGGGACATGGCAT
33195743 CGATATGAGA
Statistics
Matches: 316, Mismatches: 49, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 316 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCC
Found at i:33195784 original size:42 final size:42
Alignment explanation
Indices: 33195696--33195785 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
33195686 ATATGGCGTT
* * * *
33195696 GGCATCGATATGTGATTTCGTGTAAGACCATGTCTGGGACAT
1 GGCATCGATATGAGACTTCGTGTAAGACCATGTCTGAGACAG
33195738 GGCATCGATATGAGACTTCGTGTAAGACCATAGT-T-AGACTAG
1 GGCATCGATATGAGACTTCGTGTAAGACCAT-GTCTGAGAC-AG
33195780 GGCATC
1 GGCATC
33195786 AAGTAAATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 3 0.07
42 37 0.88
43 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (42 bp):
GGCATCGATATGAGACTTCGTGTAAGACCATGTCTGAGACAG
Found at i:33207548 original size:28 final size:28
Alignment explanation
Indices: 33207481--33207581 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
33207471 ATAGTGAATC
* * *
33207481 CGCACACTTAGTGCTATATATTTTC-AGCT
1 CGCACACTTAGTGCTATACA--ATCAAACT
*
33207510 CGCACACTTAGTGCTATAGAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
* * *
33207538 CGCACACTTAGTGCTGTACAATTTAATACC
1 CGCACACTTAGTGCTATACAA-TCAA-ACT
33207568 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33207582 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.35
29 22 0.35
30 16 0.26
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:33209610 original size:13 final size:14
Alignment explanation
Indices: 33209587--33209618 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
33209577 TTTCTTTGTG
33209587 TATTCATATATATA
1 TATTCATATATATA
33209601 TATT-ATATATATA
1 TATTCATATATATA
33209614 TATTC
1 TATTC
33209619 GGCCAATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTCATATATATA
Found at i:33213821 original size:80 final size:80
Alignment explanation
Indices: 33213737--33213885 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
33213727 TATGGTAACC
* * * *
33213737 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
33213801 CCCGGATAGAATGACG
65 CCCGGATAGAATGACG
* * * * * * *
33213817 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
33213882 CCGG
66 CCGG
33213886 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACG
Found at i:33213869 original size:40 final size:39
Alignment explanation
Indices: 33213778--33213928 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
33213768 ATCACGATTT
*
33213778 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACGC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACGA
* *
33213818 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACGA
* * * ** *
33213858 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACGA
* * *
33213898 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
33213929 TCATTCAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACGA
Found at i:33220676 original size:40 final size:40
Alignment explanation
Indices: 33220631--33220760 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
33220621 CGGAATACAA
33220631 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
33220671 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
33220711 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
33220751 CCGGATATAA
1 CCGGATATAA
33220761 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:33220775 original size:40 final size:40
Alignment explanation
Indices: 33220631--33220793 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
33220621 CGGAATACAA
* **
33220631 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
33220671 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
33220711 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
33220751 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
33220790 CCGG
1 CCGG
33220794 GTATCATTCA
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
39 11 0.11
40 89 0.89
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:33223378 original size:38 final size:38
Alignment explanation
Indices: 33223289--33223479 Score: 238
Period size: 38 Copynumber: 4.9 Consensus size: 38
33223279 CACTTGATAC
*
33223289 ATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTAATAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-AT
* * *
33223329 ATATCTGGGTTAAATCTCGCAGGTTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
33223367 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
33223405 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCGGGTACT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * * *
33223443 ATATTCGGCCTTAAAGTTCCGCAAGCTTTGTGCTGGT
1 ATATCCGG-GTTAAA-TCCCGCAGGCTTCGTGCTGGT
33223480 GACTGGATTC
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
38 79 0.59
39 6 0.05
40 48 0.36
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:33223465 original size:78 final size:79
Alignment explanation
Indices: 33223289--33223479 Score: 237
Period size: 78 Copynumber: 2.5 Consensus size: 79
33223279 CACTTGATAC
* * * *
33223289 ATATCCGGGTT-AAGTCCCGCAGGCTTCGTGCTGGTAATATATATCTGGGTTAAATCTCGCAGGT
1 ATATCCGGCTTAAAGTCCCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCCGCAGGC
* *
33223353 TTCGTGCTGGTAAT
66 TTAGTGCGGGTAAT
*
33223367 ATATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTGGT-A-ATATATCCGGGTTAAATCCCGCAGGC
1 ATATCCGGCTTAAAGTCCCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCCGCAGGC
*
33223429 TTAGTGCGGGTACT
66 TTAGTGCGGGTAAT
* * * *
33223443 ATATTCGGCCTTAAAGTTCCGCAAGCTTTGTGCTGGT
1 ATATCCGG-CTTAAAGTCCCGCAGGCTTCGTGCTGGT
33223480 GACTGGATTC
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
76 41 0.41
77 6 0.06
78 50 0.51
79 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (79 bp):
ATATCCGGCTTAAAGTCCCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCCGCAGGC
TTAGTGCGGGTAAT
Found at i:33241376 original size:2 final size:2
Alignment explanation
Indices: 33241369--33241404 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
33241359 ACCAGAACAG
33241369 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33241405 CTGTGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33249974 original size:14 final size:14
Alignment explanation
Indices: 33249957--33249983 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33249947 TATAACCTCG
33249957 AAAATAATCCTTTA
1 AAAATAATCCTTTA
33249971 AAAATAATCCTTT
1 AAAATAATCCTTT
33249984 CTTCTAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATAATCCTTTA
Found at i:33250318 original size:14 final size:15
Alignment explanation
Indices: 33250299--33250363 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
33250289 TAAAGATAAC
33250299 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
*
33250313 AAGAAATCCA-AGATA
1 AAGAAAACCAGA-ATA
*
33250328 GA-AAAACCTAGAATA
1 AAGAAAACC-AGAATA
* *
33250343 AAGAAATCCATAATA
1 AAGAAAACCAGAATA
33250358 AAGAAA
1 AAGAAA
33250364 CCCAAGATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
14 14 0.35
15 20 0.50
16 6 0.15
ACGTcount: A:0.63, C:0.12, G:0.12, T:0.12
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:33253488 original size:50 final size:49
Alignment explanation
Indices: 33253378--33253507 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 49
33253368 CTGGTATGCA
* * * ** * *
33253378 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCAGATACACG
* *
33253427 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCATATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCAGATACACG
33253477 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
33253508 TCGAAGTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 30 0.42
50 41 0.58
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCAGATACACG
Found at i:33253561 original size:101 final size:99
Alignment explanation
Indices: 33253378--33253561 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
33253368 CTGGTATGCA
* *
33253378 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
33253443 GTACTACACACGTGACCTAACCATCATATACATG
66 GTACTACACACGCGACCTAACCATCATATACATG
* * * * * *
33253477 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCAGT
1 TAGTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* *
33253542 TAGTACTATACATGCGACCT
64 TAGTACTACACACGCGACCT
33253562 CACAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 28 0.39
100 3 0.04
101 41 0.57
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCATATACATG
Found at i:33261147 original size:41 final size:40
Alignment explanation
Indices: 33261002--33261149 Score: 140
Period size: 40 Copynumber: 3.7 Consensus size: 40
33260992 GCGACTCACT
* *
33261002 CAAAAGCCTTCGGGACATAGCCCGG-TTATA-ATAGCTCGCA
1 CAAAAGCCTTCGGGACTTAGCCCGGATT-TAGTTA-CTCGCA
* * ** * *
33261042 CAAATGCCTTCGGGACTTAACCCGCTTTTGGTAACTCGCA
1 CAAAAGCCTTCGGGACTTAGCCCGGATTTAGTTACTCGCA
* * *
33261082 CAAATGCCTTCGGGAATT-GACCCGGATTTAGTTACTTAGCA
1 CAAAAGCCTTCGGGACTTAG-CCCGGATTTAGTTAC-TCGCA
33261123 CAAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAAGCCTTCGGGACTTAGCCCGGAT
33261150 ACCATTCGAA
Statistics
Matches: 87, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
40 56 0.64
41 30 0.34
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAAAGCCTTCGGGACTTAGCCCGGATTTAGTTACTCGCA
Found at i:33268215 original size:40 final size:38
Alignment explanation
Indices: 33268159--33268311 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 38
33268149 GGATATAGCG
* *
33268159 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAAT
1 ACTCGCACAAAAGCCTTCGGGACATAGCCCGGTT-TAGT
* * * *
33268198 AGCTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 A-CTCGCACAAAAGCCTTCGGGACATAGCCCGG-TTTAGT
* *
33268238 AACTCGCACAAATGCCTTCGGGA-ATTGACCCGGATTTAGT
1 -ACTCGCACAAAAGCCTTCGGGACATAG-CCCGG-TTTAGT
* *
33268278 CACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 -AC-TCGCACAAAAGCCTTCGGGACATAGCCCGG
33268312 ATACCATTCG
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.02
40 62 0.67
41 26 0.28
42 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
ACTCGCACAAAAGCCTTCGGGACATAGCCCGGTTTAGT
Found at i:33282876 original size:10 final size:10
Alignment explanation
Indices: 33282861--33282898 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
33282851 TTTTTTTTTT
33282861 ATGATATGCC
1 ATGATATGCC
33282871 ATGATATGCAC
1 ATGATATGC-C
33282882 ATGATATGCC
1 ATGATATGCC
33282892 ATGATAT
1 ATGATAT
33282899 ATTCATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (10 bp):
ATGATATGCC
Found at i:33282971 original size:25 final size:24
Alignment explanation
Indices: 33282942--33283062 Score: 120
Period size: 25 Copynumber: 4.9 Consensus size: 24
33282932 GGAGGAAGTG
*
33282942 CAAAAAGGCTATGCCCCAGTTTAC
1 CAAAAAGGCTATGCCCCAGTTTAT
* *
33282966 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAAGGCTATGCCCCAGTTTAT
*
33282991 CAAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAA-GGCTATGCCCCAGTTTAT
33283016 CAAAAAGTGC-ATTGCCCCAG-TTAT
1 CAAAAAG-GCTA-TGCCCCAGTTTAT
* *
33283040 TAAAAGAGGCTAGGCCTCCAGTT
1 CAAAA-AGGCTATGCC-CCAGTT
33283063 ATATGATAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 14
0.80 0.07 0.14
Matches are distributed among these distances:
24 19 0.23
25 62 0.76
26 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (24 bp):
CAAAAAGGCTATGCCCCAGTTTAT
Found at i:33283022 original size:50 final size:49
Alignment explanation
Indices: 33282942--33283062 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 49
33282932 GGAGGAAGTG
* *
33282942 CAAAAAGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGCTATGCCCCAGTTTACCAAAAAGGGCATTGCCCCAGTTTAT
* * *
33282991 CAAAAAGGGCTTTGCCCCAGTTTATCAAAAAGTGCATTGCCCCAG-TTAT
1 CAAAAA-GGCTATGCCCCAGTTTACCAAAAAGGGCATTGCCCCAGTTTAT
* *
33283040 TAAAAGAGGCTAGGCCTCCAGTT
1 CAAAA-AGGCTATGCC-CCAGTT
33283063 ATATGATAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
49 21 0.34
50 40 0.66
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (49 bp):
CAAAAAGGCTATGCCCCAGTTTACCAAAAAGGGCATTGCCCCAGTTTAT
Found at i:33283334 original size:31 final size:31
Alignment explanation
Indices: 33283286--33283345 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
33283276 ATATGAAATA
*
33283286 TGAAATATGGAAAGGCTTCGACCCAGTAATG
1 TGAAATATGAAAAGGCTTCGACCCAGTAATG
* *
33283317 TGAATTATGAAAAGGCTTCGGCCCAGTAA
1 TGAAATATGAAAAGGCTTCGACCCAGTAA
33283346 CCGTTAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (31 bp):
TGAAATATGAAAAGGCTTCGACCCAGTAATG
Found at i:33289272 original size:32 final size:32
Alignment explanation
Indices: 33289231--33289294 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
33289221 TTTTGGACAT
33289231 AAGAAGTTAGGGGCTTTAGATAGATAGCCTTA
1 AAGAAGTTAGGGGCTTTAGATAGATAGCCTTA
*
33289263 AAGAAGTTAGGGGCTTTGGATAGATAGCCTTA
1 AAGAAGTTAGGGGCTTTAGATAGATAGCCTTA
33289295 TTAAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (32 bp):
AAGAAGTTAGGGGCTTTAGATAGATAGCCTTA
Found at i:33290886 original size:11 final size:10
Alignment explanation
Indices: 33290863--33290898 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
33290853 TTTTTTTTAC
33290863 GATATGCCAT
1 GATATGCCAT
33290873 GATATGCACAT
1 GATATGC-CAT
33290884 GATATGCCAT
1 GATATGCCAT
33290894 GATAT
1 GATAT
33290899 ATTCATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (10 bp):
GATATGCCAT
Found at i:33291013 original size:24 final size:25
Alignment explanation
Indices: 33290942--33291006 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
33290932 GGGGAAGTGC
* *
33290942 AAAAGGGCTATGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
33290967 AAAAGGCCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
33290992 AAAAGGGCTTTGCCC
1 AAAAGGGCTTTGCCC
33291007 TTGTTATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:33291354 original size:29 final size:30
Alignment explanation
Indices: 33291270--33291355 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 30
33291260 TGAAATATGG
* *
33291270 AAAGGCTTCGGCCCAGTAATGTGAATTATGA
1 AAAGGCTTCGGCCCAGTAATGTTAA-TATCA
* *
33291301 AAAGGCTTCGGCCCAATAACCGTTAA-A-CA
1 AAAGGCTTCGGCCCAGTAA-TGTTAATATCA
33291330 AAAGGCTTCGGCCCAGTATATGTTAA
1 AAAGGCTTCGGCCCAGTA-ATGTTAA
33291356 GATTGAATGT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 23 0.49
30 2 0.04
31 18 0.38
32 4 0.09
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATGTTAATATCA
Found at i:33297333 original size:13 final size:13
Alignment explanation
Indices: 33297315--33297348 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33297305 CCAACCGCAC
33297315 GCCCGTGTGTCTA
1 GCCCGTGTGTCTA
*
33297328 GCCCGTGCGTCTA
1 GCCCGTGTGTCTA
*
33297341 GCCTGTGT
1 GCCCGTGT
33297349 ACCCTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.32, G:0.32, T:0.29
Consensus pattern (13 bp):
GCCCGTGTGTCTA
Found at i:33309796 original size:23 final size:23
Alignment explanation
Indices: 33309751--33309797 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
33309741 AGGTAAACTA
* * *
33309751 CCAAAAGAGTCACTTTGATTTAC
1 CCAAAAGAGTAACTTTAAATTAC
33309774 CCAAAAGAGTAACTTTAAATTAC
1 CCAAAAGAGTAACTTTAAATTAC
33309797 C
1 C
33309798 TCAGGTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (23 bp):
CCAAAAGAGTAACTTTAAATTAC
Found at i:33316094 original size:91 final size:90
Alignment explanation
Indices: 33315920--33316087 Score: 219
Period size: 91 Copynumber: 1.9 Consensus size: 90
33315910 TTTGAGTTTG
*
33315920 TGGATAAACCACCAGTATTGCAAGTTAATACGCTGCCAGTAATTGTGAATACATAACGAATTTGT
1 TGGATAAACCACCAGTATTGCAAGTTAATACGCTGCCAGTAATTGTGAATACACAACGAATTTGT
* * *
33315985 AGATTAGATTTGCCAGTAAAAATTA
66 AGATGAAAGTTGCCAGTAAAAATTA
* * * * * * **
33316010 TGGATGAACCACCAGTGTTTGTAGGTTAATATGCTGCCAGTAGTTGTGAATACACAACGGTTTTG
1 TGGATAAACCACCAGT-ATTGCAAGTTAATACGCTGCCAGTAATTGTGAATACACAACGAATTTG
33316075 TAGATGAAAGTTG
65 TAGATGAAAGTTG
33316088 TTAGTAATTT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
90 15 0.23
91 50 0.77
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (90 bp):
TGGATAAACCACCAGTATTGCAAGTTAATACGCTGCCAGTAATTGTGAATACACAACGAATTTGT
AGATGAAAGTTGCCAGTAAAAATTA
Found at i:33316295 original size:18 final size:17
Alignment explanation
Indices: 33316272--33316334 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
33316262 TTCGATTTAG
33316272 TAACAATTAATATGCTTA
1 TAACAATTAATA-GCTTA
*
33316290 TAACAATTTAATA-C-AA
1 TAACAA-TTAATAGCTTA
*
33316306 TAACAAGTAATAGGCTTA
1 TAACAATTAATA-GCTTA
33316324 TAACATATTAA
1 TAACA-ATTAA
33316335 CTGTGTAGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
15 5 0.14
16 7 0.19
17 2 0.06
18 12 0.33
19 10 0.28
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.33
Consensus pattern (17 bp):
TAACAATTAATAGCTTA
Found at i:33316702 original size:28 final size:27
Alignment explanation
Indices: 33316637--33316716 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 27
33316627 GGAAAAATTA
* *
33316637 TAAAACTATAAAATCTGAAAAATAGTG
1 TAAAACTGTAAAATCTGAAAAATAATG
* * *
33316664 AAAGAATTGTAAAATCTGAAAAGTAATGG
1 TAA-AACTGTAAAATCTGAAAAATAAT-G
* *
33316693 TAAAACTGTAAAATATAAAAAATA
1 TAAAACTGTAAAATCTGAAAAATA
33316717 GTGGACACGC
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
27 2 0.05
28 36 0.88
29 3 0.07
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.25
Consensus pattern (27 bp):
TAAAACTGTAAAATCTGAAAAATAATG
Found at i:33325669 original size:31 final size:31
Alignment explanation
Indices: 33325634--33325695 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
33325624 GACAAATCAG
33325634 GTAGAACTTCTGAACAAGAAAATTGATGGTT
1 GTAGAACTTCTGAACAAGAAAATTGATGGTT
33325665 GTAGAACTTCTGAACAAGAAAATTGATGGTT
1 GTAGAACTTCTGAACAAGAAAATTGATGGTT
33325696 TACTTGGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (31 bp):
GTAGAACTTCTGAACAAGAAAATTGATGGTT
Found at i:33329694 original size:6 final size:6
Alignment explanation
Indices: 33329635--33329676 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
33329625 ATGTTTAGAA
*
33329635 ATTTTT ATTTATT ATTTTAT GTTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTT-TT ATTTT-T ATTTTT ATTTTT ATTTTT ATTT
33329677 AAGACATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 21 0.66
7 11 0.34
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:33337991 original size:40 final size:39
Alignment explanation
Indices: 33337826--33338009 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
33337816 AAATTGAATG
* * *
33337826 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
33337866 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
33337906 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
33337946 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
33337985 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
33338010 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:33338034 original size:80 final size:81
Alignment explanation
Indices: 33337866--33338054 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
33337856 GCTGGAAATT
* * * *
33337866 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
33337931 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
33337947 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
33338010 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
33338026 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
33338055 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:33346094 original size:40 final size:39
Alignment explanation
Indices: 33345929--33346112 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
33345919 AAATTGAATG
* * *
33345929 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
33345969 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * *** *
33346009 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGCGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
33346049 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
33346088 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
33346113 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 102 0.92
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:33346137 original size:80 final size:81
Alignment explanation
Indices: 33345969--33346157 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
33345959 GCTGGAAATT
* * * *
33345969 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
33346034 TTCGTGCGCGTCATTC
66 TTCGTGCGCGTCATCC
* * * * * *
33346050 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
33346113 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGCGTCATCC
* * *
33346129 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
33346158 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGCGTCATCC
Found at i:33352480 original size:16 final size:16
Alignment explanation
Indices: 33352451--33352484 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33352441 ATTGAAGAAG
* *
33352451 AAAAGGGAAGAAAAAA
1 AAAAGAGAACAAAAAA
33352467 AAAAGAGAACAAAAAA
1 AAAAGAGAACAAAAAA
33352483 AA
1 AA
33352485 CAAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAGAGAACAAAAAA
Found at i:33371693 original size:29 final size:29
Alignment explanation
Indices: 33371661--33371760 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 29
33371651 ATAGTGAATC
* *
33371661 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAACT
33371690 CGCACACTTAGTGCTATAGAA---TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTC-AACT
* *
33371718 CGCACACTTAGTGCTGTACAATTTT-AACC
1 CGCACACTTAGTGCTATA-AATTTTCAACT
33371747 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33371761 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
27 2 0.03
28 22 0.36
29 35 0.57
30 1 0.02
31 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATAAATTTTCAACT
Found at i:33379593 original size:30 final size:29
Alignment explanation
Indices: 33379499--33379600 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
33379489 TATAGTGAAT
* * *
33379499 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
33379528 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
33379556 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
33379586 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
33379601 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:33382580 original size:28 final size:29
Alignment explanation
Indices: 33382509--33382639 Score: 167
Period size: 28 Copynumber: 4.6 Consensus size: 29
33382499 CGGTGACGAG
33382509 ATGGCACTAAGTGTGCGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCGTGCTGGAAATAT
33382538 ATGGCACTAAGTGTGCGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCGTGCTGGAAATAT
*
33382567 A-GGCACTAAGTGTGCATGCTGGAAA-AT
1 ATGGCACTAAGTGTGCGTGCTGGAAATAT
* * ** *
33382594 ATGACACTATGTGTGCAAGCTGGAAAAAT
1 ATGGCACTAAGTGTGCGTGCTGGAAATAT
* **
33382623 ACGGCACTGGGTGTGCG
1 ATGGCACTAAGTGTGCG
33382640 AGCTCGGAGG
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
27 3 0.03
28 44 0.48
29 44 0.48
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGTGCTGGAAATAT
Found at i:33382580 original size:57 final size:57
Alignment explanation
Indices: 33382511--33382639 Score: 170
Period size: 57 Copynumber: 2.3 Consensus size: 57
33382501 GTGACGAGAT
* ** *
33382511 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATA-
1 GGCACTAAGTGTGCGTGCTGGAAA-ATATGACACTAAGTGTGCAAGCTGGAAAAATAC
* *
33382568 GGCACTAAGTGTGCATGCTGGAAAATATGACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAATATGACACTAAGTGTGCAAGCTGGAAAAATAC
**
33382625 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
33382640 AGCTCGGAGG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 27 0.44
57 35 0.56
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.24
Consensus pattern (57 bp):
GGCACTAAGTGTGCGTGCTGGAAAATATGACACTAAGTGTGCAAGCTGGAAAAATAC
Found at i:33382643 original size:29 final size:29
Alignment explanation
Indices: 33382509--33382643 Score: 150
Period size: 29 Copynumber: 4.7 Consensus size: 29
33382499 CGGTGACGAG
* *
33382509 ATGGCACTAAGTGTGCGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCGAGCTGGAAAAAT
* *
33382538 ATGGCACTAAGTGTGCGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCGAGCTGGAAAAAT
33382567 A-GGCACTAAGTGTGC-ATGCTGG-AAAAT
1 ATGGCACTAAGTGTGCGA-GCTGGAAAAAT
* * *
33382594 ATGACACTATGTGTGCAAGCTGGAAAAAT
1 ATGGCACTAAGTGTGCGAGCTGGAAAAAT
* **
33382623 ACGGCACTGGGTGTGCGAGCT
1 ATGGCACTAAGTGTGCGAGCT
33382644 CGGAGGGTAT
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
27 5 0.05
28 36 0.39
29 52 0.56
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTGGAAAAAT
Found at i:33385754 original size:30 final size:30
Alignment explanation
Indices: 33385710--33385798 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
33385700 CAAAGATAAC
33385710 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
33385739 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
33385769 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
33385799 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:33385758 original size:15 final size:15
Alignment explanation
Indices: 33385710--33385789 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
33385700 CAAAGATAAC
*
33385710 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
33385724 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
33385739 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
33385754 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
33385769 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
33385784 AAGAAA
1 AAGAAA
33385790 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:33385798 original size:15 final size:15
Alignment explanation
Indices: 33385721--33385798 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
33385711 AGAAAACCGA
33385721 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
33385736 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
33385750 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
33385765 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
33385781 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
33385796 ATA
1 ATA
33385799 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:33388795 original size:46 final size:46
Alignment explanation
Indices: 33388728--33388900 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
33388718 TGTAACCCGC
*
33388728 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
33388774 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
33388824 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
33388865 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
33388901 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:33388893 original size:91 final size:92
Alignment explanation
Indices: 33388736--33388905 Score: 306
Period size: 91 Copynumber: 1.8 Consensus size: 92
33388726 GCCCATAAGT
*
33388736 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
33388801 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
33388829 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
33388893 GAGTTCGGATGCC
66 GAGTTCGGATGCC
33388906 CAAATATCCT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:33390261 original size:29 final size:29
Alignment explanation
Indices: 33390228--33390358 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
33390218 TGACGAGATC
*
33390228 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
33390257 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
33390286 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
33390315 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
33390344 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
33390359 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:33392418 original size:40 final size:40
Alignment explanation
Indices: 33392226--33392411 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
33392216 TCGAATGATG
* * *
33392226 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33392266 TCCGGACTAAGAT-CCGAAGGCATTCGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33392306 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33392346 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33392387 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33392412 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 119 0.93
41 8 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33392418 original size:80 final size:80
Alignment explanation
Indices: 33392226--33392444 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
33392216 TCGAATGATG
* * **
33392226 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
33392290 CGTACGAGTTACTAAA
65 CGTACGAGTTACTAAA
* *
33392306 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
*
33392368 TCTGTGCGAGTTACTATAA
64 TC-GTACGAGTTACTA-AA
* **
33392387 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
33392445 TACGTGATTC
Statistics
Matches: 118, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
79 19 0.16
80 89 0.75
81 10 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTACGAGTTACTAAA
Found at i:33398825 original size:45 final size:44
Alignment explanation
Indices: 33398611--33398926 Score: 304
Period size: 45 Copynumber: 7.0 Consensus size: 44
33398601 TGGGATATAT
*
33398611 TGCCAATGCATGTCCCAGACA-CGTCTTACACTGGCTATCTCTG
1 TGCCGATGCATGTCCCAGACATCGTCTTACACTGGCTATCTCTG
* *
33398654 TCGAGGCTGATGCATGTCCCAGACAT-GTCTTACACTGGC-ACTCCTATATGCG
1 T----GCCGATGCATGTCCCAGACATCGTCTTACACTGGCTA-T-C--TCT--G
* * * * *
33398706 TGCTGATGCATGTCCCAGACAT-GTCTTACACTAGCACAACT-TT
1 TGCCGATGCATGTCCCAGACATCGTCTTACACTGGC-TATCTCTG
*
33398749 TAGCCGATGCGTGTCCCAGACA-CGTCTTACACTGGCTATCTCTG
1 T-GCCGATGCATGTCCCAGACATCGTCTTACACTGGCTATCTCTG
* * *
33398793 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCTCTA
1 TGCCGATG-CATGTCCCAGACATCGTCTTACACTGGCTATCTCTG
* *
33398838 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCTA
1 TGCCGATG-CATGTCCCAGACATCGTCTTACACTGGCTATCTCTG
* * *
33398883 TGTCGATGCATGTCCCAGGCA-CGTCTTACACTAGCTATCTCTG
1 TGCCGATGCATGTCCCAGACATCGTCTTACACTGGCTATCTCTG
33398926 T
1 T
33398927 ATTCATCCAA
Statistics
Matches: 233, Mismatches: 22, Indels: 36
0.80 0.08 0.12
Matches are distributed among these distances:
43 32 0.14
44 55 0.24
45 72 0.31
46 2 0.01
47 32 0.14
48 35 0.15
50 3 0.01
52 2 0.01
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (44 bp):
TGCCGATGCATGTCCCAGACATCGTCTTACACTGGCTATCTCTG
Found at i:33398906 original size:133 final size:134
Alignment explanation
Indices: 33398616--33398926 Score: 375
Period size: 133 Copynumber: 2.3 Consensus size: 134
33398606 TATATTGCCA
* *
33398616 ATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCTGATGCATGTCCCAGACATG
1 ATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGT---GGCCGATGCATGTCCCAAACATG
33398681 TCTTACACTGGCACTCCTATATGCGTGCTGATGCATGTCCCAGACATGTCTTACACTAGCACAAC
63 TCTTACACTGGCACTCCTATATGC--GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAAC
*
33398746 TTTTAGCCG
126 TTATAGCCG
*
33398755 ATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGT-GCCGATGCCATGTCCCAAACATGGT
1 ATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGTGGCCGATG-CATGTCCCAAACAT-GT
* * * *
33398819 CTTACACTGGCTA-T-CTCTATGC-C-GATGCCATGTCCCAGACATGGTCTTACACTGGC-TATC
64 CTTACACTGGC-ACTCCTATATGCGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACAAC
*
33398879 TCTAT-GTCG
126 T-TATAGCCG
* *
33398888 ATGCATGTCCCAGGCACGTCTTACACTAGCTATCTCTGT
1 ATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGT
33398927 ATTCATCCAA
Statistics
Matches: 154, Mismatches: 12, Indels: 18
0.84 0.07 0.10
Matches are distributed among these distances:
132 4 0.03
133 57 0.37
134 14 0.09
135 6 0.04
136 20 0.13
137 14 0.09
138 1 0.01
139 38 0.25
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (134 bp):
ATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGTGGCCGATGCATGTCCCAAACATGTCT
TACACTGGCACTCCTATATGCGCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTTATA
GCCG
Found at i:33398923 original size:88 final size:86
Alignment explanation
Indices: 33398616--33398924 Score: 316
Period size: 88 Copynumber: 3.4 Consensus size: 86
33398606 TATATTGCCA
* * *
33398616 ATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCTGATGCATGTCCCAGACATG
1 ATGCATGTCCCAGACACGTCTTACACTAGCTATCTC--T--ATGCCGATGCATGTCCCAGACATG
*
33398681 TCTTACACTGGC-ACTCCTATATGCGTGCTG
62 TCTTACACTGGCTA-T-CTCTAT--GT-C-G
* * * * * *
33398711 ATGCATGTCCCAGACATGTCTTACACTAGCACAACT-TTTAGCCGATGCGTGTCCCAGACACGTC
1 ATGCATGTCCCAGACACGTCTTACACTAGC-TATCTCTAT-GCCGATGCATGTCCCAGACATGTC
* *
33398775 TTACACTGGCTATCTCTGTGCCG
64 TTACACTGGCTATCTCTATGTCG
* * *
33398798 ATGCCATGTCCCAAACATGGTCTTACACTGGCTATCTCTATGCCGATGCCATGTCCCAGACATGG
1 ATG-CATGTCCCAGACA-CGTCTTACACTAGCTATCTCTATGCCGATG-CATGTCCCAGACAT-G
33398863 TCTTACACTGGCTATCTCTATGTCG
62 TCTTACACTGGCTATCTCTATGTCG
*
33398888 ATGCATGTCCCAGGCACGTCTTACACTAGCTATCTCT
1 ATGCATGTCCCAGACACGTCTTACACTAGCTATCTCT
33398925 GTATTCATCC
Statistics
Matches: 180, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
87 4 0.02
88 42 0.23
89 38 0.21
90 27 0.15
91 4 0.02
92 32 0.18
93 2 0.01
95 28 0.16
96 3 0.02
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (86 bp):
ATGCATGTCCCAGACACGTCTTACACTAGCTATCTCTATGCCGATGCATGTCCCAGACATGTCTT
ACACTGGCTATCTCTATGTCG
Found at i:33429378 original size:3 final size:3
Alignment explanation
Indices: 33429370--33429441 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
33429360 GAATGATAAG
33429370 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33429418 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
33429442 GGTATTGAAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:33439789 original size:2 final size:2
Alignment explanation
Indices: 33439782--33439826 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
33439772 TGAAAGTCGA
*
33439782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33439823 AT AT
1 AT AT
33439827 TTTGAAAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:33441159 original size:43 final size:43
Alignment explanation
Indices: 33440928--33441146 Score: 327
Period size: 43 Copynumber: 5.1 Consensus size: 43
33440918 GATAAATCCC
* * * *
33440928 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCATGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
33440969 GCAAGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
33441012 GCAGGCTTAGTGCCAGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
33441055 GCAGGCTTTGTGTCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
33441098 GCAAGCTTCA-TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTT-AGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
33441141 GCAGGC
1 GCAGGC
33441147 GTAATACCGG
Statistics
Matches: 161, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
41 14 0.09
42 2 0.01
43 145 0.90
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:33443583 original size:40 final size:40
Alignment explanation
Indices: 33443525--33443646 Score: 185
Period size: 40 Copynumber: 3.1 Consensus size: 40
33443515 CACTTGATAC
* *
33443525 ATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTAATAT
1 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATAT
*
33443565 ATATCTGGGTTAAATCCCGCAAGCTTCGTGCTGGT-A-AT
1 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATAT
* *
33443603 ATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTACTAT
1 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATAT
33443643 ATAT
1 ATAT
33443647 AAGCTTAAAG
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
38 35 0.47
39 1 0.01
40 38 0.51
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (40 bp):
ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATAT
Found at i:33443614 original size:38 final size:38
Alignment explanation
Indices: 33443525--33443644 Score: 177
Period size: 38 Copynumber: 3.1 Consensus size: 38
33443515 CACTTGATAC
* *
33443525 ATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTAATAT
1 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-AT
*
33443565 ATATCTGGGTTAAATCCCGCAAGCTTCGTGCTGGTAAT
1 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
33443603 ATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTACT
1 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
33443641 ATAT
1 ATAT
33443645 ATAAGCTTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
38 41 0.55
39 1 0.01
40 32 0.43
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:33443663 original size:78 final size:78
Alignment explanation
Indices: 33443525--33443677 Score: 191
Period size: 78 Copynumber: 2.0 Consensus size: 78
33443515 CACTTGATAC
* * ** *
33443525 ATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTAATATATATCTGGGTTAAATCCCGCAAGCT
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATATCAAGCTTAAATCCCGCAAGCT
*
33443590 TCGTGCTGGTAAT
66 TCGTACTGGTAAT
* * * *
33443603 ATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTACTATATAT-AAGCTTAAAGTTCCGCAGGC
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATATCAAGCTTAAA-TCCCGCAAGC
*
33443667 TTTGTACTGGT
65 TTCGTACTGGT
33443678 GACTGGATTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
77 6 0.10
78 57 0.90
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (78 bp):
ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATATCAAGCTTAAATCCCGCAAGCT
TCGTACTGGTAAT
Found at i:33444012 original size:2 final size:2
Alignment explanation
Indices: 33444005--33444030 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33443995 TTGTGTATTC
33444005 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
33444031 TCGGCCAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33448254 original size:80 final size:80
Alignment explanation
Indices: 33448170--33448318 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
33448160 TATGGTAACC
* * * *
33448170 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
33448234 CCCGGATAGAATGACG
65 CCCGGATAGAATGACG
* * * * * * *
33448250 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
33448315 CCGG
66 CCGG
33448319 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACG
Found at i:33448302 original size:40 final size:39
Alignment explanation
Indices: 33448211--33448361 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
33448201 ATCACGATTT
*
33448211 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACGC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACGA
* *
33448251 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACGA
* * * ** *
33448291 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACGA
* * *
33448331 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
33448362 TCATTCAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACGA
Found at i:33455118 original size:40 final size:40
Alignment explanation
Indices: 33455072--33455182 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
33455062 ATATAACCGT
*
33455072 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAA-GCACTA
*
33455112 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTA
*
33455152 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
33455183 TAATTTCCAG
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 59 0.92
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Found at i:33455200 original size:40 final size:40
Alignment explanation
Indices: 33455079--33455219 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
33455069 CGTGCACGAA
* *
33455079 TGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-GCACGAA-
1 TGCCTTCGGGTCTTAGCCCGGATATAATCAC-CAGCAC-AAT
* ** *
33455119 TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
* ** *
33455159 TGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
* *
33455199 TGTCTTCGGGGCTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
33455220 TATCATTCAA
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
39 2 0.02
40 80 0.98
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
Found at i:33457081 original size:17 final size:18
Alignment explanation
Indices: 33457039--33457087 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
33457029 AGTTGAAAAG
33457039 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
33457058 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
33457075 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
33457088 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:33457976 original size:40 final size:40
Alignment explanation
Indices: 33457910--33458076 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
33457900 AAATTGAATG
* * *
33457910 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
33457949 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
33457989 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
33458029 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
33458069 ATATCCGG
1 ATATCCGG
33458077 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Done.