Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 108 of 211
Found at i:30070933 original size:17 final size:17
Alignment explanation
Indices: 30070895--30070955 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
30070885 TTATATTGAA
30070895 CGAACTGTTATATTGTAT-
1 CGAACTGTTAT-TT-TATG
30070913 -GAACTGTTATTTTATG
1 CGAACTGTTATTTTATG
* *
30070929 CGAACTGCCTATTCTATG
1 CGAACTG-TTATTTTATG
*
30070947 TGAACTGTT
1 CGAACTGTT
30070956 TAATTTGAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
15 3 0.08
16 2 0.06
17 17 0.47
18 14 0.39
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (17 bp):
CGAACTGTTATTTTATG
Found at i:30087129 original size:50 final size:50
Alignment explanation
Indices: 30087018--30087314 Score: 213
Period size: 50 Copynumber: 5.8 Consensus size: 50
30087008 ATTTGGATAA
* *
30087018 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAAGTTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C---CAAG--ATG
* * *
30087074 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCAAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* ** * * * * *
30087124 AGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGTACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * * * *
30087174 AGA-ACTCCCATGTAAGACCGTATCTGGGATATGGCATGGGCACCGATATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * * * * ** *
30087224 AGA-ACACCCATGTAAGACCATATCTGAGATATTGCTTTGGCA-GTACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * *
30087273 AAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30087315 TGTTATTATC
Statistics
Matches: 201, Mismatches: 38, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
49 37 0.18
50 122 0.61
52 3 0.01
55 1 0.00
56 38 0.19
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:30102926 original size:50 final size:50
Alignment explanation
Indices: 30102828--30102933 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
30102818 TATTAAGGTT
* * *
30102828 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCGGTGGTACCGAG
1 ATGAGAGGTCCCACATAAAACCATGTCTGGGACATAGCGGTGGCACCGAG
* * * * *
30102878 ATGAGAGGTCCCTCGTAAAACCGTGTCTGGGACATAGC-ATGGGCACCGAT
1 ATGAGAGGTCCCACATAAAACCATGTCTGGGACATAGCGGT-GGCACCGAG
30102928 ATGAGA
1 ATGAGA
30102934 ACTCTCATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.02
50 46 0.98
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAAACCATGTCTGGGACATAGCGGTGGCACCGAG
Found at i:30110648 original size:21 final size:21
Alignment explanation
Indices: 30110630--30110680 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
30110620 TACTAATATT
*
30110630 AACACTAATAATGATAATAAA
1 AACAATAATAATGATAATAAA
30110651 AACAATAATAAT-ATGAATAATA
1 AACAATAATAATGAT-AATAA-A
*
30110673 ACCAATAA
1 AACAATAA
30110681 ACAAAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.62
22 8 0.31
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.24
Consensus pattern (21 bp):
AACAATAATAATGATAATAAA
Found at i:30110986 original size:12 final size:12
Alignment explanation
Indices: 30110969--30110998 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30110959 GACTCATGGA
30110969 GAAAGGAGATGT
1 GAAAGGAGATGT
*
30110981 GAAAGGTGATGT
1 GAAAGGAGATGT
30110993 GAAAGG
1 GAAAGG
30110999 GAGACAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (12 bp):
GAAAGGAGATGT
Found at i:30121631 original size:61 final size:61
Alignment explanation
Indices: 30121556--30121676 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
30121546 TCTTAATCTT
*
30121556 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAGAATTTGATGTGATAA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATAA
30121617 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATA
30121677 TCTCACATTA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (61 bp):
CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATAA
Found at i:30121643 original size:30 final size:29
Alignment explanation
Indices: 30121556--30121645 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 29
30121546 TCTTAATCTT
30121556 CAAGCCTCCATGGTTGGTTTCATGTGAAA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAA
* ** * * * *
30121585 GAATACT-CTTGAATTAGAATTTGATGTGATAA
1 CAAGCCTCCATG-GTT-G-GTTTCATGTGA-AA
30121617 CAAGCCTCCATGGTTGGTTTCATGTGAAA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAA
30121646 GAATACTCTT
Statistics
Matches: 42, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
28 3 0.07
29 8 0.19
30 10 0.24
31 10 0.24
32 8 0.19
33 3 0.07
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (29 bp):
CAAGCCTCCATGGTTGGTTTCATGTGAAA
Found at i:30123984 original size:24 final size:24
Alignment explanation
Indices: 30123939--30123986 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30123929 TTTTATTTAT
**
30123939 ATAAAACTATAATTTGGACTAATA
1 ATAAAACTATAATTTACACTAATA
* *
30123963 ATAAAGCTATAATTTACTCTAATA
1 ATAAAACTATAATTTACACTAATA
30123987 TGATCTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (24 bp):
ATAAAACTATAATTTACACTAATA
Found at i:30142024 original size:37 final size:37
Alignment explanation
Indices: 30141974--30142052 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
30141964 TTATTACGAA
* *
30141974 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
30142011 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
30142048 GTCTT
1 GTCTT
30142053 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:30142249 original size:47 final size:47
Alignment explanation
Indices: 30142171--30142382 Score: 316
Period size: 47 Copynumber: 4.5 Consensus size: 47
30142161 CCCTTCGGGA
* * * * * *
30142171 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
* * * *
30142218 CCTGTCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
30142265 CTTATCACATATATACACTTTCACATCCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
30142312 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
30142359 CTTATCACATATATACACTTTCAC
1 CTTATCACATATATACACTTTCAC
30142383 GTTACCAACC
Statistics
Matches: 148, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 148 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
Found at i:30142727 original size:39 final size:40
Alignment explanation
Indices: 30142610--30142791 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
30142600 GCTACTCGTT
*
30142610 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
30142650 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
30142690 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
30142729 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
30142770 GAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
30142792 AGACATCATT
Statistics
Matches: 123, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 76 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30142754 original size:79 final size:81
Alignment explanation
Indices: 30142610--30142791 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
30142600 GCTACTCGTT
* *
30142610 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
30142675 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* **
30142690 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
30142752 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
*
30142770 GAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
30142792 AGACATCATT
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 55 0.62
80 29 0.33
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:30146581 original size:40 final size:40
Alignment explanation
Indices: 30146485--30146742 Score: 430
Period size: 40 Copynumber: 6.5 Consensus size: 40
30146475 CTCTTCGAGG
* * * *
30146485 TTAGCACGGATATATTACTAGCACGAATGCT-CTTGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
30146524 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
30146564 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
30146604 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
30146644 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
30146684 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCAGGG-C
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTC-GGGAC
30146724 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
30146743 CTCAATTCTC
Statistics
Matches: 209, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 28 0.13
40 178 0.85
41 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:30148608 original size:37 final size:37
Alignment explanation
Indices: 30148558--30148636 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
30148548 TTATTACGAA
* *
30148558 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
30148595 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
30148632 GTCTT
1 GTCTT
30148637 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:30148833 original size:47 final size:47
Alignment explanation
Indices: 30148755--30148969 Score: 340
Period size: 47 Copynumber: 4.6 Consensus size: 47
30148745 CCCTTCGGGA
* * * * * * *
30148755 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30148802 CCTGTCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30148849 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30148896 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30148943 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
30148970 ACCAACCCTT
Statistics
Matches: 155, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 155 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30149314 original size:39 final size:40
Alignment explanation
Indices: 30149193--30149374 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
30149183 GCTACTCGTT
*
30149193 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
30149233 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
30149273 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
30149312 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30149353 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
30149375 AGACATCATT
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.61
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30149361 original size:79 final size:80
Alignment explanation
Indices: 30149193--30149374 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 80
30149183 GCTACTCGTT
* *
30149193 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
* *
30149258 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
* **
30149273 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
30149335 GGATATGGTCACTTAGCA
64 AGATATAGTAAC-TAGCA
30149353 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
30149375 AGACATCATT
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 54 0.61
80 30 0.34
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCA
Found at i:30159946 original size:20 final size:21
Alignment explanation
Indices: 30159918--30159956 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
30159908 AAGTATTTTT
30159918 ATTATTTTTTAATATTTTACA
1 ATTATTTTTTAATATTTTACA
30159939 ATTA-TTTTTAATATTTTA
1 ATTATTTTTTAATATTTTA
30159957 TAAATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTATTTTTTAATATTTTACA
Found at i:30159962 original size:21 final size:21
Alignment explanation
Indices: 30159918--30159962 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
30159908 AAGTATTTTT
*
30159918 ATTATTTTTTAATATTTTACA
1 ATTATTTTTTAATATTTTAAA
30159939 ATTA-TTTTTAATATTTTATAA
1 ATTATTTTTTAATATTTTA-AA
30159960 ATT
1 ATT
30159963 TTATAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATTTTTTAATATTTTAAA
Found at i:30160190 original size:21 final size:22
Alignment explanation
Indices: 30160166--30160208 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30160156 ACATTTCGTT
30160166 TAGTGAA-TAAATAAAATTTAA
1 TAGTGAAGTAAATAAAATTTAA
* *
30160187 TAGTGAAGTAATTAGAATTTAA
1 TAGTGAAGTAAATAAAATTTAA
30160209 AATTCACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (22 bp):
TAGTGAAGTAAATAAAATTTAA
Found at i:30167027 original size:27 final size:27
Alignment explanation
Indices: 30166988--30167532 Score: 460
Period size: 27 Copynumber: 20.2 Consensus size: 27
30166978 GTAATGGGAC
*
30166988 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
*
30167015 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* *
30167042 TAAAATGATTGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * * **
30167069 TAAAATG-GCTGAAATATCGCTAAAGGG
1 TAAAATGATC-GAAATACCCCCGAAGGG
30167096 TAAAATGATCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* *
30167123 TAAAATGACCAAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * * ** *
30167150 TATAATTATCGAAATGCCCTTGAAGGA
1 TAAAATGATCGAAATACCCCCGAAGGG
* * ***
30167177 TAAAATGACCGAAATATCCTTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
** *
30167204 TAAAATGATCGAAATACCCTTGAATGG
1 TAAAATGATCGAAATACCCCCGAAGGG
*
30167231 TAAAATGATCGAAATA-CCCTGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * *
30167257 TAAATTGACCGAAAGACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * **
30167284 TAAAACT-ATCAAAATAACCCTAAAGGG
1 TAAAA-TGATCGAAATACCCCCGAAGGG
* * *
30167311 TAAAATGA-CTAAAATACCCTCAAAGGG
1 TAAAATGATC-GAAATACCCCCGAAGGG
**
30167338 TAAAATGATCGAAATACCCTTGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
*
30167365 TAAAATGA-CTAAAATA-CCCCGAAGGG
1 TAAAATGATC-GAAATACCCCCGAAGGG
* * *
30167391 TAAAATGATCGAAATACCCCCAAAAGA
1 TAAAATGATCGAAATACCCCCGAAGGG
* ** *
30167418 TAAAATTA-CTGAAATACCCCTAAAGGA
1 TAAAATGATC-GAAATACCCCCGAAGGG
* **
30167445 TAAAATTATCGAAATACCCCTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* ***
30167472 TAAAATTATCGAAAT-CTCCTTAAAGGG
1 TAAAATGATCGAAATAC-CCCCGAAGGG
* *
30167499 TAAAATTA-CTAAAATACCCCCGAAGGGG
1 TAAAATGATC-GAAATACCCCCGAA-GGG
30167527 TAAAAT
1 TAAAAT
30167533 TACTGACGTA
Statistics
Matches: 431, Mismatches: 71, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
26 48 0.11
27 369 0.86
28 14 0.03
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCCGAAGGG
Found at i:30168000 original size:28 final size:27
Alignment explanation
Indices: 30167960--30168046 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 27
30167950 ACTGTAATGT
*
30167960 TACTGTATTGGGTTAAGGCCCACACTG
1 TACTATATTGGGTTAAGGCCCACACTG
* *
30167987 ATACTATATTGGGTTAAGTCCCACAGTG
1 -TACTATATTGGGTTAAGGCCCACACTG
* *
30168015 CTACTGA-ATTGGGCTAAGGCCCTCACTG
1 -TACT-ATATTGGGTTAAGGCCCACACTG
30168043 TACT
1 TACT
30168047 GTCACTGAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 4 0.08
28 45 0.90
29 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (27 bp):
TACTATATTGGGTTAAGGCCCACACTG
Found at i:30175022 original size:27 final size:26
Alignment explanation
Indices: 30174984--30175474 Score: 435
Period size: 27 Copynumber: 18.3 Consensus size: 26
30174974 GTATTGGGCC
*
30174984 TAAAATGTCCGAAATACCTCCGAAGGG
1 TAAAATGACCGAAATACC-CCGAAGGG
*
30175011 TAAAATGACCGAAATACCCTCGAAGAG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * * *
30175038 TAAAATTACCAAAATACCCTTGAAAGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* *
30175065 TAAAATGATCGAAATACACTCGAAGGG
1 TAAAATGACCGAAATAC-CCCGAAGGG
* *
30175092 TAAAATGATCGAAATACCTTCGAAGGG
1 TAAAATGACCGAAATACC-CCGAAGGG
* **
30175119 TAAAATGACTGAAATACCTTGAAGGG
1 TAAAATGACCGAAATACCCCGAAGGG
30175145 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * ** *
30175172 TAAAATGTCTGAAATATCCTTGAAAGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
* * *
30175199 TAAAATTACCAAAATACCCTCGAAGGT
1 TAAAATGACCGAAATACCC-CGAAGGG
30175226 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
**
30175253 TAAAATGATTGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
*
30175280 TAAAATGACTGAAATA-CCCGAAGGG
1 TAAAATGACCGAAATACCCCGAAGGG
* *
30175305 TAAAATGACCAAAATACCCCTGAATGG
1 TAAAATGACCGAAATACCCC-GAAGGG
* * **
30175332 TAAAATTACCAAAATATCCCTAAAGGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
* * * * *
30175359 TAAAATTATCAAAATATCTCTGAAGGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
* * *
30175386 TAAAATTACCAAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * *
30175413 TAAAATTACCGAAATACCCTCTAAGGA
1 TAAAATGACCGAAATACCC-CGAAGGG
* *
30175440 TAAAATTACCGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCGA-AGGG
*
30175467 TGAAATGA
1 TAAAATGA
30175475 TCTTTATACC
Statistics
Matches: 395, Mismatches: 58, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
25 21 0.05
26 37 0.09
27 331 0.84
28 6 0.02
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (26 bp):
TAAAATGACCGAAATACCCCGAAGGG
Found at i:30175053 original size:54 final size:54
Alignment explanation
Indices: 30174984--30175458 Score: 505
Period size: 54 Copynumber: 8.9 Consensus size: 54
30174974 GTATTGGGCC
* * *
30174984 TAAAATGTCCGAAATA-CCTCCGAAGGGTAAAATGACCGAAATACCCTCGAAGAG
1 TAAAATGACCAAAATACCCT-CGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * * * *
30175038 TAAAATTACCAAAATACCCTTGAAAGGTAAAATGATCGAAATACACTCGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * * * *
30175092 TAAAATGATCGAAATACCTTCGAAGGGTAAAATGACTGAAATA-CCTTGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * * * * *
30175145 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGTCTGAAATATCCTTGAAAGG
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* *
30175199 TAAAATTACCAAAATACCCTCGAAGGTTAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
*** *
30175253 TAAAATGATTGAAATACCCTCGAAGGGTAAAATGACTGAAATA-CC-CGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * * *
30175305 TAAAATGACCAAAATACCC-CTGAATGGTAAAATTACCAAAATATCCCT-AAAGGG
1 TAAAATGACCAAAATACCCTC-GAAGGGTAAAATGACCGAAATA-CCCTCGAAGGG
* * * * * *
30175359 TAAAATTATCAAAATA-TCTCTGAAGGGTAAAATTACCAAAATACCCTTGAAGGG
1 TAAAATGACCAAAATACCCTC-GAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * * * *
30175413 TAAAATTACCGAAATACCCTCTAAGGATAAAATTACCGAAATACCC
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCC
30175459 CCATAGGGTG
Statistics
Matches: 357, Mismatches: 55, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
51 1 0.00
52 41 0.11
53 55 0.15
54 254 0.71
55 6 0.02
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.21
Consensus pattern (54 bp):
TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
Found at i:30175122 original size:81 final size:81
Alignment explanation
Indices: 30174984--30175458 Score: 541
Period size: 81 Copynumber: 5.9 Consensus size: 81
30174974 GTATTGGGCC
* *
30174984 TAAAATGTCCGAAATA-CCTCCGAAGGGTAAAATGACCGAAATACCCTCGAAGAGTAAAATTACC
1 TAAAATGACCGAAATACCCT-CGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACC
*
30175048 AAAATACCCTTGAAAGG
65 AAAATACCCTTGAAGGG
* * * * * **
30175065 TAAAATGATCGAAATACACTCGAAGGGTAAAATGATCGAAATACCTTCGAAGGGTAAAATGACTG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
30175130 AAATA-CCTTGAAGGG
66 AAATACCCTTGAAGGG
* * * * *
30175145 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGTCTGAAATATCCTTGAAAGGTAAAATTACCA
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
* *
30175210 AAATACCCTCGAAGGT
66 AAATACCCTTGAAGGG
** * **
30175226 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGATTGAAATACCCTCGAAGGGTAAAATGACTG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
30175291 AAATACCC--GAAGGG
66 AAATACCCTTGAAGGG
* * * * * *
30175305 TAAAATGACCAAAATACCC-CTGAATGGTAAAATTACCAAAATATCCCT-AAAGGGTAAAATTAT
1 TAAAATGACCGAAATACCCTC-GAAGGGTAAAATGACCGAAATA-CCCTCGAAGGGTAAAATTAC
*
30175368 CAAAATA-TCTCTGAAGGG
64 CAAAATACCCT-TGAAGGG
* * * * * * *
30175386 TAAAATTACCAAAATACCCTTGAAGGGTAAAATTACCGAAATACCCTCTAAGGATAAAATTACCG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
30175451 AAATACCC
66 AAATACCC
30175459 CCATAGGGTG
Statistics
Matches: 330, Mismatches: 54, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
78 2 0.01
79 57 0.17
80 75 0.23
81 193 0.58
82 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.21
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
AAATACCCTTGAAGGG
Found at i:30179200 original size:20 final size:21
Alignment explanation
Indices: 30179164--30179202 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30179154 TTAGTATCAT
30179164 TTTTAAGAAAGGTATCGATTA
1 TTTTAAGAAAGGTATCGATTA
*
30179185 TTTTCAGAAA-GTATCGAT
1 TTTTAAGAAAGGTATCGAT
30179203 ACCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (21 bp):
TTTTAAGAAAGGTATCGATTA
Found at i:30179405 original size:20 final size:21
Alignment explanation
Indices: 30179376--30179435 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
30179366 TTGATGTGTT
* *
30179376 AAAATGATTTTAACTTGATTG
1 AAAATCATTTTCACTTGATTG
30179397 -AAATCATTTTCACTTGGA--G
1 AAAATCATTTTCACTT-GATTG
30179416 AAAATCATTTTCACTTGATT
1 AAAATCATTTTCACTTGATT
30179436 TTAAAATTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 3 0.09
20 28 0.85
21 2 0.06
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (21 bp):
AAAATCATTTTCACTTGATTG
Found at i:30181253 original size:40 final size:40
Alignment explanation
Indices: 30181193--30181286 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
30181183 CTTTAAATGT
*
30181193 AAGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATGAAA
1 AAGGGTTGCTAAGCGCAGATTCCCCGAATCATTGATGAAA
* * * * *
30181233 AAGGGTTGCTATGCGTAGATTCCCCGTATCATTGATTATA
1 AAGGGTTGCTAAGCGCAGATTCCCCGAATCATTGATGAAA
*
30181273 AGGTGGTTGCTAAG
1 AAG-GGTTGCTAAG
30181287 TGCTAATTCC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 36 0.80
41 9 0.20
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (40 bp):
AAGGGTTGCTAAGCGCAGATTCCCCGAATCATTGATGAAA
Found at i:30181296 original size:41 final size:42
Alignment explanation
Indices: 30181196--30181597 Score: 371
Period size: 41 Copynumber: 9.6 Consensus size: 42
30181186 TAAATGTAAG
* * * * *
30181196 GGTTGCTAAGTGCAGATTCC-CCGAATCATTGATGAAAAAG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAAGGT
30181236 GGTTGCT-A-TGCGTAGATTCC-CCGTATCATTGATTATAAGGT
1 GGTTGCTAAGTGC-T-GATTCCACCGTATCATTGATTATAAGGT
* * * * *
30181277 GGTTGCTAAGTGCTAATTCCACCATGTCCTTGATTGTAAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGA-T-TATAAGGT
*
30181320 GGTTG-TGATGTGCTGATTCC-CCGTATCATTGATTATAAGGT
1 GGTTGCT-AAGTGCTGATTCCACCGTATCATTGATTATAAGGT
* *
30181361 GGTTGCTAAGTGCTGATTCCACCGTGT-ACTTGATTGTAAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCA-TTGA-T-TATAAGGT
* *
30181404 GGTTGTTATGTGCTGATTCC-CCGTATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAAGGT
* * *
30181445 GGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT--AAGGT
* * *
30181488 GGTTGCTATGTGCTGATTCC-CCGTATTATTGGTTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAAGGT
* * ** *
30181529 GGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATGAGGT
1 GGTTGCTAAGTGCTGATTCCACC-GTAT-CATTGATTATAAGGT
30181573 GGTTGCTAAGTGCTGATTCCACCGT
1 GGTTGCTAAGTGCTGATTCCACCGT
30181598 GTAACGGTTA
Statistics
Matches: 295, Mismatches: 43, Indels: 45
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.01
39 1 0.00
40 45 0.15
41 69 0.23
42 66 0.22
43 63 0.21
44 48 0.16
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAAGGT
Found at i:30181345 original size:84 final size:83
Alignment explanation
Indices: 30181196--30181552 Score: 515
Period size: 84 Copynumber: 4.3 Consensus size: 83
30181186 TAAATGTAAG
* ** * * *
30181196 GGTTGCTAAGTGCAGATTCC-CCGAATCATTGA-TG-AAAAAGGGTTGCTATGCG-TAGATTCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTGTAAAAGGGGTTG-TATGTGCT-GATTCCC
30181257 CGTATCATTGATTATAAGGT
64 CGTATCATTGATTATAAGGT
* *
30181277 GGTTGCTAAGTGCTAATTCCACCATGTCCTTGATTGTAAAAGGGGTTGTGATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTGTAAAAGGGGTTGT-ATGTGCTGATTCCCC
30181342 GTATCATTGATTATAAGGT
65 GTATCATTGATTATAAGGT
*
30181361 GGTTGCTAAGTGCTGATTCCACCGTGTACTTGATTGTAAAAGGGGTTGTTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTGTAAAAGGGGTTG-TATGTGCTGATTCCCC
30181426 GTATCATTGATTATAAGGT
65 GTATCATTGATTATAAGGT
* * *
30181445 GGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTGTAAAAGGGGTTG-TATGTGCTGATTCCCC
* *
30181510 GTATTATTGGTTATAAGGT
65 GTATCATTGATTATAAGGT
30181529 GGTTGCTAAGTGCTGATTCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
30181553 GGATCCTTTG
Statistics
Matches: 251, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
81 18 0.07
82 8 0.03
83 3 0.01
84 220 0.88
85 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (83 bp):
GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTGTAAAAGGGGTTGTATGTGCTGATTCCCCG
TATCATTGATTATAAGGT
Found at i:30187161 original size:20 final size:20
Alignment explanation
Indices: 30187123--30187160 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30187113 ATTCTACTAC
30187123 TAAATTTCTTTTTGTAAAAT
1 TAAATTTCTTTTTGTAAAAT
30187143 TAAATTTCTTTTT-TAAAA
1 TAAATTTCTTTTTGTAAAA
30187161 ACTCGATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (20 bp):
TAAATTTCTTTTTGTAAAAT
Found at i:30194326 original size:13 final size:13
Alignment explanation
Indices: 30194308--30194349 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
30194298 TAATTAAGAG
30194308 TTAAATTAATTTA
1 TTAAATTAATTTA
*
30194321 TTAAATTAATTGA
1 TTAAATTAATTTA
*
30194334 TTAAATAATATTTA
1 TTAAATTA-ATTTA
30194348 TT
1 TT
30194350 TTGAGAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
TTAAATTAATTTA
Found at i:30198355 original size:37 final size:37
Alignment explanation
Indices: 30198312--30198443 Score: 203
Period size: 37 Copynumber: 3.6 Consensus size: 37
30198302 CCACTGGATA
30198312 ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
1 ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
30198349 ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
1 ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
* * *
30198386 ATGCCATATAGGCGAGTCTCGTGGACCTCCTTGGATC
1 ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
* *
30198423 ATGACATGTAGGT-GAGTCTGG
1 ATGCCATATA-GTCGAGTCTGG
30198444 CAAATCACCC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
37 86 0.99
38 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (37 bp):
ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATC
Found at i:30198458 original size:74 final size:74
Alignment explanation
Indices: 30198312--30198466 Score: 195
Period size: 74 Copynumber: 2.1 Consensus size: 74
30198302 CCACTGGATA
* * * *** *
30198312 ATGCCATATAGTCGAGTCTGGTGGACCTCCTTAGATCATGCCATATAGTCGAGTCTGGTGGACCT
1 ATGCCATATAGGCGAGTCTCGTGGACCTCCTTAGATCATGACATATAGTCGAGTCTGGCAAACCA
*
30198377 CCTTAGATC
66 CCCTAGATC
* * *
30198386 ATGCCATATAGGCGAGTCTCGTGGACCTCCTTGGATCATGACATGTAGGT-GAGTCTGGCAAATC
1 ATGCCATATAGGCGAGTCTCGTGGACCTCCTTAGATCATGACATATA-GTCGAGTCTGGCAAACC
30198450 ACCCTAGATC
65 ACCCTAGATC
30198460 ATGCCAT
1 ATGCCAT
30198467 GGCCATGGAC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
74 67 0.97
75 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (74 bp):
ATGCCATATAGGCGAGTCTCGTGGACCTCCTTAGATCATGACATATAGTCGAGTCTGGCAAACCA
CCCTAGATC
Found at i:30206068 original size:45 final size:45
Alignment explanation
Indices: 30206004--30206092 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
30205994 AACAGATACT
* *
30206004 TGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 TGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
30206049 TGGTGGAATCAGCAGATAGCAACCACCTTACTAATCAATGATGT
1 TGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
30206093 TCGGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (45 bp):
TGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:30219232 original size:50 final size:50
Alignment explanation
Indices: 30219111--30219550 Score: 321
Period size: 50 Copynumber: 8.6 Consensus size: 50
30219101 ACAGGTGAAA
* * * *
30219111 GCCATGTCCCAGACATGGTCTTACATGGGA-TGTTTCCTGT-ATTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATATCAGTGCCAAT
* * * * *
30219160 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCAGTGCCAAT
* ** ** * * * *
30219210 GCCATGTCCTAGACATGGTCTTACGGGGGACCACTTATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCAGTGCCAAT
* * *
30219260 GTCATGTCCCAGACATGGTCTTACGTGGGACTTCTCATAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC---AGTGCCAAT
* * * *
30219316 GCCATGTCCCAGACATGGTCTTACATGGGA-TGTTTCCTGT-ACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATATCAGTGCCAAT
* * * * * * * *
30219365 GCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATCGGTACCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCAGTGCCAAT
** ** * * *
30219415 GCCATGTCCCAGACATTATCTTACGGGGGACCTCTTATCTCAGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCAGTGCCAAT
* * * *
30219465 GTCATTTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC---AGTGCCAAT
*
30219521 GCCATGTCCCAGACATAGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
30219551 TCTTATTCCC
Statistics
Matches: 300, Mismatches: 74, Indels: 27
0.75 0.18 0.07
Matches are distributed among these distances:
49 72 0.24
50 149 0.50
53 5 0.02
55 1 0.00
56 73 0.24
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCAGTGCCAAT
Found at i:30219283 original size:100 final size:100
Alignment explanation
Indices: 30219153--30219503 Score: 359
Period size: 100 Copynumber: 3.5 Consensus size: 100
30219143 TTTCCTGTAT
* * *
30219153 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAATGTCATATCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTGCCCATGCCATGTC
* *
30219218 CTAGACATGGTCTTACGGGGGACCACTTATCTCGG
66 CCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
* * * ** *
30219253 TGCCAACGTCATGTCCCAGACATGGTCTTACGTGGGACTTCTCATAACCTCAATAATGCCAATGC
1 TGCCAATGTCATATCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC---GGTGCCCATGC
** * *
30219318 CATGTCCCAGACATGGTCTTACATGGGA--TGTT-TC-CTGTAC
60 CATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTC-G--G
* * * * * *
30219358 TGCCAATGCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATCGGTACCCATGCCATGTC
1 TGCCAATGTCATATCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTGCCCATGCCATGTC
** *
30219423 CCAGACATTATCTTACGGGGGACCTCTTATCTCAG
66 CCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
* *
30219458 TGCCAATGTCATTTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGTCATATCCCAGACATGGTCTTACATGGGACTTCTCATA
30219504 ACCTCAATAA
Statistics
Matches: 197, Mismatches: 41, Indels: 26
0.75 0.16 0.10
Matches are distributed among these distances:
99 31 0.16
100 78 0.40
101 4 0.02
102 5 0.03
103 6 0.03
104 3 0.02
105 37 0.19
106 33 0.17
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (100 bp):
TGCCAATGTCATATCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTGCCCATGCCATGTC
CCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
Found at i:30219339 original size:56 final size:54
Alignment explanation
Indices: 30219253--30219550 Score: 230
Period size: 56 Copynumber: 5.7 Consensus size: 54
30219243 CTTATCTCGG
* * *
30219253 TGCCAACGTCATGTCCCAGACATGGTCTTACGTGGGACTTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-ACCTC-ATAA
* *
30219309 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TGT-T--T-CCT-GTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATACCTCATAA
* * * * * *
30219358 TGCCAATGCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATA--TCGGT-A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATACCTC-ATAA
* ** ** * * *
30219410 --CCCATGCCATGTCCCAGACATTATCTTACGGGGGAC--CTCTTATCTC--AG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATACCTCATAA
* * *
30219458 TGCCAATGTCATTTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-ACCTC-ATAA
*
30219514 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
30219551 TCTTATTCCC
Statistics
Matches: 188, Mismatches: 35, Indels: 38
0.72 0.13 0.15
Matches are distributed among these distances:
48 5 0.03
49 36 0.19
50 59 0.31
51 4 0.02
52 5 0.03
53 7 0.04
55 2 0.01
56 70 0.37
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (54 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATACCTCATAA
Found at i:30219463 original size:205 final size:205
Alignment explanation
Indices: 30219111--30219551 Score: 756
Period size: 205 Copynumber: 2.2 Consensus size: 205
30219101 ACAGGTGAAA
* *
30219111 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGCCAATGCCATATCCCAGATAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
* * * *
30219176 GGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGAC
66 GGTCTTACATGAGAGTTCTCATATCGGTACCCATGCCATGTCCCAGACATGATCTTACGGGGGAC
* * *
30219241 CACTTATCTCGGTGCCAACGTCATGTCCCAGACATGGTCTTACGTGGGACTTCTCATAACCTCAA
131 CACTTATCTCAGTGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAA
30219306 TAATGCCAAT
196 TAATGCCAAT
30219316 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
*
30219381 GGTCTTACATGAGAGTTCTCATATCGGTACCCATGCCATGTCCCAGACATTATCTTACGGGGGAC
66 GGTCTTACATGAGAGTTCTCATATCGGTACCCATGCCATGTCCCAGACATGATCTTACGGGGGAC
* * *
30219446 CTCTTATCTCAGTGCCAATGTCATTTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAA
131 CACTTATCTCAGTGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAA
30219511 TAATGCCAAT
196 TAATGCCAAT
*
30219521 GCCATGTCCCAGACATAGTCTTACATGGGAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAT
30219552 CTTATTCCCT
Statistics
Matches: 222, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
205 222 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (205 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
GGTCTTACATGAGAGTTCTCATATCGGTACCCATGCCATGTCCCAGACATGATCTTACGGGGGAC
CACTTATCTCAGTGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAA
TAATGCCAAT
Found at i:30231693 original size:44 final size:44
Alignment explanation
Indices: 30231630--30231987 Score: 296
Period size: 44 Copynumber: 8.0 Consensus size: 44
30231620 CGGTTTTAGT
*
30231630 CTGCTCCACTACAACTTCAGAGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
30231674 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* * *
30231718 CTGCTCTACTGCAACTTCAGGGAGATAAGGCTTGTATCTTCAAC
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* * * ** ** *
30231762 CTACTCCACTGCAACATCAGGGAGATAAGGTTTGATATGATAAGATC
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTTG-TATCTTCA-A-C
* * * * * * *
30231809 TAATTCGACCTACTACAATTTCAGAGG-TATAAGA-TT-CATCGTTTTAATC
1 --CTGC-TCC-ACTACAACTTCAG-GGAGATAAGACTTGTATC--TTCAA-C
* * *
30231858 C-GCTCCACTACAACTTCAGGGAGATAGGA-TTAGTAGCTTCAAT
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTT-GTATCTTCAAC
* * **
30231901 CTGCTCCATTGCAACTTCAAAGAGATAAGA-TTGGTATCTTCAAC
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTT-GTATCTTCAAC
* * *
30231945 CTGCTCCACTATAACTTCAGTGAGATAAGACTTGTAGCTTCAA
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAA
30231988 ATTGTTTTAC
Statistics
Matches: 252, Mismatches: 47, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
43 3 0.01
44 205 0.81
45 9 0.04
46 4 0.02
47 1 0.00
48 2 0.01
49 5 0.02
50 6 0.02
51 15 0.06
52 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
Found at i:30232091 original size:129 final size:127
Alignment explanation
Indices: 30231947--30232364 Score: 338
Period size: 129 Copynumber: 3.2 Consensus size: 127
30231937 TCTTCAACCT
** * ** * * *
30231947 GCTCCACTATAACTTCAGTGAGATAAGACTT-GTAGCTTCAAAT-TGTTTTACTGTATCTTTCAG
1 GCTCCACTGCAACTTCAG-GAGATAAGA-TTGGTAGCTTC-AATCTGCTCCACTGCAACTTTAAG
* * * * *
30232010 AAAATAAAA-TCTGGTGCGGTCTGCTCTACTGCAACTTTAGAGAGATAAGATCCATCATTTTAAT
63 AAAATAAAACT-TGATGCGATCTGATCTACTGCAACTTCAGAGAAATAAGATCCATCATTTTAAT
30232074 CC
127 -C
* * ** * *
30232076 GCTTCACTGCAACTTCAGGAAGATAGGATTGGTTTCTTCAATCTGCTCCGCTGCAACTTTAAGGA
1 GCTCCACTGCAACTTCAGG-AGATAAGATTGGTAGCTTCAATCTGCTCCACTGCAACTTTAAGAA
* * **
30232141 GATAAAACTTGATGCGATCTGATCTACTGCAACTTCAGAGAAATAAGATCTATTTTTTTAATC
65 AATAAAACTTGATGCGATCTGATCTACTGCAACTTCAGAGAAATAAGATCCATCATTTTAATC
* ** ** * *
30232204 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAA
1 GCTCCACTGCAACTTCA-GGAGATAAGATTGGTAGCTTCAATCTGCTCCACTGCAACTTTAAGAA
* * * * ** * ** **
30232269 GATAAGACTGGTTGCGATCTGCGCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
65 AATAAAACTTGATGCGATCTGATCTACTGCAACTTCAGAGAAATAAGATCCATCATTTTAAT-C
* * *
30232333 GCTCCACTACAACTTTAGGGAGATAGGATTGG
1 GCTCCACTGCAACTTCA-GGAGATAAGATTGG
30232365 CTTCATTGAT
Statistics
Matches: 242, Mismatches: 41, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
128 115 0.48
129 126 0.52
130 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (127 bp):
GCTCCACTGCAACTTCAGGAGATAAGATTGGTAGCTTCAATCTGCTCCACTGCAACTTTAAGAAA
ATAAAACTTGATGCGATCTGATCTACTGCAACTTCAGAGAAATAAGATCCATCATTTTAATC
Found at i:30232130 original size:44 final size:44
Alignment explanation
Indices: 30232071--30232364 Score: 166
Period size: 44 Copynumber: 6.8 Consensus size: 44
30232061 CCATCATTTT
* * *
30232071 AATCCGCTTCACTGCAACTTCAGGAAGATAGGATTGGTTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTCTTC
* * * * *
30232115 AATCTGCTCCGCTGCAACTTTAAGG-AGATAAAACTT-G---ATGC
1 AATCTGCTCCACTGCAAC-TTCAGGAAGATAAGA-TTGGTTTCTTC
* * * * * *
30232156 GATCTGATCTACTGCAACTTCAGAGAA-ATAAGATCT-ATTTTTTT
1 AATCTGCTCCACTGCAACTTCAG-GAAGATAAGAT-TGGTTTCTTC
* *
30232200 AATC-GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTCTTC
** * *
30232243 TGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGG--T-TGC
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTCTTC
* * * *
30232284 GATCTGCGCTACTGCAACTTCA-GAGAGATAAGATCTGTGGTT-TT-
1 AATCTGCTCCACTGCAACTTCAGGA-AGATAAGAT-TG-GTTTCTTC
* * * * *
30232328 AATCCGCTCCACTACAACTTTAGGGAGATAGGATTGG
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTGG
30232365 CTTCATTGAT
Statistics
Matches: 187, Mismatches: 46, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
40 7 0.04
41 51 0.27
42 8 0.04
43 32 0.17
44 79 0.42
45 10 0.05
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTCTTC
Found at i:30232250 original size:128 final size:129
Alignment explanation
Indices: 30232013--30232364 Score: 467
Period size: 128 Copynumber: 2.7 Consensus size: 129
30232003 CTTTCAGAAA
* * *
30232013 ATAAAATCTGG-TGCGGTCTGCTCTACTGCAACTTTAGAGAGATAAGATCCATCATTTTAATCCG
1 ATAAAA-CTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCG
* * *
30232077 CTTCACTGCAACTTCAGGAAGATAGGATTGGTTTCTTCAATCTGCTCCGCTGCAACTTTAAGG-A
65 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAAC-TTAAGGAA
30232141 G
129 G
* * * **
30232142 ATAAAACTTGATGCGATCTGATCTACTGCAACTTCAGAGAAATAAGATCTATTTTTTTAAT-CGC
1 ATAAAACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGC
** *
30232206 TCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAG
66 TCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTAAGGAAG
* * * * **
30232270 ATAAGACTGGTTGCGATCTGCGCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGC
1 ATAAAACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGC
* *
30232335 TCCACTACAACTTTAGGGAGATAGGATTGG
66 TCCACTGCAACTTCAGGGAGATAGGATTGG
30232365 CTTCATTGAT
Statistics
Matches: 195, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
127 5 0.03
128 110 0.56
129 80 0.41
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (129 bp):
ATAAAACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGC
TCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTAAGGAAG
Found at i:30232433 original size:45 final size:45
Alignment explanation
Indices: 30232378--30232626 Score: 281
Period size: 45 Copynumber: 5.6 Consensus size: 45
30232368 CATTGATCTA
*
30232378 CTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTATG
1 CTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTCTG
* * * * *
30232423 CTTCGTTGTCAGTACAGGAAGGCAAGGT-CGGTGTCTTCAATCTG
1 CTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTCTG
* * *
30232467 CTTCGCTGTCAGTACAGGAAGGCAAGATCTGGC-ATCTTCAATTTG
1 CTTCGCTGTCAGTACAGGAAGGCAAGATC-CGCTATCTTCAGTCTG
* * * * * *
30232512 CTCCGCTGTCAGTATAGGAAGGTAAG-GCTGGTATCTTC-GATCTG
1 CTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAG-TCTG
* **
30232556 CTTCGCTGTCAGTATAGGAAGGCAAGATCTACTATCTTCAGTCTG
1 CTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTCTG
*
30232601 CTCCGCTGTCAGTACAGGAAGGCAAG
1 CTTCGCTGTCAGTACAGGAAGGCAAG
30232627 GCTGGTGTCT
Statistics
Matches: 171, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.01
44 72 0.42
45 96 0.56
46 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (45 bp):
CTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTCTG
Found at i:30232531 original size:89 final size:89
Alignment explanation
Indices: 30232373--30232636 Score: 379
Period size: 89 Copynumber: 3.0 Consensus size: 89
30232363 GGCTTCATTG
* * * *
30232373 ATCTACTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTATGCTTCGTTGTCAGTAC
1 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTATGCTCCGCTGTCAGTAC
30232438 AGGAAGGCAAGG-TCGGTGTCTTCA
66 AGGAAGGCAAGGCT-GGTGTCTTCA
* *
30232462 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGC-ATCTTCAATTTGCTCCGCTGTCAGTA
1 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCT-GCTATCTTCAGTATGCTCCGCTGTCAGTA
* * * *
30232526 TAGGAAGGTAAGGCTGGTATCTTCG
65 CAGGAAGGCAAGGCTGGTGTCTTCA
* * *
30232551 ATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTACTATCTTCAGTCTGCTCCGCTGTCAGTAC
1 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTATGCTCCGCTGTCAGTAC
30232616 AGGAAGGCAAGGCTGGTGTCT
66 AGGAAGGCAAGGCTGGTGTCT
30232637 ATTTTTATGC
Statistics
Matches: 155, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
88 1 0.01
89 151 0.97
90 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (89 bp):
ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTATGCTCCGCTGTCAGTAC
AGGAAGGCAAGGCTGGTGTCTTCA
Found at i:30236350 original size:18 final size:18
Alignment explanation
Indices: 30236327--30236363 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30236317 AAATATAGTA
30236327 TTTTATTTTTAGTTTTAG
1 TTTTATTTTTAGTTTTAG
*
30236345 TTTTATTTTTATTTTTAG
1 TTTTATTTTTAGTTTTAG
30236363 T
1 T
30236364 ACTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTAGTTTTAG
Found at i:30237582 original size:27 final size:27
Alignment explanation
Indices: 30237551--30237642 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
30237541 CATCCTATTA
* *
30237551 GCCTTTATGGCATACTTTGAAAGGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
* * *
30237578 GCCTTTGCGGCGTACTCTAAAAGGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
* * *
30237605 GCGTTTTTGGCGTACTTTGAAAAGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
30237632 GCCTTTGTGGC
1 GCCTTTGTGGC
30237643 TTATCCTGAA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (27 bp):
GCCTTTGTGGCGTACTTTGAAAGGAAT
Found at i:30241549 original size:21 final size:22
Alignment explanation
Indices: 30241507--30241551 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
30241497 TTATGTTTAG
30241507 AAATTGAAAACTTTTAATATAA
1 AAATTGAAAACTTTTAATATAA
30241529 AAATTGAAAA-TTTTGAA-ATAA
1 AAATTGAAAACTTTT-AATATAA
30241550 AA
1 AA
30241552 TCAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (22 bp):
AAATTGAAAACTTTTAATATAA
Found at i:30241606 original size:17 final size:18
Alignment explanation
Indices: 30241586--30241625 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
30241576 AATTTAATGC
* *
30241586 AAAAAA-TATTAAATTTT
1 AAAAAATTATGAAAATTT
30241603 AAAAAATTATGAAAATTT
1 AAAAAATTATGAAAATTT
30241621 AAAAA
1 AAAAA
30241626 TACTTAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAAAATTATGAAAATTT
Found at i:30241634 original size:17 final size:16
Alignment explanation
Indices: 30241587--30241641 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
30241577 ATTTAATGCA
*
30241587 AAAAATATTAAATTTT
1 AAAAATATTAAAATTT
*
30241603 AAAAAATTATGAAAATTT
1 -AAAAA-TATTAAAATTT
*
30241621 AAAAATACTTAAAAGTT
1 AAAAATA-TTAAAATTT
30241638 AAAA
1 AAAA
30241642 GAAAAACACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.06
17 21 0.66
18 9 0.28
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (16 bp):
AAAAATATTAAAATTT
Found at i:30242831 original size:29 final size:30
Alignment explanation
Indices: 30242799--30242863 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
30242789 TTTAGCCTTA
30242799 TAAAATAATCAAATGAAGA-TTAA-ATCTTT
1 TAAAATAATCAAAT-AAGAGTTAATATCTTT
* * *
30242828 TAAAATAATTAAATAATAGTTAATTTCTTT
1 TAAAATAATCAAATAAGAGTTAATATCTTT
30242858 TAAAAT
1 TAAAAT
30242864 GTTAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 3 0.10
29 17 0.55
30 11 0.35
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (30 bp):
TAAAATAATCAAATAAGAGTTAATATCTTT
Found at i:30243748 original size:28 final size:28
Alignment explanation
Indices: 30243708--30243764 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
30243698 ACTAATCATC
*
30243708 ACTCTTAATTTTCTCTAATTATAGTTGG
1 ACTCTTAATTTTCTCTAATTATAGCTGG
30243736 ACTCTTAATTTTCTCTAATTATAGCTGG
1 ACTCTTAATTTTCTCTAATTATAGCTGG
30243764 A
1 A
30243765 AAAATGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (28 bp):
ACTCTTAATTTTCTCTAATTATAGCTGG
Found at i:30246067 original size:24 final size:24
Alignment explanation
Indices: 30246040--30246086 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30246030 AAATCAATTA
*
30246040 TATGCA-AAACAATTTTAGAAATAC
1 TATGCATAAAAAATTTTA-AAATAC
*
30246064 TATGTATAAAAAATTTTAAAATA
1 TATGCATAAAAAATTTTAAAATA
30246087 AATAATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (24 bp):
TATGCATAAAAAATTTTAAAATAC
Found at i:30248043 original size:44 final size:44
Alignment explanation
Indices: 30247926--30248043 Score: 218
Period size: 44 Copynumber: 2.7 Consensus size: 44
30247916 CAGTTTTAGT
*
30247926 CTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTTAGGGAGATAAGGCTTGTATCTTCAAC
30247970 CTGCTCCACTGCAACTTTAGGGAGATAAGGCTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTTAGGGAGATAAGGCTTGTATCTTCAAC
*
30248014 CTGCTCCACTGCAACTTTAGGGATATAAGG
1 CTGCTCCACTGCAACTTTAGGGAGATAAGG
30248044 TTTGATATGA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 72 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTTAGGGAGATAAGGCTTGTATCTTCAAC
Found at i:30248160 original size:44 final size:43
Alignment explanation
Indices: 30248112--30248240 Score: 168
Period size: 44 Copynumber: 2.9 Consensus size: 43
30248102 TTTTAATCCA
*
30248112 CTCCACTGCAACTTCAGAGAGATAGGATAAGTAGCTTCAATCTG
1 CTCCACTGCAACTTCAGAGAGATAGGAT-AGTAGCTTCAACCTG
* * * *
30248156 CTCCATTGCAACTTCAGAGAGATAAGATTGGTATCTTCAACCTG
1 CTCCACTGCAACTTCAGAGAGATAGGA-TAGTAGCTTCAACCTG
* *
30248200 CTCCACTGCAACTTCAGTGAGATAGGACTTGTAGCTTCAAC
1 CTCCACTGCAACTTCAGAGAGATAGGA-TAGTAGCTTCAAC
30248241 TTGTTTTACT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 72 0.99
45 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGAGAGATAGGATAGTAGCTTCAACCTG
Found at i:30248504 original size:84 final size:85
Alignment explanation
Indices: 30248381--30248565 Score: 293
Period size: 84 Copynumber: 2.2 Consensus size: 85
30248371 TGCTCTGCTA
* *
30248381 CAACTTTAGGGAGATAAGACTGGATGCGATCTTCTCTACTGCAACTTCAGAGAGATAAGATCTAT
1 CAACTTTAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-G
**
30248446 TTTTTTTAATCCGCTCCACTG
65 TGGTTTTAATCCGCTCCACTG
**
30248467 CAACTTTAGGGA-ATAATTC-GGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
1 CAACTTTAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
30248530 GGTTTTAATCCGCTCCACTG
66 GGTTTTAATCCGCTCCACTG
30248550 CAACTTTAGGGAGATA
1 CAACTTTAGGGAGATA
30248566 GGATTGGCTT
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
83 31 0.34
84 44 0.48
85 5 0.05
86 12 0.13
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (85 bp):
CAACTTTAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
GGTTTTAATCCGCTCCACTG
Found at i:30248565 original size:44 final size:43
Alignment explanation
Indices: 30248289--30248565 Score: 147
Period size: 44 Copynumber: 6.5 Consensus size: 43
30248279 GGTCTACTCT
* * ** *
30248289 ACTGCAACTTTAGAGAGATAAGATCCATCATTTTAATCCGCTTC
1 ACTGCAACTTTAGGGAGATAAGAT-CTTGGTTTTAATCCGCTCC
* * * * *
30248333 ACTGCAACTTCAGGAAGATAGGA--TTGGTTTCTTCAATCTGCTCT
1 ACTGCAACTTTAGGGAGATAAGATCTTGG-TT-TT-AATCCGCTCC
* * * *** ** *
30248377 GCTACAACTTTAGGGAGATAAGA-C-TGGATGCGATCTTCTCT
1 ACTGCAACTTTAGGGAGATAAGATCTTGGTTTTAATCCGCTCC
* * **
30248418 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTTAATCCGCTCC
1 ACTGCAACTTTAGGGAGATAAGATC--TTGGTTTTAATCCGCTCC
* * *** * *
30248463 ACTGCAACTTTAGGGA-AT-A-AT-TCGGATGCGATCTGCTCT
1 ACTGCAACTTTAGGGAGATAAGATCTTGGTTTTAATCCGCTCC
* *
30248502 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCC
1 ACTGCAACTTTAGGGAGATAAGATCT-TGGTTTTAATCCGCTCC
30248546 ACTGCAACTTTAGGGAGATA
1 ACTGCAACTTTAGGGAGATA
30248566 GGATTGGCTT
Statistics
Matches: 165, Mismatches: 55, Indels: 26
0.67 0.22 0.11
Matches are distributed among these distances:
39 23 0.14
40 2 0.01
41 29 0.18
42 7 0.04
43 5 0.03
44 77 0.47
45 22 0.13
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (43 bp):
ACTGCAACTTTAGGGAGATAAGATCTTGGTTTTAATCCGCTCC
Found at i:30248683 original size:44 final size:44
Alignment explanation
Indices: 30248575--30248980 Score: 444
Period size: 45 Copynumber: 9.1 Consensus size: 44
30248565 AGGATTGGCT
* * * *
30248575 TCTTTGATCTGCTTCGCTATCAGTACAGGAAGGCAAGATCCGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGCTA
* * *
30248620 TCTTC-AGTATGCTTCGCTGTCAGTATAGGAAGGCAAGGCTAG-TG
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCT-GCTA
* *
30248664 TCTTCGATCTGCTTTGCTGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGCTA
* * *
30248709 TCTTC-AGTCTGCTCCGCTGTCAGTACAGGAAGGCATGGCTGTTA
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGCTA
*
30248753 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGCTA
* * * *
30248798 TCTTC-AGTCTGCTCCGCTGTCAATACAGGAAGGCAAGGCTGGTG
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGCTA
* *
30248842 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAAGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGCTA
* * * * * * *
30248887 TTTTC-AGTCTGTTTCACTATCAGTACAAGAAGGCAAGGCTGGTG
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGCTA
*
30248931 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGCTA
30248976 TCTTC
1 TCTTC
30248981 ACTAATCTGT
Statistics
Matches: 298, Mismatches: 49, Indels: 28
0.79 0.13 0.07
Matches are distributed among these distances:
44 147 0.49
45 151 0.51
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGCTA
Found at i:30248731 original size:89 final size:89
Alignment explanation
Indices: 30248575--30248981 Score: 643
Period size: 89 Copynumber: 4.6 Consensus size: 89
30248565 AGGATTGGCT
* * * * *
30248575 TCTTTGATCTGCTTCGCTATCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTATGCTTCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* *
30248640 CAGTATAGGAAGGCAAGGCTAGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
*
30248664 TCTTCGATCTGCTTTGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* * *
30248729 CAGTACAGGAAGGCATGGCTGTTA
66 CAGTACAGGAAGGCAAGGCTGGTG
30248753 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
*
30248818 CAATACAGGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
* * * * * *
30248842 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAAGCAAGATCTGCTATTTTCAGTCTGTTTCACTAT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
*
30248907 CAGTACAAGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
30248931 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
30248982 CTAATCTGTT
Statistics
Matches: 292, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 292 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
CAGTACAGGAAGGCAAGGCTGGTG
Found at i:30249280 original size:24 final size:24
Alignment explanation
Indices: 30249253--30249310 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
30249243 CAGATTGCCC
*
30249253 CCACTGTAATCTTCAAAGTTTAAT
1 CCACTGTAATCTTCAAAGTTCAAT
* *
30249277 CCACTGTAATCTTCAAGGTTCAGT
1 CCACTGTAATCTTCAAAGTTCAAT
30249301 CCACTGTAAT
1 CCACTGTAAT
30249311 TTTGGTACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:30250226 original size:11 final size:11
Alignment explanation
Indices: 30250192--30250246 Score: 53
Period size: 10 Copynumber: 5.0 Consensus size: 11
30250182 GGCCTCTCCT
30250192 TTTTCTTTTTTC
1 TTTTC-TTTTTC
30250204 ATTCTTC-TTTTC
1 -TT-TTCTTTTTC
30250216 TTTTCTTTTTC
1 TTTTCTTTTTC
*
30250227 TTTT-TGTTTC
1 TTTTCTTTTTC
30250237 TTTT-TTTTTC
1 TTTTCTTTTTC
30250247 AAGTGAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
10 17 0.45
11 11 0.29
12 5 0.13
13 2 0.05
14 3 0.08
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:30250229 original size:16 final size:17
Alignment explanation
Indices: 30250208--30250246 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
30250198 TTTTTCATTC
30250208 TTCTTTTCT-TTTCTTT
1 TTCTTTTCTGTTTCTTT
30250224 TTCTTTT-TGTTTCTTT
1 TTCTTTTCTGTTTCTTT
30250240 TT-TTTTC
1 TTCTTTTC
30250247 AAGTGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (17 bp):
TTCTTTTCTGTTTCTTT
Found at i:30255619 original size:87 final size:87
Alignment explanation
Indices: 30255380--30255678 Score: 241
Period size: 87 Copynumber: 3.4 Consensus size: 87
30255370 AGGATTCATC
* * * *
30255380 ATTTTAATCCACTCCTACTGCAACTTCAGGGAGATAGGATTAGTTATCTTCAATCTGCTCCGCTG
1 ATTTTAATCCACTCC-ACTGTAACCTCAGGGAGATAGGA-TAG-TGTCTTCGATCTGCTCCGCTG
**
30255445 TAATCTCA-AGGAGATAAGATCTGAA
63 TAATCTCAGA-GAGATAAGATCTCTA
** * * * * * * *
30255470 ATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATA--AAACCTG-ATGCGATCTACTCTGCTG
1 ATT-TT-AATCCACTCCACTGTAACCTCAGGGAGATAGGATA-GTGTCTTCGATCTGCTCCGCTG
* *
30255532 TAACCTCAGAGAGATAATG-TC-CTTT
63 TAATCTCAGAGAGATAA-GATCTC-TA
* *
30255557 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAA
1 ATTTTAATCCACTCCACTGTAACCTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAA
* *
30255622 TCTCAGGGAGATAAGATCTCTG
66 TCTCAGAGAGATAAGATCTCTA
** ** *
30255644 GCTTTAATCTGCTCCACTGTAACCTCTGGGAGATA
1 ATTTTAATCCACTCCACTGTAACCTCAGGGAGATA
30255679 AGATTTGAAA
Statistics
Matches: 162, Mismatches: 36, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
85 25 0.15
86 5 0.03
87 96 0.59
88 5 0.03
89 1 0.01
90 3 0.02
91 20 0.12
92 7 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (87 bp):
ATTTTAATCCACTCCACTGTAACCTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAA
TCTCAGAGAGATAAGATCTCTA
Found at i:30255882 original size:173 final size:174
Alignment explanation
Indices: 30255610--30256247 Score: 744
Period size: 174 Copynumber: 3.7 Consensus size: 174
30255600 TCTTCGATCT
* * * * * * *
30255610 GCTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTCTGGCTTTAATCTGCTCCACTGTAACCTCTGG
1 GCTCCACTGTAACT-TCAGGGAGATAGGATAGTCT--CTTCAATATGCTCCACTGTAATCTCAGG
* * *
30255673 GAGATAAGATTTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
63 GAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGA
* * **
30255738 TTTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTT
128 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* * * * *
30255785 GCTCCA-TGTAACTTCAGGGAGATAGGATAGTGTCTTCAATATGTTTCGCTGTTATCTCAGGGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATAGTCTCTTCAATATGCTCCACTGTAATCTCAGGGAG
* * *
30255849 ATAAGATCTGAAATTTTTTGGTCTGCCCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
66 ATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
30255914 ACTCTACTGTAACTTCAGAGAGATAAGAT-CTTTAATTTTAATCC
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTT-ATTTTAATCC
* * *
30255958 GCTCCACTGTAACTTCAGGGAGATAGGATAGTCTCTTCGATCTGCTCCACTGTAATCTCAGAGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATAGTCTCTTCAATATGCTCCACTGTAATCTCAGGGAG
* *
30256023 ATGAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTAATGCGATCT
66 ATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
* *
30256088 ACTCTATTGTAACTTCAGAGAGAAAAGATCC-----TTTAATCC
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* * ** * * *
30256127 ACTCCACTGTAA-TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTTAGGG
1 GCTCCACTGTAACT-TCAGGGAGATAGGA-TAGTCTCTTCAATATGCTCCACTGTAATCTCAGGG
* * ** * *
30256191 AGATAAGATCT---CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
64 AGATAAGATCTGAAAT-TCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGA
30256248 AATTCTTCGG
Statistics
Matches: 402, Mismatches: 53, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
167 1 0.00
168 38 0.09
169 33 0.08
170 38 0.09
172 4 0.01
173 123 0.31
174 156 0.39
175 9 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (174 bp):
GCTCCACTGTAACTTCAGGGAGATAGGATAGTCTCTTCAATATGCTCCACTGTAATCTCAGGGAG
ATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
Found at i:30255970 original size:217 final size:215
Alignment explanation
Indices: 30255431--30255982 Score: 520
Period size: 218 Copynumber: 2.5 Consensus size: 215
30255421 AGTTATCTTC
* * * * * * *
30255431 AATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
1 AATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTG-AA-T-TGCGATCTACTCCACTGTAACC
* * * * * ** *
30255496 TCAGGGAGATAAAACCTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAATGTCCTTTATTT
63 TCAGAGAGATAAGACCTAATGCAATCCACTCCACTGTAACTTCAGAGAGATAATGTCCTTTATTT
* *
30255561 TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
128 TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATATGCTCCGCTGTAATCTC
*
30255626 AGGGAGATAAGATCTCTGGCTTT
193 AGGGAGATAAGATCTATGGCTTT
* * ** * *
30255649 AATCTGCTCCACTGTAACCTCTGGGAGATAAGATTTGAAATTCTTCGGTCTACTCCACTGTAACC
1 AATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTG-AA-T-TGCGATCTACTCCACTGTAACC
* * * ** **
30255714 TCAGGGAGATAAGACCTGATGCGATTTACTCTGCTGTAACTTCAGAGAGATAA-GATCCTTTATT
63 TCAGAGAGATAAGACCTAATGCAATCCACTCCACTGTAACTTCAGAGAGATAATG-TCCTTTATT
** * * *
30255778 TTAATTTGCTCCA-TGTAACTTCAGGGAGATAGGATAGTGTCTTCAATATGTTTCGCTGTTATCT
127 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATATGCTCCGCTGTAATCT
**
30255842 CAGGGAGATAAGATCTGAAAT-TTTTT
192 CAGGGAGATAAGATCT---ATGGCTTT
** * * *
30255868 GGTCTGCCCCACTGTAATCTCAGGGAGATAAGACCTG-A-TGCGATCTACTCTACTGTAACTTCA
1 AATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTGAATTGCGATCTACTCCACTGTAACCTCA
* ** * *
30255931 GAGAGATAAGATCTTTAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATA
66 GAGAGATAAGA-C-CTAA-TGCAATCCACTCCACTGTAACTTCAGAGAGATA
30255983 GGATAGTCTC
Statistics
Matches: 286, Mismatches: 41, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
214 31 0.11
215 1 0.00
216 2 0.01
217 88 0.31
218 130 0.45
219 33 0.12
220 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (215 bp):
AATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTGAATTGCGATCTACTCCACTGTAACCTCA
GAGAGATAAGACCTAATGCAATCCACTCCACTGTAACTTCAGAGAGATAATGTCCTTTATTTTAA
TCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATATGCTCCGCTGTAATCTCAGG
GAGATAAGATCTATGGCTTT
Found at i:30256283 original size:46 final size:45
Alignment explanation
Indices: 30255426--30256680 Score: 473
Period size: 44 Copynumber: 28.8 Consensus size: 45
30255416 GGATTAGTTA
* * * * *
30255426 TCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAAT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTG-AAT
* * *
30255472 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAAACCTG-A-
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* ** * **
30255515 --TGCGATCTACTCTGCTGTAACCTCAGAGAGATAATG-TCCTTTAT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAA-GAT-CTGAAT
* ** * * *
30255559 T-TT-AATCCGCTCCACTGTAACTTCAGGGAGATAGGA--T-AGT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* * * *
30255599 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 -TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* ** * * *
30255643 GGCTTTAATCTGCTCCACTGTAACCTCTGGGAGATAAGATTTGAAAT
1 -TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTG-AAT
* *
30255690 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-A-
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* * ** * * **
30255733 --TGCGATTTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAT
* * * * * *
30255777 T-TT-AATTTGCTCCA-TGTAACTTCAGGGAGATAGGA--T-AGT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* * ** * * * *
30255816 GTCTTCAATATGTTTCGCTGTTATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTG-AAT
* * * * * * *
30255863 TTTTTGGTCTGCCCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* * * * *
30255906 --TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTAAT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATC-TGAAT
* ** * * *
30255950 T-TT-AATCCGCTCCACTGTAACTTCAGGGAGATAGGA--T-AGT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* * * *
30255990 CTCTTCGATCTGCTCCACTGTAATCTCAGAGAGATGAGATCTGAAAT
1 -TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTG-AAT
* * * *
30256037 TCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCT-AA-
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* * * * *
30256080 --TGCGATCTACTCTATTGTAACTTCAGAGAGA-AA-A---G-AT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* ** * * * *
30256117 CCTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGAT-T-ACT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* * * * * * *
30256160 AGCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCT--CT
1 -TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* * *
30256204 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTG-AAT
* *
30256251 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-A-
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* ** * * **
30256294 --TGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAT
* ** * * * *
30256338 T-TT-AATCCGCTCTACTGTAACTTCAGGGAGATAGGA--T-AGT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* * * *
30256378 GTCTTCGATCTGCTCCACTATAATCTCAGGGAGATAAGATCT--CT
1 -TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* * *
30256422 GGCTTCAATGTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTG-AAT
* * *
30256469 TCTTCGGTCTACTCCACTGTAACCTCAGGGTGATAAGACCTG-A-
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* ** * * **
30256512 --TGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAT
* ** * * * *
30256556 T-TT-AATCCGCTCCACTGTAACTTCAAGGAGATAGGA--T-AGT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
* * * * *
30256596 GTCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTAAT
1 -TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCT-GAAT
** * * *
30256643 TCTTC-AGTCTGTTCCACCGTAATCTCAGGGAAATAAGA
1 TCTTCGA-TCTACTCCACTGTAACCTCAGGGAGATAAGA
30256681 CCTGTATAAT
Statistics
Matches: 908, Mismatches: 226, Indels: 150
0.71 0.18 0.12
Matches are distributed among these distances:
36 1 0.00
39 24 0.03
40 10 0.01
41 179 0.20
42 24 0.03
43 148 0.16
44 261 0.29
45 12 0.01
46 240 0.26
47 9 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT
Found at i:30256474 original size:218 final size:218
Alignment explanation
Indices: 30255958--30256639 Score: 1015
Period size: 218 Copynumber: 3.2 Consensus size: 218
30255948 ATTTTAATCC
* * * * * * *
30255958 GCTCCACTGTAA-CTTCAGGGAGATAGGATAGTCT--CTTCGATCTGCTCCACTGTAATCTCAGA
1 GCTCCGCTGTAATC-TCAGGGAGATAAGAT-CTCTGGCTTCAATCTACTCCACTGTAACCTCAGG
* * * *
30256020 GAGATGAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTAATGCGA
64 GAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
** * *
30256085 TCTACTCTATTGTAACTTCAGAGAGAAAAGATCC-----TTTAATCCACTCCACTGTAA-TCTCA
129 TCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCA
* *
30256144 GGGAGATAGGATTACTAG-CTTCAATCT
193 GGGAGATAGGA-TAGT-GTCTTCGATCT
* *
30256171 GCTCCGCTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTCAGGGA
30256236 GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
66 GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
*
30256301 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTGTAACTTCAGGG
131 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGG
30256366 AGATAGGATAGTGTCTTCGATCT
196 AGATAGGATAGTGTCTTCGATCT
* * *
30256389 GCTCCACTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATGTACTCCACTGTAACCTCAGGGA
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTCAGGGA
*
30256454 GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGTGATAAGACCTGATGCGATC
66 GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
*
30256519 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAAGG
131 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGG
*
30256584 AGATAGGATAGTGTCTTTGATCT
196 AGATAGGATAGTGTCTTCGATCT
30256607 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCT
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCT
30256640 AATTCTTCAG
Statistics
Matches: 430, Mismatches: 29, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
212 3 0.01
213 24 0.06
214 118 0.27
217 1 0.00
218 251 0.58
219 32 0.07
220 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (218 bp):
GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTCAGGGA
GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGG
AGATAGGATAGTGTCTTCGATCT
Found at i:30257889 original size:7 final size:7
Alignment explanation
Indices: 30257877--30257924 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
30257867 TTAGCCTCTC
30257877 CATTTTT
1 CATTTTT
30257884 CATTTTT
1 CATTTTT
*
30257891 CATTCTT
1 CATTTTT
30257898 -ATTTTT
1 CATTTTT
30257904 CATTTTTT
1 CA-TTTTT
*
30257912 CA-TTCT
1 CATTTTT
30257918 CATTTTT
1 CATTTTT
30257925 TTTACTCAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 10 0.29
7 17 0.50
8 7 0.21
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:30257903 original size:21 final size:21
Alignment explanation
Indices: 30257877--30257924 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
30257867 TTAGCCTCTC
30257877 CATTTTTCA-TTTTTCATTCT
1 CATTTTTCATTTTTTCATTCT
*
30257897 TATTTTTCATTTTTTCATTCT
1 CATTTTTCATTTTTTCATTCT
30257918 CATTTTT
1 CATTTTT
30257925 TTTACTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTTCATTTTTTCATTCT
Found at i:30258832 original size:18 final size:18
Alignment explanation
Indices: 30258811--30258863 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
30258801 TTAATTTTTC
30258811 TTTTTCTTCTTTTTTGAT
1 TTTTTCTTCTTTTTTGAT
*
30258829 TTTTT-TTCTGCTTTTGAT
1 TTTTTCTTCT-TTTTTGAT
30258847 TTTAATTCTTCTTTTTT
1 TTT--TTCTTCTTTTTT
30258864 CTTTTCCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 4 0.14
18 15 0.52
20 6 0.21
21 4 0.14
ACGTcount: A:0.08, C:0.11, G:0.06, T:0.75
Consensus pattern (18 bp):
TTTTTCTTCTTTTTTGAT
Found at i:30258879 original size:47 final size:45
Alignment explanation
Indices: 30258768--30258888 Score: 113
Period size: 47 Copynumber: 2.6 Consensus size: 45
30258758 TTTTTCTTCC
* *
30258768 TTTCTTTTTCTTCTATTTTCTTTTATTTTGATTTTAATTTTTCTTTT
1 TTTC-TTTTCTTCT-TTTTTTTTTATTTTGATTTTAATTCTTCTTTT
* **
30258815 TCTTCTTTT-TTGATTTTTTTTCTGCTTTTGATTTTAATTCTTC-TTT
1 T-TTCTTTTCTT-CTTTTTTTT-TTATTTTGATTTTAATTCTTCTTTT
30258861 TTTCTTTTCCTTCTTTTTTTGTTT-TTTT
1 TTTCTTTT-CTTCTTTTTTT-TTTATTTT
30258889 ATGGAATCTG
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
45 11 0.18
46 20 0.33
47 27 0.44
48 3 0.05
ACGTcount: A:0.07, C:0.12, G:0.04, T:0.76
Consensus pattern (45 bp):
TTTCTTTTCTTCTTTTTTTTTTATTTTGATTTTAATTCTTCTTTT
Found at i:30258886 original size:18 final size:17
Alignment explanation
Indices: 30258805--30258886 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 17
30258795 TTGATTTTAA
*
30258805 TTTTTCTTTTTCTTC-T
1 TTTTTGTTTTTCTTCTT
* *
30258821 TTTTTGATTTTTTTTCTG
1 TTTTTG-TTTTTCTTCTT
*
30258839 CTTTTGATTTTAATTCTTC-T
1 TTTTTG--TTT--TTCTTCTT
* *
30258859 TTTTTCTTTTCCTTCTT
1 TTTTTGTTTTTCTTCTT
30258876 TTTTTGTTTTT
1 TTTTTGTTTTT
30258887 TTATGGAATC
Statistics
Matches: 48, Mismatches: 12, Indels: 11
0.68 0.17 0.15
Matches are distributed among these distances:
16 10 0.21
17 18 0.38
18 8 0.17
19 3 0.06
20 4 0.08
21 5 0.10
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTGTTTTTCTTCTT
Found at i:30263264 original size:114 final size:109
Alignment explanation
Indices: 30262998--30263300 Score: 405
Period size: 114 Copynumber: 2.8 Consensus size: 109
30262988 ATATGTGGCA
* * * * *
30262998 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* * * * * *
30263060 CAAAACATTGCCTTATTTTGAAATTTTTGAAGGGATATTTAGCT
66 CAAAATATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
* * *
30263104 ATTTGTTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTCCCAAACG
1 ATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
30263169 CAAAATATTGCCTTAATTTTCAAAATTTTTTTAAAAGGATATTAAGCC
66 CAAAATATTGCCTT-ATTTT-AAAA--TTTTTAAAAGGATATTAAGCC
30263217 ATTTGGTTGAACGAGAAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
1 ATTTGGTTGAACGAG-AAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
*
30263282 GCAAAATATTGCCTCATTT
65 GCAAAATATTGCCTTATTT
30263301 AGAAAAATTT
Statistics
Matches: 173, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
106 13 0.08
108 26 0.15
109 30 0.17
110 5 0.03
111 3 0.02
113 35 0.20
114 61 0.35
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAATATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
Found at i:30264562 original size:17 final size:17
Alignment explanation
Indices: 30264540--30264575 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30264530 GACGTGCGGC
*
30264540 GCGGCGTCAGAACGGTG
1 GCGGCGACAGAACGGTG
*
30264557 GCGGCGACAGAATGGTG
1 GCGGCGACAGAACGGTG
30264574 GC
1 GC
30264576 AGCGCCGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.22, G:0.47, T:0.11
Consensus pattern (17 bp):
GCGGCGACAGAACGGTG
Found at i:30267257 original size:48 final size:48
Alignment explanation
Indices: 30267196--30267393 Score: 225
Period size: 48 Copynumber: 4.1 Consensus size: 48
30267186 CTACTATGTG
* *
30267196 CACCGATATTCTGTTATGACATAAGGGTGGCACGGACTATGTGCAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
* * * *
30267244 CACCGGTAATCTGTTACGATACAAGGGTGGCACGGACTGTGTGCAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
* * * * * *
30267292 CACCAATAACCTGTTAAGATACAAGGGTGGTACGAACTATGTGCAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
* * * * * * *
30267340 CACTGAGAATCTGTTATTACACAAAGGTGGTACGGACTGTGTGTAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
30267388 CACCGA
1 CACCGA
30267394 GAAATCTATT
Statistics
Matches: 125, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 125 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
Found at i:30267375 original size:96 final size:96
Alignment explanation
Indices: 30267218--30267391 Score: 251
Period size: 96 Copynumber: 1.8 Consensus size: 96
30267208 GTTATGACAT
* * *
30267218 AAGGGTGGCACGGACTATGTGCAGGCCACCGGTAATCTGTTACGATACAAGGGTGGCACGGACTG
1 AAGGGTGGCACGAACTATGTGCAGGCCACCGGTAATCTGTTACGACACAAAGGTGGCACGGACTG
30267283 TGTGCAGGCCACCAATAACCTGTTAAGATAC
66 TGTGCAGGCCACCAATAACCTGTTAAGATAC
* * ** *
30267314 AAGGGTGGTACGAACTATGTGCAGGCCACTGAG-AATCTGTTATTACACAAAGGTGGTACGGACT
1 AAGGGTGGCACGAACTATGTGCAGGCCACCG-GTAATCTGTTACGACACAAAGGTGGCACGGACT
*
30267378 GTGTGTAGGCCACC
65 GTGTGCAGGCCACC
30267392 GAGAAATCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
96 67 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.21
Consensus pattern (96 bp):
AAGGGTGGCACGAACTATGTGCAGGCCACCGGTAATCTGTTACGACACAAAGGTGGCACGGACTG
TGTGCAGGCCACCAATAACCTGTTAAGATAC
Found at i:30269582 original size:21 final size:21
Alignment explanation
Indices: 30269558--30269628 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
30269548 AAGCGTGAAT
30269558 ATCAAAATCCAAAACTTAAAA
1 ATCAAAATCCAAAACTTAAAA
* *
30269579 ATCAAAACCCCAAA-TCTAAAA
1 ATCAAAATCCAAAACT-TAAAA
* ** *
30269600 CTCAAAATTTAAAACTTGAAA
1 ATCAAAATCCAAAACTTAAAA
*
30269621 CTCAAAAT
1 ATCAAAAT
30269629 TTAAGAGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.03
21 38 0.95
22 1 0.03
ACGTcount: A:0.56, C:0.21, G:0.01, T:0.21
Consensus pattern (21 bp):
ATCAAAATCCAAAACTTAAAA
Found at i:30272892 original size:21 final size:21
Alignment explanation
Indices: 30272834--30272891 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
30272824 AAATAAAATG
* * *
30272834 GTTTTCCCTGTAAAAAACCAA
1 GTTTTTCCTGTAAAAATCTAA
30272855 GTTTTTCCTGTAAAAATCTAA
1 GTTTTTCCTGTAAAAATCTAA
30272876 GTTATTTCCTGTAAAA
1 GTT-TTTCCTGTAAAA
30272892 TTTCAACTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
GTTTTTCCTGTAAAAATCTAA
Found at i:30272904 original size:21 final size:21
Alignment explanation
Indices: 30272835--30272914 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 21
30272825 AATAAAATGG
* * * *
30272835 TTTTCCCTGTAAAAAACCAAG
1 TTTTTCCTGTAAAAATCTAAC
*
30272856 TTTTTCCTGTAAAAATCTAAG
1 TTTTTCCTGTAAAAATCTAAC
*
30272877 TTATTTCCTGT-AAAATTTCAAC
1 TT-TTTCCTGTAAAAATCT-AAC
*
30272899 TTTTTCCCTGAAAAAA
1 TTTTT-CCTGTAAAAA
30272915 ATAAAATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
21 29 0.59
22 16 0.33
23 4 0.08
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (21 bp):
TTTTTCCTGTAAAAATCTAAC
Found at i:30272908 original size:22 final size:20
Alignment explanation
Indices: 30272834--30272905 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 20
30272824 AAATAAAATG
* *
30272834 GTTTTCCCTGTAAAAAACCAA
1 GTTTTTCCTGT-AAAAATCAA
30272855 GTTTTTCCTGTAAAAATCTAA
1 GTTTTTCCTGTAAAAATC-AA
*
30272876 GTTATTTCCTGTAAAATTTCAA
1 GTT-TTTCCTGTAAAA-ATCAA
*
30272898 CTTTTTCC
1 GTTTTTCC
30272906 CTGAAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
20 6 0.14
21 20 0.45
22 16 0.36
23 2 0.05
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (20 bp):
GTTTTTCCTGTAAAAATCAA
Found at i:30278555 original size:31 final size:32
Alignment explanation
Indices: 30278496--30278560 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
30278486 GGCAAATTAC
30278496 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
30278528 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
30278559 AA
1 AA
30278561 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:30281383 original size:17 final size:17
Alignment explanation
Indices: 30281361--30281416 Score: 103
Period size: 17 Copynumber: 3.3 Consensus size: 17
30281351 CAACCAAGAA
30281361 CACATTTCCATTACATT
1 CACATTTCCATTACATT
30281378 CACATTTCCATTACATT
1 CACATTTCCATTACATT
*
30281395 CACATCTCCATTACATT
1 CACATTTCCATTACATT
30281412 CACAT
1 CACAT
30281417 GTGATATGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (17 bp):
CACATTTCCATTACATT
Found at i:30282017 original size:20 final size:21
Alignment explanation
Indices: 30281986--30282024 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30281976 AAGTAAACTT
*
30281986 AAATATCAATTTAACCACTAA
1 AAATATCAATTTAAACACTAA
30282007 AAATA-CAATTTAAACACT
1 AAATATCAATTTAAACACT
30282025 CAAGTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATATCAATTTAAACACTAA
Found at i:30284257 original size:27 final size:27
Alignment explanation
Indices: 30284219--30284330 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
30284209 GTCACCGAGG
* *
30284219 CCCCTGATTTGTGAAATTATCGAAATA
1 CCCCCGATTTGTAAAATTATCGAAATA
*
30284246 CCCCCGATTTGTAAAATTATTGAAATA
1 CCCCCGATTTGTAAAATTATCGAAATA
* * * *
30284273 -CCTCTAGTTTGTAAAATTACCGAAACA
1 CCCCCGA-TTTGTAAAATTATCGAAATA
* * *
30284300 CCCTCAATTTGTGAAATTA-CTGAAATA
1 CCCCCGATTTGTAAAATTATC-GAAATA
30284327 CCCC
1 CCCC
30284331 TTTAGGGTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
26 5 0.07
27 60 0.86
28 5 0.07
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (27 bp):
CCCCCGATTTGTAAAATTATCGAAATA
Found at i:30284310 original size:54 final size:54
Alignment explanation
Indices: 30284226--30284328 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
30284216 AGGCCCCTGA
* * * * *
30284226 TTTGTGAAATTATCGAAATACCCCCGATTTGTAAAATTATTGAAATACCTCTAG
1 TTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTACTGAAATACCTCTAG
* *
30284280 TTTGTAAAATTACCGAAACACCCTCAATTTGTGAAATTACTGAAATACC
1 TTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTACTGAAATACC
30284329 CCTTTAGGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (54 bp):
TTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTACTGAAATACCTCTAG
Found at i:30284345 original size:27 final size:27
Alignment explanation
Indices: 30284315--30284367 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
30284305 AATTTGTGAA
*
30284315 ATTACTGAAATACCCCTT-TAGGGTAAG
1 ATTACCGAAATA-CCCTTATAGGGTAAG
30284342 ATTACCGAAATACCCTTATAGGGTAA
1 ATTACCGAAATACCCTTATAGGGTAA
30284368 AATGACCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (27 bp):
ATTACCGAAATACCCTTATAGGGTAAG
Found at i:30284842 original size:28 final size:28
Alignment explanation
Indices: 30284756--30284847 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
30284746 TACTGCATAC
*
30284756 TGTTTCTGTATTGGGCTAAGGCCCGCCT
1 TGTTTCTGTATTGGGCTAAGGCCCACCT
*
30284784 TATTTCTGTATTGGGCTAAGGCCCACCT
1 TGTTTCTGTATTGGGCTAAGGCCCACCT
* * * *
30284812 TGTTTCTGTATCGGGCTAAAGCCTACAT
1 TGTTTCTGTATTGGGCTAAGGCCCACCT
30284840 TG-TTCTGT
1 TGTTTCTGT
30284848 TCTGTTACTG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
27 6 0.11
28 51 0.89
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (28 bp):
TGTTTCTGTATTGGGCTAAGGCCCACCT
Found at i:30292897 original size:25 final size:26
Alignment explanation
Indices: 30292863--30292933 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 26
30292853 CTTGTACATA
30292863 TATGCTCACACGAGCTGTG-AATCAG
1 TATGCTCACACGAGCTGTGAAATCAG
**
30292888 TATGCTCACACGAGCTGTGAAAATGGG
1 TATGCTCACACGAGCTGTG-AAATCAG
*
30292915 TCTGCTCACACGAGCTGTG
1 TATGCTCACACGAGCTGTG
30292934 GGTCAAAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 19 0.46
27 22 0.54
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (26 bp):
TATGCTCACACGAGCTGTGAAATCAG
Found at i:30306649 original size:3 final size:3
Alignment explanation
Indices: 30306641--30306673 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
30306631 TAACACACTT
30306641 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
30306674 GAATTATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:30314560 original size:19 final size:20
Alignment explanation
Indices: 30314518--30314560 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
30314508 TCATGCTTTC
*
30314518 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
30314538 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
30314556 TATTC
1 TATTC
30314561 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:30316898 original size:20 final size:20
Alignment explanation
Indices: 30316873--30316910 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30316863 TTAGAAATGG
*
30316873 ATATTTTTTAGATTTTTTAT
1 ATATTTTTCAGATTTTTTAT
30316893 ATATTTTTCAGATTTTTT
1 ATATTTTTCAGATTTTTT
30316911 TTATCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
ATATTTTTCAGATTTTTTAT
Found at i:30319027 original size:29 final size:28
Alignment explanation
Indices: 30318991--30319068 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
30318981 TCATGAGATT
30318991 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
30319021 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
30319048 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
30319069 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:30319341 original size:173 final size:174
Alignment explanation
Indices: 30319021--30319347 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
30319011 AAATTGTACA
* *
30319021 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
30319086 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
30319151 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
30319195 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
30319260 TGTGC-AACCCTATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
30319324 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
30319348 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:30327181 original size:29 final size:28
Alignment explanation
Indices: 30327145--30327222 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
30327135 TCATGAGATT
30327145 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
30327175 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
30327202 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
30327223 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:30327494 original size:172 final size:174
Alignment explanation
Indices: 30327175--30327500 Score: 566
Period size: 172 Copynumber: 1.9 Consensus size: 174
30327165 AAATTGTACA
* *
30327175 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
30327240 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
30327305 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
30327349 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
30327414 TGTGC-AACCC-ATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
30327477 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
30327501 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
172 75 0.52
173 5 0.03
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:30341916 original size:27 final size:28
Alignment explanation
Indices: 30341876--30341958 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 28
30341866 ACTAATGTGA
** * *
30341876 TCCATTCAGGGTTTTCCAGAAAGGC-AT
1 TCCATTCAAAGTTTGCCACAAAGGCTAT
30341903 TCCATTCAAAGTTTGCCACAAAGGCTAT
1 TCCATTCAAAGTTTGCCACAAAGGCTAT
* * * *
30341931 T-CTTTCAGAGTTCG-CACAAAAGCTAT
1 TCCATTCAAAGTTTGCCACAAAGGCTAT
30341957 TC
1 TC
30341959 TTAGCTATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
26 12 0.26
27 31 0.67
28 3 0.07
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (28 bp):
TCCATTCAAAGTTTGCCACAAAGGCTAT
Found at i:30347701 original size:18 final size:18
Alignment explanation
Indices: 30347665--30347702 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
30347655 AATACACTCA
*
30347665 TAATAATAAAATTACTTT
1 TAATAATAAAATTAATTT
30347683 TAAT-ATAAAATTATATTT
1 TAATAATAAAATTA-ATTT
30347701 TA
1 TA
30347703 GTTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATAATAAAATTAATTT
Found at i:30363598 original size:20 final size:22
Alignment explanation
Indices: 30363569--30363612 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
30363559 ATCAGAATCA
*
30363569 TTGGATACACA-AAC-CCATCC
1 TTGGAAACACAGAACTCCATCC
30363589 TTGGAAACACAGAACTCCATCC
1 TTGGAAACACAGAACTCCATCC
30363611 TT
1 TT
30363613 CTTTAGTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 3 0.14
22 8 0.38
ACGTcount: A:0.34, C:0.32, G:0.11, T:0.23
Consensus pattern (22 bp):
TTGGAAACACAGAACTCCATCC
Found at i:30367369 original size:18 final size:18
Alignment explanation
Indices: 30367336--30367385 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
30367326 GTGGCCTAAA
*
30367336 TTAG-CTAAATTAATCAAT
1 TTAGCCTAAATT-ATCAAC
30367354 TTAGCCTAAATTATCAAC
1 TTAGCCTAAATTATCAAC
**
30367372 AAAGCCTAAATTAT
1 TTAGCCTAAATTAT
30367386 TCTTGATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (18 bp):
TTAGCCTAAATTATCAAC
Found at i:30383180 original size:3 final size:3
Alignment explanation
Indices: 30383174--30383211 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
30383164 CTTTCTTCTT
30383174 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30383212 CTTGACTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30384045 original size:22 final size:23
Alignment explanation
Indices: 30384019--30384074 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
30384009 TTCCTTTTTC
*
30384019 TTTTTCTTTTTAATTTCATCA-T
1 TTTTTCTTTTTAATTTAATCATT
* * * *
30384041 TTTTTATTTTGATTTTAATTATT
1 TTTTTCTTTTTAATTTAATCATT
30384064 TTTTTCTTTTT
1 TTTTTCTTTTT
30384075 TTATTTTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTCTTTTTAATTTAATCATT
Found at i:30384882 original size:24 final size:25
Alignment explanation
Indices: 30384829--30384884 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
30384819 AAATTCAAAC
*
30384829 GAATGAAAGAATAATTATTCAAAAA
1 GAATGAAAGAATAATTACTCAAAAA
*
30384854 GAATGAAAGAAT-ATTGGCTCAAAAA
1 GAATGAAAGAATAATT-ACTCAAAAA
30384879 -AATGAA
1 GAATGAA
30384885 TGCGAAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.21
Consensus pattern (25 bp):
GAATGAAAGAATAATTACTCAAAAA
Found at i:30388311 original size:29 final size:27
Alignment explanation
Indices: 30388260--30388313 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
30388250 ACGTATATGA
*
30388260 TTTTAAAAAAGTAATCACCTAAATAGG
1 TTTTAAAAAAGTAATCACATAAATAGG
*
30388287 TTTTGAAAAAAGTAAATTACATAAATA
1 TTTT-AAAAAAGT-AATCACATAAATA
30388314 AAATTGACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 8 0.35
29 11 0.48
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.31
Consensus pattern (27 bp):
TTTTAAAAAAGTAATCACATAAATAGG
Found at i:30388579 original size:24 final size:23
Alignment explanation
Indices: 30388552--30388604 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
30388542 ATATAGATGA
*
30388552 TGAAACATATAAA-GATATAGAGTT
1 TGAAACATAAAAAGGATA-A-AGTT
30388576 TGAAA-ATAAAAAGGATAAAGTT
1 TGAAACATAAAAAGGATAAAGTT
*
30388598 TAAAACA
1 TGAAACA
30388605 ATGTTGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 8 0.32
23 8 0.32
24 9 0.36
ACGTcount: A:0.57, C:0.04, G:0.15, T:0.25
Consensus pattern (23 bp):
TGAAACATAAAAAGGATAAAGTT
Found at i:30390140 original size:44 final size:44
Alignment explanation
Indices: 30390091--30390291 Score: 180
Period size: 44 Copynumber: 4.6 Consensus size: 44
30390081 CTATATTTGG
*
30390091 TCTGCTCCACTGCAACTTCAGAGGGATAAGATC-GACGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG-CGATTTTAA
* * * **
30390135 TCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TG-GCTTCTTTTG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCG-AT-TTTAA
* * ***
30390179 TCTTCTCCACTGCAACGTCAGAGAGATAAGA-CTG-GA-TGCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCGATTTTAA
* * *
30390220 TCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCGATTTTAA
* * *
30390264 TCCGCCCCACTGCAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGAGAGATA
30390292 GGATTGGTTT
Statistics
Matches: 123, Mismatches: 27, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
41 28 0.23
42 4 0.03
43 3 0.02
44 88 0.72
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCGATTTTAA
Found at i:30390328 original size:129 final size:129
Alignment explanation
Indices: 30390091--30390331 Score: 322
Period size: 129 Copynumber: 1.9 Consensus size: 129
30390081 CTATATTTGG
* * * *
30390091 TCTGCTCCACTGCAACTTCAGAGGGATAAGATCGACGATTTTAATCTGCTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAAAGAGATAAGATCGACGATTTTAATCCGCCCCACTGCAACTTCAG
*** ** * *
30390156 GGAGATAGGATTGGCTTCTTTTGTCTTCTCCACTGCAACGTCAGAGAGATAAGACTGGATGCGA
66 GGAGATAGGATTGGCTTCTTCAATCTGATCAACTACAACGTCAGAGAGATAAGACTGGATGCGA
* *
30390220 TCTGCTCTACTGCAACTTCAAAGAGATAAGATCTG-TGATTTTAATCCGCCCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAAAGAGATAAGATC-GACGATTTTAATCCGCCCCACTGCAACTTCA
* * *
30390284 GGGAGATAGGATTGGTTTCTTCAATCTGATTAACTACAATGTCAGAGA
65 GGGAGATAGGATTGGCTTCTTCAATCTGATCAACTACAACGTCAGAGA
30390332 AGCAAGATTC
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
129 94 0.99
130 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (129 bp):
TCTGCTCCACTGCAACTTCAAAGAGATAAGATCGACGATTTTAATCCGCCCCACTGCAACTTCAG
GGAGATAGGATTGGCTTCTTCAATCTGATCAACTACAACGTCAGAGAGATAAGACTGGATGCGA
Found at i:30392671 original size:5 final size:5
Alignment explanation
Indices: 30392661--30392695 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
30392651 AAACTATTAA
30392661 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
30392696 AACATTCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:30398804 original size:24 final size:23
Alignment explanation
Indices: 30398747--30398793 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
30398737 AAACCTATAG
30398747 AAAA-AATATAACTAAGTTAAAT
1 AAAACAATATAACTAAGTTAAAT
30398769 AAAACTAATATAACTAAG-TAAAT
1 AAAAC-AATATAACTAAGTTAAAT
30398792 AA
1 AA
30398794 CAAAACCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.17
23 7 0.30
24 12 0.52
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAACAATATAACTAAGTTAAAT
Found at i:30398828 original size:59 final size:59
Alignment explanation
Indices: 30398736--30398859 Score: 248
Period size: 59 Copynumber: 2.1 Consensus size: 59
30398726 GCACTGATGG
30398736 AAAACCTATAGAAAAAATATAACTAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
1 AAAACCTATAGAAAAAATATAACTAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
30398795 AAAACCTATAGAAAAAATATAACTAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
1 AAAACCTATAGAAAAAATATAACTAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
30398854 AAAACC
1 AAAACC
30398860 AATTTGCAAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 65 1.00
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (59 bp):
AAAACCTATAGAAAAAATATAACTAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
Found at i:30403390 original size:40 final size:40
Alignment explanation
Indices: 30403353--30403538 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
30403343 GCTACTCGTT
*
30403353 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
30403393 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
30403433 CAAATGCCTT-TGGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
30403473 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
30403514 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30403539 CATCATTCAA
Statistics
Matches: 127, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.02
40 110 0.87
41 14 0.11
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30411396 original size:39 final size:40
Alignment explanation
Indices: 30411290--30411513 Score: 271
Period size: 39 Copynumber: 5.7 Consensus size: 40
30411280 GCTACTCGTT
*
30411290 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
30411330 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
30411370 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
30411409 CAAATGCCTTC-GGATCTTAGTCC-GAATTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
30411448 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30411489 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30411514 CATCATTCAA
Statistics
Matches: 166, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 79 0.48
40 75 0.45
41 12 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30411402 original size:79 final size:79
Alignment explanation
Indices: 30411290--30411513 Score: 276
Period size: 79 Copynumber: 2.8 Consensus size: 79
30411280 GCTACTCGTT
* *
30411290 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
30411354 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
* *
30411370 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC-G
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
*
30411433 AATTAGTAACTCGTA
65 AATTAGTAACTCGCA
* * * * *
30411448 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
30411512 GA
64 GA
30411514 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 31 0.25
79 68 0.54
80 26 0.21
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:30418580 original size:9 final size:9
Alignment explanation
Indices: 30418540--30418592 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
30418530 ATGTTTTGAA
30418540 TATTAATA-
1 TATTAATAT
30418548 T-TTATATAT
1 TATTA-ATAT
30418557 TA-TAAT-T
1 TATTAATAT
*
30418564 TAAATAATAT
1 T-ATTAATAT
30418574 TATTAATAT
1 TATTAATAT
30418583 TATTAATAT
1 TATTAATAT
30418592 T
1 T
30418593 TTCTACATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
7 5 0.13
8 7 0.18
9 24 0.63
10 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTAATAT
Found at i:30423494 original size:44 final size:45
Alignment explanation
Indices: 30423433--30423544 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 45
30423423 CGATCTACTT
* ** * *
30423433 CTACAACTTCAGAGAGATAAGATTTA-TGGTTTTAATCTGCTCTA
1 CTACAACTTCAGGGAGATAAGATTTATTGGCCTCAATCTGCTCCA
*
30423477 CTACAACTTCAGGGAGATAGGA-TTATTGGCCTCAATCTGCTCCA
1 CTACAACTTCAGGGAGATAAGATTTATTGGCCTCAATCTGCTCCA
* *
30423521 CTGCATCTTCAGGGAGATAAGATT
1 CTACAACTTCAGGGAGATAAGATT
30423545 CGCCATCTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.05
44 53 0.93
45 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (45 bp):
CTACAACTTCAGGGAGATAAGATTTATTGGCCTCAATCTGCTCCA
Found at i:30423638 original size:50 final size:50
Alignment explanation
Indices: 30423584--30423967 Score: 234
Period size: 50 Copynumber: 7.7 Consensus size: 50
30423574 TCGAGGAAAC
* *
30423584 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTAGACCGCCAGGGAAGT
1 AAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCAGGGAAGT
* ** ** *** **
30423634 AAGATTCGCCGTTGTGGCTTCAATCTATTTAACT-GCAATGTTGGGGAAAC
1 AAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAG-ACCGCCAGGGAAGT
* * * * * * * *
30423684 AAGATTCACCATCGTGACTTCAATATGTTCCCCTACACCACCAGGGAAGT
1 AAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCAGGGAAGT
** * * * * ** * * **
30423734 AAGATTCGCCGTTATGGCTTCAATCTCTT-TAATTGCAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAG-ACCGCCAGGGAAGT
* * * * *
30423784 AAGATTCGCCGTCGTGACTTCAATTTGTTCCCCTACACCGCCAGGGAAGT
1 AAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCAGGGAAGT
* * ** * ** * * **
30423834 AAGATTCGTCGTTGTGGCTTCAATCT-TTTTAATAGCAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAG-ACCGCCAGGGAAGT
* * * *
30423884 AAGATTCACCGTCGTAGCTTCAATCTATTCGACTACACCGCCAGGGAAGT
1 AAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCAGGGAAGT
* *
30423934 AAGATTTGCCGTTGTGGCTTCAATCTATTCCACT
1 AAGATTCGCCGTCGTGGCTTCAATCTATTCCACT
30423968 GTAATGCCAA
Statistics
Matches: 229, Mismatches: 99, Indels: 12
0.67 0.29 0.04
Matches are distributed among these distances:
49 6 0.03
50 217 0.95
51 6 0.03
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (50 bp):
AAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCAGGGAAGT
Found at i:30423990 original size:100 final size:100
Alignment explanation
Indices: 30423551--30423962 Score: 587
Period size: 100 Copynumber: 4.1 Consensus size: 100
30423541 GATTCGCCAT
* * * *
30423551 CTTCAATCTGTCTAACTGCAATGTCGAGGAAACAAGATTCGCCGTCGT-AGCTTCAATCTGTTCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCGTCGTGA-CTTCAATCTGTTCC
*
30423615 ACTAGACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
65 ACTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * * *
30423651 CTTCAATCTATTTAACTGCAATGTTGGGGAAACAAGATTCACCATCGTGACTTCAATATGTTCCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCGTCGTGACTTCAATCTGTTCCA
* *
30423716 CTACACCACCAGGGAAGTAAGATTCGCCGTTATGG
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * * * *
30423751 CTTCAATCTCTTTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATTTGTTCCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCGTCGTGACTTCAATCTGTTCCA
*
30423816 CTACACCGCCAGGGAAGTAAGATTCGTCGTTGTGG
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* *
30423851 CTTCAATCTTTTTAA-TAGCAATGTCGGGGAAACAAGATTCACCGTCGT-AGCTTCAATCTATTC
1 CTTCAATCTATTTAACT-GCAATGTCGGGGAAACAAGATTCACCGTCGTGA-CTTCAATCTGTTC
* *
30423914 GACTACACCGCCAGGGAAGTAAGATTTGCCGTTGTGG
64 CACTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
30423951 CTTCAATCTATT
1 CTTCAATCTATT
30423963 CCACTGTAAT
Statistics
Matches: 280, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
99 2 0.01
100 277 0.99
101 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (100 bp):
CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCGTCGTGACTTCAATCTGTTCCA
CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
Found at i:30428200 original size:15 final size:14
Alignment explanation
Indices: 30428180--30428226 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
30428170 TAGCCTCTCT
*
30428180 ATTTTTACTTTTTCC
1 ATTTTTAATTTTT-C
30428195 ATTTTTAATTTTTC
1 ATTTTTAATTTTTC
*
30428209 A-TTTTCA-TTTTC
1 ATTTTTAATTTTTC
30428221 ATTTTT
1 ATTTTT
30428227 TACATCATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 6 0.21
13 9 0.31
14 2 0.07
15 12 0.41
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTAATTTTTC
Found at i:30428774 original size:13 final size:12
Alignment explanation
Indices: 30428758--30428802 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
30428748 TATTTTTTTG
*
30428758 TTTTTTATTCTT
1 TTTTTTGTTCTT
30428770 CTTTTTTGTTCCTT
1 -TTTTTTGTT-CTT
30428784 TTTTTTGTTCTGT
1 TTTTTTGTTCT-T
30428797 TTTTTT
1 TTTTTT
30428803 TTTGGAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 2 0.07
13 24 0.83
14 3 0.10
ACGTcount: A:0.02, C:0.11, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTTGTTCTT
Found at i:30428788 original size:14 final size:13
Alignment explanation
Indices: 30428718--30428803 Score: 59
Period size: 14 Copynumber: 6.4 Consensus size: 13
30428708 CTGGTAGAAG
30428718 TTTTTGTTTCTTTT
1 TTTTTG-TTCTTTT
* *
30428732 TGTTT-TTATTTT
1 TTTTTGTTCTTTT
*
30428744 TATTTAT-TTTTTTGT
1 T-TTT-TGTTCTTT-T
* *
30428759 TTTTTATTCTTCT
1 TTTTTGTTCTTTT
*
30428772 TTTTTGTTCCTTT
1 TTTTTGTTCTTTT
30428785 TTTTTGTTCTGTTT
1 TTTTTGTTCT-TTT
30428799 TTTTT
1 TTTTT
30428804 TTGGAATTTG
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
12 7 0.12
13 23 0.40
14 25 0.44
15 2 0.04
ACGTcount: A:0.05, C:0.07, G:0.07, T:0.81
Consensus pattern (13 bp):
TTTTTGTTCTTTT
Found at i:30434503 original size:47 final size:47
Alignment explanation
Indices: 30434440--30434866 Score: 324
Period size: 47 Copynumber: 8.7 Consensus size: 47
30434430 ATGATAGTAT
30434440 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
30434487 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
30434534 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-A
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
** *** * * *
30434580 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA-TGTGA-A-A-GTGTATATA
1 G-GCCTA-ATG-GCCGATG--TGAT-G--AATGTGA--AAGTGT-ATATATGTG-ATA-A
* * **
30434636 TGTG-ATAAT-GCCTAATG-GCCG-ATGTGATGAA-TGTGA-A-A-GTGTATATA
1 -G-GCCTAATGGCC-GATGTGATGAATGTGA--AAGTGT-ATATATGTG-ATA-A
* *
30434683 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 -G-GCCTAA---T----GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
30434738 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
30434785 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
30434834 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
30434867 CTCGAAGGGC
Statistics
Matches: 325, Mismatches: 21, Indels: 65
0.79 0.05 0.16
Matches are distributed among these distances:
46 2 0.01
47 201 0.62
48 3 0.01
49 44 0.14
50 5 0.02
51 3 0.01
52 1 0.00
53 5 0.02
54 22 0.07
55 16 0.05
56 17 0.05
57 6 0.02
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Done.