Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 86 of 208
Found at i:30075757 original size:47 final size:49
Alignment explanation
Indices: 30075689--30075805 Score: 113
Period size: 47 Copynumber: 2.5 Consensus size: 49
30075679 ATTTACAATT
* * *
30075689 TTTTATTTTTTTTACGA-TTTTAATAAAAAGTT-CTAATTTTTAAT-AAA
1 TTTTAATTTTTTTACAATTTTTAATAAAAAGTTAATAATTTTT-ATGAAA
* * *
30075736 TTTTAATTTTTTTA-AATTTTT-ATTAAAATTTAATAATTTTTTTGAAA
1 TTTTAATTTTTTTACAATTTTTAATAAAAAGTTAATAATTTTTATGAAA
*
30075783 -TTT-ATTTTTTTATAATTTTTAAT
1 TTTTAATTTTTTTACAATTTTTAAT
30075806 GAGAGCAAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
45 9 0.15
46 20 0.34
47 30 0.51
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (49 bp):
TTTTAATTTTTTTACAATTTTTAATAAAAAGTTAATAATTTTTATGAAA
Found at i:30075983 original size:42 final size:41
Alignment explanation
Indices: 30075900--30075981 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
30075890 GAAAAAAGTA
30075900 GGGGCCTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTT
1 GGGGCCTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTT
30075941 GGGGCCTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTT
1 GGGGCCTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTT
30075982 TGATGCATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.17, C:0.10, G:0.29, T:0.44
Consensus pattern (41 bp):
GGGGCCTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTT
Found at i:30077617 original size:26 final size:26
Alignment explanation
Indices: 30077595--30077645 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
30077585 TTCATATATT
30077595 TGAAAACTTATTTTAAAAAATATTTA
1 TGAAAACTTATTTTAAAAAATATTTA
*
30077621 TGAAAACTTATTTTAAAGAATATTT
1 TGAAAACTTATTTTAAAAAATATTT
30077646 TTTAAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
TGAAAACTTATTTTAAAAAATATTTA
Found at i:30077632 original size:14 final size:13
Alignment explanation
Indices: 30077593--30077634 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
30077583 TCTTCATATA
30077593 TTTGAAAACTTAT
1 TTTGAAAACTTAT
**
30077606 TTT-AAAAAATAT
1 TTTGAAAACTTAT
30077618 TTATGAAAACTTAT
1 TT-TGAAAACTTAT
30077632 TTT
1 TTT
30077635 AAAGAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 9 0.39
13 5 0.22
14 9 0.39
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (13 bp):
TTTGAAAACTTAT
Found at i:30082341 original size:64 final size:64
Alignment explanation
Indices: 30082262--30082399 Score: 240
Period size: 64 Copynumber: 2.2 Consensus size: 64
30082252 ACAAAGCAAA
* *
30082262 GGCAATAACATACGGGAAAATATCATGACCAAGTCAGTACATTGGGCATTAGTTTATAAGGAAC
1 GGCAATAACATACGGGAAAATATCATGACCAAGTCAGTAAATTGGGCATTAGTTTATAAGAAAC
30082326 GGCAATAACATACGGGAAAATATCATGACCAAGTCAGTAAATTGGGCATTAGTTTATAAGAAAC
1 GGCAATAACATACGGGAAAATATCATGACCAAGTCAGTAAATTGGGCATTAGTTTATAAGAAAC
**
30082390 ACCAATAACA
1 GGCAATAACA
30082400 GTATTTTCTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (64 bp):
GGCAATAACATACGGGAAAATATCATGACCAAGTCAGTAAATTGGGCATTAGTTTATAAGAAAC
Found at i:30086573 original size:18 final size:19
Alignment explanation
Indices: 30086550--30086589 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
30086540 ATTGTAAAAA
30086550 TATTTTATA-AAAATAAAT
1 TATTTTATAGAAAATAAAT
30086568 TATTTTATAGGAAAATAAAT
1 TATTTTATA-GAAAATAAAT
30086588 TA
1 TA
30086590 ATCTTTTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TATTTTATAGAAAATAAAT
Found at i:30088563 original size:16 final size:16
Alignment explanation
Indices: 30088542--30088611 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
30088532 TTTGGTTCGC
* *
30088542 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
30088558 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
30088574 TATAATGGAATAGAGG
1 TGTAATGGAATAGAGG
30088590 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
30088606 TGTAAT
1 TGTAAT
30088612 AGCATAATGG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.33, C:0.00, G:0.34, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:30089211 original size:122 final size:120
Alignment explanation
Indices: 30088740--30089356 Score: 1081
Period size: 122 Copynumber: 5.1 Consensus size: 120
30088730 TTAATCATAT
*
30088740 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
30088805 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
30088860 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-T
*
30088925 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
65 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
30088981 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
30089046 AAATATTCTTAAATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
30089101 TTTAAAATAATTATTATTAAAAATGTAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
30089166 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
30089223 TTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTATTTAAT
1 TTTAAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAAATT-CTTAAT
*
30089288 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
63 ATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
30089346 TTTAAAATAAT
1 TTTAAAATAAT
30089357 AAAATTTGAA
Statistics
Matches: 481, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
120 137 0.28
121 116 0.24
122 155 0.32
123 73 0.15
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:30089260 original size:15 final size:16
Alignment explanation
Indices: 30089214--30089278 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
30089204 ATAATACTAT
30089214 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
30089229 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
30089242 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
30089259 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
30089276 AAA
1 AAA
30089279 TTATTTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:30089287 original size:18 final size:18
Alignment explanation
Indices: 30089241--30089292 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
30089231 AATTATTATT
*
30089241 AAAA-ATATAATTTAGTA
1 AAAATATATAATTTAATA
30089258 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
* *
30089276 AAATTATTTAATATTAA
1 AAAATATATAAT-TTAA
30089293 ATATTCTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 4 0.13
18 22 0.73
19 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAATATATAATTTAATA
Found at i:30089401 original size:20 final size:20
Alignment explanation
Indices: 30089354--30089392 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30089344 AATTTAAAAT
*
30089354 AATAAAATTTGAATCGATTA
1 AATAATATTTGAATCGATTA
* *
30089374 AATGATATTTGAATTGATT
1 AATAATATTTGAATCGATT
30089393 TGATAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
AATAATATTTGAATCGATTA
Found at i:30089669 original size:17 final size:17
Alignment explanation
Indices: 30089647--30089714 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
30089637 TTATATGCTT
30089647 TTAATTTATTGCATGTA
1 TTAATTTATTGCATGTA
*
30089664 TTAATTTATTTTTCA--TA
1 TTAATTTA--TTGCATGTA
*
30089681 TTATTTTTATAT-CATGTA
1 TTA-ATTTAT-TGCATGTA
30089699 TTAATTTATTGCATGT
1 TTAATTTATTGCATGT
30089715 TTGTATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
16 4 0.10
17 24 0.59
18 9 0.22
19 4 0.10
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (17 bp):
TTAATTTATTGCATGTA
Found at i:30094664 original size:29 final size:29
Alignment explanation
Indices: 30094625--30094687 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
30094615 GTCTGGCCCA
30094625 TGTGGCCCACACGGCCTAGCACATAGTCG
1 TGTGGCCCACACGGCCTAGCACATAGTCG
* * * *
30094654 TGTGGCTCACACGGCCTCGCATATGGTCG
1 TGTGGCCCACACGGCCTAGCACATAGTCG
30094683 TGTGG
1 TGTGG
30094688 TCATAAATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.22
Consensus pattern (29 bp):
TGTGGCCCACACGGCCTAGCACATAGTCG
Found at i:30094997 original size:24 final size:24
Alignment explanation
Indices: 30094970--30095018 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
30094960 AAAACTTTCG
*
30094970 AAACAAACCCAAAATTGAATTTAA
1 AAACAAACCCAAAATCGAATTTAA
30094994 AAACAAACCCAAAATCGAATTTAA
1 AAACAAACCCAAAATCGAATTTAA
30095018 A
1 A
30095019 CTTTTACCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.59, C:0.18, G:0.04, T:0.18
Consensus pattern (24 bp):
AAACAAACCCAAAATCGAATTTAA
Found at i:30095696 original size:15 final size:15
Alignment explanation
Indices: 30095676--30095706 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30095666 TAGTTAGATG
*
30095676 AATTTGCATGGATTA
1 AATTTGCATGAATTA
30095691 AATTTGCATGAATTA
1 AATTTGCATGAATTA
30095706 A
1 A
30095707 GAGTAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (15 bp):
AATTTGCATGAATTA
Found at i:30096974 original size:40 final size:39
Alignment explanation
Indices: 30096853--30096993 Score: 126
Period size: 40 Copynumber: 3.6 Consensus size: 39
30096843 ACTTCGAGTT
* ** *
30096853 GATGAGACACTGGGTGTCAATTTACTACTTCGAATTAATTC
1 GATGAGGCACTGGGTGTCAAACTATTACTTCGAATT-A-TC
* **
30096894 GATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGTC
1 GATGAGGCACTGGGTGTCAAACTATTACTTCGAATTA-TC
*
30096931 GATGAGGCACTGGGTGTCAAACTATTACTTTGAATTATCC
1 GATGAGGCACTGGGTGTCAAACTATTACTTCGAATTAT-C
* * *
30096971 GATGAGGTATTGGGTGCCAAACT
1 GATGAGGCACTGGGTGTCAAACT
30096994 GGTGTGTTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 19 0.23
38 12 0.15
39 3 0.04
40 33 0.40
41 15 0.18
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (39 bp):
GATGAGGCACTGGGTGTCAAACTATTACTTCGAATTATC
Found at i:30105626 original size:27 final size:27
Alignment explanation
Indices: 30105592--30105650 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
30105582 TATTATTGAT
30105592 TTTTTATTCATAAAATTATTTTTATAA
1 TTTTTATTCATAAAATTATTTTTATAA
** * *
30105619 TTTTTATTTTTAAACTTTTTTTTATAA
1 TTTTTATTCATAAAATTATTTTTATAA
30105646 TTTTT
1 TTTTT
30105651 GGATATGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTTATTCATAAAATTATTTTTATAA
Found at i:30106780 original size:16 final size:16
Alignment explanation
Indices: 30106759--30106826 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
30106749 TTTGGTTCGC
*
30106759 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
*
30106775 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
30106791 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
30106807 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
30106823 TGTA
1 TGTA
30106827 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:30106872 original size:44 final size:41
Alignment explanation
Indices: 30106807--30106915 Score: 114
Period size: 44 Copynumber: 2.6 Consensus size: 41
30106797 GGATTAGAGG
* *
30106807 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
30106849 GATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 --TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
30106891 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
30106916 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
42 1 0.02
43 11 0.20
44 21 0.38
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:30107082 original size:18 final size:17
Alignment explanation
Indices: 30107061--30107095 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30107051 TTATTATTAA
*
30107061 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30107079 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30107096 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30107182 original size:120 final size:120
Alignment explanation
Indices: 30107044--30107426 Score: 757
Period size: 120 Copynumber: 3.2 Consensus size: 120
30107034 ATCATATTTA
30107044 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
30107109 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
30107164 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
30107229 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
30107284 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
30107349 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
30107404 AACATAATAATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
30107427 AACTTGAAAA
Statistics
Matches: 262, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 262 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:30107202 original size:18 final size:17
Alignment explanation
Indices: 30107181--30107215 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30107171 TTATTATTAA
*
30107181 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30107199 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30107216 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30107322 original size:18 final size:17
Alignment explanation
Indices: 30107301--30107335 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30107291 TTATTATTAA
*
30107301 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30107319 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30107336 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30116632 original size:17 final size:17
Alignment explanation
Indices: 30116610--30116642 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30116600 CACTAACATG
*
30116610 AAAATGGAATGACAATA
1 AAAATGCAATGACAATA
30116627 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
30116643 TTGTACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:30117551 original size:21 final size:21
Alignment explanation
Indices: 30117527--30117575 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
30117517 TCATCTTCAG
*
30117527 CAACTTCTTATTCTTCAGCAA
1 CAACTTCTTATTCTGCAGCAA
* *
30117548 CAACTTCTTCTTCTGCAGCAG
1 CAACTTCTTATTCTGCAGCAA
30117569 CAACTTC
1 CAACTTC
30117576 CTTCTCAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.33, G:0.08, T:0.35
Consensus pattern (21 bp):
CAACTTCTTATTCTGCAGCAA
Found at i:30117558 original size:18 final size:18
Alignment explanation
Indices: 30117520--30117560 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
30117510 TTCTTTTTCA
**
30117520 TCTTCAGCAACTTCTTAT
1 TCTTCAGCAACAACTTAT
*
30117538 TCTTCAGCAACAACTTCT
1 TCTTCAGCAACAACTTAT
30117556 TCTTC
1 TCTTC
30117561 TGCAGCAGCA
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:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (18 bp):
TCTTCAGCAACAACTTAT
Found at i:30127657 original size:80 final size:80
Alignment explanation
Indices: 30127524--30127811 Score: 389
Period size: 80 Copynumber: 3.6 Consensus size: 80
30127514 TATTGGATTA
* *
30127524 TTGCACTTACGTGCCCCTGTTTGTACTTCGGTATTCCC-GATTGCACTTACGTGCCCCTATTTGT
1 TTGCACTTACGTGCCCCTGTTTGTACTTCGGTA-CCCCTGATTACACTTACGTGCCCCTATTTGT
* *
30127588 ACTTTGGTACTCATGG
65 ACTTCGGTACTCCTGG
* * *
30127604 TTGCAGTTGCGTGCCCCTGTTTGTACTTTGGTACCCCTGATTACACTTACGTGCCCCTATTTGTA
1 TTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTATTTGTA
**
30127669 CTTCGGTACTCCTAA
66 CTTCGGTACTCCTGG
* * * * *
30127684 TTGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCTAATTGCACTTATGTGCCCATATTTGTA
1 TTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTATTTGTA
*
30127749 CTTCGGTACCCCTGG
66 CTTCGGTACTCCTGG
* * * *
30127764 TTACACTTACGTGCCCTTGTTTGCACTTCGGTACCCCTGATCACACTT
1 TTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTACACTT
30127812 TGGTTCCCCT
Statistics
Matches: 180, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
79 3 0.02
80 177 0.98
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.38
Consensus pattern (80 bp):
TTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTATTTGTA
CTTCGGTACTCCTGG
Found at i:30127811 original size:40 final size:40
Alignment explanation
Indices: 30127523--30127804 Score: 350
Period size: 40 Copynumber: 7.0 Consensus size: 40
30127513 TTATTGGATT
*
30127523 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTATTCCC-G
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTA-CCCCTG
* * * *
30127563 ATTGCACTTACGTGCCCCTATTTGTACTTTGGTACTCATG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * *
30127603 GTTGCAGTTGCGTGCCCCTGTTTGTACTTTGGTACCCCTG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * *
30127643 ATTACACTTACGTGCCCCTATTTGTACTTCGGTACTCCTA
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* *
30127683 ATTGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCTA
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * *
30127723 ATTGCACTTATGTGCCCATATTTGTACTTCGGTACCCCTG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * *
30127763 GTTACACTTACGTGCCCTTGTTTGCACTTCGGTACCCCTG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
30127803 AT
1 AT
30127805 CACACTTTGG
Statistics
Matches: 208, Mismatches: 33, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
39 1 0.00
40 207 1.00
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.38
Consensus pattern (40 bp):
ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
Found at i:30132904 original size:18 final size:17
Alignment explanation
Indices: 30132871--30132909 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
30132861 TTTTATAAAT
30132871 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
30132889 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
30132906 TGTG
1 TGTG
30132910 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:30133162 original size:23 final size:23
Alignment explanation
Indices: 30133136--30133256 Score: 163
Period size: 23 Copynumber: 5.3 Consensus size: 23
30133126 GTGTTATTGA
30133136 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
30133159 TCAGTGGTAACTACGGCTACATAT
1 TCAGTGGTAGCTTCGGCTACAT-T
*
30133183 T-AGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* * *
30133205 TCAGTGGTAGCTACGGCTACGTA
1 TCAGTGGTAGCTTCGGCTACATT
*
30133228 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
30133251 TCAGTG
1 TCAGTG
30133257 TGGCACTTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
22 2 0.02
23 81 0.95
24 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:30133191 original size:46 final size:46
Alignment explanation
Indices: 30133135--30133256 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
30133125 AGTGTTATTG
30133135 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTACGGCTACAT
* * * *
30133181 ATTAGTGGTAGCTTCAGCTACATTTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTACGGCTACAT
*
30133227 ATCAGTGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
30133257 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTACGGCTACAT
Found at i:30144641 original size:6 final size:6
Alignment explanation
Indices: 30144630--30144681 Score: 68
Period size: 6 Copynumber: 8.3 Consensus size: 6
30144620 AGAGGAGACG
* *
30144630 GATTTA GATTTA GATCTTT GGATTTT GATTTT GATTTT GATTTT GATTTT
1 GATTTT GATTTT GAT-TTT -GATTTT GATTTT GATTTT GATTTT GATTTT
30144680 GA
1 GA
30144682 AATTGGAGAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
6 35 0.81
7 5 0.12
8 3 0.07
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.58
Consensus pattern (6 bp):
GATTTT
Found at i:30144654 original size:20 final size:19
Alignment explanation
Indices: 30144629--30144678 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
30144619 GAGAGGAGAC
*
30144629 GGATTTAGATTTAGATCTTT
1 GGATTTTGATTTAGAT-TTT
*
30144649 GGATTTTGATTTTGATTTT
1 GGATTTTGATTTAGATTTT
30144668 -GATTTTGATTT
1 GGATTTTGATTT
30144679 TGAAATTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.39
19 3 0.11
20 14 0.50
ACGTcount: A:0.20, C:0.02, G:0.20, T:0.58
Consensus pattern (19 bp):
GGATTTTGATTTAGATTTT
Found at i:30145211 original size:12 final size:12
Alignment explanation
Indices: 30145196--30145230 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
30145186 ATTTTATTTC
*
30145196 AAAAATATTTAT
1 AAAAAGATTTAT
30145208 AAAAAGATTTTAT
1 AAAAAGA-TTTAT
30145221 AAAAAGATTT
1 AAAAAGATTT
30145231 TGAATTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (12 bp):
AAAAAGATTTAT
Found at i:30145212 original size:13 final size:13
Alignment explanation
Indices: 30145203--30145231 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30145193 TTCAAAAATA
30145203 TTTATAAAAAGAT
1 TTTATAAAAAGAT
30145216 TTTATAAAAAGAT
1 TTTATAAAAAGAT
30145229 TTT
1 TTT
30145232 GAATTTTTCT
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
TTTATAAAAAGAT
Found at i:30152686 original size:31 final size:31
Alignment explanation
Indices: 30152626--30152686 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
30152616 TTACAAATGG
* * *
30152626 TCACTGAATTATTCAAAAGTTTTCTTTTAAA
1 TCACTAAACTATTCAAAAGTCTTCTTTTAAA
30152657 TCACTAAACTATTCAAAAG-CTTCTATTTAA
1 TCACTAAACTATTCAAAAGTCTTCT-TTTAA
30152687 GTCATTGAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAGTCTTCTTTTAAA
Found at i:30153085 original size:31 final size:31
Alignment explanation
Indices: 30153044--30153104 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
30153034 TGTATTTTTT
30153044 TAATTAAGTGACTAA-AATGAAAATTTACCCA
1 TAATTAAGTGACTAATAATG-AAATTTACCCA
* *
30153075 TAATTTAGTGACTAATAATGTAATTTACCC
1 TAATTAAGTGACTAATAATGAAATTTACCC
30153105 TCACATCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (31 bp):
TAATTAAGTGACTAATAATGAAATTTACCCA
Found at i:30153705 original size:18 final size:18
Alignment explanation
Indices: 30153658--30153705 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
30153648 AAAAAGAGCT
*
30153658 AAAACAAAACACAAAGTTCA
1 AAAAC-AAA-ACAAACTTCA
* *
30153678 AAATCCAAACAAACTTCA
1 AAAACAAAACAAACTTCA
30153696 AAAACAAAAC
1 AAAACAAAAC
30153706 CCAACCTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 17 0.74
19 2 0.09
20 4 0.17
ACGTcount: A:0.65, C:0.23, G:0.02, T:0.10
Consensus pattern (18 bp):
AAAACAAAACAAACTTCA
Found at i:30155043 original size:34 final size:34
Alignment explanation
Indices: 30154995--30155061 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
30154985 TGATTATACT
30154995 GGTAACAAGCCACGAAGCAATCAAGAATCAAACC
1 GGTAACAAGCCACGAAGCAATCAAGAATCAAACC
* *
30155029 GGTAACAAGGCACGAGGCAATCAAGAATCAAAC
1 GGTAACAAGCCACGAAGCAATCAAGAATCAAAC
30155062 TCTTCCAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.46, C:0.24, G:0.21, T:0.09
Consensus pattern (34 bp):
GGTAACAAGCCACGAAGCAATCAAGAATCAAACC
Found at i:30166821 original size:16 final size:16
Alignment explanation
Indices: 30166797--30166827 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30166787 TGTTTAGTTT
30166797 ACTGGAATGAAATAAG
1 ACTGGAATGAAATAAG
*
30166813 ACTGTAATGAAATAA
1 ACTGGAATGAAATAA
30166828 CTATTTTGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.19, T:0.23
Consensus pattern (16 bp):
ACTGGAATGAAATAAG
Found at i:30168118 original size:69 final size:69
Alignment explanation
Indices: 30167970--30168159 Score: 253
Period size: 67 Copynumber: 2.8 Consensus size: 69
30167960 ACATAAATAA
* * * *
30167970 AAAAAGTTATATTACTCCACCACCGCACCCAATTATACATACAAAAAGTG--AACCTACAATGAC
1 AAAAAGTTATATTAGTCCACCACCACACCCATTTACACATACAAAAAGTGACAACCTACAATGAC
30168033 ATAC
66 ATAC
* * * *
30168037 AAAAAGTGATATTAGTCCACTACCACACCTATTTACACATACAAAAAGTGACAACCTACAATTAC
1 AAAAAGTTATATTAGTCCACCACCACACCCATTTACACATACAAAAAGTGACAACCTACAATGAC
*
30168102 ATAT
66 ATAC
* *
30168106 GAAAAGTTATATTAGTTCACCACCACACCCATTTACAC--ACAAAAAGTGACAACC
1 AAAAAGTTATATTAGTCCACCACCACACCCATTTACACATACAAAAAGTGACAACC
30168160 CTCTATGGTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
67 59 0.55
69 48 0.45
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.22
Consensus pattern (69 bp):
AAAAAGTTATATTAGTCCACCACCACACCCATTTACACATACAAAAAGTGACAACCTACAATGAC
ATAC
Found at i:30168685 original size:17 final size:16
Alignment explanation
Indices: 30168644--30168685 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
30168634 AATTCAATTT
*
30168644 TAATATAAATATTCAA
1 TAATATAAAAATTCAA
30168660 T-ATACTAAACAATTCAA
1 TAATA-TAAA-AATTCAA
30168677 TAATATAAA
1 TAATATAAA
30168686 TAATATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 3 0.14
16 5 0.23
17 11 0.50
18 3 0.14
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATATAAAAATTCAA
Found at i:30169320 original size:9 final size:9
Alignment explanation
Indices: 30169303--30169333 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30169293 TCGAGTTGAT
30169303 TCGAATAAC
1 TCGAATAAC
*
30169312 TCGATTAAC
1 TCGAATAAC
30169321 TCGAATAAC
1 TCGAATAAC
30169330 TCGA
1 TCGA
30169334 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:30170929 original size:9 final size:8
Alignment explanation
Indices: 30170914--30170945 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
30170904 AGTTATCAGG
30170914 ATTTTTTT
1 ATTTTTTT
30170922 ATTTTTTT
1 ATTTTTTT
30170930 ATTTTTTT
1 ATTTTTTT
*
30170938 ATTCTTTT
1 ATTTTTTT
30170946 CAAAATTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:30174753 original size:11 final size:11
Alignment explanation
Indices: 30174733--30174764 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
30174723 GTATATTGTC
30174733 TATTTCAAATT
1 TATTTCAAATT
*
30174744 TATTTTAAATT
1 TATTTCAAATT
30174755 TATTTCAAAT
1 TATTTCAAAT
30174765 ACCAATTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTCAAATT
Found at i:30175857 original size:18 final size:17
Alignment explanation
Indices: 30175836--30175883 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
30175826 TAAATAAATA
30175836 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAA-TGAAT
*
30175854 AATGATTTGTAAATGAAT
1 AATGTTTTG-AAATGAAT
*
30175872 AATATTTTGAAA
1 AATGTTTTGAAA
30175884 ACGAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (17 bp):
AATGTTTTGAAATGAAT
Found at i:30176263 original size:25 final size:25
Alignment explanation
Indices: 30176200--30176281 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
30176190 TTAAACTGAA
* *
30176200 ACTGAAACTATCT-TTGATAGTATAT
1 ACTGAAACTA-CTATAGGTAGTATAT
* *
30176225 CCTGAAACTGCTATAGGTAGTATAT
1 ACTGAAACTACTATAGGTAGTATAT
* * *
30176250 ATTGAGACTACTATAGATAG-ACTAT
1 ACTGAAACTACTATAGGTAGTA-TAT
30176275 ACTGAAA
1 ACTGAAA
30176282 ACACTTAGAA
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
24 3 0.07
25 41 0.93
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (25 bp):
ACTGAAACTACTATAGGTAGTATAT
Found at i:30183700 original size:40 final size:38
Alignment explanation
Indices: 30183602--30183700 Score: 126
Period size: 39 Copynumber: 2.5 Consensus size: 38
30183592 CTCAGCCCAA
**
30183602 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTTT
1 ACCCAATTA-CCAACCCAATAAAACTAAAACTAAAGACT
*
30183641 ACCCAATTACTCAATCCAATAAAACTAAAACTAAAAGACT
1 ACCCAATTAC-CAACCCAATAAAACTAAAACT-AAAGACT
*
30183681 ATCCAATTTACCAACCCAAT
1 ACCCAA-TTACCAACCCAAT
30183701 TTACTAAAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 29 0.56
40 18 0.35
41 4 0.08
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.21
Consensus pattern (38 bp):
ACCCAATTACCAACCCAATAAAACTAAAACTAAAGACT
Found at i:30183785 original size:9 final size:9
Alignment explanation
Indices: 30183773--30183840 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
30183763 AAAAATAAAA
30183773 AATTCGGGT
1 AATTCGGGT
30183782 AATTTTC-GGT
1 AA--TTCGGGT
*
30183792 AATTCGGTT
1 AATTCGGGT
* *
30183801 AATTTGGTT
1 AATTCGGGT
30183810 AATTCGGGT
1 AATTCGGGT
30183819 AATTCGGGT
1 AATTCGGGT
*
30183828 AATTCGAGT
1 AATTCGGGT
30183837 AATT
1 AATT
30183841 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
8 3 0.06
9 40 0.78
10 5 0.10
11 3 0.06
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:30186086 original size:24 final size:24
Alignment explanation
Indices: 30186043--30186224 Score: 109
Period size: 24 Copynumber: 7.6 Consensus size: 24
30186033 CATACACATA
* * *
30186043 ACACCCGCGAACCCCTATCACTAG
1 ACACCTGCAAACCCCTATCACCAG
*
30186067 -CTACCTGCAAACCCCAATCACCAG
1 AC-ACCTGCAAACCCCTATCACCAG
** * *
30186091 ACATTTGCGAACCCCTATCACTAG
1 ACACCTGCAAACCCCTATCACCAG
* * *
30186115 ACACATGCGAACCCCTATCGCCAG
1 ACACCTGCAAACCCCTATCACCAG
* **
30186139 -CTACCTACAAACCCCTATCATTAG
1 AC-ACCTGCAAACCCCTATCACCAG
* **
30186163 ACACATGTGAACCCCTATCACCAG
1 ACACCTGCAAACCCCTATCACCAG
* * * *
30186187 -CTACTTGCGAACCCTTATCACCAA
1 AC-ACCTGCAAACCCCTATCACCAG
* *
30186211 ACACATGCGAACCC
1 ACACCTGCAAACCC
30186225 TTTAATGTAT
Statistics
Matches: 122, Mismatches: 30, Indels: 12
0.74 0.18 0.07
Matches are distributed among these distances:
23 3 0.02
24 116 0.95
25 3 0.02
ACGTcount: A:0.31, C:0.40, G:0.11, T:0.18
Consensus pattern (24 bp):
ACACCTGCAAACCCCTATCACCAG
Found at i:30186128 original size:48 final size:48
Alignment explanation
Indices: 30186049--30186224 Score: 203
Period size: 48 Copynumber: 3.7 Consensus size: 48
30186039 CATAACACCC
* * * *
30186049 GCGAACCCCTATCACTAG-CTACCTGCAAACCCCAATCACCAGAC-ATTT
1 GCGAACCCCTATCACTAGAC-ACATGCGAACCCCTATCACCAG-CTACTT
* *
30186097 GCGAACCCCTATCACTAGACACATGCGAACCCCTATCGCCAGCTACCT
1 GCGAACCCCTATCACTAGACACATGCGAACCCCTATCACCAGCTACTT
* * * *
30186145 ACAAACCCCTATCATTAGACACATGTGAACCCCTATCACCAGCTACTT
1 GCGAACCCCTATCACTAGACACATGCGAACCCCTATCACCAGCTACTT
* * *
30186193 GCGAACCCTTATCACCAAACACATGCGAACCC
1 GCGAACCCCTATCACTAGACACATGCGAACCC
30186225 TTTAATGTAT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 1 0.01
48 105 0.98
49 1 0.01
ACGTcount: A:0.31, C:0.39, G:0.11, T:0.18
Consensus pattern (48 bp):
GCGAACCCCTATCACTAGACACATGCGAACCCCTATCACCAGCTACTT
Found at i:30186175 original size:72 final size:72
Alignment explanation
Indices: 30186049--30186209 Score: 198
Period size: 72 Copynumber: 2.2 Consensus size: 72
30186039 CATAACACCC
* * ** *
30186049 GCGAACCCCTATCACTAGCTACCTGCAAACCCCAATCACCAGACATTTGCGAACCCCTATCACTA
1 GCGAACCCCTATCACCAGCTACCTACAAACCCCAATCACCAGACACATGCGAACCCCTATCACCA
30186114 GAC-ACAT
66 G-CTACAT
* * ** *
30186121 GCGAACCCCTATCGCCAGCTACCTACAAACCCCTATCATTAGACACATGTGAACCCCTATCACCA
1 GCGAACCCCTATCACCAGCTACCTACAAACCCCAATCACCAGACACATGCGAACCCCTATCACCA
*
30186186 GCTACTT
66 GCTACAT
*
30186193 GCGAACCCTTATCACCA
1 GCGAACCCCTATCACCA
30186210 AACACATGCG
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
71 1 0.01
72 74 0.99
ACGTcount: A:0.30, C:0.39, G:0.11, T:0.19
Consensus pattern (72 bp):
GCGAACCCCTATCACCAGCTACCTACAAACCCCAATCACCAGACACATGCGAACCCCTATCACCA
GCTACAT
Found at i:30187326 original size:37 final size:37
Alignment explanation
Indices: 30187282--30187447 Score: 305
Period size: 37 Copynumber: 4.5 Consensus size: 37
30187272 CACTTGTCCC
30187282 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
30187319 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
30187356 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
* *
30187393 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
30187430 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
30187448 TAAAGCTATC
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 127 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:30187464 original size:46 final size:46
Alignment explanation
Indices: 30187411--30187678 Score: 331
Period size: 46 Copynumber: 5.6 Consensus size: 46
30187401 TAAGTGTAGC
* **
30187411 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
30187457 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
30187503 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
30187555 CACTTATCACTTTGTCACTTGATCAGAT-AGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
30187600 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
30187652 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
30187679 AGTACTCAAA
Statistics
Matches: 197, Mismatches: 12, Indels: 26
0.84 0.05 0.11
Matches are distributed among these distances:
45 25 0.13
46 86 0.44
47 1 0.01
49 2 0.01
50 1 0.01
51 17 0.09
52 65 0.33
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:30187530 original size:52 final size:52
Alignment explanation
Indices: 30187454--30187672 Score: 290
Period size: 52 Copynumber: 4.3 Consensus size: 52
30187444 TAGCTAAAGC
* *
30187454 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
30187507 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
30187559 TATCAC---T---TTGTCACTTGATCAGAT-AGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
30187604 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
30187656 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
30187673 ATCAGAAGTA
Statistics
Matches: 146, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
45 25 0.17
46 17 0.12
49 1 0.01
51 17 0.12
52 68 0.47
53 18 0.12
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:30187639 original size:97 final size:97
Alignment explanation
Indices: 30187422--30187682 Score: 443
Period size: 97 Copynumber: 2.7 Consensus size: 97
30187412 ACTTATCACT
* *
30187422 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGAT-A
*
30187487 GTATAGCCGAAGCTATCACTTATCACTTTTCAC
65 GTATAGCCGAAGCTATCACTTATCACTTTCCAC
**
30187520 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAG
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAG
*
30187585 TATAGCCGAAGCTATTACTTATCACTTTCCAC
66 TATAGCCGAAGCTATCACTTATCACTTTCCAC
*
30187617 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA-AG
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAG
30187681 TA
66 TA
30187683 CTCAAATCCG
Statistics
Matches: 154, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
96 4 0.03
97 91 0.59
98 59 0.38
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (97 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAG
TATAGCCGAAGCTATCACTTATCACTTTCCAC
Found at i:30190684 original size:39 final size:39
Alignment explanation
Indices: 30190601--30190684 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
30190591 TTCTTCTGTC
*
30190601 AAATTCTACACTTCATCTTTCTTCGGTTAAAAACCCCCA
1 AAATTTTACACTTCATCTTTCTTCGGTTAAAAACCCCCA
30190640 AAATTTTACACTTCATCTTTCTTCGGTTAAAAACCCCCA
1 AAATTTTACACTTCATCTTTCTTCGGTTAAAAACCCCCA
30190679 AAATTT
1 AAATTT
30190685 GTCCTCACTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (39 bp):
AAATTTTACACTTCATCTTTCTTCGGTTAAAAACCCCCA
Found at i:30193222 original size:18 final size:18
Alignment explanation
Indices: 30193198--30193242 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
30193188 TTTTTTATTT
30193198 TTCATATTCATTTTACGA
1 TTCATATTCATTTTACGA
* *
30193216 TTTATATTTATTTTACGA
1 TTCATATTCATTTTACGA
30193234 TTCATATTC
1 TTCATATTC
30193243 GAGGTTCAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (18 bp):
TTCATATTCATTTTACGA
Found at i:30193437 original size:15 final size:15
Alignment explanation
Indices: 30193405--30193437 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
30193395 CGATTAAGGT
30193405 CATAATTCATAACGC
1 CATAATTCATAACGC
30193420 CATAAGTTCATAAC-C
1 CATAA-TTCATAACGC
30193435 CAT
1 CAT
30193438 TTACACACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.27
Consensus pattern (15 bp):
CATAATTCATAACGC
Found at i:30194805 original size:15 final size:15
Alignment explanation
Indices: 30194768--30194813 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
30194758 AATAAAAGAG
30194768 AGAGAAG-AAAG-AA
1 AGAGAAGAAAAGAAA
30194781 AGATGAAAGAAAAGAAA
1 AGA-G-AAGAAAAGAAA
*
30194798 AGAGAAGAAAGGAAA
1 AGAGAAGAAAAGAAA
30194813 A
1 A
30194814 TTTCTCATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.11
14 1 0.04
15 14 0.50
16 5 0.18
17 5 0.18
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (15 bp):
AGAGAAGAAAAGAAA
Found at i:30197278 original size:23 final size:24
Alignment explanation
Indices: 30197240--30197302 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
30197230 AACTTAATCG
*
30197240 AACATGTTCACGAACAT-TAAACA
1 AACATGTTCACAAACATATAAACA
* **
30197263 AACATGTTCATAAACATATAATTA
1 AACATGTTCACAAACATATAAACA
*
30197287 AACATGTCCACAAACA
1 AACATGTTCACAAACA
30197303 ATGTTAATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.49, C:0.21, G:0.06, T:0.24
Consensus pattern (24 bp):
AACATGTTCACAAACATATAAACA
Found at i:30199493 original size:20 final size:21
Alignment explanation
Indices: 30199468--30199509 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
30199458 AAAAGTTTCC
* *
30199468 ATATCATATCAT-TCCATTTT
1 ATATCACATCATATCAATTTT
30199488 ATATCACATCATATCAATTTT
1 ATATCACATCATATCAATTTT
30199509 A
1 A
30199510 ACTTAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATCACATCATATCAATTTT
Found at i:30208036 original size:10 final size:10
Alignment explanation
Indices: 30208021--30208053 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
30208011 ACTTATAAAT
30208021 ATTATAATAA
1 ATTATAATAA
30208031 ATTATAATAA
1 ATTATAATAA
30208041 A-TATAATAA
1 ATTATAATAA
30208050 ATTA
1 ATTA
30208054 AAAAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTATAATAA
Found at i:30209709 original size:24 final size:24
Alignment explanation
Indices: 30209646--30209781 Score: 78
Period size: 25 Copynumber: 5.4 Consensus size: 24
30209636 TATATAACAA
30209646 GAAGCTCATGTA-AGCCATGTAACGG
1 GAAGCTCATG-AGAGCCAT-TAACGG
* ** *
30209671 AAAGCTCCGGAGAGCCATTCACGG
1 GAAGCTCATGAGAGCCATTAACGG
* *
30209695 GAAGCTCATGCGAGCCAATTAATTGG
1 GAAGCTCATGAGAGCC-ATTAA-CGG
* *
30209721 GAAGCTCATGAAAGAGCCTTTAATCAG
1 GAAGCTCATG--AGAGCCATTAA-CGG
* *
30209748 GAAGCTC-CGAAGAGCCATATATCGG
1 GAAGCTCATG-AGAGCCAT-TAACGG
*
30209773 GACGCTCAT
1 GAAGCTCAT
30209782 AAAAGTTGCG
Statistics
Matches: 84, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
24 18 0.21
25 33 0.39
26 15 0.18
27 13 0.15
28 5 0.06
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (24 bp):
GAAGCTCATGAGAGCCATTAACGG
Found at i:30212942 original size:19 final size:20
Alignment explanation
Indices: 30212904--30212946 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
30212894 ATAATAATAA
30212904 ACAAGCCCAAAAATAAAATT
1 ACAAGCCCAAAAATAAAATT
*
30212924 ACAAGCCCAAATA-AAAATT
1 ACAAGCCCAAAAATAAAATT
30212943 ACAA
1 ACAA
30212947 ATCCAATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.60, C:0.21, G:0.05, T:0.14
Consensus pattern (20 bp):
ACAAGCCCAAAAATAAAATT
Found at i:30212952 original size:19 final size:18
Alignment explanation
Indices: 30212914--30212952 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
30212904 ACAAGCCCAA
*
30212914 AAATAAAATTACAAGCCC
1 AAATAAAATTACAAACCC
*
30212932 AAATAAAAATTACAAATCC
1 AAAT-AAAATTACAAACCC
30212951 AA
1 AA
30212953 TTACAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (18 bp):
AAATAAAATTACAAACCC
Found at i:30214332 original size:20 final size:19
Alignment explanation
Indices: 30214309--30214346 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
30214299 TAATTTCAAC
30214309 TTTTCATTT-TTATTATTTTA
1 TTTT-ATTTATTATT-TTTTA
30214329 TTTTATTTATTATTTTTT
1 TTTTATTTATTATTTTTT
30214347 GCCCTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTATTATTTTTTA
Found at i:30219064 original size:21 final size:21
Alignment explanation
Indices: 30219040--30219080 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30219030 GCTTCCTGTA
30219040 CTTTTCATGCCGCTTCTCATT
1 CTTTTCATGCCGCTTCTCATT
* * *
30219061 CTTTTCGTGTCGCTTTTCAT
1 CTTTTCATGCCGCTTCTCAT
30219081 GCTTCTCGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.29, G:0.12, T:0.51
Consensus pattern (21 bp):
CTTTTCATGCCGCTTCTCATT
Found at i:30219089 original size:21 final size:21
Alignment explanation
Indices: 30219050--30219091 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30219040 CTTTTCATGC
* *
30219050 CGCTTCTCATTCTTTTCGTGT
1 CGCTTCTCATGCTTCTCGTGT
*
30219071 CGCTTTTCATGCTTCTCGTGT
1 CGCTTCTCATGCTTCTCGTGT
30219092 TTGTTGTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.29, G:0.17, T:0.50
Consensus pattern (21 bp):
CGCTTCTCATGCTTCTCGTGT
Found at i:30219946 original size:13 final size:14
Alignment explanation
Indices: 30219928--30219957 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
30219918 TAGCACCAGT
30219928 TTCTTTATAAA-TG
1 TTCTTTATAAAGTG
30219941 TTCTTTATAAAGTG
1 TTCTTTATAAAGTG
30219955 TTC
1 TTC
30219958 ATAATTGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (14 bp):
TTCTTTATAAAGTG
Found at i:30227998 original size:20 final size:20
Alignment explanation
Indices: 30227973--30228014 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
30227963 TTTCTAACGA
*
30227973 AATTTTAATATCATATTACT
1 AATTTTAATACCATATTACT
30227993 AATTTTAATACCATATTACT
1 AATTTTAATACCATATTACT
30228013 AA
1 AA
30228015 CATTTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTTAATACCATATTACT
Found at i:30230203 original size:45 final size:45
Alignment explanation
Indices: 30230135--30230228 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
30230125 AACAGATAGT
* * *
30230135 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTC
* * *
30230180 CGGTGGAATCAGTACATAACAACCACCTTACTAGTCAATGATGTT
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTC
30230225 CGGT
1 CGGT
30230229 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTC
Found at i:30230259 original size:26 final size:26
Alignment explanation
Indices: 30230230--30230309 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 26
30230220 ATGTTCGGTT
30230230 CACATAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
* * * *
30230256 CACAT-GTAACCAT-TACCAT-CTAATA
1 CACATAGTAGCC-TGCA-CATAGTACTA
*
30230281 CACGTAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
30230307 CAC
1 CAC
30230310 GCGTGATCGA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (26 bp):
CACATAGTAGCCTGCACATAGTACTA
Found at i:30230294 original size:51 final size:50
Alignment explanation
Indices: 30230234--30230420 Score: 196
Period size: 51 Copynumber: 3.7 Consensus size: 50
30230224 TCGGTTCACA
**
30230234 TAGTAGCCTGCACATAGTACTACACATGTAACCATTACCATCTAATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTAACCA-TACCATCTGGTACACG
** * * * * * * *
30230285 TAGTAGCCTGCACATAGTACTACACGCGTGATCGAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGT-AACCATACCATCTGGTACACG
* * * *
30230336 TAGTAGTCTACACATAGTACTACACATGCAACC-TATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTAACCATACCA-TCTGGTACACG
*
30230386 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTAACCAT
30230421 CACTTTCACT
Statistics
Matches: 105, Mismatches: 28, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.37
51 61 0.58
52 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTAACCATACCATCTGGTACACG
Found at i:30230440 original size:101 final size:99
Alignment explanation
Indices: 30230231--30230416 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 99
30230221 TGTTCGGTTC
* *
30230231 ACATAGTAGCCTGCACATAGTACTACACATGTAACCATTACCATCTAATACACGTAGTAGCCTGC
1 ACATAGTAGCCTACACATAGTACTACACATGCAACCA-TACCATCTAATACACGTAGTAGCCTGC
* *
30230296 ACATAGTACTACACGCGTGATCGAAACTATCCGGT
65 ACATAGTACTACACACGTGATCCAAACTATCCGGT
* * **
30230331 ACGCATAGTAGTCTACACATAGTACTACACATGCAACC-TATCATTCTGGTACACGTAGTAGCCT
1 A--CATAGTAGCCTACACATAGTACTACACATGCAACCATACCA-TCTAATACACGTAGTAGCCT
*
30230395 GCACATAGTACTACACATGTGA
63 GCACATAGTACTACACACGTGA
30230417 CCATCACTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
100 5 0.07
101 38 0.51
102 32 0.43
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (99 bp):
ACATAGTAGCCTACACATAGTACTACACATGCAACCATACCATCTAATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCCAAACTATCCGGT
Found at i:30233046 original size:25 final size:25
Alignment explanation
Indices: 30233011--30233079 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
30233001 ATTCATGTAT
30233011 GCTCATGCGAGCTGAATAACGGAAA
1 GCTCATGCGAGCTGAATAACGGAAA
* * * *
30233036 GCTCATACGAGCTGAGTATCGGGAA
1 GCTCATGCGAGCTGAATAACGGAAA
*
30233061 GCTCATGTGAGCTGAATAA
1 GCTCATGCGAGCTGAATAA
30233080 TGGGAAGTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (25 bp):
GCTCATGCGAGCTGAATAACGGAAA
Found at i:30233084 original size:25 final size:25
Alignment explanation
Indices: 30233011--30233091 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
30233001 ATTCATGTAT
* *
30233011 GCTCATGCGAGCTGAATAACGGAAA
1 GCTCATGCGAGCTGAATAATGGGAA
* *
30233036 GCTCATACGAGCTGAGT-ATCGGGAA
1 GCTCATGCGAGCTGAATAAT-GGGAA
*
30233061 GCTCATGTGAGCTGAATAATGGGAA
1 GCTCATGCGAGCTGAATAATGGGAA
*
30233086 GTTCAT
1 GCTCAT
30233092 TTCAGCTGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.93
26 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (25 bp):
GCTCATGCGAGCTGAATAATGGGAA
Found at i:30242003 original size:21 final size:21
Alignment explanation
Indices: 30241979--30242022 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
30241969 GATTTAATAC
30241979 ACGAGTTAGCTAAATTAAGTT
1 ACGAGTTAGCTAAATTAAGTT
30242000 ACGAGTTAGCTAAATTAAGTT
1 ACGAGTTAGCTAAATTAAGTT
30242021 AC
1 AC
30242023 AACGATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (21 bp):
ACGAGTTAGCTAAATTAAGTT
Found at i:30245312 original size:155 final size:152
Alignment explanation
Indices: 30244991--30245504 Score: 605
Period size: 154 Copynumber: 3.3 Consensus size: 152
30244981 ATCAGCGGTT
* * * *
30244991 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTAG-ATGGGCCACTAAATGCAACTTCCTTT-
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCT-GCATGGGCCATTAAATG--ATTTACTTTG
* * * * *
30245054 ATTTTTTTGG-GAAACGGCAACGTTT-TATATTATTTATTAAAACAGAATTT-AGAATGAAAATC
63 TTTTTTTTGGAAAAACGG-AA--TTTGT-T-TTGTTT-TAAAAACAGAATTTAAAAATGAAAA-C
*
30245116 AACGGCCTATTAGCTCAGCTGGTTAGAGCGTC
121 AAAGGCCTATTAGCTCAGCTGGTTAGAGCGTC
30245148 GTGCTAATAACGCGAAGGTCGCAGGTTCGA-AGCCTGCATGGGCCATTAAATGATTTATCTTTGT
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAGA-CCTGCATGGGCCATTAAATGATTTA-CTTTGT
*
30245212 TTTTTTTGGAAAAACGGAATTTGTTTTGTTTTAAAACATCAGAATTTAAAAATGACAACAAAGGC
64 TTTTTTTGGAAAAACGGAATTTGTTTTGTTTTAAAA-A-CAGAATTTAAAAATGAAAACAAAGGC
30245277 CTATTAGCTCAGCTGGTTAGAGCGTC
127 CTATTAGCTCAGCTGGTTAGAGCGTC
* * * *
30245303 GTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTGCATGGGCCATT-AGTAATTCA-TTTGTAG
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTGCATGGGCCATTAAATGATTTACTTTGT-T
* * ** *
30245366 TTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAACA-AATTTTTAAAAACTGTTAAGAAAGG
65 TTTTTTGGAAAAACGGAATTTGTTTTG-TTTTAAAAACAGAA--TTTAAAAA-TGAAAACAAAGG
*
30245430 CCTATTAGCTCAGTTGGTTAGAGCGTC
126 CCTATTAGCTCAGCTGGTTAGAGCGTC
30245457 GTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTGCATGGGCCATTA
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTGCATGGGCCATTA
30245505 GTATTTCATT
Statistics
Matches: 321, Mismatches: 20, Indels: 34
0.86 0.05 0.09
Matches are distributed among these distances:
151 2 0.01
152 7 0.02
153 39 0.12
154 101 0.31
155 92 0.29
156 16 0.05
157 58 0.18
158 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (152 bp):
GTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTGCATGGGCCATTAAATGATTTACTTTGTTT
TTTTTGGAAAAACGGAATTTGTTTTGTTTTAAAAACAGAATTTAAAAATGAAAACAAAGGCCTAT
TAGCTCAGCTGGTTAGAGCGTC
Found at i:30245487 original size:154 final size:151
Alignment explanation
Indices: 30245119--30245591 Score: 632
Period size: 154 Copynumber: 3.1 Consensus size: 151
30245109 GAAAATCAAC
30245119 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGA-AGCCT
1 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGA-CCT
* * * * *
30245183 GCATGGGCCATTAAATGATTTATCTTTGTTTTTTTTGGAAAAACGGAATTTGTTTTGTTTTAAAA
65 GCATGGGCCATT-AGTAATTCA--TTTGTTTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAA
* * *
30245248 CATCAGAATTTAAAAA-TGACAACAAA
127 -AACA-AATTTAAAAACTGATAAGAAA
30245274 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
1 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
*
30245339 CATGGGCCATTAGTAATTCATTTGTAGTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAAC
66 CATGGGCCATTAGTAATTCATTTGT-TTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAAC
*
30245404 AAATTTTTAAAAACTGTTAAGAAA
130 AAA--TTTAAAAACTGATAAGAAA
*
30245428 GGCCTATTAGCTCAGTTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
1 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
* * * *
30245493 CATGGGCCATTAGTATTTCATTTTTTTTACTTTTCGG-AAAACGGCAA-CGTTTTTGCTTTAGAA
66 CATGGGCCATTAGTAATTCATTTGTTTT--TTTT-GGAAAAACGGAAATTG-TTTTGCTTT--AA
*
30245556 AAAACGAATTTAAAAACTGATAAG-AA
125 AAAACAAATTTAAAAACTGATAAGAAA
30245582 GGCCTATTAG
1 GGCCTATTAG
30245592 GTGCTAATAA
Statistics
Matches: 289, Mismatches: 18, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
151 2 0.01
152 8 0.03
153 43 0.15
154 113 0.39
155 111 0.38
156 3 0.01
157 9 0.03
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (151 bp):
GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
CATGGGCCATTAGTAATTCATTTGTTTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAACA
AATTTAAAAACTGATAAGAAA
Found at i:30247242 original size:43 final size:43
Alignment explanation
Indices: 30247194--30247286 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
30247184 CCGCTAAATT
* *
30247194 GCCGCTAAAAATCATGACCTATAGC-AGTGCTTTTATCACAAAC
1 GCCGCTAAAAACCATGACCTATAGCGA-CGCTTTTATCACAAAC
* *
30247237 GCCGCTAAAGACCATGACCTTTAGCGACGCTTTTATCACAAAC
1 GCCGCTAAAAACCATGACCTATAGCGACGCTTTTATCACAAAC
30247280 GCCGCTA
1 GCCGCTA
30247287 TAGAACAAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAAACCATGACCTATAGCGACGCTTTTATCACAAAC
Found at i:30247555 original size:43 final size:43
Alignment explanation
Indices: 30247475--30247603 Score: 190
Period size: 43 Copynumber: 3.0 Consensus size: 43
30247465 TCTATGAAAA
* *
30247475 TTTTATCACAAACGCCGCTAAA-AACATGACCTTTAGCGGTGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
* *
30247517 TTTTGTCACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
* *
30247560 TTTTATCACAAACGCAGCTATAGAACA-AACCTTTAGCGGCGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
30247602 TT
1 TT
30247604 CTCGCAAAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 36 0.46
43 43 0.54
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
Found at i:30247839 original size:42 final size:43
Alignment explanation
Indices: 30247771--30247897 Score: 181
Period size: 42 Copynumber: 3.0 Consensus size: 43
30247761 TCTATGAAAA
* *
30247771 TTTTATCACAAACGCCGCTAAA-AACATGACCTTTAGCGGTGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
* *
30247813 TTTTGTCAC-AACGCTGCTAAAGAACATGACCTTTAGCGGCGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
*
30247855 TTTTATCACAAACGCAGCTATAGAACA--ACCTTTAGCGGCGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
30247896 TT
1 TT
30247898 CTCGCAAAAG
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
41 27 0.35
42 35 0.45
43 15 0.19
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
Found at i:30248034 original size:294 final size:296
Alignment explanation
Indices: 30247194--30248069 Score: 1595
Period size: 294 Copynumber: 3.0 Consensus size: 296
30247184 CCGCTAAATT
* * * * *
30247194 GCCGCTAAAAATCATGACCTATAGCAGTGCTTTTATCACAAACGCCGCTAAAGACCATGACCTTT
1 GCCGCTAAAAA-CATGACCTTTAGCGGTGCTTTTGTCACAAACGCTGCTAAAGAACATGACCTTT
* *
30247259 AGCGACGCTTTTATCACAAACGCCGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAA-CGC
65 AGCGGCGCTTTTATCACAAACGCAGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAAGCGC
30247323 CGCT---AACATAACATTTAAAAAAAATATTTTAATCAAATAATATTTATTTTTATGATAAATAT
130 CGCTAAAAACATAACATTT-AAAAAAATATTTTAATCAAATAATATTTATTTTTATGATAAATAT
30247385 TATATTATGTTTTATTTTTTAAATTTGAACTTTAAATATATTTTTAAGGATAAATAAAAAATATT
194 TATATTATGTTTTATTTTTTAAATTTGAACTTTAAATATATTTTTAAGGATAAATAAAAAATATT
30247450 ATTTAAATTAAATTTTCTATGAAAATTTTATCACAAAC
259 ATTTAAATTAAATTTTCTATGAAAATTTTATCACAAAC
30247488 GCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTCACAAACGCTGCTAAAGAACATGACCTTTA
1 GCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTCACAAACGCTGCTAAAGAACATGACCTTTA
30247553 GCGGCGCTTTTATCACAAACGCAGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAAGCGCC
66 GCGGCGCTTTTATCACAAACGCAGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAAGCGCC
*
30247618 GCTAAAAACATAACATTTAAAAAAATATTTTAATCAAATAATATTTATTTTTATGATTAATATTA
131 GCTAAAAACATAACATTTAAAAAAATATTTTAATCAAATAATATTTATTTTTATGATAAATATTA
30247683 TATTATGTTTTATTTTTTAAATTTGAACTTTAAATATATTTTTAAGGATAAATAAAAAATATTAT
196 TATTATGTTTTATTTTTTAAATTTGAACTTTAAATATATTTTTAAGGATAAATAAAAAATATTAT
30247748 TTAAATTAAATTTTCTATGAAAATTTTATCACAAAC
261 TTAAATTAAATTTTCTATGAAAATTTTATCACAAAC
30247784 GCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTCAC-AACGCTGCTAAAGAACATGACCTTTA
1 GCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTCACAAACGCTGCTAAAGAACATGACCTTTA
30247848 GCGGCGCTTTTATCACAAACGCAGCTATAGAAC-AACCTTTAGCGGCGCTTCTCGCAAAAGCGCC
66 GCGGCGCTTTTATCACAAACGCAGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAAGCGCC
30247912 GCTAAAAACATAACATTTAAAAAAATATTTTAATCAAATAATATTTATTTTTATGATAAATATTA
131 GCTAAAAACATAACATTTAAAAAAATATTTTAATCAAATAATATTTATTTTTATGATAAATATTA
*
30247977 TATTATGTTTTATTTTTTAAAATTT-AACTTTAAATATACTTTTAAGGATAAATAAAAAATATTA
196 TATTATGTTTTATTTTTT-AAATTTGAACTTTAAATATATTTTTAAGGATAAATAAAAAATATTA
30248041 TTTAAATTAAATTTTCTATGAAAATTTTA
260 TTTAAATTAAATTTTCTATGAAAATTTTA
30248070 ACTTTAAAAC
Statistics
Matches: 567, Mismatches: 10, Indels: 10
0.97 0.02 0.02
Matches are distributed among these distances:
293 107 0.19
294 198 0.35
295 65 0.11
296 185 0.33
297 12 0.02
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (296 bp):
GCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTCACAAACGCTGCTAAAGAACATGACCTTTA
GCGGCGCTTTTATCACAAACGCAGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAAGCGCC
GCTAAAAACATAACATTTAAAAAAATATTTTAATCAAATAATATTTATTTTTATGATAAATATTA
TATTATGTTTTATTTTTTAAATTTGAACTTTAAATATATTTTTAAGGATAAATAAAAAATATTAT
TTAAATTAAATTTTCTATGAAAATTTTATCACAAAC
Found at i:30249334 original size:5 final size:5
Alignment explanation
Indices: 30249324--30249359 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
30249314 ATCAACATGT
30249324 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
30249360 ATAGTTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:30251708 original size:24 final size:24
Alignment explanation
Indices: 30251676--30251722 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30251666 CTAAATTTAT
*
30251676 AACACTTTCCTTTC-CTTTCTCTTC
1 AACACTTTCC-ATCACTTTCTCTTC
*
30251700 AACATTTTCCATCACTTTCTCTT
1 AACACTTTCCATCACTTTCTCTT
30251723 ATTTCCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (24 bp):
AACACTTTCCATCACTTTCTCTTC
Found at i:30252148 original size:11 final size:11
Alignment explanation
Indices: 30252131--30252174 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
30252121 AATCATTTAT
30252131 TAATAAAATAA
1 TAATAAAATAA
* **
30252142 TACTAAAATCT
1 TAATAAAATAA
30252153 TAATAAAATAA
1 TAATAAAATAA
*
30252164 TAATTAAATAA
1 TAATAAAATAA
30252175 CATTTATCTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:30252172 original size:22 final size:22
Alignment explanation
Indices: 30252130--30252172 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
30252120 TAATCATTTA
*
30252130 TTAATAAAATAATACTAAAATC
1 TTAATAAAATAATAATAAAATC
*
30252152 TTAATAAAATAATAATTAAAT
1 TTAATAAAATAATAATAAAAT
30252173 AACATTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (22 bp):
TTAATAAAATAATAATAAAATC
Found at i:30253369 original size:16 final size:16
Alignment explanation
Indices: 30253348--30253384 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
30253338 CTTTCGTTTG
*
30253348 ACATTACAATTAGCTA
1 ACATTACAATTAACTA
30253364 ACATTACAATTAACTA
1 ACATTACAATTAACTA
30253380 ACATT
1 ACATT
30253385 CTCATAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (16 bp):
ACATTACAATTAACTA
Found at i:30253534 original size:53 final size:52
Alignment explanation
Indices: 30253462--30253566 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 52
30253452 ATATATAGAA
30253462 TATCCAGAAAAAAATCATCGTGTTCATTTTGATTGTAATCGTCACATATAGG
1 TATCCAGAAAAAAATCATCGTGTTCATTTTGATTGTAATCGTCACATATAGG
30253514 TATCCAGAAAAAAAATCATCGTGTTCATTTTGATTGTAATCGTCACATATAGG
1 TATCCAG-AAAAAAATCATCGTGTTCATTTTGATTGTAATCGTCACATATAGG
30253567 CATCTTTACC
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 7 0.13
53 45 0.87
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (52 bp):
TATCCAGAAAAAAATCATCGTGTTCATTTTGATTGTAATCGTCACATATAGG
Found at i:30253827 original size:49 final size:49
Alignment explanation
Indices: 30253772--30253872 Score: 132
Period size: 49 Copynumber: 2.1 Consensus size: 49
30253762 CTCATTTTCT
* * * *
30253772 CGATGCCATAGTCCAACTATGGTCTTACATGTAATCACATATCA-TATAC
1 CGATGCCATAGACCAACTATGGTCCTACACGAAATCACATATCACT-TAC
* *
30253821 CGATGCCATAGACCAGCTATGGTCCTATACGAAATCACATATCACTTAC
1 CGATGCCATAGACCAACTATGGTCCTACACGAAATCACATATCACTTAC
30253870 CGA
1 CGA
30253873 AAGTACTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 44 0.98
50 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (49 bp):
CGATGCCATAGACCAACTATGGTCCTACACGAAATCACATATCACTTAC
Found at i:30254696 original size:33 final size:33
Alignment explanation
Indices: 30254654--30254876 Score: 127
Period size: 33 Copynumber: 6.4 Consensus size: 33
30254644 GTGGATTCAA
*
30254654 CACTTAGCAACCACCAGTGATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* *
30254687 CACTTAGCAACCCCTTTCATATTCAATGATACGGTGGAATCAG
1 CACTTAGCAA---C---C--A-CCAATGATTCGG-GGAATCAG
*
30254730 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * * *
30254763 CACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATTAG
1 CACTTAGCAACCAC---CA-A--T--GATTCGG-GGAATCAG
*
30254805 CACTTAGCAACCACCAATGAATCGGGGAATC-G
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
30254837 ACACTTAGCAA-C-CC--T--TTGGGGGAATCAG
1 -CACTTAGCAACCACCAATGATTCGGGGAATCAG
30254865 CACTTAGCAACC
1 CACTTAGCAACC
30254877 CCCTTTATAT
Statistics
Matches: 150, Mismatches: 18, Indels: 49
0.69 0.08 0.23
Matches are distributed among these distances:
27 19 0.13
28 2 0.01
29 1 0.01
31 2 0.01
32 2 0.01
33 45 0.30
34 14 0.09
35 1 0.01
36 4 0.03
37 2 0.01
38 1 0.01
39 4 0.03
40 1 0.01
41 6 0.04
42 28 0.19
43 18 0.12
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAG
Found at i:30254740 original size:43 final size:39
Alignment explanation
Indices: 30254676--30254816 Score: 141
Period size: 33 Copynumber: 3.6 Consensus size: 39
30254666 ACCAGTGATT
30254676 CGGGGAATCAGCACTTAGCAACCCCTTTCATATTCAATGATA
1 CGGGGAATCAGCACTTAGCAACCCCTTTCA-ATT-AA-GATA
* *
30254718 CGGTGGAATCAGCACTTAGCAACCAC---CAA-TGA-AT-
1 CGG-GGAATCAGCACTTAGCAACCCCTTTCAATTAAGATA
30254752 CGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATA
1 CGGGGAATCAGCACTTAGCAACCCCTTTCA-A-TTAAGATA
* *
30254793 CGGTGGGATTAGCACTTAGCAACC
1 CGG-GGAATCAGCACTTAGCAACC
30254817 ACCAATGAAT
Statistics
Matches: 83, Mismatches: 6, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
33 21 0.25
34 3 0.04
35 2 0.02
36 2 0.02
37 2 0.02
38 1 0.01
39 3 0.04
40 4 0.05
41 3 0.04
42 21 0.25
43 21 0.25
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (39 bp):
CGGGGAATCAGCACTTAGCAACCCCTTTCAATTAAGATA
Found at i:30254823 original size:75 final size:76
Alignment explanation
Indices: 30254642--30254850 Score: 323
Period size: 76 Copynumber: 2.8 Consensus size: 76
30254632 TATCCGTTAT
* * * * *
30254642 CGGTGGATTCAACACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
30254707 ATTCAATGATA
66 ATTCAATGATA
30254718 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
30254783 ATTTAA-GATA
66 ATTCAATGATA
* *
30254793 CGGTGGGATTAGCACTTAGCAACCACCAATGAATCGGGGAATC-GACACTTAGCAACCC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAG-CACTTAGCAACCC
30254851 TTTGGGGGAA
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
74 1 0.01
75 58 0.47
76 65 0.52
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (76 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAATGATA
Found at i:30254980 original size:51 final size:50
Alignment explanation
Indices: 30254902--30255040 Score: 172
Period size: 50 Copynumber: 2.8 Consensus size: 50
30254892 GATATCGGTT
*
30254902 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TATCCAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGCAT-TCCAGTA
* * * * * **
30254953 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCCAGTA
*
30255003 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA
30255041 TCACTTTCAC
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
50 41 0.55
51 33 0.45
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCCAGTA
Found at i:30258495 original size:29 final size:29
Alignment explanation
Indices: 30258458--30258514 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
30258448 AACATGAAAC
30258458 AACTAATCTATTAAGCAAGTCAGAAAATT
1 AACTAATCTATTAAGCAAGTCAGAAAATT
*
30258487 AACTCATCTATTAAGCAAGTCAGAAAAT
1 AACTAATCTATTAAGCAAGTCAGAAAAT
30258515 CAAAAGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (29 bp):
AACTAATCTATTAAGCAAGTCAGAAAATT
Found at i:30259815 original size:15 final size:15
Alignment explanation
Indices: 30259795--30259829 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
30259785 ATGACGAACC
30259795 GCTCGTCTCAAGTTT
1 GCTCGTCTCAAGTTT
30259810 GCTCGTCTCAAGTTT
1 GCTCGTCTCAAGTTT
30259825 GCTCG
1 GCTCG
30259830 AAAAGCCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.29, G:0.23, T:0.37
Consensus pattern (15 bp):
GCTCGTCTCAAGTTT
Found at i:30260351 original size:41 final size:41
Alignment explanation
Indices: 30260306--30260424 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 41
30260296 TGCTCGACTT
* *
30260306 TTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCACTAAAGCCCTGAGCA
* ** *
30260347 TTAGCGGCGATTCTTTTAAAACACCACTAAAGCCCTGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCACTAAAGCCCTGAGCA
*
30260388 TTAGCGGCGCTTTTTCAAAAAAACGCCACTAAAGCCC
1 TTAGCGGCGCTTCTTC--AAAAACGCCACTAAAGCCC
30260425 AAAAAACTCA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 48 0.74
43 17 0.26
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTCTTCAAAAACGCCACTAAAGCCCTGAGCA
Found at i:30261034 original size:56 final size:58
Alignment explanation
Indices: 30260955--30261062 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 58
30260945 AATCAAATGA
* *
30260955 AGAAATAGAAAACATTTGGAAATGATTAAGCTTTTCTCC-AAATAAAAATGAACATGG
1 AGAAATAGAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAATAAAAATGAACATGG
* ** * *
30261012 AGAAAT-GAAAATATTTGAAAATGAATGTGGTTTTCTCCAAAATGAAAATGA
1 AGAAATAGAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAATAAAAATGA
30261063 CAATGAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 26 0.60
57 17 0.40
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (58 bp):
AGAAATAGAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAATAAAAATGAACATGG
Found at i:30261074 original size:56 final size:54
Alignment explanation
Indices: 30260939--30261076 Score: 132
Period size: 56 Copynumber: 2.4 Consensus size: 54
30260929 AATGAATCGC
* * *
30260939 ATAATAAATCAAATGAAGAAATAGAAAACATTTGGAAATGATTAAGCTTTTCTCCAA
1 ATAA-AAATGAAATGAA-AAAT-GAAAACATTTGAAAATGAATAAGCTTTTCTCCAA
* * ** *
30260996 ATAAAAATGAACATGGAGAAATGAAAATATTTGAAAATGAATGTGGTTTTCTCCAAA
1 ATAAAAATGAA-AT-GAAAAATGAAAACATTTGAAAATGAATAAGCTTTTCTCC-AA
*
30261053 ATGAAAATGACAATGAAAAATGAA
1 ATAAAAATGA-AATGAAAAATGAA
30261077 TTTATATTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
56 41 0.61
57 23 0.34
58 3 0.04
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.26
Consensus pattern (54 bp):
ATAAAAATGAAATGAAAAATGAAAACATTTGAAAATGAATAAGCTTTTCTCCAA
Found at i:30261665 original size:18 final size:18
Alignment explanation
Indices: 30261631--30261666 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30261621 GTCCATATTA
* *
30261631 ATTTTTTTATATTATTTT
1 ATTTTTTTACATAATTTT
30261649 ATTTTTTTACATAATTTT
1 ATTTTTTTACATAATTTT
30261667 TAAATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTTTTACATAATTTT
Found at i:30266160 original size:22 final size:22
Alignment explanation
Indices: 30266135--30266177 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30266125 TATCCAAACT
30266135 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
30266157 ATAATAGTGAAATAGTAGCAA
1 ATAACAATAAAATAGTAGCAA
30266178 AACAGTGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:30269068 original size:9 final size:9
Alignment explanation
Indices: 30269038--30269077 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
30269028 ATTAATTTTT
30269038 TAAAATTTA
1 TAAAATTTA
*
30269047 -AAAATTCA
1 TAAAATTTA
*
30269055 AAAAATTTA
1 TAAAATTTA
30269064 TAAAATTTA
1 TAAAATTTA
30269073 TAAAA
1 TAAAA
30269078 AAAATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAATTTA
Found at i:30270662 original size:23 final size:24
Alignment explanation
Indices: 30270611--30270663 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
30270601 TAAATTTTAT
30270611 TTGATAAATGTTTTGATATAATAAA
1 TTGAT-AATGTTTTGATATAATAAA
30270636 --GATAATGTTTTTGA-ATAA-AAA
1 TTGATAATG-TTTTGATATAATAAA
30270657 TTGATAA
1 TTGATAA
30270664 ATTCAAGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
23 14 0.56
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (24 bp):
TTGATAATGTTTTGATATAATAAA
Found at i:30272431 original size:8 final size:8
Alignment explanation
Indices: 30272418--30272452 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
30272408 AAAAAATCGT
30272418 AATAATAA
1 AATAATAA
30272426 AATAATAA
1 AATAATAA
30272434 AATAATAA
1 AATAATAA
30272442 GAGATAATAA
1 -A-ATAATAA
30272452 A
1 A
30272453 CACAATATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 16 0.64
9 2 0.08
10 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:30285964 original size:24 final size:24
Alignment explanation
Indices: 30285932--30285982 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
30285922 TTTAAATATG
*
30285932 AAAGGATGTTTTAGTTATTTTACT
1 AAAGGATGTTTTAGTAATTTTACT
*
30285956 AAAGGATGTTTTAGTAATTTTCCT
1 AAAGGATGTTTTAGTAATTTTACT
30285980 AAA
1 AAA
30285983 TAAGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (24 bp):
AAAGGATGTTTTAGTAATTTTACT
Found at i:30288872 original size:16 final size:17
Alignment explanation
Indices: 30288853--30288903 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
30288843 TCGTTGTTTC
30288853 ATTTTTA-CTTTATT-TT
1 ATTTTTAGC-TTATTATT
30288869 ATTTTTAGCTTATTATT
1 ATTTTTAGCTTATTATT
*
30288886 ATTATTA--TTATTATT
1 ATTTTTAGCTTATTATT
30288901 ATT
1 ATT
30288904 ATTATTATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
15 11 0.34
16 12 0.38
17 9 0.28
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (17 bp):
ATTTTTAGCTTATTATT
Found at i:30288886 original size:3 final size:3
Alignment explanation
Indices: 30288878--30288911 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
30288868 TATTTTTAGC
30288878 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30288912 GTATATCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30293214 original size:10 final size:9
Alignment explanation
Indices: 30293135--30293206 Score: 74
Period size: 9 Copynumber: 7.6 Consensus size: 9
30293125 GATACAAAGC
30293135 AAAAATAAA
1 AAAAATAAA
*
30293144 AAATA-AAA
1 AAAAATAAA
*
30293152 AAAAATCAA
1 AAAAATAAA
30293161 AAAAATCAAA
1 AAAAAT-AAA
30293171 GTCAAAAATATAA
1 ---AAAAATA-AA
30293184 AAAAATAAA
1 AAAAATAAA
30293193 AAAAATAAA
1 AAAAATAAA
30293202 AAAAA
1 AAAAA
30293207 GAGAAAAAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
8 7 0.13
9 28 0.53
10 9 0.17
12 1 0.02
13 8 0.15
ACGTcount: A:0.82, C:0.04, G:0.01, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:30293214 original size:17 final size:18
Alignment explanation
Indices: 30293135--30293206 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 18
30293125 GATACAAAGC
*
30293135 AAAAATAAAAAATA-AAA
1 AAAAATAAAAAAAATAAA
*
30293152 AAAAATCAAAAAAATCAAA
1 AAAAATAAAAAAAAT-AAA
30293171 GTCAAAAATATAAAAAAATAAA
1 ---AAAAATA-AAAAAAATAAA
30293193 AAAAATAAAAAAAA
1 AAAAATAAAAAAAA
30293207 GAGAAAAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
17 12 0.26
18 7 0.15
19 10 0.22
22 9 0.20
23 8 0.17
ACGTcount: A:0.82, C:0.04, G:0.01, T:0.12
Consensus pattern (18 bp):
AAAAATAAAAAAAATAAA
Found at i:30294061 original size:15 final size:16
Alignment explanation
Indices: 30294020--30294062 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
30294010 TGAGTCAAAA
*
30294020 AAAAAGAAAAAAGATG
1 AAAAAGTAAAAAGATG
30294036 AAAAA-TGAAAAA-ATG
1 AAAAAGT-AAAAAGATG
30294051 AAAAAGTAAAAA
1 AAAAAGTAAAAA
30294063 TAGAGAGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (16 bp):
AAAAAGTAAAAAGATG
Found at i:30294193 original size:21 final size:21
Alignment explanation
Indices: 30294147--30294186 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30294137 GCTCAAATGT
30294147 TGATCAGAATGGGGCATGAAC
1 TGATCAGAATGGGGCATGAAC
*
30294168 TGATCAGATTGGGGCATGA
1 TGATCAGAATGGGGCATGA
30294187 TGTGATCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (21 bp):
TGATCAGAATGGGGCATGAAC
Found at i:30295314 original size:46 final size:46
Alignment explanation
Indices: 30295247--30295784 Score: 851
Period size: 46 Copynumber: 11.7 Consensus size: 46
30295237 TATCAATGAG
*
30295247 GATAGCAGATCTTATCTTCCTGTATTTGACAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
30295293 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
30295339 GATAGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * * *
30295385 GATAGCGGATCTTATCTTTCTGTATTTAGTAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
30295431 GATAGCAGATTTTATCTTCCTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
30295477 GATAGCGGATCTTATCTTCCTGTATTTAGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
30295523 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * * *
30295569 GATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGAAGATCAAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
30295615 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAAGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * * * *
30295661 GATAGTAGATATTATCTTCCTGTATTTAGCAGCAGAAGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
30295707 GATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
30295753 GATAGCAGATCTTGTCTTCCTGTAATTGGCAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAG
30295785 TAGAGGGATT
Statistics
Matches: 452, Mismatches: 40, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 452 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (46 bp):
GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
Found at i:30295950 original size:132 final size:132
Alignment explanation
Indices: 30295793--30297289 Score: 2577
Period size: 132 Copynumber: 11.4 Consensus size: 132
30295783 AGTAGAGGGA
* * *
30295793 TTGAAGATTACAGATTATGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
30295858 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30295923 GG
131 GG
*
30295925 TTAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
* *
30295990 TTCCCAATA-AGTGGAGAAGCATATCTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30296054 GG
131 GG
* *
30296056 TTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
* *
30296121 TTCCCAATACAGTGGAGAAGTAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30296186 GG
131 GG
* *
30296188 TTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAGTAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
30296253 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30296318 GG
131 GG
*
30296320 TTAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
30296385 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGA-TA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30296449 GG
131 GG
*
30296451 TTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
30296516 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30296581 GG
131 GG
* *
30296583 TTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
* *
30296648 TTCCCAATACAGTGGAGAAGTAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30296713 GG
131 GG
* *
30296715 TTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAGTAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
*
30296780 TTCCCAATACAGTGGAGAAGCAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30296845 GG
131 GG
*
30296847 TTGAAGATTGCAGATTTTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
*
30296912 TTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30296977 GG
131 GG
* * * * *
30296979 TCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGAAGCAGATCGAAGACGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
* *
30297044 TT-CCAATACAGTGGAAAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30297108 GG
131 GG
* * * * * *
30297110 TCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGTAAATATTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
* * *
30297175 TTTCCAATACAGTGGAGAAGCAGATTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAATA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30297240 GG
131 GG
* * * * *
30297242 TCGAAGATTGTAGATTCTGTCACCCTAAGCAGTAGTAGAGCAAATCAA
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAA
30297290 CAATAACGAA
Statistics
Matches: 1305, Mismatches: 57, Indels: 6
0.95 0.04 0.00
Matches are distributed among these distances:
131 378 0.29
132 927 0.71
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
GG
Found at i:30296523 original size:395 final size:396
Alignment explanation
Indices: 30295793--30297289 Score: 2606
Period size: 395 Copynumber: 3.8 Consensus size: 396
30295783 AGTAGAGGGA
*
30295793 TTGAAGATTACAGATTATGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTATC
30295858 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30295923 GGTTAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTA
131 GGTTAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTA
* *
30295988 TCTTCCCAATA-AGTGGAGAAGCATATCTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAG
196 TCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAG
*
30296052 TAGGTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCT
261 TAGGTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
*
30296117 TATCTTCCCAATACAGTGGAGAAGTAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
326 TATCTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
30296182 AGTAGG
391 AGTAGG
**
30296188 TTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAGTAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTATC
30296253 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
30296318 GGTTAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTA
131 GGTTAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTA
30296383 TCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGA-
196 TCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAG
30296447 TAGGTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
261 TAGGTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
*
30296512 TATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
326 TATCTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
30296577 AGTAGG
391 AGTAGG
**
30296583 TTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTATC
* *
30296648 TTCCCAATACAGTGGAGAAGTAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
* * *
30296713 GGTTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAGTAGATCAAAGATGGTGAATCTTA
131 GGTTAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTA
*
30296778 TCTTCCCAATACAGTGGAGAAGCAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAG
196 TCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAG
* *
30296843 TAGGTTGAAGATTGCAGATTTTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
261 TAGGTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
30296908 TATCTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
326 TATCTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
30296973 AGTAGG
391 AGTAGG
* * * * *
30296979 TCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT-GAAGCAGATCGAAGACGGTGAATCTTAT
1 TTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAA-CAGATCAAAGATGGTGAATCTTAT
* *
30297043 CTT-CCAATACAGTGGAAAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAAT
65 CTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGT
** * * * * *
30297107 AGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGTAAATATT
130 AGGTTAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTT
* *
30297172 ATCTTTCCAATACAGTGGAGAAGCAGATTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGA
195 ATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGA
* * * * *
30297237 ATAGGTCGAAGATTGTAGATTCTGTCACCCTAAGCAGTAGTAGAGCAAATCAA
260 GTAGGTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAA
30297290 CAATAACGAA
Statistics
Matches: 1051, Mismatches: 48, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
395 810 0.77
396 241 0.23
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (396 bp):
TTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTATC
TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
GGTTAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTA
TCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAG
TAGGTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
TATCTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
AGTAGG
Found at i:30296803 original size:527 final size:528
Alignment explanation
Indices: 30295796--30297277 Score: 2628
Period size: 527 Copynumber: 2.8 Consensus size: 528
30295786 AGAGGGATTG
* *
30295796 AAGATTACAGATTATGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
30295861 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
30295926 TAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCT
131 TGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCT
* *
30295991 TCCCAATA-AGTGGAGAAGCATATCTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAG
196 TCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAG
30296055 GTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTAT
261 GTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTAT
30296120 CTTCCCAATACAGTGGAGAAGTAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGT
326 CTTCCCAATACAGTGGAGAAGTAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGT
30296185 AGGTTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAGTAGATCAAAGATGGTGAATCTT
391 AGGTTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAGTAGATCAAAGATGGTGAATCTT
30296250 ATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGA
456 ATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGA
30296315 GTAGGTTA
521 GTAGGTTA
*
30296323 AAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
30296388 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGA-TAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
30296452 TGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCT
131 TGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCT
30296517 TCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAG
196 TCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAG
30296582 GTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTAT
261 GTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTAT
30296647 CTTCCCAATACAGTGGAGAAGTAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGT
326 CTTCCCAATACAGTGGAGAAGTAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGT
30296712 AGGTTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAGTAGATCAAAGATGGTGAATCTT
391 AGGTTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAGTAGATCAAAGATGGTGAATCTT
*
30296777 ATCTTCCCAATACAGTGGAGAAGCAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGA
456 ATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGA
*
30296842 GTAGGTTG
521 GTAGGTTA
*
30296850 AAGATTGCAGATTTTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
*
30296915 CCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
* * * * *
30296980 CGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGAAGCAGATCGAAGACGGTGAATCTTATCT
131 TGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCT
* *
30297045 T-CCAATACAGTGGAAAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATAG
196 TCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAG
* * * * * * * *
30297109 GTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGTAAATATTAT
261 GTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTAT
* * * * *
30297174 CTTTCCAATACAGTGGAGAAGCAGATTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAAT
326 CTTCCCAATACAGTGGAGAAGTAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGT
* ** *
30297239 AGGTCGAAGATTGTAGATTCTGTCACCCTAAGCAGTAGT
391 AGGTTGAAGATTACAGATTCTGTCACCCTAATCAGTAGT
30297278 AGAGCAAATC
Statistics
Matches: 917, Mismatches: 36, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
526 76 0.08
527 776 0.85
528 65 0.07
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (528 bp):
AAGATTGCAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
TGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCT
TCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAG
GTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTAT
CTTCCCAATACAGTGGAGAAGTAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGT
AGGTTGAAGATTACAGATTCTGTCACCCTAATCAGTAGTGGAGTAGATCAAAGATGGTGAATCTT
ATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGA
GTAGGTTA
Found at i:30297027 original size:44 final size:44
Alignment explanation
Indices: 30296819--30297158 Score: 144
Period size: 44 Copynumber: 7.8 Consensus size: 44
30296809 GCCATTAGTC
* * * *
30296819 CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGAAGCAGATCGAAGATTGCAGATT
* * * * * ** *
30296863 TTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGAAGCAGATCGAAGATTGCAGATT
* * * * * ** *
30296906 CTTATCTTCCC-AATACAGTGGAGAAGTAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGAAGCAGATCGAAG--ATTGCAGATT
* * *
30296951 CTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGAAGCAGATCGAAGATTGCAGATT
* * ** *
30296995 CTGTCACCCTAAGCAGTAGTGAAGCAGATCGAAGA-CGGTGAAT
1 CTATCACCCTAAGCAGTAGTGAAGCAGATCGAAGATTGCAGATT
** * * ** ** *
30297038 CTTATCTTCC-AATACAGTGGAAAAGCAGATTTAAGCCATT--AG-TC
1 C-TATCACCCTAA-GCAGTAGTGAAGCAGATCGAAG--ATTGCAGATT
* *
30297082 CTATCACCCTAAGCAGTAGTGGAA-TAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGT-GAAGCAGATCGAAGATTGCAGATT
* *
30297126 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAA
1 CTATCACCCTAAGCAGTAGTGAAGCAGATCGAA
30297159 TATGGTAAAT
Statistics
Matches: 207, Mismatches: 68, Indels: 42
0.65 0.21 0.13
Matches are distributed among these distances:
41 6 0.03
43 53 0.26
44 124 0.60
45 20 0.10
46 2 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGAAGCAGATCGAAGATTGCAGATT
Found at i:30298780 original size:17 final size:18
Alignment explanation
Indices: 30298766--30298811 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
30298756 CATTTTTACT
30298766 TTATT-TTATTTTTTAGC
1 TTATTATTATTTTTTAGC
30298783 TTATTATTATTATTATTA--
1 TTATTATTATT-TT-TTAGC
30298801 TTATTATTATT
1 TTATTATTATT
30298812 ATTATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 16 0.62
19 2 0.08
20 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTATTATTATTTTTTAGC
Found at i:30298791 original size:3 final size:3
Alignment explanation
Indices: 30298783--30298822 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
30298773 ATTTTTTAGC
30298783 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30298823 GTATATCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30300632 original size:45 final size:45
Alignment explanation
Indices: 30300581--30300668 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
30300571 GACTTTGTCT
30300581 CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTGTA
1 CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTGTA
*
30300626 CTTTGACCTTTTGTGACTCAAAATTATCACTGAAAACATATTG
1 CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTG
30300669 CATTAGAGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (45 bp):
CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTGTA
Done.