Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 162 of 328
Found at i:47450039 original size:36 final size:37
Alignment explanation
Indices: 47449990--47450064 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
47449980 ACAAGTGAAG
47449990 TCTAAGTGAA-TTTTCCTTCGGTATTGTCCAAATCAA
1 TCTAAGTGAATTTTTCCTTCGGTATTGTCCAAATCAA
* * *
47450026 TCTAAGTGGATTTTTCCTTGGGTATTTTCCAAATCAA
1 TCTAAGTGAATTTTTCCTTCGGTATTGTCCAAATCAA
47450063 TC
1 TC
47450065 AGTTTTTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 9 0.26
37 26 0.74
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (37 bp):
TCTAAGTGAATTTTTCCTTCGGTATTGTCCAAATCAA
Found at i:47455966 original size:34 final size:34
Alignment explanation
Indices: 47455923--47455999 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
47455913 GTTTGCATTT
* *
47455923 CTGTTACTGTTATTGTAATGGGCTAAGGCCCACA
1 CTGTTACTGTTACTGTAATGGACTAAGGCCCACA
47455957 CTGTTACTGTTACTGTAATGGACTAAGGCCCACA
1 CTGTTACTGTTACTGTAATGGACTAAGGCCCACA
*
47455991 CTGATACTG
1 CTGTTACTG
47456000 GACCGTCATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (34 bp):
CTGTTACTGTTACTGTAATGGACTAAGGCCCACA
Found at i:47456204 original size:15 final size:16
Alignment explanation
Indices: 47456184--47456213 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47456174 TTTCTACTGT
47456184 TTTAAGC-ATTTAATC
1 TTTAAGCTATTTAATC
47456199 TTTAAGCTATTTAAT
1 TTTAAGCTATTTAAT
47456214 TTGGGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (16 bp):
TTTAAGCTATTTAATC
Found at i:47457674 original size:25 final size:24
Alignment explanation
Indices: 47457646--47457698 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
47457636 CACAAATACA
*
47457646 GCTCTTTATAAGCGTCCTGATATAG
1 GCTCTTTATAAACGTCCTGATAT-G
* *
47457671 GCTCTTTGTAAACTTCCTGATATG
1 GCTCTTTATAAACGTCCTGATATG
47457695 GCTC
1 GCTC
47457699 GCTTGAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (24 bp):
GCTCTTTATAAACGTCCTGATATG
Found at i:47466496 original size:56 final size:53
Alignment explanation
Indices: 47466403--47466514 Score: 129
Period size: 56 Copynumber: 2.1 Consensus size: 53
47466393 ATGAAAAAAA
47466403 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
*** *
47466456 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAGGG
1 AAAGAAAA-AAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
47466512 AAA
1 AAA
47466515 AGGGGGAGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
53 8 0.16
54 5 0.10
55 2 0.04
56 32 0.64
57 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:47467771 original size:40 final size:40
Alignment explanation
Indices: 47467705--47467871 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
47467695 AAATTGAATA
* * *
47467705 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
47467744 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
47467784 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
47467824 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
47467864 ATATCCGG
1 ATATCCGG
47467872 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:47469970 original size:29 final size:29
Alignment explanation
Indices: 47469880--47470039 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
47469870 ACTCGATTTC
* * **
47469880 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
47469909 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
47469937 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
47469967 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47469996 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47470025 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
47470040 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:47471362 original size:26 final size:24
Alignment explanation
Indices: 47471325--47471374 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
47471315 GCATCCACAC
47471325 TTTTTTTTTTTCATCATTTTCCTT
1 TTTTTTTTTTTCATCATTTTCCTT
* *
47471349 TTTTTTTTCATTTCTTTATTTTCCTT
1 TTTTTTTT--TTTCATCATTTTCCTT
47471375 CCATAATGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
26 14 0.64
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTTTTTTCATCATTTTCCTT
Found at i:47481562 original size:16 final size:16
Alignment explanation
Indices: 47481543--47481573 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47481533 CTTCTTCACT
47481543 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
47481559 TACTTACTTACTTAA
1 TACTCACTTACTTAA
47481574 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:47481579 original size:20 final size:20
Alignment explanation
Indices: 47481540--47481579 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47481530 AAACTTCTTC
* *
47481540 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
47481560 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
47481580 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:47488923 original size:16 final size:16
Alignment explanation
Indices: 47488904--47488934 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47488894 CTTCTTCACT
47488904 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
47488920 TACTTACTTACTTAA
1 TACTCACTTACTTAA
47488935 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:47488940 original size:20 final size:20
Alignment explanation
Indices: 47488901--47488940 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47488891 AAACTTCTTC
* *
47488901 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
47488921 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
47488941 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:47489319 original size:55 final size:53
Alignment explanation
Indices: 47489129--47489383 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
47489119 TACGCGGGAC
* * * * *
47489129 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* * *
47489178 CTTACCATTGACATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
47489231 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
47489286 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
47489339 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
47489384 AAACCATAAT
Statistics
Matches: 170, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
49 34 0.20
52 2 0.01
53 46 0.27
54 14 0.08
55 72 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:47492080 original size:42 final size:42
Alignment explanation
Indices: 47491983--47492091 Score: 150
Period size: 41 Copynumber: 2.6 Consensus size: 42
47491973 ACCAGCACAG
* * * *
47491983 AGCCTGTTAGGTAACAAACCTGAT-TCAATACACCGGCATAA
1 AGCCTGCTAGGCAATAAGCCTGATATCAATACACCGGCATAA
*
47492024 AGCCTGCTAGGCAATAAGCCTGATATC-ATACATCGGCATCAA
1 AGCCTGCTAGGCAATAAGCCTGATATCAATACACCGGCAT-AA
47492066 AGCCTGCTAGGCAATAAGCCTGATAT
1 AGCCTGCTAGGCAATAAGCCTGATAT
47492092 ATCACTGTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
41 31 0.51
42 30 0.49
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (42 bp):
AGCCTGCTAGGCAATAAGCCTGATATCAATACACCGGCATAA
Found at i:47492212 original size:14 final size:14
Alignment explanation
Indices: 47492193--47492248 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
47492183 TTAACCATAG
47492193 AAATTCATACAATT
1 AAATTCATACAATT
*
47492207 AAATTCAT-CATATA
1 AAATTCATACA-ATT
*
47492221 AAAATCATACAAATT
1 AAATTCATAC-AATT
47492236 CAAATTCA-ACAAT
1 -AAATTCATACAAT
47492249 GTTTATTGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.06
14 20 0.59
15 5 0.15
16 7 0.21
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATTCATACAATT
Found at i:47510516 original size:25 final size:25
Alignment explanation
Indices: 47510468--47510518 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
47510458 CCCTTATAAT
* *
47510468 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
*
47510493 GTGAAAATGACCATTATACTCCTAG
1 GTGAAAATGACCATTATACCCCTAG
47510518 G
1 G
47510519 GATATGCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:47511258 original size:18 final size:18
Alignment explanation
Indices: 47511230--47511271 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
47511220 TTTCTTCTTA
47511230 ATAACTCTAAATATTTCTG
1 ATAA-TCTAAATATTTCTG
47511249 ATAATCTAAATATTTCTG
1 ATAATCTAAATATTTCTG
47511267 ATAAT
1 ATAAT
47511272 ACTTCAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (18 bp):
ATAATCTAAATATTTCTG
Found at i:47513855 original size:20 final size:21
Alignment explanation
Indices: 47513817--47513859 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
47513807 ATAAAATAAA
47513817 AATAATCATAATAGTAAAACT
1 AATAATCATAATAGTAAAACT
*
47513838 AATAATTATAAT-GTAAAACT
1 AATAATCATAATAGTAAAACT
47513858 AA
1 AA
47513860 AACAAATCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
AATAATCATAATAGTAAAACT
Found at i:47517513 original size:2 final size:2
Alignment explanation
Indices: 47517506--47517543 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
47517496 GCATAATAAC
47517506 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47517544 TGATTCATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47518512 original size:20 final size:20
Alignment explanation
Indices: 47518487--47518542 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
47518477 ATTAATTAAC
47518487 TATCGAAACTTTAAAATTTT
1 TATCGAAACTTTAAAATTTT
47518507 TATCGAAACTTTAAAATTTT
1 TATCGAAACTTTAAAATTTT
47518527 TATCGAAACTTTAAAA
1 TATCGAAACTTTAAAA
47518543 CAACTGTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (20 bp):
TATCGAAACTTTAAAATTTT
Found at i:47536018 original size:14 final size:14
Alignment explanation
Indices: 47535999--47536029 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47535989 TCTCCTTCGC
*
47535999 CGGTTCGGTTCACT
1 CGGTTCGGTTCAAT
47536013 CGGTTCGGTTCAAT
1 CGGTTCGGTTCAAT
47536027 CGG
1 CGG
47536030 ACCATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (14 bp):
CGGTTCGGTTCAAT
Found at i:47542946 original size:41 final size:41
Alignment explanation
Indices: 47542871--47542948 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
47542861 ATAGTGATAT
*
47542871 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTTGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
* * *
47542912 TCGGGCTTTGTGCCTAGC-AGGCTTATTGCCGGTGAAT
1 TCGGGCTTTGAGCCTAGCAAGCCTT-GTGCCGGTGAAT
47542949 AAATAAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
Found at i:47543164 original size:35 final size:35
Alignment explanation
Indices: 47543133--47543228 Score: 138
Period size: 35 Copynumber: 2.7 Consensus size: 35
47543123 TGTGATGTTT
47543133 TATTGAACTTGTATATTCGGCCATATATGATGATA
1 TATTGAACTTGTATATTCGGCCATATATGATGATA
* *
47543168 TATTGAACTTGTATATTCGGCCATATGTAATGATA
1 TATTGAACTTGTATATTCGGCCATATATGATGATA
* * *
47543203 TAATGAACCTTGTGTATTTGGCCATA
1 TATTGAA-CTTGTATATTCGGCCATA
47543229 CAAGTAAGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 39 0.71
36 16 0.29
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (35 bp):
TATTGAACTTGTATATTCGGCCATATATGATGATA
Found at i:47546394 original size:40 final size:40
Alignment explanation
Indices: 47546339--47546506 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
47546329 TGAATGATAC
* *
47546339 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
47546379 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
47546419 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
47546459 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
*
47546499 TC-GGCTAA
1 CCGGGCTAA
47546507 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:47548337 original size:93 final size:93
Alignment explanation
Indices: 47548208--47548379 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
47548198 CGCCCATAAG
* *
47548208 CGAACTCGGACTCAACTCAATGAACTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAACTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47548273 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
**
47548301 CGAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAACTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
47548365 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
47548380 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAACTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47548375 original size:46 final size:47
Alignment explanation
Indices: 47548201--47548376 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 47
47548191 TGTAACTCGC
* ** *
47548201 CCATAAGCGAACTCGGACTCAACTCAATGAACTC-GAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
47548247 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
*
47548297 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
47548340 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
47548377 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.54
47 31 0.28
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:47548395 original size:46 final size:44
Alignment explanation
Indices: 47548252--47548395 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
47548242 CGCATCCATA
47548252 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
47548299 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
47548345 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
47548391 AGTGA
1 AGTGA
47548396 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:47555866 original size:93 final size:93
Alignment explanation
Indices: 47555753--47555924 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47555743 CGCCCATAAG
* *
47555753 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47555818 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
47555846 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47555911 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
47555925 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47555921 original size:46 final size:46
Alignment explanation
Indices: 47555746--47555921 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
47555736 TGTAACCCGC
* * *
47555746 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
47555792 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
47555842 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47555885 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
47555922 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47561404 original size:16 final size:16
Alignment explanation
Indices: 47561383--47561415 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47561373 GTTGGCTCGA
47561383 GTTGTTAAAAGATTAT
1 GTTGTTAAAAGATTAT
47561399 GTTGTTAAAAGATTAT
1 GTTGTTAAAAGATTAT
47561415 G
1 G
47561416 AGCTTGTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.42
Consensus pattern (16 bp):
GTTGTTAAAAGATTAT
Found at i:47564811 original size:41 final size:41
Alignment explanation
Indices: 47564736--47564813 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
47564726 ATAGTGATAT
*
47564736 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTTGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
* * *
47564777 TCGGGCTTTGTGCCTAGC-AGGCTTATTGCCGGTGAAT
1 TCGGGCTTTGAGCCTAGCAAGCCTT-GTGCCGGTGAAT
47564814 AAATAAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
Found at i:47565029 original size:35 final size:35
Alignment explanation
Indices: 47564998--47565080 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 35
47564988 TGTGATGTTT
*
47564998 TATTGAACTTGTATATTCGGCCATATATGATGATA
1 TATTGAACTTGTATATCCGGCCATATATGATGATA
* *
47565033 TATTGAACTTGTATATCCGGCCATATGTAATGATA
1 TATTGAACTTGTATATCCGGCCATATATGATGATA
*
47565068 TAATGAACCTTGT
1 TATTGAA-CTTGT
47565081 GTATTTGGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 38 0.88
36 5 0.12
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (35 bp):
TATTGAACTTGTATATCCGGCCATATATGATGATA
Found at i:47568251 original size:40 final size:40
Alignment explanation
Indices: 47568196--47568363 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
47568186 TGAATGATCC
* *
47568196 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
47568236 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
47568276 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * * *
47568316 CCAGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
47568356 CC-GGCTAA
1 CCGGGCTAA
47568364 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:47576987 original size:40 final size:40
Alignment explanation
Indices: 47576893--47577077 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
47576883 TATTCGAATG
* *
47576893 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTA-GTGACT
* * * *
47576934 ATAACCGGACTAAGATCCGAAGGCATTCATGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
47576974 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
47577014 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
47577054 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
47577078 CTTGTGCAAG
Statistics
Matches: 121, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 91 0.75
41 28 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:47577063 original size:80 final size:81
Alignment explanation
Indices: 47576893--47577077 Score: 259
Period size: 80 Copynumber: 2.3 Consensus size: 81
47576883 TATTCGAATG
* * *
47576893 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
47576958 ATTCATGCGAGTTGCT
66 ATTCATGCGAGTTGCC
* *
47576974 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
47577037 CATTTATGCTAG-TGACC
65 CATTCATGCGAGTTG-CC
47577054 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
47577078 CTTGTGCAAG
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
79 3 0.03
80 59 0.63
81 32 0.34
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCC
Found at i:47578922 original size:41 final size:41
Alignment explanation
Indices: 47578846--47578923 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
47578836 ATAGTGATAT
*
47578846 TCGGGCTTTGAGCCTAGCAAGCCTTCTGCTGGTGAATTTGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTCTGCTAGTGAATTTGA
* * *
47578887 TCGGGCTTTGTGCCTAGC-AGGCTTATTGCTAGTGAAT
1 TCGGGCTTTGAGCCTAGCAAGCCTT-CTGCTAGTGAAT
47578924 AAATAAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTCTGCTAGTGAATTTGA
Found at i:47579147 original size:35 final size:35
Alignment explanation
Indices: 47579108--47579195 Score: 122
Period size: 35 Copynumber: 2.5 Consensus size: 35
47579098 TGCGATGTTT
* *
47579108 TATTGAACTTGTATATTCGGCCATATATGATGATA
1 TATTGAACTTGTATATTCAGCCATATATAATGATA
*
47579143 TATTGAACTTGTATATTCAGCCATATGTAATGATA
1 TATTGAACTTGTATATTCAGCCATATATAATGATA
* *
47579178 TAATGAACCTTGTGTATT
1 TATTGAA-CTTGTATATT
47579196 AGGTCATACA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 38 0.81
36 9 0.19
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (35 bp):
TATTGAACTTGTATATTCAGCCATATATAATGATA
Found at i:47580806 original size:27 final size:27
Alignment explanation
Indices: 47580775--47580933 Score: 153
Period size: 27 Copynumber: 5.9 Consensus size: 27
47580765 TAAGACCCCG
*
47580775 GTTTGTAAAATTATCGAAATACCCTTA
1 GTTTGTAAAATTATCGAAATACCCTCA
* * *
47580802 GTTTGTAAAATTTTTGAAATTCCCTCA
1 GTTTGTAAAATTATCGAAATACCCTCA
* * *
47580829 ATTTGTAAAATTACCGAAATACCCCCA
1 GTTTGTAAAATTATCGAAATACCCTCA
*
47580856 GTTTGTAAAATTA-CTGAAATACCC-CC
1 GTTTGTAAAATTATC-GAAATACCCTCA
* *
47580882 GATTTGTAAAATTATTGAAATACCCT-T
1 G-TTTGTAAAATTATCGAAATACCCTCA
* * *
47580909 GTAGTGTAAAAATATCAAAATACCC
1 GT-TTGTAAAATTATCGAAATACCC
47580934 CTATAGGGTA
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.04
27 105 0.96
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (27 bp):
GTTTGTAAAATTATCGAAATACCCTCA
Found at i:47580859 original size:54 final size:54
Alignment explanation
Indices: 47580776--47580906 Score: 181
Period size: 54 Copynumber: 2.4 Consensus size: 54
47580766 AAGACCCCGG
** ** * *
47580776 TTTGTAAAATTATCGAAATACCCTTAGTTTGTAAAATTTTTGAAATTCCCTCAA
1 TTTGTAAAATTATCGAAATACCCCCAGTTTGTAAAATTACTGAAATACCCCCAA
* *
47580830 TTTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTACTGAAATACCCCCGA
1 TTTGTAAAATTATCGAAATACCCCCAGTTTGTAAAATTACTGAAATACCCCCAA
*
47580884 TTTGTAAAATTATTGAAATACCC
1 TTTGTAAAATTATCGAAATACCC
47580907 TTGTAGTGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (54 bp):
TTTGTAAAATTATCGAAATACCCCCAGTTTGTAAAATTACTGAAATACCCCCAA
Found at i:47580917 original size:54 final size:53
Alignment explanation
Indices: 47580770--47580919 Score: 174
Period size: 54 Copynumber: 2.8 Consensus size: 53
47580760 GTCGTTAAGA
* ** *
47580770 CCCCGGTTTGTAAAATTATCGAAATACCCTTAGTTTGTAAAATTTTTGAAATTC
1 CCCCGATTTGTAAAATTATCGAAATACCCTT-GTTTGTAAAATTACTGAAATAC
* * * **
47580824 CCTCAATTTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTACTGAAATAC
1 CCCCGATTTGTAAAATTATCGAAATA-CCCTTGTTTGTAAAATTACTGAAATAC
* *
47580878 CCCCGATTTGTAAAATTATTGAAATACCCTTGTAGTGTAAAA
1 CCCCGATTTGTAAAATTATCGAAATACCCTTGT-TTGTAAAA
47580920 ATATCAAAAT
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
53 5 0.06
54 70 0.90
55 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (53 bp):
CCCCGATTTGTAAAATTATCGAAATACCCTTGTTTGTAAAATTACTGAAATAC
Found at i:47580917 original size:81 final size:81
Alignment explanation
Indices: 47580770--47580934 Score: 183
Period size: 81 Copynumber: 2.0 Consensus size: 81
47580760 GTCGTTAAGA
* ** * * *
47580770 CCCCGGTTTGTAAAATTATCGAAATACCCTTAGTTTGTAAAATTTTTGAAATTCCCTCAATTTGT
1 CCCCAGTTTGTAAAATTATCGAAATACCCCGAGTTTGTAAAATTATTGAAATACCCTCAATGTGT
* *
47580835 AAAATTACCGAAATAC
66 AAAAATACCAAAATAC
**
47580851 CCCCAGTTTGTAAAATTA-CTGAAATACCCCCGA-TTTGTAAAATTATTGAAATACCCT-TGTAG
1 CCCCAGTTTGTAAAATTATC-GAAATA-CCCCGAGTTTGTAAAATTATTGAAATACCCTCAAT-G
*
47580913 TGTAAAAATATCAAAATAC
63 TGTAAAAATACCAAAATAC
47580932 CCC
1 CCC
47580935 TATAGGGTAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
80 2 0.03
81 64 0.91
82 4 0.06
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (81 bp):
CCCCAGTTTGTAAAATTATCGAAATACCCCGAGTTTGTAAAATTATTGAAATACCCTCAATGTGT
AAAAATACCAAAATAC
Found at i:47582309 original size:13 final size:13
Alignment explanation
Indices: 47582291--47582315 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47582281 TTAATAAGAC
47582291 AAAGTTTTTCAAA
1 AAAGTTTTTCAAA
47582304 AAAGTTTTTCAA
1 AAAGTTTTTCAA
47582316 CGTGACACGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAAGTTTTTCAAA
Found at i:47584260 original size:27 final size:26
Alignment explanation
Indices: 47584222--47584405 Score: 172
Period size: 27 Copynumber: 7.0 Consensus size: 26
47584212 TAAGACCTCG
47584222 GTTTGTAAAATTACCGAAATACTCCCA
1 GTTTGTAAAATTACCGAAATAC-CCCA
***
47584249 GTTTGTAAAATTTTTGAAATACCCCCA
1 GTTTGTAAAATTACCGAAATA-CCCCA
* * **
47584276 ATTTGTAAAATTATCG-AATACTTCA
1 GTTTGTAAAATTACCGAAATACCCCA
*
47584301 GTTTGTAAAATTACCAAAATACCCTCA
1 GTTTGTAAAATTACCGAAATACCC-CA
*
47584328 GTTTGTAAAATTATCGAAATACCCCA
1 GTTTGTAAAATTACCGAAATACCCCA
* * * **
47584354 ATTTGTAAAATTACCAAAACACCCTT
1 GTTTGTAAAATTACCGAAATACCCCA
* * *
47584380 GTAGTGTAAAATTATCGAAAAACCCC
1 GT-TTGTAAAATTACCGAAATACCCC
47584406 TATAGGGTAA
Statistics
Matches: 126, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
25 16 0.13
26 32 0.25
27 77 0.61
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (26 bp):
GTTTGTAAAATTACCGAAATACCCCA
Found at i:47584310 original size:52 final size:53
Alignment explanation
Indices: 47584223--47584377 Score: 195
Period size: 52 Copynumber: 2.9 Consensus size: 53
47584213 AAGACCTCGG
* ****
47584223 TTTGTAAAATTACCGAAATACTCCCAGTTTGTAAAATTTTTGAAATACCCCCAA
1 TTTGTAAAATTATCGAAATACT-CCAGTTTGTAAAATTACCAAAATACCCCCAA
* * *
47584277 TTTGTAAAATTATCG-AATACTTCAGTTTGTAAAATTACCAAAATACCCTCAG
1 TTTGTAAAATTATCGAAATACTCCAGTTTGTAAAATTACCAAAATACCCCCAA
* * *
47584329 TTTGTAAAATTATCGAAATACCCCAATTTGTAAAATTACCAAAACACCC
1 TTTGTAAAATTATCGAAATACTCCAGTTTGTAAAATTACCAAAATACCC
47584378 TTGTAGTGTA
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
52 39 0.44
53 35 0.40
54 14 0.16
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
TTTGTAAAATTATCGAAATACTCCAGTTTGTAAAATTACCAAAATACCCCCAA
Found at i:47584372 original size:53 final size:53
Alignment explanation
Indices: 47584217--47584405 Score: 211
Period size: 53 Copynumber: 3.6 Consensus size: 53
47584207 GTTGTTAAGA
* * ****
47584217 CCTCGGTTTGTAAAATTACCGAAATACTCCCAGTTTGTAAAATTTTTGAAATAC
1 CCTCAGTTTGTAAAATTATCGAAATAC-CCCAGTTTGTAAAATTACCAAAATAC
* * **
47584271 CCCCAATTTGTAAAATTATCG-AATACTTCAGTTTGTAAAATTACCAAAATAC
1 CCTCAGTTTGTAAAATTATCGAAATACCCCAGTTTGTAAAATTACCAAAATAC
* *
47584323 CCTCAGTTTGTAAAATTATCGAAATACCCCAATTTGTAAAATTACCAAAACAC
1 CCTCAGTTTGTAAAATTATCGAAATACCCCAGTTTGTAAAATTACCAAAATAC
* * *
47584376 CCT-TGTAGTGTAAAATTATCGAAAAACCCC
1 CCTCAGT-TTGTAAAATTATCGAAATACCCC
47584406 TATAGGGTAA
Statistics
Matches: 114, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
52 41 0.36
53 56 0.49
54 17 0.15
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (53 bp):
CCTCAGTTTGTAAAATTATCGAAATACCCCAGTTTGTAAAATTACCAAAATAC
Found at i:47584415 original size:27 final size:27
Alignment explanation
Indices: 47584331--47584418 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
47584321 ACCCTCAGTT
* * *
47584331 TGTAAAATTATCGAAATACCCCAAT-T
1 TGTAAAATTATCGAAAAACCCCTATAG
* * *
47584357 TGTAAAATTA-CCAAAACACCCTTGTAG
1 TGTAAAATTATCGAAAA-ACCCCTATAG
47584384 TGTAAAATTATCGAAAAACCCCTATAG
1 TGTAAAATTATCGAAAAACCCCTATAG
*
47584411 GGTAAAAT
1 TGTAAAAT
47584419 GACTGTTTCG
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
25 4 0.08
26 15 0.31
27 25 0.51
28 5 0.10
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.27
Consensus pattern (27 bp):
TGTAAAATTATCGAAAAACCCCTATAG
Found at i:47589467 original size:48 final size:48
Alignment explanation
Indices: 47589232--47589464 Score: 430
Period size: 48 Copynumber: 4.9 Consensus size: 48
47589222 TATATATGTG
*
47589232 TGTGGTAAAGCCGAATGGATAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
47589280 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
47589328 TGTGGTGAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
47589376 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
47589424 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
47589465 GTGACAGCCT
Statistics
Matches: 179, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 179 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:47591345 original size:40 final size:40
Alignment explanation
Indices: 47591290--47591497 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
47591280 TGAATGATAC
*
47591290 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
47591330 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
** *
47591370 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * ** *
47591410 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
47591450 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
47591490 CC-GGCTAA
1 CCGGGCTAA
47591498 ATTTCGAAGA
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.04
40 136 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:47598901 original size:27 final size:28
Alignment explanation
Indices: 47598844--47598913 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
47598834 AAATTTGTAC
**
47598844 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
47598872 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
47598899 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47598914 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:47598922 original size:27 final size:27
Alignment explanation
Indices: 47598844--47598925 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
47598834 AAATTTGTAC
* *
47598844 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
47598872 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
47598899 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
47598926 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:47599716 original size:17 final size:16
Alignment explanation
Indices: 47599694--47599727 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
47599684 AAATCACTAA
47599694 AAATAGTAAGTAGAATT
1 AAATAGTAAGTA-AATT
*
47599711 AAATAGTGAGTAAATT
1 AAATAGTAAGTAAATT
47599727 A
1 A
47599728 TGGAACTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (16 bp):
AAATAGTAAGTAAATT
Found at i:47606795 original size:30 final size:30
Alignment explanation
Indices: 47606759--47606859 Score: 127
Period size: 28 Copynumber: 3.5 Consensus size: 30
47606749 GACAAGATTG
* * *
47606759 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
*
47606789 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
47606817 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
47606846 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47606860 GATTCACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 23 0.37
29 20 0.32
30 19 0.31
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:47606853 original size:29 final size:29
Alignment explanation
Indices: 47606759--47606859 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
47606749 GACAAGATTG
* * * *
47606759 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTGAAAA-TATATA
*
47606789 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-TTGAAAATATATA
*
47606817 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTGAAAATATATA
47606846 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47606860 GATTCACTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 22 0.36
30 15 0.25
31 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAAAATATATA
Found at i:47614645 original size:30 final size:30
Alignment explanation
Indices: 47614609--47614768 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
47614599 GACAAGATTG
* * * * *
47614609 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
47614639 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
47614667 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
47614696 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
47614726 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
47614755 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47614769 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:47614736 original size:59 final size:57
Alignment explanation
Indices: 47614609--47614768 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
47614599 GACAAGATTG
* * * * * *
47614609 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
47614667 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
47614726 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
47614769 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:47622413 original size:24 final size:24
Alignment explanation
Indices: 47622362--47622505 Score: 227
Period size: 24 Copynumber: 6.0 Consensus size: 24
47622352 GCTTTGTCAT
*
47622362 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
47622387 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
47622411 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
47622435 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
47622459 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47622483 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
47622506 GCACTTTCTC
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
24 99 0.89
25 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:47622580 original size:20 final size:20
Alignment explanation
Indices: 47622555--47622621 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
47622545 TTATGAATAC
47622555 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
47622575 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
47622595 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
47622615 ACCATGT
1 ATCATGT
47622622 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:47622586 original size:11 final size:11
Alignment explanation
Indices: 47622555--47622610 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
47622545 TTATGAATAC
47622555 ATCATGTGCAT
1 ATCATGTGCAT
*
47622566 ATCA--TACAT
1 ATCATGTGCAT
47622575 ATCATGTGCAT
1 ATCATGTGCAT
*
47622586 ATCA--TACAT
1 ATCATGTGCAT
*
47622595 GTCATGTGCAT
1 ATCATGTGCAT
47622606 ATCAT
1 ATCAT
47622611 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:47622686 original size:25 final size:25
Alignment explanation
Indices: 47622658--47622705 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47622648 ATATTTGAAC
* * *
47622658 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAAGGGTAAAACGGTCATTTTTA
47622683 CCTAAGGGTAAAACGGTCATTTT
1 CCTAAGGGTAAAACGGTCATTTT
47622706 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAAGGGTAAAACGGTCATTTTTA
Found at i:47626359 original size:48 final size:48
Alignment explanation
Indices: 47626288--47626769 Score: 829
Period size: 48 Copynumber: 10.0 Consensus size: 48
47626278 CAAGATAAAT
47626288 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
47626336 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAAGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
47626384 ATATGTATATGTGGTAAAGCCGAATGGATAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
47626432 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
47626480 ATATGTATATGTGGTAAAGCCGAATGGGTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
47626528 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
47626576 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
47626624 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
47626672 ATATGTATATATGGTAAAGCCGAATGGATAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
47626720 ATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
47626768 AT
1 AT
47626770 GTGTGTATAT
Statistics
Matches: 410, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 410 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:47627018 original size:37 final size:37
Alignment explanation
Indices: 47626914--47627018 Score: 174
Period size: 37 Copynumber: 2.8 Consensus size: 37
47626904 ATATATTCCA
*
47626914 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
*
47626951 GGTAAGACCTGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
* *
47626988 GGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGTAAGACCCGATGACTACGTGTGGAGATTT
47627019 CATCTGAGCT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:47628347 original size:40 final size:40
Alignment explanation
Indices: 47628289--47628607 Score: 523
Period size: 40 Copynumber: 8.0 Consensus size: 40
47628279 TTGAGAGTTA
* * * *
47628289 TATATCCGAGCTAAGTCCCGGAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
47628329 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
1 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
47628369 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
1 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
*
47628409 TATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
**
47628449 TATATCTTGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
1 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
47628489 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
1 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
* *
47628529 TATATCCGGGCTAGGTCCCAAAGAGCATTCGAGCTTGTGT
1 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
* *
47628569 TATATCCGGGCTAAGTCTCGAAGAGCATTC-ATGCTGGTG
1 TATATCCGGGCTAGGTCCCGAAGAGCATTCGA-GCTGGTG
47628608 ATGTGTATTC
Statistics
Matches: 262, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 261 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
Found at i:47631391 original size:20 final size:20
Alignment explanation
Indices: 47631366--47631405 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
47631356 TCTGTAATCG
47631366 TTCGGCAATTTCCGAGGTAA
1 TTCGGCAATTTCCGAGGTAA
47631386 TTCGGCAATTTCCGAGGTAA
1 TTCGGCAATTTCCGAGGTAA
47631406 GTTCTTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (20 bp):
TTCGGCAATTTCCGAGGTAA
Found at i:47632299 original size:48 final size:48
Alignment explanation
Indices: 47632228--47632709 Score: 856
Period size: 48 Copynumber: 10.0 Consensus size: 48
47632218 CAAGATAAAT
47632228 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
47632276 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAAGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
47632324 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
47632372 ATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
47632420 ATATGTATATGTGGTAAAGCCGAATGGGTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
47632468 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
47632516 ATATGTATATGTGGTAAAGCCGAATGGATAATGTGAAATATGTATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
47632564 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
47632612 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
47632660 ATATGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
47632708 AT
1 AT
47632710 GTGTGTATAT
Statistics
Matches: 415, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 415 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:47632900 original size:37 final size:37
Alignment explanation
Indices: 47632850--47632957 Score: 153
Period size: 37 Copynumber: 2.9 Consensus size: 37
47632840 GGAAATATAT
*
47632850 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
47632887 TCCGGGTAAGACCCGATGACTACTTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
** * *
47632924 TCTAGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
47632958 TCATCTGAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:47636306 original size:42 final size:42
Alignment explanation
Indices: 47636202--47636315 Score: 111
Period size: 43 Copynumber: 2.7 Consensus size: 42
47636192 GGAATTAAGC
* * *
47636202 AATCCAAGCTCGTTGAGTGGTCCAAGTTCGTGATATGTATGA
1 AATCCGAGCTCGTTGAGTGGTCCAAGTTCGTGAGATATATGA
* ** * * * *
47636244 AATTCCGAACTTTTTGAGTGGTCTAAGTTTGTGAGATATGTGG
1 AA-TCCGAGCTCGTTGAGTGGTCCAAGTTCGTGAGATATATGA
* *
47636287 CATCCGAGCTCGTTGAGTGGTCCGAGTTC
1 AATCCGAGCTCGTTGAGTGGTCCAAGTTC
47636316 ATTATGAATA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
42 23 0.43
43 31 0.57
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (42 bp):
AATCCGAGCTCGTTGAGTGGTCCAAGTTCGTGAGATATATGA
Found at i:47640252 original size:40 final size:40
Alignment explanation
Indices: 47640193--47640334 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
47640183 AAATTGAATG
* * *
47640193 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
47640233 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
47640273 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
47640313 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
47640335 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:47640335 original size:40 final size:39
Alignment explanation
Indices: 47640232--47640360 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
47640222 TGCTGGAAAT
* * *
47640232 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
47640272 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
47640312 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
47640352 TATATCCGG
1 TATATCCGG
47640361 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:47646859 original size:40 final size:40
Alignment explanation
Indices: 47646800--47646941 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
47646790 AAATTGAATG
* * *
47646800 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
47646840 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
47646880 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
47646920 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
47646942 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:47646942 original size:40 final size:39
Alignment explanation
Indices: 47646839--47646967 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
47646829 TGCTGGAAAT
* * *
47646839 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
47646879 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
47646919 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
47646959 TATATCCGG
1 TATATCCGG
47646968 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:47652402 original size:12 final size:12
Alignment explanation
Indices: 47652385--47652409 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47652375 TTATTATGCA
47652385 AGTATTGTTATT
1 AGTATTGTTATT
47652397 AGTATTGTTATT
1 AGTATTGTTATT
47652409 A
1 A
47652410 TTAAGTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (12 bp):
AGTATTGTTATT
Found at i:47652549 original size:44 final size:44
Alignment explanation
Indices: 47652484--47652567 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
47652474 TTGATATCTC
* *
47652484 AAAGTCCATGGTTGTACCATGGCAA-TTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGG-AATTTAAGGAAGAATTGACGGA
*
47652528 AAAGTCCAT-GTTCATAACATGGAATTTAAGGAGGAATTGA
1 AAAGTCCATGGTT-ATAACATGGAATTTAAGGAAGAATTGA
47652568 TGGTTAAGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 5 0.14
44 30 0.86
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAATTTAAGGAAGAATTGACGGA
Found at i:47652623 original size:45 final size:45
Alignment explanation
Indices: 47652573--47652846 Score: 255
Period size: 45 Copynumber: 5.9 Consensus size: 45
47652563 ATTGATGGTT
47652573 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGC
* * * * * *
47652618 AAGGATCCCATGTAAGTCCATGTCAAGACATGGCATCGGCATTGATC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTA-AG-GC
** ** **
47652665 AAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGAT
1 AAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGGC
* *** *
47652713 AAGGATACCATGTAAGGCCATGTTTGGAACATGGCATTTGGT-AGGAT
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGG-C
* *
47652760 AAGGATATCATGTAAGACCATGTCAAGACATGGCACTGGTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGC
* * *
47652805 AAGGATCCCGTGTAAGACCATGTCAAGACATGGCATCGGTAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAA
47652847 TGATTAAGGA
Statistics
Matches: 181, Mismatches: 37, Indels: 22
0.75 0.15 0.09
Matches are distributed among these distances:
45 78 0.43
46 14 0.08
47 57 0.31
48 20 0.11
49 7 0.04
50 5 0.03
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (45 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGC
Found at i:47652691 original size:92 final size:90
Alignment explanation
Indices: 47652572--47652888 Score: 314
Period size: 92 Copynumber: 3.4 Consensus size: 90
47652562 AATTGATGGT
** *
47652572 TAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCATGTAAGTC
1 TAAGGACT-CCATGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCATGTAAGAC
*
47652636 CATGTCAAGACATGGCATCGGCATTGA
65 CATGTCAAGACATGGCATCGGTA-TGA
** ** *
47652663 TCAAGGACTCCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGATAAGGATACCATGTAA
1 T-AAGGACTCCATGTAAGACCACATCAAGACATGGCATTGG---TAAGGCAAGGATCCCATGTAA
* *** * *
47652728 GGCCATGTTTGGAACATGGCATTTGGTAGGA
62 GACCATGTCAAG-ACATGGCA-TCGGTATGA
* ** * *
47652759 TAAGGA-TATCATGTAAGACCATGTCAAGACATGGCACTGGTAAGGCAAGGATCCCGTGTAAGAC
1 TAAGGACT-CCATGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCATGTAAGAC
47652823 CATGTCAAGACATGGCATCGGTAATGA
65 CATGTCAAGACATGGCATCGGT-ATGA
* **
47652850 TTAAGGACTCCACGTAAGACCACATCAAGATGTGGCATT
1 -TAAGGACTCCATGTAAGACCACATCAAGACATGGCATT
47652889 AGCTGTAACA
Statistics
Matches: 178, Mismatches: 37, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
90 4 0.02
91 12 0.07
92 87 0.49
93 2 0.01
94 1 0.01
95 57 0.32
96 11 0.06
97 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (90 bp):
TAAGGACTCCATGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCATGTAAGACC
ATGTCAAGACATGGCATCGGTATGA
Found at i:47654025 original size:49 final size:49
Alignment explanation
Indices: 47653851--47654218 Score: 581
Period size: 49 Copynumber: 7.7 Consensus size: 49
47653841 CCCTTCGGGA
* * * * *
47653851 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47653898 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47653945 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47653992 CTTATCACATATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47654041 CTTATCAC--ATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47654088 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47654137 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47654186 CTTATCTCATATATATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
47654219 GCAAAAAATC
Statistics
Matches: 301, Mismatches: 14, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 137 0.46
49 163 0.54
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47654050 original size:96 final size:96
Alignment explanation
Indices: 47653851--47654218 Score: 596
Period size: 96 Copynumber: 3.8 Consensus size: 96
47653841 CCCTTCGGGA
* * * * * *
47653851 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
47653914 ACCTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
47653945 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
47654010 ACTTTCCCATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
47654041 CTTATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
47654106 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
47654137 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCTCATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
47654202 ACACATTCACATTCATC
64 ACACTTTCACATTCATC
47654219 GCAAAAAATC
Statistics
Matches: 256, Mismatches: 14, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
94 49 0.19
96 139 0.54
98 68 0.27
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47657002 original size:54 final size:55
Alignment explanation
Indices: 47656938--47657042 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 55
47656928 TTGGTAAGAT
* *
47656938 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACTATAAGGC
* * * *
47656992 AAGGAAATCATTTAAGACCATGTCAAGACATGTCATTGATGAGTTACTATA
1 AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACTATA
47657043 CGACAAAGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 39 0.89
55 5 0.11
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (55 bp):
AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACTATAAGGC
Found at i:47685465 original size:40 final size:40
Alignment explanation
Indices: 47685383--47685477 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
47685373 TATTCGAATG
* * *
47685383 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGACTAAGAT-CCGAAGGCATTTATGCGAGTGACT
* *
47685423 ATATTCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGACTAAGATCCGAAGGCATTTATGCGAG-TGACT
*
47685463 ATATCCGGGCTAAGA
1 ATATCCGGACTAAGA
47685478 CCCTGTAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 43 0.93
41 3 0.07
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTATGCGAGTGACT
Found at i:47686396 original size:27 final size:27
Alignment explanation
Indices: 47686380--47686630 Score: 312
Period size: 27 Copynumber: 9.3 Consensus size: 27
47686370 CGACTTGTAA
47686380 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
47686407 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
**
47686434 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
47686461 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
47686488 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
** *
47686515 AATTACTGTTTTCCCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
47686542 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
47686569 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * *
47686596 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
47686623 AATTACCA
1 AATTACCA
47686631 AAATACCCTT
Statistics
Matches: 199, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.02
27 191 0.96
28 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:47686646 original size:27 final size:27
Alignment explanation
Indices: 47686623--47686775 Score: 209
Period size: 27 Copynumber: 5.7 Consensus size: 27
47686613 CAATTTACAG
47686623 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * * * *
47686650 AATCACCAAAAGACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
47686677 AATTACTAAAATACCCTTGGTTTA-AA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
47686703 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
47686730 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
47686757 AATTACCAAAATACCCTTG
1 AATTACCAAAATACCCTTG
47686776 TAGGGTAGAA
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
26 23 0.22
27 82 0.78
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:47686646 original size:54 final size:54
Alignment explanation
Indices: 47686380--47686629 Score: 401
Period size: 54 Copynumber: 4.6 Consensus size: 54
47686370 CGACTTGTAA
* *
47686380 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
47686434 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* * *
47686488 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
47686542 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** * *
47686596 AATTACCGTTTTACCTTCAATTTACAGAATTACC
1 AATTACTATTTTACCCTCGATTTACAGAATTACC
47686630 AAAATACCCT
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 180 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:47686648 original size:81 final size:81
Alignment explanation
Indices: 47686380--47686630 Score: 371
Period size: 81 Copynumber: 3.1 Consensus size: 81
47686370 CGACTTGTAA
47686380 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
47686445 TACCCTCGATTTACAG
66 TACCCTCAATTTACAG
* * *
47686461 AATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTATCCTC-GATTTACAGAATTACTGT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTACCATTTTACCCTCAG-TTTACAGAATTACTGT
* *
47686524 TTTCCCCTCAGTTTACAG
64 TTTACCCTCAATTTACAG
* * * *
47686542 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
47686607 TACCTTCAATTTACAG
66 TACCCTCAATTTACAG
47686623 AATTACCA
1 AATTACCA
47686631 AAATACCCTT
Statistics
Matches: 149, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 145 0.97
82 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
TACCCTCAATTTACAG
Found at i:47686724 original size:80 final size:80
Alignment explanation
Indices: 47686623--47686775 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 80
47686613 CAATTTACAG
* * *
47686623 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAAGACCCCTAGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCCTGGTTTATAAAATCACCAAAAGACCCCTAGTTTATAAAATTACCAAAA
47686688 TACCCTTGGTTTAAA
66 TACCCTTGGTTTAAA
* * * * * *
47686703 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 AATTACCAAAATACCCCTGGTTTATAAAATCACCAAAAGACCCCTAGTTTATAAAATTACCAAAA
47686768 TACCCTTG
66 TACCCTTG
47686776 TAGGGTAGAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (80 bp):
AATTACCAAAATACCCCTGGTTTATAAAATCACCAAAAGACCCCTAGTTTATAAAATTACCAAAA
TACCCTTGGTTTAAA
Found at i:47686789 original size:54 final size:54
Alignment explanation
Indices: 47686623--47686772 Score: 248
Period size: 53 Copynumber: 2.8 Consensus size: 54
47686613 CAATTTACAG
* * *
47686623 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAAGACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
*
47686677 AATTACTAAAATACCCTTGGTTTA-AAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
*
47686730 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
47686773 TTGTAGGGTA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 49 0.54
54 41 0.46
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
Found at i:47688486 original size:40 final size:40
Alignment explanation
Indices: 47688425--47688516 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
47688415 GGGGTGTTAC
* *
47688425 AGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTA
1 AGACCCGAAGGCATTTATGCTAGCGACCATATCCGGGCTA
* *
47688465 AGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGGCTA
1 AGACCCGAAGGCATTTATGCTAGCGACCATATCCGGGCTA
47688505 AGACCCGAAGGC
1 AGACCCGAAGGC
47688517 CTTGTGCGAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.21
Consensus pattern (40 bp):
AGACCCGAAGGCATTTATGCTAGCGACCATATCCGGGCTA
Found at i:47688821 original size:22 final size:22
Alignment explanation
Indices: 47688779--47688822 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
47688769 AAAATGTGCA
* *
47688779 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
47688801 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
47688823 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:47692038 original size:38 final size:38
Alignment explanation
Indices: 47691995--47692288 Score: 201
Period size: 38 Copynumber: 7.0 Consensus size: 38
47691985 TGTCAAATTA
* *
47691995 ACATGTATAACCCTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
47692033 ACATGTTTAACCGTGGTATATTCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* * *
47692074 GAATCAATTTATGTAACCGTCGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
47692118 ACATGTTTAACCGTGGTATATCCACTTAGTACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* * *
47692159 GAATCAATATATGTAACCGTGGCATATCCAGTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
*
47692203 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
* *
47692251 ACACGTATAACCGTGGTATATCTACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
47692289 TTTTTTATTC
Statistics
Matches: 204, Mismatches: 26, Indels: 52
0.72 0.09 0.18
Matches are distributed among these distances:
38 87 0.43
39 2 0.01
40 5 0.02
41 4 0.02
42 4 0.02
43 2 0.01
44 4 0.02
45 6 0.03
46 4 0.02
47 52 0.25
48 34 0.17
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:47692102 original size:85 final size:85
Alignment explanation
Indices: 47692010--47692208 Score: 353
Period size: 85 Copynumber: 2.3 Consensus size: 85
47692000 TATAACCCTG
*
47692010 GCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATTCACTTAGCACCACGTTAATG
1 GCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATG
*
47692075 AATCAATTTATGTAACCGTC
66 AATCAATATATGTAACCGTC
*
47692095 GCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGTACCACGTTAATG
1 GCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATG
*
47692160 AATCAATATATGTAACCGTG
66 AATCAATATATGTAACCGTC
*
47692180 GCATATCCAGTTAGCACCACGTTACATGT
1 GCATATCCACTTAGCACCACGTTACATGT
47692209 ATCAATATGT
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 109 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (85 bp):
GCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATG
AATCAATATATGTAACCGTC
Found at i:47692109 original size:47 final size:47
Alignment explanation
Indices: 47692040--47692251 Score: 253
Period size: 47 Copynumber: 4.7 Consensus size: 47
47692030 GTTACATGTT
* *
47692040 TAACCGTGGTATATTCACTTAGCACCACGTTAATGAATCAATTTATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
47692087 TAACCGTCGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
47692125 TAACCGTGGTATATCCACTTAGTACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
47692172 TAACCGTGGCATATCCAGTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
*
47692220 TAATCGTGGTATATCCACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
47692252 CACGTATAAC
Statistics
Matches: 139, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
38 26 0.19
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 55 0.40
48 42 0.30
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:47692228 original size:48 final size:48
Alignment explanation
Indices: 47692120--47692258 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
47692110 ACCACGTTAC
* * *
47692120 ATGTTTAACCGTGGTATATCCACTTAGTACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
47692167 ATATGTAACCGTGGCATATCCAGTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
47692215 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
47692259 AACCGTGGTA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 32 0.40
48 48 0.60
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:47692246 original size:133 final size:132
Alignment explanation
Indices: 47692040--47692288 Score: 372
Period size: 133 Copynumber: 1.9 Consensus size: 132
47692030 GTTACATGTT
* * *
47692040 TAACCGTGGTATATTCACTTAGCACCACGTTAATGAATCAATTTATGTAACCGTCGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTCGCATATCCAC
* * *
47692105 TTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGTACCACGTTAATGAATCAATATA
66 TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATA
47692170 TG
131 TG
* * * * * *
47692172 TAACCGTGGCATATCCAGTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGTCGCATATCCA
*
47692237 CTTAGCACCACGTTACACGTATAACCGTGGTATATCTACTTAGCACCACGTT
65 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
47692289 TTTTTTATTC
Statistics
Matches: 103, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
132 29 0.28
133 74 0.72
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTCGCATATCCAC
TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATA
TG
Found at i:47693892 original size:38 final size:38
Alignment explanation
Indices: 47693841--47693916 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
47693831 TGTAATTTAT
47693841 CTTAGATCAGCTCATCATCCAACATTTTTATTTTTCTA
1 CTTAGATCAGCTCATCATCCAACATTTTTATTTTTCTA
*
47693879 CTTAGATCAGCTCATCATCCCACATTTTTATTTTTCTA
1 CTTAGATCAGCTCATCATCCAACATTTTTATTTTTCTA
47693917 TCTCATGTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.45
Consensus pattern (38 bp):
CTTAGATCAGCTCATCATCCAACATTTTTATTTTTCTA
Found at i:47701859 original size:20 final size:20
Alignment explanation
Indices: 47701834--47701874 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
47701824 ACTGTTTCTT
47701834 TTAAATATAGTCTAAGTTCA
1 TTAAATATAGTCTAAGTTCA
47701854 TTAAATATAGTCTAAGTTCA
1 TTAAATATAGTCTAAGTTCA
47701874 T
1 T
47701875 ACATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TTAAATATAGTCTAAGTTCA
Found at i:47709455 original size:39 final size:40
Alignment explanation
Indices: 47709412--47709654 Score: 352
Period size: 40 Copynumber: 6.1 Consensus size: 40
47709402 CGGGCTTTAA
* *
47709412 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTA-C
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
47709451 CCGGATATAGT-AGTTCGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAGTCA-CTCGCACAAATGCCTTCGGGACTTAGC
*
47709491 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
47709530 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
47709570 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
47709610 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
47709650 CCGGA
1 CCGGA
47709655 ATTATCATCC
Statistics
Matches: 191, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 71 0.37
40 118 0.62
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47709536 original size:79 final size:79
Alignment explanation
Indices: 47709412--47709654 Score: 350
Period size: 79 Copynumber: 3.1 Consensus size: 79
47709402 CGGGCTTTAA
* * *
47709412 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTA-CCCGGATATAGTAGTTCGCACAAATG
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATG
*
47709476 TCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
*
47709491 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
47709555 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
* *
47709570 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAA
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAA
47709633 TGCCTTCGGGACTTAGC
63 TGCCTTCGGGACTTAGC
47709650 CCGGA
1 CCGGA
47709655 ATTATCATCC
Statistics
Matches: 150, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
78 18 0.12
79 71 0.47
80 61 0.41
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGC
CTTCGGGACTTAGC
Found at i:47714385 original size:16 final size:16
Alignment explanation
Indices: 47714360--47714397 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
47714350 CAACTCGGAT
*
47714360 CACCTCGTTATTTACA
1 CACCTTGTTATTTACA
47714376 CACCTTGTTATTTACA
1 CACCTTGTTATTTACA
47714392 CACCTT
1 CACCTT
47714398 AAATCGATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.39
Consensus pattern (16 bp):
CACCTTGTTATTTACA
Found at i:47715845 original size:40 final size:40
Alignment explanation
Indices: 47715791--47715984 Score: 336
Period size: 40 Copynumber: 4.9 Consensus size: 40
47715781 GATATAGCTT
*
47715791 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
47715831 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
47715871 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
47715911 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
47715951 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
47715985 CAATCCGAAT
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 13 0.09
40 134 0.91
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:47715900 original size:80 final size:80
Alignment explanation
Indices: 47715764--47715984 Score: 340
Period size: 80 Copynumber: 2.8 Consensus size: 80
47715754 AAACCAAGTA
** * *
47715764 CCTTCGGGGTTTAG-CCGGATATAGCT-TCTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
47715827 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * *
47715843 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
47715908 TAACTCGCACAAATG
66 TAACTCGCACAAATG
47715923 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
47715985 CAATCCGAAT
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
79 26 0.20
80 103 0.80
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:47725001 original size:28 final size:27
Alignment explanation
Indices: 47724938--47725007 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
47724928 ATAGTGAGTC
*
47724938 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
47724965 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47724993 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47725008 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47726948 original size:40 final size:40
Alignment explanation
Indices: 47726904--47727097 Score: 327
Period size: 40 Copynumber: 4.9 Consensus size: 40
47726894 GATATAGCTT
*
47726904 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
47726944 CTCGCACAATTGCCTTCGGGACTTAGCCCGATTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
47726984 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
47727024 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
47727064 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
47727098 CAATCCGAAT
Statistics
Matches: 145, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 13 0.09
40 132 0.91
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:47731906 original size:40 final size:40
Alignment explanation
Indices: 47731859--47732081 Score: 306
Period size: 40 Copynumber: 5.6 Consensus size: 40
47731849 CGGGCTTTAA
** *
47731859 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
47731899 CCGGATATAGTAGTTCGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
47731939 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
47731979 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
47732019 CC-GAAATTAGTCACTAGCACAAATGCCTTCGGCACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47732059 CCGGA-ATTAGTCACTAGCACAAA
1 CCGGATA-TAGTAACTCGCACAAA
47732082 AACATACCTC
Statistics
Matches: 168, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 3 0.02
40 163 0.97
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47732222 original size:40 final size:40
Alignment explanation
Indices: 47732175--47732469 Score: 353
Period size: 40 Copynumber: 7.1 Consensus size: 40
47732165 CGGGCTTTAA
* *
47732175 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
47732215 CCGGATATAGT-AGTTCGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAGTCA-CTCGCACAAATGCCTTCGGGACTTAGC
*
47732255 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
47732295 CCGGATATAGTAACTCGCACAAATTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAG----T--CAC----TCGCACAAATGCCTTCGGGACTTAGC
*
47732345 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
47732385 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGCACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* * *
47732425 CC-GAAATTAGTCACTAGCACAAATGCCTTCCGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
47732465 CCGGA
1 CCGGA
47732470 ATTATCATCC
Statistics
Matches: 227, Mismatches: 13, Indels: 29
0.84 0.05 0.11
Matches are distributed among these distances:
39 4 0.02
40 178 0.78
41 3 0.01
44 3 0.01
46 3 0.01
50 36 0.16
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47732344 original size:50 final size:50
Alignment explanation
Indices: 47732269--47732368 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
47732259 ATATAGTAAC
47732269 TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
47732319 TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
47732369 GCCTTCGGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (50 bp):
TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
Found at i:47732381 original size:90 final size:90
Alignment explanation
Indices: 47732228--47732408 Score: 319
Period size: 90 Copynumber: 2.0 Consensus size: 90
47732218 GATATAGTAG
*
47732228 TTCGCACAAATGTCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
*
47732293 GCCCGG-ATATAGTAACTCGCACAAA
66 GCCCGGAAT-TAGTAACTAGCACAAA
47732318 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
*
47732383 GCCCGGAATTAGTCACTAGCACAAA
66 GCCCGGAATTAGTAACTAGCACAAA
47732408 T
1 T
47732409 GCCTTCGGCA
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
90 85 0.98
91 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (90 bp):
TTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
GCCCGGAATTAGTAACTAGCACAAA
Found at i:47732427 original size:130 final size:130
Alignment explanation
Indices: 47732189--47732427 Score: 399
Period size: 130 Copynumber: 1.8 Consensus size: 130
47732179 ATATAGCCAC
* ** *
47732189 TCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATGTCTTCGGGACTTAG
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG
* *
47732254 CCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
66 CCCGGATATAGTAACTAGCACAAATGCCTTCGGCACTTAGCCCGGATATAGTAACTCGCACAAAT
47732319 TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG
*
47732384 CCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGCACTTAGCCCG
66 CCCGGATA-TAGTAACTAGCACAAATGCCTTCGGCACTTAGCCCG
47732428 AAATTAGTCA
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
129 1 0.01
130 100 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (130 bp):
TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG
CCCGGATATAGTAACTAGCACAAATGCCTTCGGCACTTAGCCCGGATATAGTAACTCGCACAAAT
Found at i:47739431 original size:24 final size:24
Alignment explanation
Indices: 47739399--47739461 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
47739389 AATCTCAAAT
47739399 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
47739423 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
47739447 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
47739462 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:47741188 original size:50 final size:49
Alignment explanation
Indices: 47741032--47741210 Score: 243
Period size: 49 Copynumber: 3.6 Consensus size: 49
47741022 CTGGTACGCA
*
47741032 TAGTAGCCTGCACTTAGTACTACTA-ACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTAC-ACACGTGACCAATTATCCGGTACACG
* * **
47741081 TAGTAGCCTACACTTACTACTACACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
47741130 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
47741180 TAGTAGCCTACACTTAGTACTACACACGTGA
1 TAGTAGCCTACACTTAGTACTACACACGTGA
47741211 TCGAAGTTAT
Statistics
Matches: 113, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
48 1 0.01
49 70 0.62
50 42 0.37
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:47746041 original size:46 final size:46
Alignment explanation
Indices: 47745978--47746290 Score: 430
Period size: 46 Copynumber: 6.8 Consensus size: 46
47745968 CTCGACATGA
* * * * * *
47745978 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** *** *
47746024 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATATCAGGT
* * *
47746071 TGCCATGGTATCTTTCAACCATGGTCTTAAACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
47746117 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
47746163 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
47746209 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
47746255 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
47746291 TCTATTAGAG
Statistics
Matches: 244, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 3 0.01
46 202 0.83
47 39 0.16
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:47760803 original size:42 final size:42
Alignment explanation
Indices: 47760703--47760840 Score: 127
Period size: 43 Copynumber: 3.2 Consensus size: 42
47760693 AGCTACTAAA
* * *
47760703 GTCCTAGACGTGGTCTTGCATGTAATCA-AATATCGATGCCACT
1 GTCCTAGAC-TGGTCTTACATGAAATCATAA-ATCGATGCCAAT
* * * *
47760746 ATCCCAGGCTGGGTCTTACATGAAATCATAGA-CGATGCCAAT
1 GTCCTAGACT-GGTCTTACATGAAATCATAAATCGATGCCAAT
* *
47760788 GTCCTAGACATGGTCTTACACGTAAATCATAAATCGATGCCAAC
1 GTCCTAGAC-TGGTCTTACATG-AAATCATAAATCGATGCCAAT
*
47760832 GTCCAAGAC
1 GTCCTAGAC
47760841 GTGGGTTAGA
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
42 26 0.34
43 32 0.42
44 18 0.24
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (42 bp):
GTCCTAGACTGGTCTTACATGAAATCATAAATCGATGCCAAT
Found at i:47779839 original size:43 final size:41
Alignment explanation
Indices: 47779792--47779924 Score: 99
Period size: 43 Copynumber: 3.1 Consensus size: 41
47779782 CATTGTATTG
47779792 TGATTTTGTATAAGGCCATGTCTGGGACATTTGCATCATTATA
1 TGATTTTGTATAA-GCCATGTCTGGGACA-TTGCATCATTATA
* * *
47779835 TGATTACGTGTATAA-CCATGTCTAGGACATTGCCATCGTT-TA
1 TGATT--TTGTATAAGCCATGTCTGGGACATTG-CATCATTATA
* * * * * *
47779877 TCGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATG
1 T-GATTTTGTATAAG-CCATGTCTGGGACA-TTGCATCATTATA
47779921 TGAT
1 TGAT
47779925 AACGTGTAAG
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
41 5 0.07
42 6 0.09
43 48 0.69
44 4 0.06
45 7 0.10
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (41 bp):
TGATTTTGTATAAGCCATGTCTGGGACATTGCATCATTATA
Found at i:47779900 original size:86 final size:86
Alignment explanation
Indices: 47779750--47779945 Score: 218
Period size: 86 Copynumber: 2.3 Consensus size: 86
47779740 ACCGAGATGA
* * * * * *
47779750 GATTACATGTAAGACCATGTCTGGAATATTGCCATTGTATTGTGATTTTGTATAAGGCCATGTCT
1 GATTACGTGTAAGACCATGTCTGGAACATTGCCATCGTATTATGATTTCGTATAAGACCATGTCT
* * *
47779815 GGGACATTTGCATCATTATAT
66 GGGACAGTGGCATCAATATAT
* *
47779836 GATTACGTGTATA-ACCATGTCTAGG-ACATTGCCATCGT-TTATCGATTTCGTGTAAGACCCTG
1 GATTACGTGTA-AGACCATGTCT-GGAACATTGCCATCGTATTAT-GATTTCGTATAAGACCATG
*
47779898 TCTGGGACAGTGGCATCAATATGT
63 TCTGGGACAGTGGCATCAATATAT
* *
47779922 GATAACGTGTAAGACCATATCTGG
1 GATTACGTGTAAGACCATGTCTGG
47779946 GATATGGCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
85 6 0.07
86 83 0.90
87 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (86 bp):
GATTACGTGTAAGACCATGTCTGGAACATTGCCATCGTATTATGATTTCGTATAAGACCATGTCT
GGGACAGTGGCATCAATATAT
Found at i:47782634 original size:21 final size:21
Alignment explanation
Indices: 47782610--47782649 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47782600 GGACATGTCT
*
47782610 CTCAGCTACACGGTCGTGTGC
1 CTCAGCTACACAGTCGTGTGC
*
47782631 CTCAGTTACACAGTCGTGT
1 CTCAGCTACACAGTCGTGT
47782650 CTTTCAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (21 bp):
CTCAGCTACACAGTCGTGTGC
Found at i:47782757 original size:21 final size:21
Alignment explanation
Indices: 47782731--47782770 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47782721 ATGGTCTGCC
47782731 CACAC-AGCTATGTATCTCAAT
1 CACACAAGC-ATGTATCTCAAT
*
47782752 CACACAAGCATGTTTCTCA
1 CACACAAGCATGTATCTCA
47782771 GCCACACGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.28
Consensus pattern (21 bp):
CACACAAGCATGTATCTCAAT
Found at i:47782776 original size:21 final size:21
Alignment explanation
Indices: 47782730--47782777 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
47782720 CATGGTCTGC
47782730 CCACACAGCTATGTATCTCAA
1 CCACACAGCTATGTATCTCAA
* * *
47782751 TCACACAAGC-ATGTTTCTCAG
1 CCACAC-AGCTATGTATCTCAA
47782772 CCACAC
1 CCACAC
47782778 GATCATGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.31, C:0.35, G:0.10, T:0.23
Consensus pattern (21 bp):
CCACACAGCTATGTATCTCAA
Found at i:47789009 original size:50 final size:50
Alignment explanation
Indices: 47788906--47789296 Score: 320
Period size: 50 Copynumber: 7.7 Consensus size: 50
47788896 ACAGAAGCTC
** * * ** *
47788906 TCTGGTATGCATAGTAGCCTGCACTTGGTACTACACATGCAACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * * * * *
47788956 TCTGGTACACGTAGTAGTCGGCACTTAGTACTACACACTTGACTTATCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * * * *
47789006 TCTGATACACATGGTATCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA--CAA
* * * *
47789058 T-GGGTACGCATAGTAGCCTGCACTTAGTACCACACACGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* ** * * ** *
47789107 TCTGATACATGTAGTAGCCTGCATTTAGTACAACACACGTGATCGAAACTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAA
* * ***
47789158 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* *
47789208 TCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA-AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * *
47789257 -CTGTCTTAAACACATAGTAGCCTACACATAGTACTACACA
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACA
47789297 TGTGTTCTCA
Statistics
Matches: 263, Mismatches: 70, Indels: 14
0.76 0.20 0.04
Matches are distributed among these distances:
48 3 0.01
49 4 0.02
50 153 0.58
51 74 0.28
52 29 0.11
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
Found at i:47789108 original size:101 final size:101
Alignment explanation
Indices: 47788967--47789249 Score: 370
Period size: 101 Copynumber: 2.8 Consensus size: 101
47788957 CTGGTACACG
* * * * * * * *
47788967 TAGTAGTCGGCACTTAGTACTACACACTTGACTTATCCATCTGATACACATGGTATCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
**
47789032 AGTACTACACACGTGATCGAAGTTAAT-GGGTACGCA
66 AGTACTACACACGTGATCGAAACT-ATCGGGTACGCA
* * * *
47789068 TAGTAGCCTGCACTTAGTACCACACACGTGACCTAACCATCTGATACATGTAGTAGCCTGCATTT
1 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
*
47789133 AGTACAACACACGTGATCGAAACTATCGGGTACGCA
66 AGTACTACACACGTGATCGAAACTATCGGGTACGCA
* * * * *
47789169 TAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTACACGTAGTAGCTTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
47789234 AGTACTACACACGTGA
66 AGTACTACACACGTGA
47789250 CCTAAAACTG
Statistics
Matches: 157, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
100 2 0.01
101 155 0.99
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAACTATCGGGTACGCA
Found at i:47800650 original size:16 final size:16
Alignment explanation
Indices: 47800627--47800664 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
47800617 TCGGCAAATC
47800627 CCGAAATGCCGAAAAG
1 CCGAAATGCCGAAAAG
* *
47800643 CTGAAATGTCGAAAAG
1 CCGAAATGCCGAAAAG
47800659 CCGAAA
1 CCGAAA
47800665 GTTTGGCTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.11
Consensus pattern (16 bp):
CCGAAATGCCGAAAAG
Found at i:47800931 original size:28 final size:29
Alignment explanation
Indices: 47800873--47800934 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
47800863 GAAAGCATGA
* *
47800873 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGACC
*
47800902 ATATGAATGAGA-TTGGGCCTAGTGGACC
1 ATATGAATGAGATTTGGGCCTAATGGACC
47800930 ATATG
1 ATATG
47800935 CATGTATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGACC
Found at i:47802632 original size:43 final size:43
Alignment explanation
Indices: 47802585--47802671 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
47802575 TTCGATAATT
47802585 TTCCTTTAGTACGGGTTTTTACTTACCTTGGCCCGTTAGAAAA
1 TTCCTTTAGTACGGGTTTTTACTTACCTTGGCCCGTTAGAAAA
* * * *
47802628 TTCCTTTATTATGGGTTTTTACTTACCTTTGCCCGTTAGCAAA
1 TTCCTTTAGTACGGGTTTTTACTTACCTTGGCCCGTTAGAAAA
47802671 T
1 T
47802672 CCCCGTTAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.44
Consensus pattern (43 bp):
TTCCTTTAGTACGGGTTTTTACTTACCTTGGCCCGTTAGAAAA
Found at i:47802948 original size:28 final size:28
Alignment explanation
Indices: 47802916--47802995 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
47802906 CATATATGCT
47802916 TATGGCCCACTAGGCCCAATCTA-AT-TCA
1 TATGGCCCACTAGGCCCAATC-ACATCT-A
*
47802944 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATCTA
**
47802973 TAAAGCCCACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
47802996 TTTTACAGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 23 0.51
29 21 0.47
30 1 0.02
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.21
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Done.