Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 257 of 335
Found at i:77864595 original size:18 final size:18
Alignment explanation
Indices: 77864569--77864609 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
77864559 TGATAATAAT
*
77864569 ATGTAGTTAATATATTAA
1 ATGTTGTTAATATATTAA
* *
77864587 ATGTTGTTAATTTATTAT
1 ATGTTGTTAATATATTAA
77864605 ATGTT
1 ATGTT
77864610 TGAATTAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (18 bp):
ATGTTGTTAATATATTAA
Found at i:77868362 original size:45 final size:45
Alignment explanation
Indices: 77868311--77868396 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
77868301 ATGTGATCTA
* *
77868311 AACTCATTGAGCTGTGGTTTGAGTTCATGATATATGTGACATCCG
1 AACTCATTGAGCTGTGGTCTGAGTTCATGATATATATGACATCCG
* **
77868356 AACTCATTGAGTTGTGGTCTGAGTTTGTGATATATATGACA
1 AACTCATTGAGCTGTGGTCTGAGTTCATGATATATATGACA
77868397 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (45 bp):
AACTCATTGAGCTGTGGTCTGAGTTCATGATATATATGACATCCG
Found at i:77870771 original size:37 final size:37
Alignment explanation
Indices: 77870645--77870774 Score: 170
Period size: 38 Copynumber: 3.5 Consensus size: 37
77870635 GTAGGCTATA
*
77870645 TGCTGGAATTATATCTGGGTTAAATCCTGCAGGCTTCG
1 TGCTGGTATTATATCTGGGTTAAATCC-GCAGGCTTCG
* * *
77870683 TGCTGGTAATATATCCGGGTTAAATCCCTCAGGCTTCG
1 TGCTGGTATTATATCTGGGTTAAAT-CCGCAGGCTTCG
** **
77870721 TGCTGGTATTATATCTGGGTTAAATCCGCAGTATTAT
1 TGCTGGTATTATATCTGGGTTAAATCCGCAGGCTTCG
77870758 TGCTGGTATTATATCTG
1 TGCTGGTATTATATCTG
77870775 AGCTTAAAGT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
37 24 0.30
38 54 0.68
39 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.37
Consensus pattern (37 bp):
TGCTGGTATTATATCTGGGTTAAATCCGCAGGCTTCG
Found at i:77870782 original size:76 final size:77
Alignment explanation
Indices: 77870645--77870787 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 77
77870635 GTAGGCTATA
* * *
77870645 TGCTGGAATTATATCTGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAA-TC
1 TGCTGGAATTATATCTGGGTTAAATCCTGCAGGATTAGTGCTGGTAATATATCCGGCTTAAAGTC
77870709 CCTCAGGCTTCG
66 CCTCAGGCTTCG
* * * * *
77870721 TGCTGGTATTATATCTGGGTTAAATCC-GCAGTATTATTGCTGGTATTATATCTGAGCTTAAAGT
1 TGCTGGAATTATATCTGGGTTAAATCCTGCAGGATTAGTGCTGGTAATATATCCG-GCTTAAAGT
77870785 CCC
65 CCC
77870788 ACGGGTTTTG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
75 21 0.37
76 32 0.56
77 4 0.07
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (77 bp):
TGCTGGAATTATATCTGGGTTAAATCCTGCAGGATTAGTGCTGGTAATATATCCGGCTTAAAGTC
CCTCAGGCTTCG
Found at i:77874332 original size:45 final size:45
Alignment explanation
Indices: 77874273--77874370 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
77874263 TCACTAGGAA
* * *
77874273 ATATGTG--ATCTGAACTCATTTAGTTGTGGTCTGAGTTCATGAT
1 ATATGTGACATCTGAACTAATTGAGTTGTGGTCTGAGGTCATGAT
*
77874316 ATATGTGACATCTGAACTAATTGAGTTGTGGTCTGAGGTCGTGAT
1 ATATGTGACATCTGAACTAATTGAGTTGTGGTCTGAGGTCATGAT
*
77874361 ATATATGACA
1 ATATGTGACA
77874371 CATGTTTTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 7 0.15
45 41 0.85
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (45 bp):
ATATGTGACATCTGAACTAATTGAGTTGTGGTCTGAGGTCATGAT
Found at i:77879443 original size:48 final size:49
Alignment explanation
Indices: 77879385--77879615 Score: 302
Period size: 48 Copynumber: 4.7 Consensus size: 49
77879375 CTGGTACGCA
* *
77879385 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACAC-
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
77879433 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ** * *
77879482 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * ** * *
77879532 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTTTTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATTATCCGGTACACG
*
77879583 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
77879616 TCACAATAGA
Statistics
Matches: 162, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
48 46 0.28
49 33 0.20
50 44 0.27
51 38 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:77879616 original size:101 final size:98
Alignment explanation
Indices: 77879372--77879616 Score: 330
Period size: 101 Copynumber: 2.5 Consensus size: 98
77879362 TAGCCAAAGC
* * ** *
77879372 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACTAG
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACTAG
*
77879436 TAGCCTGCACTTAGTACTACACATGTGACCAAT
66 TAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * * *
77879469 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACAC-TA
77879534 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
65 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* **
77879570 TTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
77879617 CACAATAGAT
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
97 40 0.32
98 11 0.09
99 30 0.24
100 1 0.01
101 44 0.35
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACTAG
TAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:77891387 original size:24 final size:24
Alignment explanation
Indices: 77891360--77891410 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
77891350 CTTGGATTTG
77891360 GTATGTTTTTTAATATGAAACTAA
1 GTATGTTTTTTAATATGAAACTAA
77891384 GTATGTTTTTTAATATGAAACTAA
1 GTATGTTTTTTAATATGAAACTAA
77891408 GTA
1 GTA
77891411 GTTGAAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (24 bp):
GTATGTTTTTTAATATGAAACTAA
Found at i:77899873 original size:45 final size:45
Alignment explanation
Indices: 77899814--77899911 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
77899804 TCACTAGGAA
* * *
77899814 ATATGTG--ATCTGAACTCATTTAGTTGTGGTCTGAGTTCATGAT
1 ATATGTGACATCTGAACTAATTGAGTTGTGGTCTGAGGTCATGAT
*
77899857 ATATGTGACATCTGAACTAATTGAGTTGTGGTCTGAGGTCGTGAT
1 ATATGTGACATCTGAACTAATTGAGTTGTGGTCTGAGGTCATGAT
*
77899902 ATATATGACA
1 ATATGTGACA
77899912 CATGTTTTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 7 0.15
45 41 0.85
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (45 bp):
ATATGTGACATCTGAACTAATTGAGTTGTGGTCTGAGGTCATGAT
Found at i:77906104 original size:40 final size:40
Alignment explanation
Indices: 77906012--77906161 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
77906002 AAATTGAATG
* * * *
77906012 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-G-AAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* * *
77906050 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* * *
77906090 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGAT
* *
77906130 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
77906162 AAATCGTGAT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
38 28 0.30
39 4 0.04
40 60 0.64
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
Found at i:77906176 original size:40 final size:38
Alignment explanation
Indices: 77906008--77906193 Score: 155
Period size: 40 Copynumber: 4.8 Consensus size: 38
77905998 TGAGAAATTG
* *
77906008 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
77906047 AAT-T-TATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
77906083 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
77906123 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
77906163 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
77906194 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
35 2 0.02
36 4 0.03
37 2 0.02
38 20 0.17
39 6 0.05
40 84 0.71
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:77907674 original size:29 final size:29
Alignment explanation
Indices: 77907632--77907697 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
77907622 GGGGTGTTAC
*
77907632 AGTGCCAAATATTTCCCGCACGCACACTT
1 AGTGCCAAATATTTCCAGCACGCACACTT
*
77907661 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCAAATATTTCCAGCACGCACACTT
77907690 AGTGCCAA
1 AGTGCCAA
77907698 TCTCGACACC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
AGTGCCAAATATTTCCAGCACGCACACTT
Found at i:77912529 original size:40 final size:40
Alignment explanation
Indices: 77912469--77912632 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
77912459 CGGGATTCAA
* ** *
77912469 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
77912509 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
77912549 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
77912589 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
77912629 CCGG
1 CCGG
77912633 GTATCATTCA
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:77912616 original size:80 final size:80
Alignment explanation
Indices: 77912469--77912632 Score: 204
Period size: 80 Copynumber: 2.0 Consensus size: 80
77912459 CGGGATTCAA
* * ** * *
77912469 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
*
77912534 CCTTCGGGTCTTAGC
66 CCTTCGGGACTTAGC
** * * *
77912549 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
77912613 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
77912629 CCGG
1 CCGG
77912633 GTATCATTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 69 0.97
81 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGGGACTTAGC
Found at i:77920065 original size:43 final size:41
Alignment explanation
Indices: 77919997--77920327 Score: 259
Period size: 43 Copynumber: 8.0 Consensus size: 41
77919987 TAGTGGCATT
* *
77919997 TTTTAGGAAAGCTCCGCTAAAGGTCATGTTCTTTAGCGGCG
1 TTTTAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
* * * * *
77920038 TTTGTATGAAAAGCACCGCTAAAGGTCACGTTCTTTAGTGTCATT
1 TTT-TA-GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGC--G
*
77920083 TTTTAGAAAAGCGCCGCTAAATGTCATGTTCTTTAGCGGCG
1 TTTTAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
* *
77920124 TTTTTGAGAAAAGCGCCACTAAAGGTCAT-TTTTTTA---GC-
1 -TTTT-AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
* * *
77920162 ----AGAAAAGTGCCACTATAA-GTTATGTTCTTTAGCGGCG
1 TTTTAGAAAAGCGCCGCTA-AAGGTCATGTTCTTTAGCGGCG
* *
77920199 ATTTTGAGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGACG
1 -TTTT-AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
* * * * *
77920242 TTTTTAAAAAAAGCGCCTCTAAAGGTCACGTCCTTTAGCGGTG
1 -TTTT-AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
* * * *
77920285 TTTGTGTGGAAGGCACCGCTAAAGGTCATGTTCTTTAGCGGCG
1 TTT-T-AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
77920328 CTTTCTCAAA
Statistics
Matches: 231, Mismatches: 39, Indels: 38
0.75 0.13 0.12
Matches are distributed among these distances:
32 18 0.08
33 8 0.03
36 2 0.01
39 2 0.01
41 3 0.01
42 17 0.07
43 176 0.76
44 2 0.01
45 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (41 bp):
TTTTAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
Found at i:77920085 original size:86 final size:86
Alignment explanation
Indices: 77919986--77920322 Score: 297
Period size: 86 Copynumber: 4.0 Consensus size: 86
77919976 TCTACTAAAA
* *
77919986 TTAGTGGCATTTTTTAGGAAAGCTCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGT-ATGAAAA
1 TTAGTGGCATTTTTTAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGA-GAAAA
*
77920050 GCACCGCTAAAGGTCACGTTCT
65 GCACCACTAAAGGTCACGTTCT
* * *
77920072 TTAGTGTCATTTTTTAGAAAAGCGCCGCTAAATGTCATGTTCTTTAGCGGCGTTTTTGAGAAAAG
1 TTAGTGGCATTTTTTAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAG
*
77920137 CGCCACTAAAGGTCA--TT-T
66 CACCACTAAAGGTCACGTTCT
* * * * *
77920155 TT-TTAGC-------AGAAAAGTGCCACTATAA-GTTATGTTCTTTAGCGGCGATTT-TGAGAAA
1 TTAGTGGCATTTTTTAGAAAAGCGCCGCTA-AAGGTCATGTTCTTTAGCGGCG-TTTGTGAGAAA
* *
77920210 AGCGCCACTAAAGGTCATGTTCT
64 AGCACCACTAAAGGTCACGTTCT
* * * * * * * * * * * *
77920233 TTAGCGACGTTTTTAAAAAAAGCGCCTCTAAAGGTCACGTCCTTTAGCGGTGTTTGTGTGGAAGG
1 TTAGTGGCATTTTTTAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAG
* *
77920298 CACCGCTAAAGGTCATGTTCT
66 CACCACTAAAGGTCACGTTCT
77920319 TTAG
1 TTAG
77920323 CGGCGCTTTC
Statistics
Matches: 206, Mismatches: 29, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
75 55 0.27
76 5 0.02
77 2 0.01
78 3 0.01
79 1 0.00
82 2 0.01
83 3 0.01
84 2 0.01
85 5 0.02
86 127 0.62
87 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (86 bp):
TTAGTGGCATTTTTTAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAG
CACCACTAAAGGTCACGTTCT
Found at i:77920309 original size:161 final size:162
Alignment explanation
Indices: 77920022--77920323 Score: 385
Period size: 161 Copynumber: 1.9 Consensus size: 162
77920012 GCTAAAGGTC
* * * *
77920022 ATGTTCTTTAGCGGCGTTTGTATGAAAAGCACCGCTAAAGGTCACGTTCTTTAGTGTCATTTTTT
1 ATGTTCTTTAGCGGCGTTTGTATGAAAAGCACCACTAAAGGTCACGTTCTTTAGCGACATTTTTA
* * * * * *
77920087 AGAAAAGCGCCGCTAAATGTCATGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCCACTAAAGGTCA
66 AAAAAAGCGCCGCTAAAGGTCACGTCCTTTAGCGGCGTTTGTGAGAAAAGCACCACTAAAGGTCA
*
77920152 T-TTTTTTAGCAGAAAAGTGCCACTATAAGTT
131 TGTTCTTTAGCAGAAAAGTGCCACTATAAGTT
* * *
77920183 ATGTTCTTTAGCGGCGATTT-TGA-GAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGACGTTTT
1 ATGTTCTTTAGCGGCG-TTTGT-ATGAAAAGCACCACTAAAGGTCACGTTCTTTAGCGACATTTT
* * * * * *
77920246 TAAAAAAAGCGCCTCTAAAGGTCACGTCCTTTAGCGGTGTTTGTGTGGAAGGCACCGCTAAAGGT
64 TAAAAAAAGCGCCGCTAAAGGTCACGTCCTTTAGCGGCGTTTGTGAGAAAAGCACCACTAAAGGT
77920311 CATGTTCTTTAGC
129 CATGTTCTTTAGC
77920324 GGCGCTTTCT
Statistics
Matches: 118, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
161 106 0.90
162 12 0.10
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (162 bp):
ATGTTCTTTAGCGGCGTTTGTATGAAAAGCACCACTAAAGGTCACGTTCTTTAGCGACATTTTTA
AAAAAAGCGCCGCTAAAGGTCACGTCCTTTAGCGGCGTTTGTGAGAAAAGCACCACTAAAGGTCA
TGTTCTTTAGCAGAAAAGTGCCACTATAAGTT
Found at i:77920384 original size:45 final size:45
Alignment explanation
Indices: 77920303--77920413 Score: 183
Period size: 45 Copynumber: 2.5 Consensus size: 45
77920293 GAAGGCACCG
* *
77920303 CTAAAGGTCATGTTCTTT-A--GCGGCGCTTTCTCAAAAACGTGA
1 CTAAAAGTCATGTTCTTTAATGGCGGCGCTTTCTCAAAAACGTCA
77920345 CTAAAAGTCATGTTCTTTAATGGCGGCGCTTTCTCAAAAACGTCA
1 CTAAAAGTCATGTTCTTTAATGGCGGCGCTTTCTCAAAAACGTCA
77920390 CTAAAAGTCATGTTCTTTAATGGC
1 CTAAAAGTCATGTTCTTTAATGGC
77920414 ATTTTTTTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
42 17 0.27
43 1 0.02
45 46 0.72
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (45 bp):
CTAAAAGTCATGTTCTTTAATGGCGGCGCTTTCTCAAAAACGTCA
Found at i:77922995 original size:50 final size:50
Alignment explanation
Indices: 77922922--77923118 Score: 286
Period size: 50 Copynumber: 3.9 Consensus size: 50
77922912 TAGGACAGTT
*
77922922 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * *
77922972 TTAGATCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGGTGG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
77923022 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * *
77923072 TTAGGTCGTATGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
77923119 GAGCTTCGGT
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 130 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (50 bp):
TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:77923047 original size:100 final size:100
Alignment explanation
Indices: 77922922--77923117 Score: 338
Period size: 100 Copynumber: 2.0 Consensus size: 100
77922912 TAGGACAGTT
77922922 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGATCGCATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGATCGCATGTGT
77922987 AGTACTAAGTGCAGGCTACTACGTGTATCAGGTGG
66 AGTACTAAGTGCAGGCTACTACGTGTATCAGGTGG
* * * *
77923022 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTAGGTCGTATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGATCGCATGTGT
* *
77923087 AGTACTAAGTGTAGGCTACTATGTGTATCAG
66 AGTACTAAGTGCAGGCTACTACGTGTATCAG
77923118 AGAGCTTCGG
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.32
Consensus pattern (100 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGATCGCATGTGT
AGTACTAAGTGCAGGCTACTACGTGTATCAGGTGG
Found at i:77926822 original size:47 final size:47
Alignment explanation
Indices: 77926753--77926845 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
77926743 TTAATAAAGT
77926753 ATGATAAATGATTAAATAGAATTAAACCCATTTTATATCATCTTCTA
1 ATGATAAATGATTAAATAGAATTAAACCCATTTTATATCATCTTCTA
77926800 ATGATAAATGATTAAATAGAATTAAACCCATTTTATATCATCTTCT
1 ATGATAAATGATTAAATAGAATTAAACCCATTTTATATCATCTTCT
77926846 TCTTCATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (47 bp):
ATGATAAATGATTAAATAGAATTAAACCCATTTTATATCATCTTCTA
Found at i:77927052 original size:20 final size:22
Alignment explanation
Indices: 77927027--77927069 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
77927017 TTCTTTAAAT
*
77927027 TGAAAGTTTA-TGATAG-GAAA
1 TGAAAGGTTATTGATAGAGAAA
77927047 TGAAAGGTTATTGATAGAGAAA
1 TGAAAGGTTATTGATAGAGAAA
77927069 T
1 T
77927070 CACTTTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 6 0.30
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (22 bp):
TGAAAGGTTATTGATAGAGAAA
Found at i:77927750 original size:33 final size:33
Alignment explanation
Indices: 77927713--77927957 Score: 176
Period size: 33 Copynumber: 7.5 Consensus size: 33
77927703 TCCTGAAAGG
* *
77927713 GTACAACTTTAAAAGGCTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGATATGTACACTTTGTGT
* * ** * *
77927746 GTAC-ACTTGGAAAGGTTGGGTATACTTTGTAT
1 GTACAACTTGAAAAGGATATGTACACTTTGTGT
* * * * *
77927778 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACT-TGAAAAGGATATGTACACTTTGTGT
* * * *
77927811 ATACAA-TATGAAAAGAAAATGTATACTTTGTGT
1 GTACAACT-TGAAAAGGATATGTACACTTTGTGT
* * * * *
77927844 ATACCACTTGAAAAGGAAAGGTACACTATGTGT
1 GTACAACTTGAAAAGGATATGTACACTTTGTGT
* * *
77927877 GTAC-ACTTGAAAAGGTTATCTGCACTTTGTGT
1 GTACAACTTGAAAAGGATATGTACACTTTGTGT
* *
77927909 GTACAAATTGAAAAAGG-TATGTACACTTCGTGT
1 GTACAACTTG-AAAAGGATATGTACACTTTGTGT
*
77927942 GTACCACTTGAAAAGG
1 GTACAACTTGAAAAGG
77927958 GAATGTGCAC
Statistics
Matches: 173, Mismatches: 34, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
32 57 0.33
33 109 0.63
34 7 0.04
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (33 bp):
GTACAACTTGAAAAGGATATGTACACTTTGTGT
Found at i:77927920 original size:65 final size:65
Alignment explanation
Indices: 77927786--77927996 Score: 162
Period size: 66 Copynumber: 3.2 Consensus size: 65
77927776 ATATACCATA
* * * * ** * ** *
77927786 TGAAAAGGAAAGGTATACTTTGTGTATA-CAATATGAAAAGAAAATGTATACTTTGTGTATACCA
1 TGAAAAGGAAAGGTACACTTCGTGTGTACCACT-TGAAAAGGGAATCTGCACTTTGTGTGTA-CA
*
77927850 CT
64 AT
**
77927852 TGAAAAGGAAAGGTACACTAT-GTGTGTA-CACTTGAAAAGGTTATCTGCACTTTGTGTGTACAA
1 TGAAAAGGAAAGGTACACT-TCGTGTGTACCACTTGAAAAGGGAATCTGCACTTTGTGTGTAC-A
77927915 AT
64 AT
* * * **
77927917 TGAAAAAGG-TATGTACACTTCGTGTGTACCACTTGAAAAGGGAATGTGCACCTCAG-GTGTACA
1 TG-AAAAGGAAAGGTACACTTCGTGTGTACCACTTGAAAAGGGAATCTGCA-CTTTGTGTGTACA
77927980 AT
64 AT
77927982 TAGAAAAGGAAAGGT
1 T-GAAAAGGAAAGGT
77927997 CTATCAGAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 16
0.76 0.13 0.10
Matches are distributed among these distances:
64 2 0.02
65 50 0.43
66 61 0.52
67 4 0.03
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (65 bp):
TGAAAAGGAAAGGTACACTTCGTGTGTACCACTTGAAAAGGGAATCTGCACTTTGTGTGTACAAT
Found at i:77934143 original size:20 final size:22
Alignment explanation
Indices: 77934118--77934160 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
77934108 TACTGTAAAT
*
77934118 TGAAAGTTTA-TGATAG-GAAA
1 TGAAAGGTTATTGATAGAGAAA
77934138 TGAAAGGTTATTGATAGAGAAA
1 TGAAAGGTTATTGATAGAGAAA
77934160 T
1 T
77934161 CACTTTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 6 0.30
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (22 bp):
TGAAAGGTTATTGATAGAGAAA
Found at i:77934846 original size:33 final size:33
Alignment explanation
Indices: 77934809--77935053 Score: 208
Period size: 33 Copynumber: 7.5 Consensus size: 33
77934799 ACCCGAAAGG
* * * *
77934809 GTACAACTTGAAAAGGCTATGTACACTTTGTGC
1 GTACCACTTGAAAAGGATAGGTACACTTTGTGT
* * * *
77934842 GTA-CACTTGGAAAGGTTGGGTATACTTTGTGT
1 GTACCACTTGAAAAGGATAGGTACACTTTGTGT
* * *
77934874 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGATAGGTACACTTTGTGT
* * * * *
77934907 ATGCCACTTGAAAAGGAAAAGTATACTTTGTGT
1 GTACCACTTGAAAAGGATAGGTACACTTTGTGT
* * * *
77934940 ATACCACTTGAAAAGGAAAGGTACACTATGCGT
1 GTACCACTTGAAAAGGATAGGTACACTTTGTGT
* ** *
77934973 GTA-CACTTGAAAAGGTTATCTGCACTTTGTGT
1 GTACCACTTGAAAAGGATAGGTACACTTTGTGT
* * * *
77935005 GTACAAATTGAAAAGGGTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGATAGGTACACTTTGTGT
77935038 GTACCACTTGAAAAGG
1 GTACCACTTGAAAAGG
77935054 GAATGTGCAC
Statistics
Matches: 174, Mismatches: 34, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
32 50 0.29
33 123 0.71
34 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (33 bp):
GTACCACTTGAAAAGGATAGGTACACTTTGTGT
Found at i:77935016 original size:65 final size:66
Alignment explanation
Indices: 77934865--77935053 Score: 175
Period size: 65 Copynumber: 2.9 Consensus size: 66
77934855 GGTTGGGTAT
* * * * * * ** **
77934865 ACTTTGTGTATAC-CATATGAAAAGGAAAGGTATACTTTGTGTATGCCACTTGAAAAGGAAAAGT
1 ACTTTGTGTATACAAAT-TGAAAAGGAAAGGTACACTATGCGTGTACCACTTGAAAAGGTTATCT
**
77934929 AT
65 GC
* *
77934931 ACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTATGCGTGTA-CACTTGAAAAGGTTATCTG
1 ACTTTGTGTATACAAATTGAAAAGGAAAGGTACACTATGCGTGTACCACTTGAAAAGGTTATCTG
77934995 C
66 C
* ** * * *
77934996 ACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTTGTGTGTACCACTTGAAAAGG
1 ACTTTGTGTATACAAATTGAAAAGGAAAGGTACACTATGCGTGTACCACTTGAAAAGG
77935054 GAATGTGCAC
Statistics
Matches: 100, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
65 51 0.51
66 48 0.48
67 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (66 bp):
ACTTTGTGTATACAAATTGAAAAGGAAAGGTACACTATGCGTGTACCACTTGAAAAGGTTATCTG
C
Found at i:77936830 original size:28 final size:27
Alignment explanation
Indices: 77936767--77936836 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
77936757 ATAGTGAGTC
77936767 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
77936794 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
77936822 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77936837 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:77944782 original size:28 final size:27
Alignment explanation
Indices: 77944719--77944788 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
77944709 ATAGTGAGTC
77944719 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
77944746 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
77944774 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77944789 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:77949465 original size:23 final size:23
Alignment explanation
Indices: 77949439--77949485 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
77949429 TAAAATTTGA
77949439 ATTATTTAATGAAAATATTTAGG
1 ATTATTTAATGAAAATATTTAGG
* *
77949462 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAATGAAAATATTTAGG
77949485 A
1 A
77949486 AAAATTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (23 bp):
ATTATTTAATGAAAATATTTAGG
Found at i:77951760 original size:2 final size:2
Alignment explanation
Indices: 77951755--77951784 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
77951745 TTTTAAGTTT
77951755 TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
77951785 TTATGTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77951774 original size:13 final size:13
Alignment explanation
Indices: 77951756--77951781 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77951746 TTTAAGTTTT
77951756 ATATATATATATA
1 ATATATATATATA
77951769 ATATATATATATA
1 ATATATATATATA
77951782 TATTTATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:77951775 original size:15 final size:15
Alignment explanation
Indices: 77951755--77951783 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
77951745 TTTTAAGTTT
77951755 TATATATATATATAA
1 TATATATATATATAA
77951770 TATATATATATATA
1 TATATATATATATA
77951784 TTTATGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATATATATATATAA
Found at i:77961056 original size:40 final size:40
Alignment explanation
Indices: 77961011--77961178 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
77961001 CGGAATATAA
77961011 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
77961051 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
77961091 CCGGAT-TAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
77961130 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
77961170 CCGGATATA
1 CCGGATATA
77961179 TTCAATTTCT
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 32 0.30
40 74 0.70
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:77961133 original size:39 final size:39
Alignment explanation
Indices: 77961027--77961135 Score: 132
Period size: 39 Copynumber: 2.7 Consensus size: 39
77961017 ATAATCACGT
* *
77961027 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATTAG-ACAACTA
*
77961067 GCACGAATGCCTTCGGGTCTTAGCCCGGATTAG-CCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATTAGACAACTA
*
77961106 GCACAATTGCCTTCGGGTCTTAACCCGGAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGAT
77961136 ATAATTTCCA
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.03
39 29 0.47
40 28 0.45
41 3 0.05
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATTAGACAACTA
Found at i:77961160 original size:79 final size:79
Alignment explanation
Indices: 77961027--77961175 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 79
77961017 ATAATCACGT
* *
77961027 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
77961092 CGGATTAGCCACTA
66 CGGATTAGCCACTA
* * ** * *
77961106 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGGCTTAG
77961169 CCCGGAT
64 CCCGGAT
77961176 ATATTCAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
78 3 0.05
79 57 0.95
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATTAGCCACTA
Found at i:77963683 original size:26 final size:24
Alignment explanation
Indices: 77963649--77963697 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
77963639 TAAATAAAAA
* *
77963649 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
77963675 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
77963698 TTAAAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:77965015 original size:27 final size:27
Alignment explanation
Indices: 77964974--77965038 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
77964964 TGTCATGTGA
* *
77964974 AATTGAATGAAAAATTATTGTTACATG
1 AATTGAATGAAAAATTACTATTACATG
**
77965001 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGAAAAATTACTATTACATG
* *
77965028 GATTGTATGAA
1 AATTGAATGAA
77965039 TTGCTACACG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (27 bp):
AATTGAATGAAAAATTACTATTACATG
Found at i:77965353 original size:49 final size:49
Alignment explanation
Indices: 77965281--77965468 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
77965271 TGAGGTCACG
*
77965281 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
* * * *
77965330 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAA-TT-GGTCGCA
* * * * *
77965381 TGTGTAGTACTAAATGCAGGCTACTACGTGTATCGGATAGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
*
77965430 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATA
77965469 GCTTTGTCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 76 0.64
50 4 0.03
51 38 0.32
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
Found at i:77965449 original size:100 final size:100
Alignment explanation
Indices: 77965276--77965468 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
77965266 TATTGTGAGG
* *
77965276 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
*
77965341 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* *
77965376 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTATCGGATAGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
77965441 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCGTACCAGATA
77965469 GCTTTGTCTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:77969735 original size:14 final size:14
Alignment explanation
Indices: 77969716--77969743 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
77969706 TAAATTCTAG
77969716 TTAAAATTTGATTT
1 TTAAAATTTGATTT
77969730 TTAAAATTTGATTT
1 TTAAAATTTGATTT
77969744 ATTTAGTGAA
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:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAAAATTTGATTT
Found at i:77969761 original size:13 final size:13
Alignment explanation
Indices: 77969743--77969821 Score: 71
Period size: 13 Copynumber: 6.5 Consensus size: 13
77969733 AAATTTGATT
77969743 TATTTAGTGAAAA
1 TATTTAGTGAAAA
*
77969756 TATTTA--G-AAT
1 TATTTAGTGAAAA
*
77969766 TATTTAGTGACAA
1 TATTTAGTGAAAA
*
77969779 TATTTAGTGATAA
1 TATTTAGTGAAAA
*
77969792 TATTTAG-G--AT
1 TATTTAGTGAAAA
*
77969802 TATTTAGTGATAA
1 TATTTAGTGAAAA
77969815 TATTTAG
1 TATTTAG
77969822 AAAAATCTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
10 16 0.30
11 2 0.04
12 2 0.04
13 34 0.63
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (13 bp):
TATTTAGTGAAAA
Found at i:77969768 original size:23 final size:23
Alignment explanation
Indices: 77969742--77969785 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
77969732 AAAATTTGAT
77969742 TTATTTAGTGAAAATATTTAGAA
1 TTATTTAGTGAAAATATTTAGAA
*
77969765 TTATTTAGTGACAATATTTAG
1 TTATTTAGTGAAAATATTTAG
77969786 TGATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (23 bp):
TTATTTAGTGAAAATATTTAGAA
Found at i:77969783 original size:36 final size:36
Alignment explanation
Indices: 77969743--77969821 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
77969733 AAATTTGATT
77969743 TATTTAGTGAAAATATTTAGAATTATTTAGTGACAA
1 TATTTAGTGAAAATATTTAGAATTATTTAGTGACAA
* * *
77969779 TATTTAGTGATAATATTTAGGATTATTTAGTGATAA
1 TATTTAGTGAAAATATTTAGAATTATTTAGTGACAA
77969815 TATTTAG
1 TATTTAG
77969822 AAAAATCTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (36 bp):
TATTTAGTGAAAATATTTAGAATTATTTAGTGACAA
Found at i:77969832 original size:23 final size:23
Alignment explanation
Indices: 77969783--77969832 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
77969773 TGACAATATT
* ** *
77969783 TAGTGATAATATTTAGGATTATT
1 TAGTGATAATATTTAGAAAAATC
77969806 TAGTGATAATATTTAGAAAAATC
1 TAGTGATAATATTTAGAAAAATC
77969829 TAGT
1 TAGT
77969833 TAAATTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (23 bp):
TAGTGATAATATTTAGAAAAATC
Found at i:77974478 original size:23 final size:24
Alignment explanation
Indices: 77974438--77974488 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
77974428 ACATTTTTAT
* *
77974438 ATTTACTTTGTTTTTGAACAATAC
1 ATTTACATTGTTTTTGAACAAAAC
77974462 ATTTACATT-TTTTTGAACAAAAC
1 ATTTACATTGTTTTTGAACAAAAC
77974485 ATTT
1 ATTT
77974489 TTAACTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTTACATTGTTTTTGAACAAAAC
Found at i:77974884 original size:9 final size:9
Alignment explanation
Indices: 77974867--77974901 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
77974857 AAATTATTAA
77974867 AATATAATAT
1 AATA-AATAT
77974877 AATAAATAT
1 AATAAATAT
77974886 AATAAAT-T
1 AATAAATAT
77974894 AATAAATA
1 AATAAATA
77974902 GATAAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 12 0.50
10 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AATAAATAT
Found at i:77974885 original size:14 final size:13
Alignment explanation
Indices: 77974866--77974907 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
77974856 GAAATTATTA
77974866 AAATATAATATAAT
1 AAATATAATA-AAT
77974880 AAATATAATAAAT
1 AAATATAATAAAT
* *
77974893 TAATA-AATAGAT
1 AAATATAATAAAT
77974905 AAA
1 AAA
77974908 ACTATTTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 8 0.32
13 7 0.28
14 10 0.40
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (13 bp):
AAATATAATAAAT
Found at i:77985465 original size:19 final size:17
Alignment explanation
Indices: 77985443--77985482 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 17
77985433 ATTCTTTAGG
77985443 TTTTTTAAAAAATAAATAA
1 TTTTTT-AAAAATAAA-AA
77985462 TTTTTTAAAAATAAAAA
1 TTTTTTAAAAATAAAAA
77985479 TTTT
1 TTTT
77985483 AGATTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 9 0.43
19 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTTTAAAAATAAAAA
Found at i:77985503 original size:22 final size:21
Alignment explanation
Indices: 77985472--77985514 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
77985462 TTTTTTAAAA
*
77985472 ATAAAAATTTTAGATTCTTTTT
1 ATAAAAATTTTAAATT-TTTTT
*
77985494 ATAAATATTTTAAATTTTTTT
1 ATAAAAATTTTAAATTTTTTT
77985515 GTAATTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATAAAAATTTTAAATTTTTTT
Found at i:77986628 original size:5 final size:5
Alignment explanation
Indices: 77986618--77986644 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
77986608 TCAATTGAAA
77986618 TAAAT TAAAT TAAAT TAAAT TAAAT TA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TA
77986645 TATCCACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAAAT
Found at i:77987330 original size:13 final size:13
Alignment explanation
Indices: 77987312--77987340 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
77987302 CCTCCCAACT
77987312 TAGAGCGCAAAAA
1 TAGAGCGCAAAAA
77987325 TAGAGCGCAAAAA
1 TAGAGCGCAAAAA
77987338 TAG
1 TAG
77987341 TGCGGATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.14, G:0.24, T:0.10
Consensus pattern (13 bp):
TAGAGCGCAAAAA
Found at i:77987416 original size:10 final size:10
Alignment explanation
Indices: 77987388--77987426 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
77987378 ATTAAAATAG
77987388 TTTTTAT-TA
1 TTTTTATATA
*
77987397 TTATTATATA
1 TTTTTATATA
*
77987407 TTTTTGTATA
1 TTTTTATATA
77987417 TTTTTATATA
1 TTTTTATATA
77987427 ATTAATGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 6 0.24
10 19 0.76
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTTTATATA
Found at i:77988594 original size:14 final size:15
Alignment explanation
Indices: 77988562--77988596 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
77988552 CATTATTTTG
77988562 TTTTTCTTATTTCAA
1 TTTTTCTTATTTCAA
77988577 -TTTTCTTATTT-AA
1 TTTTTCTTATTTCAA
77988590 TTTTTCT
1 TTTTTCT
77988597 AACAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTCTTATTTCAA
Found at i:77988865 original size:11 final size:12
Alignment explanation
Indices: 77988835--77988868 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
77988825 CGGCCTGCCC
77988835 ATATTAATTTTT
1 ATATTAATTTTT
77988847 ATATTAATTTTT
1 ATATTAATTTTT
77988859 ATA-TAATTTT
1 ATATTAATTTT
77988869 AAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:77989140 original size:21 final size:19
Alignment explanation
Indices: 77989114--77989153 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
77989104 AATAGGGAAA
*
77989114 AAAAAATAAGAAAATAATATT
1 AAAAAACAA-AAAA-AATATT
77989135 AAAAAACAAAAAAAATATT
1 AAAAAACAAAAAAAATATT
77989154 TTTTTGTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (19 bp):
AAAAAACAAAAAAAATATT
Found at i:77991960 original size:47 final size:46
Alignment explanation
Indices: 77991797--77992065 Score: 224
Period size: 47 Copynumber: 5.7 Consensus size: 46
77991787 AGGGTATAAT
*
77991797 GCCGATGCCATGTCCCAGACATGGTCTTATACTGGC-TCATCCATCGA-
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTCAT-C-TCGAG
** * * ** *
77991844 ATCGATGCCATGTCCCAGATATGGTCTTACACTGACTATCGAAATTGAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-TC-ATCTCGAG
** *
77991893 GCCGACACCATGTCCCAGACATGTTCTTACACTGGCTTACATCTCGAG
1 GCCGA-TGCATGTCCCAGACATGGTCTTACACTGGCTT-CATCTCGAG
* * * * * *
77991941 GCCGAAGCATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGC-TTCATCTCGAG
* *
77991987 GCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCCTAAT-GAG
1 GCCGATGC-ATGTCCCAGACATGGTCTTACACTGGCT-TCAT-CTCGAG
77992035 GCCGATGCATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT
77992066 AACTCACACA
Statistics
Matches: 179, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
46 34 0.19
47 73 0.41
48 38 0.21
49 33 0.18
50 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTCATCTCGAG
Found at i:77992449 original size:30 final size:30
Alignment explanation
Indices: 77992408--77992465 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
77992398 AAATTCACAT
* *
77992408 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
77992438 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
77992466 TATTCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:78000118 original size:30 final size:30
Alignment explanation
Indices: 78000077--78000134 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
78000067 AAATTCACAT
* *
78000077 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
78000107 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
78000135 TATTCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:78001034 original size:23 final size:23
Alignment explanation
Indices: 78001008--78001053 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
78000998 AATGATAGAT
78001008 TAGTAAATGTTTGTACATGAACA
1 TAGTAAATGTTTGTACATGAACA
*
78001031 TAGTAGATGTTTGTACATGAACA
1 TAGTAAATGTTTGTACATGAACA
78001054 CTTGTCGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.35
Consensus pattern (23 bp):
TAGTAAATGTTTGTACATGAACA
Found at i:78003961 original size:36 final size:36
Alignment explanation
Indices: 78003921--78004028 Score: 216
Period size: 36 Copynumber: 3.0 Consensus size: 36
78003911 TTTAATGTTG
78003921 GAATTATTATTTTTTGTTGCAAGTAATATTATCCTT
1 GAATTATTATTTTTTGTTGCAAGTAATATTATCCTT
78003957 GAATTATTATTTTTTGTTGCAAGTAATATTATCCTT
1 GAATTATTATTTTTTGTTGCAAGTAATATTATCCTT
78003993 GAATTATTATTTTTTGTTGCAAGTAATATTATCCTT
1 GAATTATTATTTTTTGTTGCAAGTAATATTATCCTT
78004029 TCTTTCTTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 72 1.00
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (36 bp):
GAATTATTATTTTTTGTTGCAAGTAATATTATCCTT
Found at i:78004068 original size:17 final size:16
Alignment explanation
Indices: 78004042--78004075 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
78004032 TTCTTATGGC
*
78004042 TATTATATTTGATATAT
1 TATTAAATTT-ATATAT
78004059 TATTAAATTTATATAT
1 TATTAAATTTATATAT
78004075 T
1 T
78004076 CTCATATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TATTAAATTTATATAT
Found at i:78009888 original size:40 final size:40
Alignment explanation
Indices: 78009843--78009972 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
78009833 CGGAATATAA
78009843 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
78009883 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
78009923 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
78009963 CCGGATATAA
1 CCGGATATAA
78009973 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:78009987 original size:40 final size:39
Alignment explanation
Indices: 78009859--78010009 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
78009849 ATAACCATGT
* * *
78009859 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
78009899 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
78009939 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
78009978 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
78010010 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:78009993 original size:80 final size:79
Alignment explanation
Indices: 78009843--78010009 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
78009833 CGGAATATAA
*
78009843 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
78009908 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
78009923 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
78009985 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
78010002 CCGGATAT
1 CCGGATAT
78010010 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:78033284 original size:23 final size:23
Alignment explanation
Indices: 78033240--78033284 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
78033230 ATTTTCCATA
*
78033240 AATTATTTCACAATGAATAACAC
1 AATTATTTCACAATGAAGAACAC
*
78033263 AATTATATT-ACAATTAAGAACA
1 AATTAT-TTCACAATGAAGAACA
78033285 TACATTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (23 bp):
AATTATTTCACAATGAAGAACAC
Found at i:78038720 original size:28 final size:27
Alignment explanation
Indices: 78038657--78038725 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 27
78038647 ATAGTGAGTC
78038657 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
78038684 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
78038712 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78038726 CATTCTCATG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:78042890 original size:13 final size:13
Alignment explanation
Indices: 78042872--78042899 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
78042862 AATTTGATCC
78042872 ACACGGCCGTGCG
1 ACACGGCCGTGCG
78042885 ACACGGCCGTGCG
1 ACACGGCCGTGCG
78042898 AC
1 AC
78042900 TCACACGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.39, G:0.36, T:0.07
Consensus pattern (13 bp):
ACACGGCCGTGCG
Found at i:78045434 original size:6 final size:6
Alignment explanation
Indices: 78045423--78045452 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
78045413 TATTTTACTA
78045423 TTATTT TTATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
78045453 AAATTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:78045458 original size:18 final size:18
Alignment explanation
Indices: 78045423--78045459 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
78045413 TATTTTACTA
**
78045423 TTATTTTTATTTTTATTT
1 TTATTTTTATTTAAATTT
78045441 TTATTTTTATTTAAATTT
1 TTATTTTTATTTAAATTT
78045459 T
1 T
78045460 ATTGTGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTTTTATTTAAATTT
Found at i:78050122 original size:43 final size:42
Alignment explanation
Indices: 78050074--78050230 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 42
78050064 AGCTTGTACA
*
78050074 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACA-GTAATCAAATATCG
78050117 ATGCC-ACTGTCCCAGACAG-GGTCTTAGACAG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTT--ACAGTAATCAAATATCG
* * * *
78050159 ATGCCAATGTTCCAGACTTGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACA-GT-AATCA-AATATCG
*
78050203 ATGCCAACATCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
78050231 CCAAAACACA
Statistics
Matches: 94, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 22 0.23
43 35 0.37
44 30 0.32
45 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACAGTAATCAAATATCG
Found at i:78050885 original size:24 final size:24
Alignment explanation
Indices: 78050858--78050917 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
78050848 ATGTATTATA
78050858 TATATTTAATTATTATCATGGTTT
1 TATATTTAATTATTATCATGGTTT
** *
78050882 TATATAAAATTATTATTATGGTTT
1 TATATTTAATTATTATCATGGTTT
*
78050906 TATAATT-ATTAT
1 TATATTTAATTAT
78050918 GATTATTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
TATATTTAATTATTATCATGGTTT
Found at i:78050987 original size:17 final size:16
Alignment explanation
Indices: 78050965--78051007 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
78050955 TAGTTGATAA
78050965 ATATATGGTAATAAAAT
1 ATATATGGTAA-AAAAT
*
78050982 ATATATGTGTAAAAATT
1 ATATATG-GTAAAAAAT
78050999 ATAT-TGGTA
1 ATATATGGTA
78051008 CATTTGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 2 0.08
17 15 0.62
18 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (16 bp):
ATATATGGTAAAAAAT
Found at i:78053422 original size:36 final size:36
Alignment explanation
Indices: 78053344--78053446 Score: 163
Period size: 37 Copynumber: 2.9 Consensus size: 36
78053334 AGCTCAGACG
* *
78053344 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTA-CCGGACA
78053381 AAATCTCCACACGTAGTCATCGGGTCTTACCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCGGACA
*
78053417 TAATCTCCACACGTAGTCAT-GGGTCTTACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACC
78053447 CGGAATATAT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 10 0.16
36 26 0.41
37 27 0.43
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (36 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCGGACA
Found at i:78053450 original size:36 final size:37
Alignment explanation
Indices: 78053344--78053450 Score: 173
Period size: 36 Copynumber: 2.9 Consensus size: 37
78053334 AGCTCAGACG
* *
78053344 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
78053381 AAATCTCCACACGTAGTCATCGGGTCTTA-CCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
78053417 TAATCTCCACACGTAGTCAT-GGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
78053451 ATATATTTCC
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 8 0.12
36 31 0.47
37 27 0.41
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:78053714 original size:100 final size:96
Alignment explanation
Indices: 78053596--78053781 Score: 302
Period size: 100 Copynumber: 1.9 Consensus size: 96
78053586 GCACATCGCC
*
78053596 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
78053661 TT-GACCATTCGGCTTTACCACATATGCATATCTCA
62 TTAG-CCATTCGGCTTTACCACATATGCATATCTCA
*
78053696 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
78053761 CCATTCGGCTTTACCACATAT
66 CCATTCGGCTTTACCACATAT
78053782 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
96 36 0.43
97 1 0.01
100 46 0.55
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATGCATATCTCA
Found at i:78053722 original size:48 final size:48
Alignment explanation
Indices: 78053596--78053782 Score: 295
Period size: 48 Copynumber: 3.8 Consensus size: 48
78053586 GCACATCGCC
*
78053596 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
78053648 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
78053696 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
78053744 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
78053783 TGCATGTTCA
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
48 84 0.66
49 1 0.01
51 1 0.01
52 42 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:78053831 original size:47 final size:47
Alignment explanation
Indices: 78053752--78053992 Score: 383
Period size: 47 Copynumber: 5.1 Consensus size: 47
78053742 CATACATATT
* * * *
78053752 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
78053799 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
78053846 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
78053893 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
78053940 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
78053987 TCACAT
1 TCACAT
78053993 AAAATCCTAA
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:78053872 original size:22 final size:22
Alignment explanation
Indices: 78053845--78053963 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
78053835 GCTCACATTC
78053845 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
78053867 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
78053891 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
78053914 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
78053938 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
78053961 ATC
1 ATC
78053964 TCATATATAC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 23 0.32
23 14 0.20
24 14 0.20
25 20 0.28
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:78055544 original size:2 final size:2
Alignment explanation
Indices: 78055537--78055562 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
78055527 ATCATGTACA
78055537 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
78055563 GTGCAAGAGC
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:78062856 original size:58 final size:58
Alignment explanation
Indices: 78062791--78062906 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
78062781 ATTAAATTAT
78062791 AGATTAAAAGAAAGTATAAAGGGCCAAAATGACAATTAAGCCATTTACACAAATTGAG
1 AGATTAAAAGAAAGTATAAAGGGCCAAAATGACAATTAAGCCATTTACACAAATTGAG
78062849 AGATTAAAAGAAAGTATAAAGGGCCAAAATGACAATTAAGCCATTTACACAAATTGAG
1 AGATTAAAAGAAAGTATAAAGGGCCAAAATGACAATTAAGCCATTTACACAAATTGAG
78062907 GCGACAAATG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (58 bp):
AGATTAAAAGAAAGTATAAAGGGCCAAAATGACAATTAAGCCATTTACACAAATTGAG
Found at i:78063029 original size:17 final size:17
Alignment explanation
Indices: 78062989--78063022 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
78062979 TTATATAAAA
* *
78062989 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
78063006 TTATAATTATTATGATT
1 TTATAATTATTATGATT
78063023 ATTTAATGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:78083965 original size:27 final size:26
Alignment explanation
Indices: 78083935--78084042 Score: 78
Period size: 25 Copynumber: 4.2 Consensus size: 26
78083925 TTAAATACAT
* *
78083935 ATATTAGTAATAAT-TATTTTACTTATA
1 ATATAAGTAA-AATATATTATA-TTATA
78083962 ATATAAGTAAAATATATTATATTATA
1 ATATAAGTAAAATATATTATATTATA
* * * *
78083988 TTAT-ATTATATTATATTATATTATA
1 ATATAAGTAAAATATATTATATTATA
* * * *
78084013 TTAT-ATTATATTATATTATATTATA
1 ATATAAGTAAAATATATTATATTATA
*
78084038 TTATA
1 ATATA
78084043 TTATTATTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
25 47 0.64
26 11 0.15
27 15 0.21
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (26 bp):
ATATAAGTAAAATATATTATATTATA
Found at i:78083982 original size:5 final size:5
Alignment explanation
Indices: 78083974--78084051 Score: 147
Period size: 5 Copynumber: 15.4 Consensus size: 5
78083964 ATAAGTAAAA
78083974 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
78084024 TATAT TATAT TATAT TATAT TATTAT TA
1 TATAT TATAT TATAT TATAT TA-TAT TA
78084052 ACATAAAATA
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 67 0.93
6 5 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:78084106 original size:13 final size:12
Alignment explanation
Indices: 78084090--78084153 Score: 58
Period size: 13 Copynumber: 5.1 Consensus size: 12
78084080 AATAATGAAA
78084090 AGAAAGAAATAAG
1 AGAAAGAAA-AAG
*
78084103 AGAAATGAAACAG
1 AGAAA-GAAAAAG
*
78084116 AGAAGGGAAAGAA-
1 AGAA-AGAAA-AAG
78084129 AGAAAGAAAAAG
1 AGAAAGAAAAAG
*
78084141 GGAAAGAAAAAG
1 AGAAAGAAAAAG
78084153 A
1 A
78084154 AAGAGAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 2 0.05
12 15 0.37
13 19 0.46
14 5 0.12
ACGTcount: A:0.67, C:0.02, G:0.28, T:0.03
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:78084119 original size:26 final size:24
Alignment explanation
Indices: 78084090--78084161 Score: 58
Period size: 24 Copynumber: 2.9 Consensus size: 24
78084080 AATAATGAAA
*
78084090 AGAAAGAAATAAGAGAAATGAAACAG
1 AGAAAGAAA-AAGAGAAA-GAAAAAG
*
78084116 AGAAGGGAAAGAA-AGAAAGAAAAAG
1 AGAA-AGAAA-AAGAGAAAGAAAAAG
*
78084141 GGAAAGAAAAAGA-AAGAGAAA
1 AGAAAGAAAAAGAGAA-AGAAA
78084162 TTAGGGTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
23 4 0.11
24 10 0.26
25 9 0.24
26 9 0.24
27 6 0.16
ACGTcount: A:0.68, C:0.01, G:0.28, T:0.03
Consensus pattern (24 bp):
AGAAAGAAAAAGAGAAAGAAAAAG
Found at i:78084555 original size:18 final size:18
Alignment explanation
Indices: 78084532--78084575 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
78084522 AGCCAGCTAA
78084532 AATTTAGGACTAAATTGG
1 AATTTAGGACTAAATTGG
*
78084550 AATTTAGGATTAAATTGG
1 AATTTAGGACTAAATTGG
78084568 AATTTAGG
1 AATTTAGG
78084576 TAAAAGTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (18 bp):
AATTTAGGACTAAATTGG
Found at i:78084865 original size:27 final size:26
Alignment explanation
Indices: 78084822--78084873 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
78084812 AACATGAGAA
78084822 TGATTGAAATGTGTATTGAATTGGAAT
1 TGATTGAAATGTGTATT-AATTGGAAT
*
78084849 TGATTGAAAT-TGATATTATTTGGAA
1 TGATTGAAATGTG-TATTAATTGGAA
78084874 ATCAAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (26 bp):
TGATTGAAATGTGTATTAATTGGAAT
Found at i:78086019 original size:41 final size:42
Alignment explanation
Indices: 78085937--78086051 Score: 135
Period size: 41 Copynumber: 2.8 Consensus size: 42
78085927 TTTTGAGTCC
* * *
78085937 ACACGGCCTAGCACACGGGCATGTGGGCAGACTGTGCGAGAT
1 ACACGGCCTGGCACACGGGCATGTAGGCAAACTGTGCGAGAT
* *
78085979 ACACAGCCTGGCACA-GGGCATGTAGGCAAA-TCGTGTGAGAT
1 ACACGGCCTGGCACACGGGCATGTAGGCAAACT-GTGCGAGAT
* **
78086020 ATACGGAATGGCACACGGGCATGTAGGCAAAC
1 ACACGGCCTGGCACACGGGCATGTAGGCAAAC
78086052 AATGTGAAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
40 1 0.02
41 32 0.52
42 28 0.46
ACGTcount: A:0.29, C:0.23, G:0.33, T:0.15
Consensus pattern (42 bp):
ACACGGCCTGGCACACGGGCATGTAGGCAAACTGTGCGAGAT
Found at i:78092395 original size:40 final size:40
Alignment explanation
Indices: 78092312--78092524 Score: 284
Period size: 40 Copynumber: 5.3 Consensus size: 40
78092302 GTATCCGAGC
* * *
78092312 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGT
78092353 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
78092393 TAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
* * *
78092433 TAATTCCCGAAGGCATTTGTACGAGTTACCAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
* * * * *
78092473 TAAGTCCCAAAGGCATTTGCGCGAATTATTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT
*
78092513 TATGTCCCGAAG
1 TAAGTCCCGAAG
78092525 ACAATCGAGC
Statistics
Matches: 155, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 132 0.85
41 23 0.15
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Found at i:78108642 original size:39 final size:39
Alignment explanation
Indices: 78108588--78108729 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
78108578 TGTGAATGAA
78108588 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
78108627 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
78108666 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
78108705 TGTGCG-ATTGTGATATCCGGG-TAAG
1 TGTGCGAATTGTGATATCCGGGCTAAG
78108730 TTGTGATAGT
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
37 4 0.04
38 12 0.12
39 81 0.84
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:78114383 original size:40 final size:39
Alignment explanation
Indices: 78114279--78114480 Score: 197
Period size: 40 Copynumber: 5.0 Consensus size: 39
78114269 AATTTAGCCA
* * *
78114279 GATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCG
1 GATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* *** * *
78114319 GATTTGGTATCTTGCACAATTGCCTTCGGGTCTTAGCCCG
1 GATATAACA-CTAGCACAAATGCCTTCGGGTCTTAGCCCG
* *
78114359 GATATAACAACTCGCACGAATGCCTTCGGGTCTTTAGCCCG
1 GATATAAC-ACTAGCACAAATGCCTTCGGGTC-TTAGCCCG
* * *
78114400 AATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCG
1 GATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* * *
78114440 GATATATTCACTAGCATAAATGCCTTCGGGACTTAGCCCG
1 GATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGCCCG
78114480 G
1 G
78114481 GTATCATTCA
Statistics
Matches: 136, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 100 0.74
41 34 0.25
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (39 bp):
GATATAACACTAGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:78116777 original size:19 final size:19
Alignment explanation
Indices: 78116729--78116778 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
78116719 CGGGTTAGAG
*
78116729 ACACGGGCGTATCCCAAGT
1 ACACGGGCGTGTCCCAAGT
78116748 ACACGGGCGTGTCCCAAGT
1 ACACGGGCGTGTCCCAAGT
78116767 ACACGGGCGTGT
1 ACACGGGCGTGT
78116779 GATGCCTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.22, C:0.30, G:0.32, T:0.16
Consensus pattern (19 bp):
ACACGGGCGTGTCCCAAGT
Found at i:78123751 original size:48 final size:48
Alignment explanation
Indices: 78123692--78124286 Score: 904
Period size: 48 Copynumber: 12.1 Consensus size: 48
78123682 GCTAAAATTG
* *
78123692 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78123740 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
78123788 ATGTATGAGATATGTATATGTGGTAAAGCCCAATGGCTAATGTTAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78123836 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78123884 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
78123932 ATGTATGAGATATGTATATATGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
78123980 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCAAAATATATATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG-----T-GA-A-AT
* * * *
78124036 ATATATGAGATATGTATTTGTGGTAAAGCTGAATGGTTAATGTGAAATATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-AT
*
78124088 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
78124136 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* * *
78124186 ATATATGAGATATGTATATATGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
78124234 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78124282 ATGTA
1 ATGTA
78124287 GGCGATGTGT
Statistics
Matches: 508, Mismatches: 25, Indels: 28
0.91 0.04 0.05
Matches are distributed among these distances:
47 1 0.00
48 369 0.73
49 5 0.01
50 41 0.08
51 2 0.00
52 47 0.09
53 1 0.00
54 1 0.00
55 1 0.00
56 40 0.08
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:78124578 original size:36 final size:37
Alignment explanation
Indices: 78124433--78124576 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
78124423 GGAAATATAT
*
78124433 TCCGGGTAAGACCCGATGACTACGTATGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
78124470 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
78124507 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
78124544 TCCGGGTAAGACCC-ATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
78124577 TTATCTGAGC
Statistics
Matches: 103, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 17 0.17
37 86 0.83
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:78126183 original size:17 final size:17
Alignment explanation
Indices: 78126161--78126196 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
78126151 GAAGGCTTAA
78126161 TTAAGGTACGAGTTTTG
1 TTAAGGTACGAGTTTTG
78126178 TTAAGGTACGAGTTTTG
1 TTAAGGTACGAGTTTTG
78126195 TT
1 TT
78126197 CGATTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.28, T:0.44
Consensus pattern (17 bp):
TTAAGGTACGAGTTTTG
Found at i:78129680 original size:40 final size:40
Alignment explanation
Indices: 78129625--78129788 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
78129615 TGAATGATAC
* * *
78129625 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
78129665 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
78129705 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
78129745 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
78129785 CCGG
1 CCGG
78129789 TTGAATCCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:78137750 original size:40 final size:40
Alignment explanation
Indices: 78137695--78137858 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
78137685 TGAATGATAC
* * *
78137695 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
78137735 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
78137775 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
78137815 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
78137855 CCGG
1 CCGG
78137859 TTGAATCCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:78139652 original size:21 final size:23
Alignment explanation
Indices: 78139604--78139652 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
78139594 TGATGATATA
*
78139604 TGTAAATAGTATGTGAAATTTGT
1 TGTAAATAGTATGTGAAATTGGT
78139627 TGTAAAT-G-ATGTGAAA-TGGT
1 TGTAAATAGTATGTGAAATTGGT
78139647 TAGTAA
1 T-GTAA
78139653 TTGTGACAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 12 0.50
22 1 0.04
23 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (23 bp):
TGTAAATAGTATGTGAAATTGGT
Found at i:78143188 original size:28 final size:27
Alignment explanation
Indices: 78143125--78143194 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
78143115 ATAGTGAGTC
78143125 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
78143152 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
78143180 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78143195 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:78145719 original size:38 final size:38
Alignment explanation
Indices: 78145668--78145753 Score: 136
Period size: 38 Copynumber: 2.3 Consensus size: 38
78145658 ATATTTGATG
* *
78145668 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
*
78145706 TATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
*
78145744 TATATTCGGG
1 TATATCCGGG
78145754 CCTTTGAGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.33
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
Found at i:78145786 original size:25 final size:25
Alignment explanation
Indices: 78145758--78145831 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
78145748 TTCGGGCCTT
78145758 TGAGCCTAGCAGGCTATTATGCCGG
1 TGAGCCTAGCAGGCTATTATGCCGG
** **
78145783 TGAG---A-CA--CTATTCGGGCCTT
1 TGAGCCTAGCAGGCTATT-ATGCCGG
78145803 TGAGCCTAGCAGGCTATTATGCCGG
1 TGAGCCTAGCAGGCTATTATGCCGG
78145828 TGAG
1 TGAG
78145832 ACACTATTCG
Statistics
Matches: 34, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
19 5 0.15
20 7 0.21
21 2 0.06
22 1 0.03
23 1 0.03
24 2 0.06
25 11 0.32
26 5 0.15
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (25 bp):
TGAGCCTAGCAGGCTATTATGCCGG
Found at i:78145796 original size:45 final size:45
Alignment explanation
Indices: 78145746--78146010 Score: 433
Period size: 45 Copynumber: 5.9 Consensus size: 45
78145736 GCTGGTATTA
78145746 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
78145791 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* *
78145836 TATTCGGGCCTTTGAGCCTAGTAGGCTATTATGCCGGTGAGACAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* * *
78145881 TATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* *
78145926 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* *
78145971 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGTCGGTGA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATTATGCCGGTGA
78146011 AATGATAATC
Statistics
Matches: 209, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
44 4 0.02
45 205 0.98
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
Found at i:78146013 original size:90 final size:90
Alignment explanation
Indices: 78145746--78146053 Score: 444
Period size: 90 Copynumber: 3.4 Consensus size: 90
78145736 GCTGGTATTA
*
78145746 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACACTATTCGGGCCTTTGAGCCTA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCGGGCCTTTGAGCCTA
* * *
78145811 GCAGGCTATTATGCCGGTGAGACAC
66 GCAGGCTATAATGCCGGTGAAATAC
* * *
78145836 TATTCGGGCCTTTGAGCCTAGTAGGCTATTATGCCGGTGAGACATTATTCGGGCCTTTGAGCCTA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCGGGCCTTTGAGCCTA
*
78145901 GCAGGCTATGATGCCGGTGAAATAC
66 GCAGGCTATAATGCCGGTGAAATAC
*
78145926 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG-CTTTCGAGCCT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCGGGCCTTT-GAGCCT
*
78145990 AGCAGGCTATAATGTCGGTGAAATGA-
65 AGCAGGCTATAATGCCGGTGAAAT-AC
* * * *
78146016 TAATCGAGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
78146054 TTTGAGAAAA
Statistics
Matches: 201, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
88 12 0.06
89 18 0.09
90 170 0.85
91 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (90 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCGGGCCTTTGAGCCTA
GCAGGCTATAATGCCGGTGAAATAC
Found at i:78154851 original size:17 final size:17
Alignment explanation
Indices: 78154829--78154864 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
78154819 TGAAGCTCAC
78154829 CTTTTGTCTGGTCAACA
1 CTTTTGTCTGGTCAACA
78154846 CTTTTGTCTGGTCAACA
1 CTTTTGTCTGGTCAACA
78154863 CT
1 CT
78154865 GCAGACTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.42
Consensus pattern (17 bp):
CTTTTGTCTGGTCAACA
Found at i:78156461 original size:12 final size:12
Alignment explanation
Indices: 78156444--78156468 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78156434 GAGAAGAAAG
78156444 CAGAGCCGGAGC
1 CAGAGCCGGAGC
78156456 CAGAGCCGGAGC
1 CAGAGCCGGAGC
78156468 C
1 C
78156469 GACATTTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.40, T:0.00
Consensus pattern (12 bp):
CAGAGCCGGAGC
Found at i:78164688 original size:12 final size:12
Alignment explanation
Indices: 78164671--78164710 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
78164661 AAAAGAATAA
78164671 GAAATGAAATTG
1 GAAATGAAATTG
*
78164683 GAAATGAAAATG
1 GAAATGAAATTG
78164695 GAAAATGAAATGTG
1 G-AAATGAAAT-TG
78164709 GA
1 GA
78164711 TTTTGGATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 12 0.50
13 9 0.38
14 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.20
Consensus pattern (12 bp):
GAAATGAAATTG
Found at i:78172507 original size:17 final size:17
Alignment explanation
Indices: 78172487--78172541 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
78172477 TTTGAAATGT
78172487 ATGTTGTTCTCATTCTC
1 ATGTTGTTCTCATTCTC
* * * *
78172504 ATGTT-ATGTGATATGT-
1 ATGTTGTTCTCAT-TCTC
78172520 ATGTTGTTCTCATTCTC
1 ATGTTGTTCTCATTCTC
78172537 ATGTT
1 ATGTT
78172542 ATGTGATATT
Statistics
Matches: 27, Mismatches: 8, Indels: 6
0.66 0.20 0.15
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.16, C:0.15, G:0.16, T:0.53
Consensus pattern (17 bp):
ATGTTGTTCTCATTCTC
Found at i:78172524 original size:33 final size:33
Alignment explanation
Indices: 78172483--78172554 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
78172473 CTCATTTGAA
78172483 ATGTATGTTGTTCTCATTCTCATGTTATGTGAT
1 ATGTATGTTGTTCTCATTCTCATGTTATGTGAT
78172516 ATGTATGTTGTTCTCATTCTCATGTTATGTGAT
1 ATGTATGTTGTTCTCATTCTCATGTTATGTGAT
78172549 AT-TATG
1 ATGTATG
78172555 GCATAATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
32 4 0.10
33 35 0.90
ACGTcount: A:0.19, C:0.11, G:0.18, T:0.51
Consensus pattern (33 bp):
ATGTATGTTGTTCTCATTCTCATGTTATGTGAT
Found at i:78173860 original size:15 final size:16
Alignment explanation
Indices: 78173840--78173875 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
78173830 CATCTTCTAT
78173840 AACCATTC-GTGTCAA
1 AACCATTCTGTGTCAA
78173855 AACCA-TCTGTGTCAA
1 AACCATTCTGTGTCAA
78173870 AACCAT
1 AACCAT
78173876 CCGAACTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (16 bp):
AACCATTCTGTGTCAA
Found at i:78177547 original size:40 final size:39
Alignment explanation
Indices: 78177492--78177748 Score: 286
Period size: 40 Copynumber: 6.5 Consensus size: 39
78177482 CGGATGATAA
* * *
78177492 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* * *
78177532 CCGGGCTTAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
78177572 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
78177612 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
78177652 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
78177692 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAT-T
* *
78177731 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
78177749 TACTTGGCTT
Statistics
Matches: 192, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
38 15 0.08
39 14 0.07
40 163 0.85
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:78177708 original size:120 final size:119
Alignment explanation
Indices: 78177495--78177722 Score: 334
Period size: 120 Copynumber: 1.9 Consensus size: 119
78177485 ATGATAACCG
* * *
78177495 GGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTTAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGTGC
* * *
78177560 GAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCA
66 GAGTTACTACACCCGGGCTAAGTCCCGAAGGCA-TTGAGCGAGTTATTACATCCA
*
78177615 GGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATTGGT
1 GGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTGGT
* *
78177678 GCGAGTTACTATACCCGGGCTATGTCCCGAAGGCATTGAGCGAGT
64 GCGAGTTACTACACCCGGGCTAAGTCCCGAAGGCATTGAGCGAGT
78177723 AGCTATATCC
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
119 10 0.10
120 86 0.89
121 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (119 bp):
GGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGTGC
GAGTTACTACACCCGGGCTAAGTCCCGAAGGCATTGAGCGAGTTATTACATCCA
Found at i:78185087 original size:40 final size:39
Alignment explanation
Indices: 78185024--78185279 Score: 304
Period size: 40 Copynumber: 6.5 Consensus size: 39
78185014 CGGATGATAA
* * *
78185024 CCGGGCTAAGT-CCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
78185063 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
78185103 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
*
78185143 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
*
78185183 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
78185223 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAT-T
* *
78185262 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
78185280 TACTTGGCTT
Statistics
Matches: 197, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.08
39 26 0.13
40 156 0.79
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:78192186 original size:13 final size:13
Alignment explanation
Indices: 78192168--78192193 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78192158 ATATTATAAT
78192168 TATTTTATGTTAA
1 TATTTTATGTTAA
78192181 TATTTTATGTTAA
1 TATTTTATGTTAA
78192194 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:78193617 original size:40 final size:40
Alignment explanation
Indices: 78193569--78193774 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
78193559 GGACTAAGAT
78193569 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
78193609 CTGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
78193649 CCGAAGGCATTTGTGCTAGTGGCTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
78193689 CCGAAGGCATTTGTGCTAGTGATTATATCTGGTCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * * *
78193729 CCAAAGACATTTGTACGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
*
78193768 CCAAAGG
1 CCGAAGG
78193775 TACTTGGGTT
Statistics
Matches: 147, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 13 0.09
40 132 0.90
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:78195746 original size:46 final size:46
Alignment explanation
Indices: 78195679--78195938 Score: 212
Period size: 46 Copynumber: 5.6 Consensus size: 46
78195669 TGTAACCTGC
* *
78195679 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
78195725 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTTGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
78195775 -C-TCA-TGAACTCAGACTCAGCTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
78195818 CAATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * * *
78195868 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCAGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
78195911 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
78195939 AAGTTCGGAA
Statistics
Matches: 167, Mismatches: 29, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
42 4 0.02
43 6 0.04
44 3 0.02
45 6 0.04
46 77 0.46
47 51 0.31
48 6 0.04
49 3 0.02
50 6 0.04
51 5 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:78195798 original size:47 final size:47
Alignment explanation
Indices: 78195732--78195891 Score: 168
Period size: 47 Copynumber: 3.4 Consensus size: 47
78195722 CATCCATAAG
78195732 TGAACTCAGACTCAACTCAACGAGCTCGGATGCCTTGTTACATCTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGGATGCCTTGTTACATCTCA
* * * *
78195779 TGAACTCAGACTCAGCTCAACGAGTTCGG--GCATTCG---CATCAATAA
1 TGAACTCAGACTCAACTCAACGAGCTCGGATGCCTT-GTTACATC--TCA
* * *
78195824 GTGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCA
1 -TGAACTCAGACTCAACTCAACGAGCTCGGATGCCTTGTTACATCTCA
* *
78195872 CGAACTCGGACTCAACTCAA
1 TGAACTCAGACTCAACTCAA
78195892 TGAGTTCAGG
Statistics
Matches: 92, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
43 4 0.04
45 6 0.07
46 26 0.28
47 47 0.51
48 5 0.05
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (47 bp):
TGAACTCAGACTCAACTCAACGAGCTCGGATGCCTTGTTACATCTCA
Found at i:78195798 original size:93 final size:93
Alignment explanation
Indices: 78195686--78195947 Score: 407
Period size: 93 Copynumber: 2.8 Consensus size: 93
78195676 TGCCCATAAG
* * *
78195686 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAATGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
78195751 ACGAGCTCGGATGCCTTGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * * * *
78195779 TGAACTCAGACTCAGCTCAACGAGTTCGGGCATTCGCATCAATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAATGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
78195844 ACGAGCTTGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
78195872 CGAACTCGGACTCAACTCAATGAGTTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAATGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
78195937 ACAAGTTCGGA
66 ACGAGCTCGGA
78195948 ACTCAACCAT
Statistics
Matches: 150, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 150 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAATGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:78202393 original size:27 final size:27
Alignment explanation
Indices: 78202335--78202405 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
78202325 AATCTCATCT
* * *
78202335 CTGTAGGCTAGCATTACTGAAATATCC
1 CTGTAGGGTAGAATTACTGAAATAGCC
78202362 CTGTAGGGTAGAATTACTGAAAT-GCC
1 CTGTAGGGTAGAATTACTGAAATAGCC
78202388 CTTGTAGGGTAGAATTAC
1 C-TGTAGGGTAGAATTAC
78202406 CAAAATACCC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 3 0.08
27 37 0.93
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATAGCC
Found at i:78202411 original size:27 final size:27
Alignment explanation
Indices: 78202336--78202418 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
78202326 ATCTCATCTC
* * **
78202336 TGTAGGCTAGCATTACTGAAATATCCC-
1 TGTAGGGTAGAATTACCAAAATA-CCCT
** *
78202363 TGTAGGGTAGAATTACTGAAATGCCCT
1 TGTAGGGTAGAATTACCAAAATACCCT
78202390 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACCAAAATACCCT
78202417 TG
1 TG
78202419 GTTTACAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
26 3 0.06
27 46 0.94
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (27 bp):
TGTAGGGTAGAATTACCAAAATACCCT
Done.