Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 122 of 253
Found at i:38660915 original size:93 final size:93
Alignment explanation
Indices: 38660808--38660978 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
38660798 CGCCCTAAGT
* *
38660808 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38660873 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
38660901 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38660966 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38660979 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:38660975 original size:46 final size:46
Alignment explanation
Indices: 38660803--38660975 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
38660793 TAACCCGCCC
* * *
38660803 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
38660849 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
38660897 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
38660942 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38660976 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:38661419 original size:30 final size:30
Alignment explanation
Indices: 38661385--38661444 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38661375 ATTTAATACG
38661385 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
38661415 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
38661445 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:38668398 original size:46 final size:46
Alignment explanation
Indices: 38668331--38668452 Score: 217
Period size: 46 Copynumber: 2.7 Consensus size: 46
38668321 CGCCCCTAAA
* *
38668331 TGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
*
38668377 TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
38668423 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
38668453 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
Found at i:38672490 original size:40 final size:40
Alignment explanation
Indices: 38672252--38672476 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
38672242 TCGAATGATG
* * * *
38672252 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38672292 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38672332 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38672371 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38672411 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38672452 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38672477 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38672498 original size:119 final size:119
Alignment explanation
Indices: 38672252--38672509 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
38672242 TCGAATGATG
* *
38672252 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
38672317 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
38672371 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
38672434 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
38672491 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38672510 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:38680520 original size:40 final size:40
Alignment explanation
Indices: 38680436--38680660 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
38680426 TCGAATGATG
* * * *
38680436 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38680476 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38680516 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38680555 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38680595 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38680636 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38680661 AATGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38680682 original size:119 final size:119
Alignment explanation
Indices: 38680436--38680683 Score: 281
Period size: 119 Copynumber: 2.1 Consensus size: 119
38680426 TCGAATGATG
* *
38680436 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
38680501 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
38680555 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
38680618 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
38680675 TCC-GGTTAA
1 TCCGGGTTAA
38680684 ATTCCGAGGT
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 76 0.70
120 30 0.28
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:38687231 original size:23 final size:24
Alignment explanation
Indices: 38687205--38687254 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
38687195 TGATTTTTAA
*
38687205 ATTTTA-AATTATTTAGTGATAAT
1 ATTTTAGAAATATTTAGTGATAAT
38687228 A-TTTAGAAATATTTAGTGATAAT
1 ATTTTAGAAATATTTAGTGATAAT
38687251 ATTT
1 ATTT
38687255 AGGAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 18 0.75
24 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTTAGAAATATTTAGTGATAAT
Found at i:38687232 original size:13 final size:13
Alignment explanation
Indices: 38687214--38687256 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
38687204 AATTTTAAAT
38687214 TATTTAGTGATAA
1 TATTTAGTGATAA
38687227 TATTTA--GA-AA
1 TATTTAGTGATAA
38687237 TATTTAGTGATAA
1 TATTTAGTGATAA
38687250 TATTTAG
1 TATTTAG
38687257 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 8 0.30
11 2 0.07
12 2 0.07
13 15 0.56
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:38688754 original size:20 final size:20
Alignment explanation
Indices: 38688729--38688781 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
38688719 GAACCCTTCT
38688729 ATTTACTTACTTTCCATTGC
1 ATTTACTTACTTTCCATTGC
*
38688749 ATTTACTTACTTTTCATTGC
1 ATTTACTTACTTTCCATTGC
38688769 ATTTACTTACTTT
1 ATTTACTTACTTT
38688782 AGCTTAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.55
Consensus pattern (20 bp):
ATTTACTTACTTTCCATTGC
Found at i:38689351 original size:21 final size:20
Alignment explanation
Indices: 38689319--38689360 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 20
38689309 TAGACATACT
38689319 TTCATTTAACATACCATTTTCA
1 TTCATTTAACATA-C-TTTTCA
38689341 TTCATTT-ACATACTTTTCA
1 TTCATTTAACATACTTTTCA
38689360 T
1 T
38689361 GATATAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 5 0.25
22 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (20 bp):
TTCATTTAACATACTTTTCA
Found at i:38689826 original size:45 final size:46
Alignment explanation
Indices: 38689777--38690035 Score: 198
Period size: 45 Copynumber: 5.8 Consensus size: 46
38689767 ATTTGATTTG
* *
38689777 TGATGCCATAGCGTCCTTT-A-ACTAAGGTCTTACTCAATAGAATTA
1 TGATGCCATAACGTCCTTTCAGAC-AAGGTCTTACTCAATAGAATCA
* * * *
38689822 TGATGCCATAACAT-CTTTCAGACATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCCTTTCAGACAAGGTCTTACTCAATAGAATCA
* * **
38689867 TGATGCCATAACGT-CTTTCAGTCATGGTCTTACTTGATAG--TCA
1 TGATGCCATAACGTCCTTTCAGACAAGGTCTTACTCAATAGAATCA
** * * * *
38689910 TGATGCCATAACGT-CTTTCAGTTATGGTCTTACTCAATGGAGTCG
1 TGATGCCATAACGTCCTTTCAGACAAGGTCTTACTCAATAGAATCA
* * * * *
38689955 TGATGCCATAATGT-CTTTTAGTCCTA-GTCTTACTCTATAGAATCA
1 TGATGCCATAACGTCCTTTCAG-ACAAGGTCTTACTCAATAGAATCA
* * *
38690000 TGATGTCATAATGT-CTTTCA-ATCATGGTCTTACTCA
1 TGATGCCATAACGTCCTTTCAGA-CAAGGTCTTACTCA
38690036 TTTCTAATAT
Statistics
Matches: 176, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
43 38 0.22
44 5 0.03
45 131 0.74
46 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (46 bp):
TGATGCCATAACGTCCTTTCAGACAAGGTCTTACTCAATAGAATCA
Found at i:38689940 original size:88 final size:89
Alignment explanation
Indices: 38689803--38690035 Score: 290
Period size: 88 Copynumber: 2.6 Consensus size: 89
38689793 TTTAACTAAG
* * * * *
38689803 GTCTTACTCAATAGAATTATGATGCCATAACATCTTTCAGACATGGTCTTACTCGATAGAATCGT
1 GTCTTACTCTATAG-ATCATGATGCCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAATCGT
*
38689868 GATGCCATAACGTCTTTCAGTCATG
65 GATGCCATAACGTCTTTCAGTCATA
* * *
38689893 GTCTTACT-TGATAG-TCATGATGCCATAACGTCTTTCAGTTATGGTCTTACTCAATGGAGTCGT
1 GTCTTACTCT-ATAGATCATGATGCCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAATCGT
* * *
38689956 GATGCCATAATGTCTTTTAGTCCTA
65 GATGCCATAACGTCTTTCAGTCATA
* * *
38689981 GTCTTACTCTATAGAATCATGATGTCATAATGTCTTTCAATCATGGTCTTACTCA
1 GTCTTACTCTATAG-ATCATGATGCCATAACGTCTTTCAGTCATGGTCTTACTCA
38690036 TTTCTAATAT
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
88 75 0.61
89 1 0.01
90 47 0.38
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (89 bp):
GTCTTACTCTATAGATCATGATGCCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAATCGTG
ATGCCATAACGTCTTTCAGTCATA
Found at i:38690074 original size:45 final size:45
Alignment explanation
Indices: 38690006--38690129 Score: 126
Period size: 46 Copynumber: 2.7 Consensus size: 45
38689996 ATCATGATGT
* * **
38690006 CATAATGTCTTTCAA-TCATGGTCTTACTCATTTCTAATATGGTGC
1 CATAGTGTCTTTCAACT-ATGGTCTTAATCATTTCTAATATAATGC
* * ** *
38690051 CATAGTGTCTTTCAACTAAGGTCTTATTTGTTCTCTAGTATAATGC
1 CATAGTGTCTTTCAACTATGGTCTTAATCATT-TCTAATATAATGC
38690097 CATAGTG-CTTTTCAACTATGGTCTTAATCATTT
1 CATAGTGTC-TTTCAACTATGGTCTTAATCATTT
38690130 TCCCTCAAGC
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
45 27 0.42
46 37 0.58
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.44
Consensus pattern (45 bp):
CATAGTGTCTTTCAACTATGGTCTTAATCATTTCTAATATAATGC
Found at i:38691821 original size:34 final size:34
Alignment explanation
Indices: 38691778--38691846 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
38691768 TGCAGACTAA
*
38691778 AACACCCCTCTCTTTCGTGTTTTATTCTCGTGGT
1 AACACCCCTCTCTTTCATGTTTTATTCTCGTGGT
38691812 AACACCCCTCTCTTTCATGTTTTATTCTCGTGGT
1 AACACCCCTCTCTTTCATGTTTTATTCTCGTGGT
38691846 A
1 A
38691847 GAGTCGATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.14, C:0.29, G:0.13, T:0.43
Consensus pattern (34 bp):
AACACCCCTCTCTTTCATGTTTTATTCTCGTGGT
Found at i:38705037 original size:18 final size:18
Alignment explanation
Indices: 38705014--38705057 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
38705004 CAGTACCTTT
*
38705014 AATTTTGAAACTGTTAAA
1 AATTTTAAAACTGTTAAA
38705032 AATTTTAAAACTGTTAAA
1 AATTTTAAAACTGTTAAA
*
38705050 GATTTTAA
1 AATTTTAA
38705058 GATTTGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (18 bp):
AATTTTAAAACTGTTAAA
Found at i:38708640 original size:53 final size:53
Alignment explanation
Indices: 38708578--38708804 Score: 167
Period size: 53 Copynumber: 4.3 Consensus size: 53
38708568 ACTACAAAGG
* * * *
38708578 TATTACGATAATTTTACAAATTGGGGTGTTTCGATAATTTTAGAAATTGAGGG-
1 TATTTCGATAATTTTACAAATTGAGGTGTTTCGATAATTTTACAAATCG-GGGA
* * * * *
38708631 TGTTTCGATAATTTTAAAAATTGAAGGTGCTTCAATAATTTCACAAATCGGGGA
1 TATTTCGATAATTTTACAAATTG-AGGTGTTTCGATAATTTTACAAATCGGGGA
** * *
38708685 TATTTC-AGTAATTTTACAAATCAAGGTATTTCGATAATTTTACAAATCGAAGG-
1 TATTTCGA-TAATTTTACAAATTGAGGTGTTTCGATAATTTTACAAATCG-GGGA
* * * * ** * *
38708738 TATCTCAACAATTTCAC-AATCAAAGGTATTTCTG-TAATTTTACAAATCGGGGG
1 TATTTCGATAATTTTACAAAT-TGAGGTGTTTC-GATAATTTTACAAATCGGGGA
*
38708791 TATTTCGGTAATTT
1 TATTTCGATAATTT
38708805 CTATTTATTA
Statistics
Matches: 139, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
52 5 0.04
53 93 0.67
54 41 0.29
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (53 bp):
TATTTCGATAATTTTACAAATTGAGGTGTTTCGATAATTTTACAAATCGGGGA
Found at i:38708671 original size:80 final size:80
Alignment explanation
Indices: 38708585--38708804 Score: 207
Period size: 80 Copynumber: 2.8 Consensus size: 80
38708575 AGGTATTACG
* * * * * * *
38708585 ATAATTTTACAAATTGGGG-TGTTTC-GATAATTTTAGAAATTGAGGGTGTTTCGATAATTTTAA
1 ATAATTTCACAAATCGGGGATATTTCAG-TAATTTTACAAA-TCAAGGTATTTCGATAATTTTAA
*
38708648 AAATTGAAGGTGCTTCA
64 AAATCGAAGGTGCTTCA
*
38708665 ATAATTTCACAAATCGGGGATATTTCAGTAATTTTACAAATCAAGGTATTTCGATAATTTTACAA
1 ATAATTTCACAAATCGGGGATATTTCAGTAATTTTACAAATCAAGGTATTTCGATAATTTTAAAA
*
38708730 ATCGAAGGT-ATCTCA
66 ATCGAAGGTGCT-TCA
* ** * ** *
38708745 ACAATTTCAC-AATCAAAGG-TATTTCTGTAATTTTACAAATCGGGGGTATTTCGGTAATTT
1 ATAATTTCACAAATC-GGGGATATTTCAGTAATTTTACAAATC-AAGGTATTTCGATAATTT
38708805 CTATTTATTA
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
79 26 0.22
80 75 0.64
81 16 0.14
82 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (80 bp):
ATAATTTCACAAATCGGGGATATTTCAGTAATTTTACAAATCAAGGTATTTCGATAATTTTAAAA
ATCGAAGGTGCTTCA
Found at i:38708801 original size:27 final size:27
Alignment explanation
Indices: 38708574--38708804 Score: 186
Period size: 27 Copynumber: 8.7 Consensus size: 27
38708564 TTACACTACA
* *
38708574 AAGGTATTACGATAATTTTACAAATTG
1 AAGGTATTTCGATAATTTTACAAATCG
* * * *
38708601 -GGGTGTTTCGATAATTTTAGAAATTG
1 AAGGTATTTCGATAATTTTACAAATCG
* * * *
38708627 AGGGTGTTTCGATAATTTTAAAAATTG
1 AAGGTATTTCGATAATTTTACAAATCG
** * *
38708654 AAGGTGCTTCAATAATTTCACAAATCG
1 AAGGTATTTCGATAATTTTACAAATCG
*
38708681 -GGGATATTTC-AGTAATTTTACAAATC-
1 AAGG-TATTTCGA-TAATTTTACAAATCG
38708707 AAGGTATTTCGATAATTTTACAAATCG
1 AAGGTATTTCGATAATTTTACAAATCG
* * * * *
38708734 AAGGTATCTCAACAATTTCAC-AATCA
1 AAGGTATTTCGATAATTTTACAAATCG
38708760 AAGGTATTTCTG-TAATTTTACAAATCG
1 AAGGTATTTC-GATAATTTTACAAATCG
** *
38708787 GGGGTATTTCGGTAATTT
1 AAGGTATTTCGATAATTT
38708805 CTATTTATTA
Statistics
Matches: 167, Mismatches: 28, Indels: 18
0.78 0.13 0.08
Matches are distributed among these distances:
26 66 0.40
27 101 0.60
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (27 bp):
AAGGTATTTCGATAATTTTACAAATCG
Found at i:38708805 original size:53 final size:53
Alignment explanation
Indices: 38708606--38708805 Score: 172
Period size: 53 Copynumber: 3.8 Consensus size: 53
38708596 AATTGGGGTG
* * * * * * * *
38708606 TTTCGATAATTTTAGAAATTGAGGGTGTTTC-GATAATTTTAAAAATTGAAGGTG
1 TTTCGATAATTTTACAAATCGGGGGTATTTCAG-TAATTTCACAAA-TCAAGGTA
* * * * *
38708660 CTTCAATAATTTCACAAATCGGGGATATTTCAGTAATTTTACAAATCAAGGTA
1 TTTCGATAATTTTACAAATCGGGGGTATTTCAGTAATTTCACAAATCAAGGTA
** * **
38708713 TTTCGATAATTTTACAAATCGAAGGTATCTCAACAATTTCAC-AATCAAAGGTA
1 TTTCGATAATTTTACAAATCGGGGGTATTTCAGTAATTTCACAAATC-AAGGTA
*
38708766 TTTCTG-TAATTTTACAAATCGGGGGTATTTCGGTAATTTC
1 TTTC-GATAATTTTACAAATCGGGGGTATTTCAGTAATTTC
38708806 TATTTATTAT
Statistics
Matches: 116, Mismatches: 27, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
52 4 0.03
53 76 0.66
54 35 0.30
55 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.38
Consensus pattern (53 bp):
TTTCGATAATTTTACAAATCGGGGGTATTTCAGTAATTTCACAAATCAAGGTA
Found at i:38709153 original size:28 final size:28
Alignment explanation
Indices: 38709121--38709183 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
38709111 GGCTCCTTAG
* *
38709121 GGCCCAATCTCGTTAACATGGCCCATCA
1 GGCCCAATCACATTAACATGGCCCATCA
* *
38709149 GGCCCAATCACATTCATATGGCCCATCA
1 GGCCCAATCACATTAACATGGCCCATCA
*
38709177 AGCCCAA
1 GGCCCAA
38709184 CTACTTCCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.37, G:0.16, T:0.19
Consensus pattern (28 bp):
GGCCCAATCACATTAACATGGCCCATCA
Found at i:38712092 original size:27 final size:27
Alignment explanation
Indices: 38712012--38712342 Score: 157
Period size: 27 Copynumber: 11.3 Consensus size: 27
38712002 CAAAATAGTC
* * * *
38712012 ATTTTACCCTACAGGGGTATGTT-GGTC
1 ATTTTACACTACAAGGGTAT-TTCGATA
38712039 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
*
38712066 ATTTTACACTACAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* *
38712093 ATTATGTCGATCATTTTACACTACAAGGGTATTTCAATA
1 ATT-T-T--A-CA--CT--A---CAAGGGTATTTCGATA
38712132 ATTTTTACACTACAAGGGTATTTCGATA
1 A-TTTTACACTACAAGGGTATTTCGATA
* *
38712160 ATTTTACATTACAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* *
38712187 ATTATGTCGGTCATTTTACATTACAAGGGTATTTCGATA
1 ATT-T-T---ACA--CT--A---CAAGGGTATTTCGATA
*
38712226 ATTTTTACACTACAAGGGTATTTTGATA
1 A-TTTTACACTACAAGGGTATTTCGATA
* * *
38712254 ATTTTACA-AATCGAGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* ** *
38712281 ATTTTACA-AATCGGGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* ** *
38712308 ATTTTACA-AATTGAGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
38712335 ATTTTACA
1 ATTTTACA
38712343 AATCGAGGGT
Statistics
Matches: 252, Mismatches: 24, Indels: 56
0.76 0.07 0.17
Matches are distributed among these distances:
26 3 0.01
27 155 0.62
28 34 0.13
29 2 0.01
31 3 0.01
32 4 0.02
33 2 0.01
34 3 0.01
35 4 0.02
36 3 0.01
38 2 0.01
39 33 0.13
40 4 0.02
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:38712133 original size:39 final size:39
Alignment explanation
Indices: 38712060--38712134 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
38712050 CAAGGGTATT
**
38712060 TCGATAATTTTACACTACAAGGGTATTTTGATAATTATG
1 TCGATAATTTTACACTACAAGGGTATTTCAATAATTATG
*
38712099 TCGATCATTTTACACTACAAGGGTATTTCAATAATT
1 TCGATAATTTTACACTACAAGGGTATTTCAATAATT
38712135 TTTACACTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
TCGATAATTTTACACTACAAGGGTATTTCAATAATTATG
Found at i:38712135 original size:66 final size:67
Alignment explanation
Indices: 38712037--38712162 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 67
38712027 GGTATGTTGG
* *
38712037 TCATTTTACACTACAAGGGTATTTCGATAA-TTTTACACTACAAGGGTATTTTGATAATTATGTC
1 TCATTTTACACTACAAGGGTATTTCAATAATTTTTACACTACAAGGGTATTTCGATAATTATGTC
38712101 GA
66 GA
38712103 TCATTTTACACTACAAGGGTATTTCAATAATTTTTACACTACAAGGGTATTTCGATAATT
1 TCATTTTACACTACAAGGGTATTTCAATAATTTTTACACTACAAGGGTATTTCGATAATT
38712163 TTACATTACA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
66 29 0.51
67 28 0.49
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (67 bp):
TCATTTTACACTACAAGGGTATTTCAATAATTTTTACACTACAAGGGTATTTCGATAATTATGTC
GA
Found at i:38712144 original size:28 final size:27
Alignment explanation
Indices: 38712105--38712181 Score: 127
Period size: 28 Copynumber: 2.8 Consensus size: 27
38712095 TATGTCGATC
38712105 ATTTTACACTACAAGGGTATTTCAATA
1 ATTTTACACTACAAGGGTATTTCAATA
*
38712132 ATTTTTACACTACAAGGGTATTTCGATA
1 A-TTTTACACTACAAGGGTATTTCAATA
*
38712160 ATTTTACATTACAAGGGTATTT
1 ATTTTACACTACAAGGGTATTT
38712182 TGATAATTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 21 0.45
28 26 0.55
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAATA
Found at i:38712173 original size:94 final size:94
Alignment explanation
Indices: 38712040--38712261 Score: 399
Period size: 94 Copynumber: 2.4 Consensus size: 94
38712030 ATGTTGGTCA
38712040 TTTTACACTACAAGGGTATTTCGATAATTTTACACTACAAGGGTATTTTGATAATTATGTCGATC
1 TTTTACACTACAAGGGTATTTCGATAATTTTACACTACAAGGGTATTTTGATAATTATGTCGATC
38712105 ATTTTACACTACAAGGGTATTTCAATAAT
66 ATTTTACACTACAAGGGTATTTCAATAAT
* *
38712134 TTTTACACTACAAGGGTATTTCGATAATTTTACATTACAAGGGTATTTTGATAATTATGTCGGTC
1 TTTTACACTACAAGGGTATTTCGATAATTTTACACTACAAGGGTATTTTGATAATTATGTCGATC
* *
38712199 ATTTTACATTACAAGGGTATTTCGATAAT
66 ATTTTACACTACAAGGGTATTTCAATAAT
*
38712228 TTTTACACTACAAGGGTATTTTGATAATTTTACA
1 TTTTACACTACAAGGGTATTTCGATAATTTTACA
38712262 AATCGAGGGT
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 123 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (94 bp):
TTTTACACTACAAGGGTATTTCGATAATTTTACACTACAAGGGTATTTTGATAATTATGTCGATC
ATTTTACACTACAAGGGTATTTCAATAAT
Found at i:38712343 original size:27 final size:27
Alignment explanation
Indices: 38712212--38712675 Score: 459
Period size: 27 Copynumber: 17.3 Consensus size: 27
38712202 TTACATTACA
* *
38712212 AGGGTATTTCGATAATTTTTAC-ACTACA
1 AGGGTATTTCGATAA-TTTTACAAAT-CG
*
38712240 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
38712267 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
38712294 GGGGTGTTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
38712321 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
38712348 AGGGTGTTTTCG-TAATTTCAC-AATCG
1 AGGGT-ATTTCGATAATTTTACAAATCG
* * * *
38712374 AGGGTATTTTGGTAATTTTGCAAAGCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
38712401 AGGGTATTTC-AGTAATTTCAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
38712427 AGGGTATTTTGGTAATTTTACTAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
38712454 -GGAGTATTT-TAGTAATTTTACAAATCG
1 AGG-GTATTTCGA-TAATTTTACAAATCG
* * * *
38712481 AGGCTATTT-TAGTTATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
38712507 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
38712534 GGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
38712561 AGGGTATTT-TAGTAATTTCAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
38712587 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
38712614 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
38712641 AGGGTATTT-TAGTAATTTCAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
38712667 AGGGTATTT
1 AGGGTATTT
38712676 ACTAATCGGG
Statistics
Matches: 370, Mismatches: 50, Indels: 34
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.01
26 94 0.25
27 249 0.67
28 23 0.06
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:38712403 original size:53 final size:53
Alignment explanation
Indices: 38712240--38712675 Score: 470
Period size: 53 Copynumber: 8.2 Consensus size: 53
38712230 TTACACTACA
* * * *
38712240 AGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
* * * * * *
38712294 GGGGTGTTTCGATAATTTTACAAATTGAGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
* * * *
38712348 AGGGTGTTTTCGTAATTTCAC-AATCGAGGGTATTTTGGTAATTTTGCAAAGCG
1 AGGGT-ATTTCGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
* * *
38712401 AGGGTATTTCAGTAATTTCAC-AATTGAGGGTATTTTGGTAATTTTACTAATCG
1 AGGGTATTTC-GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
* * * * *
38712454 -GGAGTATTTTAGTAATTTTACAAATCGAGGCTATTTTAGTTATTTCAC-AATCG
1 AGG-GTA-TTTCGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
*
38712507 AGGGTATTTCGATAATTTTACAAATCGGGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
* * * * *
38712561 AGGGTATTTTAGTAATTTCAC-AATTGAGGGTATTTCGATAATTTTACAAATCG
1 AGGGTA-TTTCGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
* * *
38712614 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
38712667 AGGGTATTT
1 AGGGTATTT
38712676 ACTAATCGGG
Statistics
Matches: 326, Mismatches: 45, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
52 14 0.04
53 175 0.54
54 128 0.39
55 9 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGTATTTCGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
Found at i:38712453 original size:80 final size:80
Alignment explanation
Indices: 38712240--38712675 Score: 540
Period size: 80 Copynumber: 5.4 Consensus size: 80
38712230 TTACACTACA
* * * * *
38712240 AGGGTATTTT-GATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGGGGGTGTTTC
1 AGGGTATTTTAG-TAATTTCAC-AATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTT
* *
38712304 GATAATTTTACAAATTG
64 GGTAATTTTACAAATCG
* * * * *
38712321 AGGGT-GTTTCGATAATTTTACAAATCGAGGGTGTTTTCG-TAATTTCAC-AATCGAGGGTATTT
1 AGGGTATTTTAG-TAATTTCAC-AATCGAGGGT-ATTTCGATAATTTTACAAATCGAGGGTATTT
* *
38712383 TGGTAATTTTGCAAAGCG
63 TGGTAATTTTACAAATCG
* * * * * *
38712401 AGGGTATTTCAGTAATTTCACAATTGAGGGTATTTTGGTAATTTTACTAATCG-GGAGTATTTTA
1 AGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGG-GTATTTTG
38712465 GTAATTTTACAAATCG
65 GTAATTTTACAAATCG
* * *
38712481 AGGCTATTTTAGTTATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGGGGGTATTTTGG
1 AGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGG
38712546 TAATTTTACAAATCG
66 TAATTTTACAAATCG
* * *
38712561 AGGGTATTTTAGTAATTTCACAATTGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA
1 AGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGG
38712626 TAATTTTACAAATCG
66 TAATTTTACAAATCG
*
38712641 AGGGTATTTTAGTAATTTCACAATTGAGGGTATTT
1 AGGGTATTTTAGTAATTTCACAATCGAGGGTATTT
38712676 ACTAATCGGG
Statistics
Matches: 313, Mismatches: 35, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
78 4 0.01
79 19 0.06
80 245 0.78
81 40 0.13
82 5 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (80 bp):
AGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGG
TAATTTTACAAATCG
Found at i:38719801 original size:46 final size:46
Alignment explanation
Indices: 38719748--38719920 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
38719738 TGGTTGAGCA
38719748 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
* * * *
38719794 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-ACTAGGCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATAC-A--AATG
* * * * *
38719842 T-CGAACTTGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
* * *
38719887 CCCGAGCTCGTTGAGTTGAGTCCGATTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38719921 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 63 0.62
47 32 0.32
48 2 0.02
49 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
Found at i:38720182 original size:19 final size:20
Alignment explanation
Indices: 38720145--38720182 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38720135 ATAAGGTGGT
38720145 AAGATGATGAATGATGTTTC
1 AAGATGATGAATGATGTTTC
38720165 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
38720183 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTC
Found at i:38725413 original size:22 final size:22
Alignment explanation
Indices: 38725382--38725425 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
38725372 ACTGAATTGG
38725382 TTTCTAAATAAGTACCAGGGGA
1 TTTCTAAATAAGTACCAGGGGA
*
38725404 TTTCTTAATAAGTACCAGGGGA
1 TTTCTAAATAAGTACCAGGGGA
38725426 CGCACGACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (22 bp):
TTTCTAAATAAGTACCAGGGGA
Found at i:38729821 original size:49 final size:49
Alignment explanation
Indices: 38729766--38729991 Score: 290
Period size: 49 Copynumber: 4.6 Consensus size: 49
38729756 CTGGTATGCA
* *
38729766 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** * *
38729815 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * ** *
38729865 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
38729916 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
38729965 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
38729992 ATGACCTCAC
Statistics
Matches: 150, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
49 66 0.44
50 47 0.31
51 37 0.25
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:38729941 original size:101 final size:97
Alignment explanation
Indices: 38729766--38729991 Score: 294
Period size: 101 Copynumber: 2.3 Consensus size: 97
38729756 CTGGTATGCA
*
38729766 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACA-GTAGTAGCCTGCACTTA
*
38729831 GTACTACACACGTGACCTAACCA-TCTGATACACG
65 GTACTACACACGCGACC-AACCATTC-GATACACG
* * *
38729865 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTATGCA-TAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTA--CAGTAGTAGCCTGCAC
* ** *
38729929 TTAGTACTACACATGCGACCAATTATTCGGTACACG
62 TTAGTACTACACACGCGACCAACCATTCGATACACG
38729965 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
38729992 ATGACCTCAC
Statistics
Matches: 113, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
99 29 0.26
100 40 0.35
101 42 0.37
103 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (97 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACAGTAGTAGCCTGCACTTAG
TACTACACACGCGACCAACCATTCGATACACG
Found at i:38734395 original size:37 final size:37
Alignment explanation
Indices: 38734354--38734481 Score: 229
Period size: 37 Copynumber: 3.5 Consensus size: 37
38734344 ACATGAAGTT
* *
38734354 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAATC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
38734391 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
*
38734428 ATCGGGTCTTACCCAGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
38734465 ATCGGGTCTTACCCGGA
1 ATCGGGTCTTACCCGGA
38734482 ATATATTTCC
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 87 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
Found at i:38734752 original size:47 final size:47
Alignment explanation
Indices: 38734690--38735078 Score: 508
Period size: 47 Copynumber: 8.1 Consensus size: 47
38734680 ACACGTTTCG
* * * **
38734690 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
38734737 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
38734784 CATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38734831 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** * *
38734878 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
*
38734931 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
38734978 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
38735029 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38735076 CAT
1 CAT
38735079 AAAATCCTAA
Statistics
Matches: 303, Mismatches: 29, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
47 218 0.72
49 1 0.00
51 44 0.15
53 40 0.13
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:38734958 original size:100 final size:98
Alignment explanation
Indices: 38734690--38735078 Score: 569
Period size: 94 Copynumber: 4.0 Consensus size: 98
38734680 ACACGTTTCG
* *
38734690 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * *
38734751 CCTTATCTCATATATGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
* ** *
38734784 CATTGGCCATCCGGCCTTATCACAC----ATACGCATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
38734845 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
* * *
38734878 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATCCATCACAGTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--CACATATATATACAGGTTCACATTCATCACATTGGCCATTC
38734943 GGCCTTATCACACATACGCATGTTCACATTCATCA
64 GGCCTTATCACACATACGCATGTTCACATTCATCA
* *
38734978 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGA
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
*
38735043 CCTTATCACACATACGCATGTTCACATCCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
38735076 CAT
1 CAT
38735079 AAAATCCTAA
Statistics
Matches: 266, Mismatches: 19, Indels: 16
0.88 0.06 0.05
Matches are distributed among these distances:
92 2 0.01
94 99 0.37
95 1 0.00
96 5 0.02
98 73 0.27
100 86 0.32
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
CCTTATCACACATACGCATGTTCACATTCATCA
Found at i:38737386 original size:85 final size:85
Alignment explanation
Indices: 38737265--38737435 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
38737255 TGCCCGTGCC
38737265 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
38737330 ACATCTTGTCCACCCATGCT
66 ACATCTTGTCCACCCATGCT
38737350 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
38737415 ACATCTTGTCCACCCATGCT
66 ACATCTTGTCCACCCATGCT
38737435 C
1 C
38737436 ATGGCCGGCC
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
ACATCTTGTCCACCCATGCT
Found at i:38738829 original size:52 final size:52
Alignment explanation
Indices: 38738751--38738856 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
38738741 ACTTCTCACC
38738751 AAACAAATAATGTTGCCAAATTTTCAATGCAAAAACAATAGCGGCTAACACT
1 AAACAAATAATGTTGCCAAATTTTCAATGCAAAAACAATAGCGGCTAACACT
38738803 AAACAAATAATGTTGCCAAATTTTCAATGCAAAAACAATAGCGGCTAACACT
1 AAACAAATAATGTTGCCAAATTTTCAATGCAAAAACAATAGCGGCTAACACT
38738855 AA
1 AA
38738857 GTCATGCGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (52 bp):
AAACAAATAATGTTGCCAAATTTTCAATGCAAAAACAATAGCGGCTAACACT
Found at i:38741403 original size:28 final size:28
Alignment explanation
Indices: 38741369--38741425 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
38741359 GTTCATCAAA
*
38741369 TACCCAGATCGTATTCTCTAGCCAAAAC
1 TACCCAGATCATATTCTCTAGCCAAAAC
38741397 TACCCAGATCATATTCTCTAGCCAAAAC
1 TACCCAGATCATATTCTCTAGCCAAAAC
38741425 T
1 T
38741426 CAGCTTTATC
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:0.33, C:0.32, G:0.09, T:0.26
Consensus pattern (28 bp):
TACCCAGATCATATTCTCTAGCCAAAAC
Found at i:38743283 original size:26 final size:23
Alignment explanation
Indices: 38743253--38743356 Score: 84
Period size: 24 Copynumber: 4.3 Consensus size: 23
38743243 GGACTCACCA
38743253 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTA-GAGCTTACCG-T-TAT
* * *
38743279 CAGCTCATAAGAGCTTACTGTTTT
1 CAGCTCGT-AGAGCTTACCGTTAT
38743303 CAGCTCGTCAGAGCTTACCGTT-T
1 CAGCTCGT-AGAGCTTACCGTTAT
* **
38743326 CAGCTCAATAGAGCTTATTGTCTAT
1 CAGCTC-GTAGAGCTTACCGT-TAT
38743351 CAGCTC
1 CAGCTC
38743357 AGGAGGAGCT
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
23 17 0.26
24 23 0.35
25 8 0.12
26 16 0.25
27 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (23 bp):
CAGCTCGTAGAGCTTACCGTTAT
Found at i:38743338 original size:23 final size:24
Alignment explanation
Indices: 38743253--38743342 Score: 85
Period size: 24 Copynumber: 3.7 Consensus size: 24
38743243 GGACTCACCA
* *
38743253 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCATAAGAGCTTACCGAT-T-T
* *
38743279 CAGCTCATAAGAGCTTACTGTTTT
1 CAGCTCATAAGAGCTTACCGATTT
* *
38743303 CAGCTCGTCAGAGCTTACCG-TTT
1 CAGCTCATAAGAGCTTACCGATTT
38743326 CAGCTCA-ATAGAGCTTA
1 CAGCTCATA-AGAGCTTA
38743343 TTGTCTATCA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
23 17 0.31
24 18 0.33
25 1 0.02
26 18 0.33
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (24 bp):
CAGCTCATAAGAGCTTACCGATTT
Found at i:38743553 original size:18 final size:19
Alignment explanation
Indices: 38743512--38743564 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
38743502 AAAAAGCTAT
*
38743512 ATGTTATACGGATGAATTA
1 ATGTTATACGGATGAAGTA
* *
38743531 CTGTTATA-TGATGAAGTA
1 ATGTTATACGGATGAAGTA
*
38743549 ATGTTTAAACGGATGA
1 ATG-TTATACGGATGA
38743565 GTTACTAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 10 0.38
19 11 0.42
20 5 0.19
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (19 bp):
ATGTTATACGGATGAAGTA
Found at i:38746057 original size:46 final size:45
Alignment explanation
Indices: 38746007--38746176 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 45
38745997 TGTTTGGGCA
38746007 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* ** *** *
38746053 TCCGAACTCGTTGAGTTGAGTTCGAG-AGA-TGTAACTA-G-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCGAAG
* *
38746094 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
38746140 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38746177 GCGGGTTACA
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
41 23 0.23
42 4 0.04
43 4 0.04
44 4 0.04
45 4 0.04
46 60 0.61
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:38746150 original size:87 final size:87
Alignment explanation
Indices: 38746003--38746165 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
38745993 AGGATGTTTG
* *
38746003 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
38746068 TTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGAGATGTAACTA
* * *
38746090 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38746155 TTGAGTCCGAG
66 TTGAGTCCGAG
38746166 TTCACTTATG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (87 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGAGATGTAACTA
Found at i:38751545 original size:45 final size:46
Alignment explanation
Indices: 38751496--38751668 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
38751486 TGTTTGGGCA
38751496 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38751541 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
38751585 CATCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38751632 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38751669 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 7, Indels: 23
0.78 0.05 0.17
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 1 0.01
44 2 0.02
45 47 0.43
46 41 0.38
47 2 0.02
48 1 0.01
49 5 0.05
50 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38751600 original size:91 final size:91
Alignment explanation
Indices: 38751492--38751660 Score: 302
Period size: 91 Copynumber: 1.9 Consensus size: 91
38751482 AGGATGTTTG
* *
38751492 GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38751557 TGAGTCCGAGTTCGAGGATGTAACTA
66 TGAGTCCGAGTTCGAGGATGTAACTA
* *
38751583 GGCATCCGAGCTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38751648 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38751661 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (91 bp):
GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGGATGTAACTA
Found at i:38759650 original size:79 final size:81
Alignment explanation
Indices: 38759514--38759696 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
38759504 TCGAATGATG
* *
38759514 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
38759578 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
38759593 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
38759655 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
38759673 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
38759697 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:38759712 original size:40 final size:40
Alignment explanation
Indices: 38759515--38759698 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
38759505 CGAATGATGT
* * * *
38759515 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
38759555 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
38759595 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38759633 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38759674 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38759699 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:38759720 original size:79 final size:79
Alignment explanation
Indices: 38759567--38759731 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
38759557 GGACTAAGAT
* **
38759567 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
38759632 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
38759646 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
38759709 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38759725 CCGAAGG
1 CCGAAGG
38759732 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38767788 original size:39 final size:40
Alignment explanation
Indices: 38767680--38767864 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
38767670 TCGAATGATG
* * *
38767680 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
38767719 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
38767760 TCCGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
38767799 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
38767838 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
38767865 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:38767886 original size:79 final size:79
Alignment explanation
Indices: 38767733--38767897 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
38767723 GGACTAAGAT
* **
38767733 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
*
38767798 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
38767812 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
* *
38767875 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38767891 CCGAAGG
1 CCGAAGG
38767898 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.66
80 23 0.31
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38770709 original size:23 final size:23
Alignment explanation
Indices: 38770667--38770725 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
38770657 TCAAATCATA
* *
38770667 AGAGCTTACTATTTTCAGCTC-GT
1 AGAGCTTACT-GTTTCAGCTCAAT
38770690 CAGAGCTTACTGTTTCAGCTCAAT
1 -AGAGCTTACTGTTTCAGCTCAAT
38770714 AGAGCTTACTGT
1 AGAGCTTACTGT
38770726 CCATCAGCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 21 0.66
24 11 0.34
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:38770916 original size:19 final size:19
Alignment explanation
Indices: 38770892--38770975 Score: 53
Period size: 19 Copynumber: 4.4 Consensus size: 19
38770882 AAAAGCTATG
38770892 TGTTATACGAATGAATTAC
1 TGTTATACGAATGAATTAC
* * *
38770911 TGTTATATGGATGAAGTAC
1 TGTTATACGAATGAATTAC
* * * *
38770930 TATTTAAACAAATAAATTAC
1 T-GTTATACGAATGAATTAC
** *
38770950 TAATAT-CGAATGAGTTAC
1 TGTTATACGAATGAATTAC
38770968 TGCTTATA
1 TG-TTATA
38770976 TGATTGAGAG
Statistics
Matches: 44, Mismatches: 18, Indels: 5
0.66 0.27 0.07
Matches are distributed among these distances:
18 10 0.23
19 22 0.50
20 12 0.27
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
TGTTATACGAATGAATTAC
Found at i:38779706 original size:37 final size:37
Alignment explanation
Indices: 38779647--38779755 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
38779637 AGCTCAGACG
* *
38779647 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
38779684 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
38779721 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
38779756 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:38779959 original size:50 final size:48
Alignment explanation
Indices: 38779901--38780080 Score: 264
Period size: 43 Copynumber: 3.8 Consensus size: 48
38779891 GCACATCGCC
*
38779901 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
38779951 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
38779999 TACATATTTCACATTAGCCATTCGG-----CCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
38780042 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
38780081 TGCATGTTCA
Statistics
Matches: 118, Mismatches: 5, Indels: 16
0.85 0.04 0.12
Matches are distributed among these distances:
43 42 0.36
48 32 0.27
49 2 0.02
50 42 0.36
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:38780066 original size:91 final size:93
Alignment explanation
Indices: 38779901--38780079 Score: 265
Period size: 91 Copynumber: 1.9 Consensus size: 93
38779891 GCACATCGCC
*
38779901 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGG---T-CCACATATACATATCTCA-ATACATATTTCACATT
38779966 GACCATTCGGCTTTACCACATATGCATATCTCA
61 GACCATTCGGCTTTACCACATATGCATATCTCA
*
38779999 TACATATTTCACATTAGCCATTCGG-CCACATATACATATCTC-ATACATATTTCACATT-AGCC
1 TACATATTTCACACTAGCCATTCGGTCCACATATACATATCTCAATACATATTTCACATTGA-CC
38780061 ATTCGGCTTTACCACATAT
65 ATTCGGCTTTACCACATAT
38780080 ATGCATGTTC
Statistics
Matches: 78, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
90 1 0.01
91 36 0.46
93 17 0.22
98 24 0.31
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (93 bp):
TACATATTTCACACTAGCCATTCGGTCCACATATACATATCTCAATACATATTTCACATTGACCA
TTCGGCTTTACCACATATGCATATCTCA
Found at i:38780110 original size:47 final size:47
Alignment explanation
Indices: 38780050--38780243 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
38780040 CATACATATT
* * * *
38780050 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
38780097 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
38780144 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
38780191 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
38780238 TCACAT
1 TCACAT
38780244 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:38780170 original size:22 final size:22
Alignment explanation
Indices: 38780143--38780214 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
38780133 GCTCACATTC
38780143 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
38780165 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
38780189 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
38780212 ATC
1 ATC
38780215 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:38784226 original size:14 final size:15
Alignment explanation
Indices: 38784207--38784236 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38784197 GTTTATTATA
38784207 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
38784221 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
38784236 T
1 T
38784237 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:38787562 original size:31 final size:31
Alignment explanation
Indices: 38787524--38787585 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
38787514 TAGTTATGTG
38787524 GATGCCCGAAGAAGGGAGTTTTTGAATCTGA
1 GATGCCCGAAGAAGGGAGTTTTTGAATCTGA
38787555 GATGCCCGAAGAAGGGAGTTTTTGAATCTGA
1 GATGCCCGAAGAAGGGAGTTTTTGAATCTGA
38787586 CTCAAGGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (31 bp):
GATGCCCGAAGAAGGGAGTTTTTGAATCTGA
Found at i:38805090 original size:101 final size:100
Alignment explanation
Indices: 38804960--38805149 Score: 274
Period size: 101 Copynumber: 1.9 Consensus size: 100
38804950 TAGCCAAAGC
* * * *
38804960 TATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAGCCA-TCTGATACACGT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATTC-GATACACGT
38805024 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
64 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* ** *
38805061 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATTCGATACACGTAG
*
38805126 TATCCTGCACTTAGTACTACACAC
66 TAGCCTGCACTTAGTACTACACAC
38805150 ATGACCTCAC
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 35 0.44
101 44 0.56
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATTCGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:38805138 original size:49 final size:49
Alignment explanation
Indices: 38804973--38805155 Score: 215
Period size: 49 Copynumber: 3.7 Consensus size: 49
38804963 CTGGTATGCA
*** * *
38804973 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAGCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCGGGTACACG
* * *
38805023 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGGGTACACG
* *
38805074 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC-GGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTA-TCGGGTACACG
* *
38805123 TAGTATCCTGCACTTAGTACTACACACATGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
38805156 TCACAATAGA
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
49 38 0.34
50 37 0.33
51 38 0.34
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACG
Found at i:38812360 original size:28 final size:28
Alignment explanation
Indices: 38812326--38812382 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
38812316 GTTCATCAAA
*
38812326 TACCCAGATCGTATTCTCTAGCCAAAAC
1 TACCCAGATCATATTCTCTAGCCAAAAC
38812354 TACCCAGATCATATTCTCTAGCCAAAAC
1 TACCCAGATCATATTCTCTAGCCAAAAC
38812382 T
1 T
38812383 CAGCTTTCTC
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:0.33, C:0.32, G:0.09, T:0.26
Consensus pattern (28 bp):
TACCCAGATCATATTCTCTAGCCAAAAC
Found at i:38814266 original size:24 final size:23
Alignment explanation
Indices: 38814220--38814299 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 23
38814210 TAACTCGTAT
38814220 GAGCTTACCGATATATCAGCTCATAA
1 GAGCTTACC-AT-T-TCAGCTCATAA
** *
38814246 GAGCTTACTGTTTTCAGCTCATCA
1 GAGCTTAC-CATTTCAGCTCATAA
38814270 GAGCTTACCATTTCAGCTCA-ATA
1 GAGCTTACCATTTCAGCTCATA-A
38814293 GAGCTTA
1 GAGCTTA
38814300 TTGTCTATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 18 0.39
24 18 0.39
25 1 0.02
26 9 0.20
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (23 bp):
GAGCTTACCATTTCAGCTCATAA
Found at i:38814287 original size:23 final size:22
Alignment explanation
Indices: 38814220--38814299 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 22
38814210 TAACTCGTAT
38814220 GAGCTTACCGATATATCAGCTCATAA
1 GAGCTTACC-AT-T-TCAGCTCAT-A
**
38814246 GAGCTTACTGTTTTCAGCTCATCA
1 GAGCTTAC-CATTTCAGCTCAT-A
38814270 GAGCTTACCATTTCAGCTCAATA
1 GAGCTTACCATTTCAGCTC-ATA
38814293 GAGCTTA
1 GAGCTTA
38814300 TTGTCTATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
23 17 0.36
24 20 0.43
25 1 0.02
26 9 0.19
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (22 bp):
GAGCTTACCATTTCAGCTCATA
Found at i:38814494 original size:19 final size:19
Alignment explanation
Indices: 38814470--38814527 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
38814460 AAAAGCTATG
38814470 TGTTATACGGATGAATTAC
1 TGTTATACGGATGAATTAC
* * *
38814489 TGTTATA-TGATGAAGTAA
1 TGTTATACGGATGAATTAC
* *
38814507 TGTTTAAACGGATGAGTTAC
1 TG-TTATACGGATGAATTAC
38814527 T
1 T
38814528 AATATCAAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
18 10 0.34
19 11 0.38
20 8 0.28
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (19 bp):
TGTTATACGGATGAATTAC
Found at i:38822065 original size:26 final size:24
Alignment explanation
Indices: 38822008--38822071 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
38821998 TCAGCTCGTC
* *
38822008 GGAGCTTACTGTTTCAGCTCAATA
1 GGAGCTTACTGTATCAGCTCAAGA
*
38822032 -GAGCTTACTGTCCATCAGCTCAGGA
1 GGAGCTTACTGT--ATCAGCTCAAGA
38822057 GGAGCTTACTG-ATCA
1 GGAGCTTACTGTATCA
38822072 TAGCTCGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 15 0.44
25 9 0.26
26 10 0.29
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
GGAGCTTACTGTATCAGCTCAAGA
Found at i:38822233 original size:19 final size:19
Alignment explanation
Indices: 38822209--38822292 Score: 53
Period size: 19 Copynumber: 4.4 Consensus size: 19
38822199 AAAAGCTATG
38822209 TGTTATACGAATGAATTAC
1 TGTTATACGAATGAATTAC
* * *
38822228 TGTTATATGGATGAAGTAC
1 TGTTATACGAATGAATTAC
* * * *
38822247 TATTTAAACAAATGAGTTAC
1 T-GTTATACGAATGAATTAC
** *
38822267 TAATAT-CGAATGAGTTAC
1 TGTTATACGAATGAATTAC
38822285 TGCTTATA
1 TG-TTATA
38822293 TGATTGAGAG
Statistics
Matches: 46, Mismatches: 16, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
18 12 0.26
19 22 0.48
20 12 0.26
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
TGTTATACGAATGAATTAC
Found at i:38828107 original size:38 final size:39
Alignment explanation
Indices: 38828055--38828135 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
38828045 GCATAGGATT
* *
38828055 TTGGATATGTGATTT-CATGTAAGACCATGTTTGGGACG
1 TTGGATATGAGATTTACATGTAAGACCATGTTTGGGACA
*
38828093 TTGGATTTGAGATTTACATGTAAGACCATGTTTGGGACA
1 TTGGATATGAGATTTACATGTAAGACCATGTTTGGGACA
38828132 TTGG
1 TTGG
38828136 CATTGTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 13 0.33
39 26 0.67
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.37
Consensus pattern (39 bp):
TTGGATATGAGATTTACATGTAAGACCATGTTTGGGACA
Found at i:38828171 original size:42 final size:40
Alignment explanation
Indices: 38828064--38828180 Score: 134
Period size: 39 Copynumber: 2.9 Consensus size: 40
38828054 TTTGGATATG
*
38828064 TGATTTCATGTAAGACCATGTTTGGGACGTTGG-ATTTGA
1 TGATTTCATGTAAGACCATGTTTGGGACATTGGCATTTGA
38828103 -GATTTACATGTAAGACCATGTTTGGGACATTGGCA-TTGTA
1 TGATTT-CATGTAAGACCATGTTTGGGACATTGGCATTTG-A
* *
38828143 TTTGATTTCATGTAAGAGCC-TGTCTGGGACAGTGGCAT
1 --TGATTTCATGTAAGA-CCATGTTTGGGACATTGGCAT
38828181 CGATACATGA
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
38 5 0.07
39 29 0.43
40 2 0.03
42 24 0.36
43 7 0.10
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (40 bp):
TGATTTCATGTAAGACCATGTTTGGGACATTGGCATTTGA
Found at i:38828201 original size:43 final size:42
Alignment explanation
Indices: 38828106--38828205 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
38828096 GATTTGAGAT
* * * **
38828106 TTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGCATCGTACATGA
*
38828148 TTTCATGTAAGAGCC-TGTCTGGGACAGTGGCATCGATACATGA
1 TTACATGTAAGA-CCATGTCTGGGACAGTGGCATCG-TACATGA
38828191 TTACATGTAAGACCA
1 TTACATGTAAGACCA
38828206 CATCTAGGAC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 30 0.62
43 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGCATCGTACATGA
Found at i:38830382 original size:26 final size:26
Alignment explanation
Indices: 38830335--38830384 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
38830325 ACCACTTACT
*
38830335 GGTAAAATGACCGTTATACCCCTAGA
1 GGTAAAATGACCGATATACCCCTAGA
** *
38830361 GGTAAAATGATTGATATGCCCCTA
1 GGTAAAATGACCGATATACCCCTA
38830385 TGCTTTAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (26 bp):
GGTAAAATGACCGATATACCCCTAGA
Found at i:38831494 original size:14 final size:15
Alignment explanation
Indices: 38831475--38831504 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38831465 GTTTATTATA
38831475 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
38831489 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
38831504 T
1 T
38831505 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:38841661 original size:47 final size:47
Alignment explanation
Indices: 38841610--38841735 Score: 216
Period size: 47 Copynumber: 2.7 Consensus size: 47
38841600 GTGAATGTGT
*
38841610 ATATATGTGATAAGGCCGAATGGCCCATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
38841657 ATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
38841704 ATATATGTGATAAGGCCAAATGGCCAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
38841736 CAGCCCAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:38841713 original size:25 final size:25
Alignment explanation
Indices: 38841636--38841714 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
38841626 CGAATGGCCC
*
38841636 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAGCATGCATAT
* * *
38841661 ATGTGATG-A-G-GCCGAATGGC-CA-
1 ATGTGATGAATGTG-AGCAT-GCATAT
38841683 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAGCATGCATAT
38841708 ATGTGAT
1 ATGTGAT
38841715 AAGGCCAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 9 0.22
23 7 0.17
24 8 0.20
25 16 0.40
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAGCATGCATAT
Found at i:38843414 original size:40 final size:40
Alignment explanation
Indices: 38843330--38843554 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
38843320 TTGAATGATG
* * * *
38843330 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38843370 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38843410 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38843449 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38843489 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38843530 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38843555 AACGAGGAGA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38844977 original size:47 final size:47
Alignment explanation
Indices: 38844906--38845001 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 47
38844896 GGGTGTTACA
* * * *
38844906 GCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATG
1 GCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATG
* *
38844953 GCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATG
1 GCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATG
38845000 GC
1 GC
38845002 TAGTGTGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (47 bp):
GCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATG
Found at i:38845213 original size:37 final size:37
Alignment explanation
Indices: 38845163--38845308 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
38845153 TGGAATATAT
* * *
38845163 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
38845200 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
38845237 TTCGCGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
38845274 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
38845309 CATCCGAGCT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:38855042 original size:27 final size:27
Alignment explanation
Indices: 38855009--38855130 Score: 136
Period size: 27 Copynumber: 4.5 Consensus size: 27
38854999 AAATTGTACA
*
38855009 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
38855036 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* **
38855063 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* * * *
38855090 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTT
*
38855117 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
38855131 GACTCAATAT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:38855069 original size:54 final size:54
Alignment explanation
Indices: 38855008--38855130 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
38854998 TAAATTGTAC
* * **
38855008 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATAT-AT
** *
38855063 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATAT
*
38855116 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38855131 GACTCAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
53 2 0.03
54 57 0.97
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATAT
Found at i:38860813 original size:27 final size:27
Alignment explanation
Indices: 38860781--38860903 Score: 131
Period size: 27 Copynumber: 4.6 Consensus size: 27
38860771 TAATTGAGTC
* * * *
38860781 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAATT
** *
38860808 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAATT
* *
38860835 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAATT
* *
38860862 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAATT
38860889 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38860904 GTACAATTTA
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
27 78 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAATT
Found at i:38860865 original size:54 final size:54
Alignment explanation
Indices: 38860781--38860903 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
38860771 TAATTGAGTC
* ** * *
38860781 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
38860835 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
38860889 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38860904 GTACAATTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
53 2 0.03
54 57 0.97
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:38876362 original size:93 final size:93
Alignment explanation
Indices: 38876250--38876421 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
38876240 CGCCCATAAG
*
38876250 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
38876314 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
38876343 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38876408 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
38876422 TCAAATCCTA
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:38876416 original size:46 final size:46
Alignment explanation
Indices: 38876243--38876418 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
38876233 TGTAACCCGC
* *
38876243 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
38876289 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
38876339 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
38876382 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
38876419 TGCTCAAATC
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38883887 original size:93 final size:93
Alignment explanation
Indices: 38883775--38883946 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38883765 CGCCCATAAG
* *
38883775 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38883840 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
38883868 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38883933 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
38883947 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:38883943 original size:46 final size:46
Alignment explanation
Indices: 38883768--38883943 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
38883758 TGTAACCCGC
* * *
38883768 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
38883814 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
38883864 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
38883907 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
38883944 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38885695 original size:78 final size:78
Alignment explanation
Indices: 38885566--38885716 Score: 266
Period size: 78 Copynumber: 1.9 Consensus size: 78
38885556 CCGCCAGTAG
*
38885566 ATTCAGTAGCAACTTCTACTTCAGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCAGAAGTT
1 ATTCAGTAGCAACTTCTACATCAGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCAGAAGTT
38885631 GGCCCATCGGCAT
66 GGCCCATCGGCAT
* * *
38885644 ATTCAGTAGCAACTTCTACATCCGATTCTGGAGTAGCTGCAATTTCATCAGCTAAGCCAGAAGTT
1 ATTCAGTAGCAACTTCTACATCAGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCAGAAGTT
38885709 GGCCCATC
66 GGCCCATC
38885717 CACACTTTGG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (78 bp):
ATTCAGTAGCAACTTCTACATCAGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCAGAAGTT
GGCCCATCGGCAT
Found at i:38886628 original size:22 final size:22
Alignment explanation
Indices: 38886600--38886652 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
38886590 AGTACCACAT
38886600 GCCCGTGTGGCTTATGTGACAC
1 GCCCGTGTGGCTTATGTGACAC
38886622 GCCCGTGTGGCTTATGTGACAC
1 GCCCGTGTGGCTTATGTGACAC
* *
38886644 ACCTGTGTG
1 GCCCGTGTG
38886653 TCTCCATGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.26, G:0.32, T:0.28
Consensus pattern (22 bp):
GCCCGTGTGGCTTATGTGACAC
Found at i:38887947 original size:12 final size:12
Alignment explanation
Indices: 38887922--38887955 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
38887912 CGAATACACC
* *
38887922 GTAACGGTAACA
1 GTAACAGTAGCA
38887934 GTAACAGTAGCA
1 GTAACAGTAGCA
38887946 GTAACAGTAG
1 GTAACAGTAG
38887956 TGGTACACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (12 bp):
GTAACAGTAGCA
Found at i:38888044 original size:57 final size:59
Alignment explanation
Indices: 38887930--38888060 Score: 151
Period size: 57 Copynumber: 2.2 Consensus size: 59
38887920 CCGTAACGGT
* * * *
38887930 AACAGTAACAGTAGCAGTAACAGTAGTGGTACACAGAGTACCTCATCGGAATAAATCCGG
1 AACAGTAACAGTAACAGTAACAGTAGAGGTA-ACAGAGTACCTCATCGGAACAAATCCAG
* * *
38887990 AACAGTAACAGTAACAGTAATAGTA-AGGT-ACGGAGTACCT-ATTCGGAACGAATCCAG
1 AACAGTAACAGTAACAGTAACAGTAGAGGTAACAGAGTACCTCA-TCGGAACAAATCCAG
*
38888047 AACAGTAATAGTAA
1 AACAGTAACAGTAA
38888061 GGCGGCACTT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
56 1 0.02
57 35 0.56
59 3 0.05
60 23 0.37
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (59 bp):
AACAGTAACAGTAACAGTAACAGTAGAGGTAACAGAGTACCTCATCGGAACAAATCCAG
Found at i:38889065 original size:4 final size:4
Alignment explanation
Indices: 38889056--38889088 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
38889046 AATTTTCCCT
*
38889056 TTTC TTTC TTTC TTTC TTTC TTTC TTTC CTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
38889089 CTATTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:38889217 original size:19 final size:19
Alignment explanation
Indices: 38889193--38889231 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38889183 AATACTTATT
*
38889193 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
38889212 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
38889231 T
1 T
38889232 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:38889286 original size:17 final size:16
Alignment explanation
Indices: 38889260--38889292 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
38889250 TTTTCTTTCT
38889260 TTTATTTATTTAATTA
1 TTTATTTATTTAATTA
38889276 TTTACTTTATTTAATTA
1 TTTA-TTTATTTAATTA
38889293 ATATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTTATTTAATTA
Found at i:38893612 original size:78 final size:78
Alignment explanation
Indices: 38893483--38893633 Score: 259
Period size: 78 Copynumber: 1.9 Consensus size: 78
38893473 CCTCCAGTAG
*
38893483 ATTCAGTAGCAACTTCTACTTCAGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCAGAAGTT
1 ATTCAGTAGCAACTTCTACTCCAGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCAGAAGTT
38893548 GGCCCATCGGCAT
66 GGCCCATCGGCAT
* *
38893561 ATTCAGTAGCAACTTCTACATCCA-ATTCTGGAGTAGCTGTAATCTCATCAGCTAAGCCAGAAGT
1 ATTCAGTAGCAACTTCTAC-TCCAGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCAGAAGT
38893625 TGGCCCATC
65 TGGCCCATC
38893634 CACACTTTGG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 66 0.96
79 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (78 bp):
ATTCAGTAGCAACTTCTACTCCAGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCAGAAGTT
GGCCCATCGGCAT
Found at i:38896359 original size:27 final size:27
Alignment explanation
Indices: 38896326--38896447 Score: 136
Period size: 27 Copynumber: 4.5 Consensus size: 27
38896316 AAATTGTACA
*
38896326 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
38896353 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* **
38896380 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* * * *
38896407 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTT
*
38896434 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
38896448 GACTCAATAT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:38896386 original size:54 final size:54
Alignment explanation
Indices: 38896325--38896447 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
38896315 TAAATTGTAC
* * **
38896325 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATAT-AT
** *
38896380 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATAT
*
38896433 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38896448 GACTCAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
53 2 0.03
54 57 0.97
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATAT
Found at i:38898653 original size:40 final size:39
Alignment explanation
Indices: 38898569--38898753 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
38898559 TCGAATGATG
* * * *
38898569 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38898609 TCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38898649 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38898688 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
38898729 -CCAGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTC-CGAAGGCATTTG
38898754 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 35 0.29
40 77 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38898705 original size:79 final size:80
Alignment explanation
Indices: 38898569--38898725 Score: 194
Period size: 79 Copynumber: 2.0 Consensus size: 80
38898559 TCGAATGATG
* *
38898569 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
38898634 GTACGAGTTACTAAT
66 GTACGAGTTACTAAT
* * * **
38898649 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
**
38898711 TTGTGTGAGTTACTA
64 TTGTACGAGTTACTA
38898726 TAACCAGGCT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
78 1 0.02
79 48 0.73
80 17 0.26
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAT
Found at i:38898775 original size:79 final size:79
Alignment explanation
Indices: 38898622--38898786 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
38898612 GGACTAAGAT
* * **
38898622 CCGAAGGCATTTGTACGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
38898687 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
** * * *
38898701 CCGAAGGCATTTGTGTGAGTTACT-ATAACCAGGCTATGTCTCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTACGAGTTACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
38898764 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38898780 CCGAAGG
1 CCGAAGG
38898787 TACGTGATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38910766 original size:11 final size:11
Alignment explanation
Indices: 38910750--38910775 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38910740 TACTATAGAT
38910750 GGTTCGTGAAG
1 GGTTCGTGAAG
38910761 GGTTCGTGAAG
1 GGTTCGTGAAG
38910772 GGTT
1 GGTT
38910776 ACTACTATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.46, T:0.31
Consensus pattern (11 bp):
GGTTCGTGAAG
Found at i:38911227 original size:53 final size:54
Alignment explanation
Indices: 38911138--38911390 Score: 248
Period size: 53 Copynumber: 4.7 Consensus size: 54
38911128 TTTCTTTTTG
* * *** * *
38911138 AACTTACCATTGCCATGTCTTGATTTGATCTAACATGGAATCCTTGCCTTAT-G-
1 AACTCACCAATGCCATGTCTTGGCATGGTCTTACATGGAA-CCTTGCCTTATAGT
*
38911191 AACTCACCAATGCCATG-CTTTGGCATAGTCTTACAT-GAGACCTTTGCCTTATAGT
1 AACTCACCAATGCCATGTC-TTGGCATGGTCTTACATGGA-ACC-TTGCCTTATAGT
* * * *
38911246 AACTCATCAATGCCATGTCTTGACATGGTCTTCCATGGTATCCTTGCCTTAT-G-
1 AACTCACCAATGCCATGTCTTGGCATGGTCTTACATGG-AACCTTGCCTTATAGT
* * * * *
38911299 AACTCACCAATGCCATGCCTTGGCATGTTCTTACATGGGACTTTTTCCTTATAGT
1 AACTCACCAATGCCATGTCTTGGCATGGTCTTACATGGAAC-CTTGCCTTATAGT
*
38911354 AACTCATCAATGCCATGTCTTGGCATGGTCTTACATG
1 AACTCACCAATGCCATGTCTTGGCATGGTCTTACATG
38911391 ATATCCATAT
Statistics
Matches: 164, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
52 6 0.04
53 77 0.47
54 3 0.02
55 73 0.45
56 4 0.02
57 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
AACTCACCAATGCCATGTCTTGGCATGGTCTTACATGGAACCTTGCCTTATAGT
Found at i:38911260 original size:55 final size:53
Alignment explanation
Indices: 38911181--38911391 Score: 248
Period size: 55 Copynumber: 3.9 Consensus size: 53
38911171 CATGGAATCC
*
38911181 TTGCCTTATGAACTCACCAATGCCATG-CTTTGGCATAGTCTTACATGAGACCT
1 TTGCCTTATGAACTCACCAATGCCATGTC-TTGGCATGGTCTTACATGAGACCT
* * *
38911234 TTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTCCATG-GTATCC-
1 TTGCCTTAT-G-AACTCACCAATGCCATGTCTTGGCATGGTCTTACATGAG-A-CCT
* * * *
38911289 TTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGTTCTTACATGGGACTT
1 TTGCCTTATGAACTCACCAATGCCATGTCTTGGCATGGTCTTACATGAGACCT
* *
38911342 TTTCCTTATAGTAACTCATCAATGCCATGTCTTGGCATGGTCTTACATGA
1 TTGCCTTAT-G-AACTCACCAATGCCATGTCTTGGCATGGTCTTACATGA
38911392 TATCCATATC
Statistics
Matches: 134, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
52 1 0.01
53 50 0.37
54 5 0.04
55 75 0.56
56 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
TTGCCTTATGAACTCACCAATGCCATGTCTTGGCATGGTCTTACATGAGACCT
Found at i:38911349 original size:108 final size:108
Alignment explanation
Indices: 38911148--38911396 Score: 374
Period size: 108 Copynumber: 2.3 Consensus size: 108
38911138 AACTTACCAT
** * * * *
38911148 TGCCATGTCTTGATTTGATCTAACATGGAATCCTTGCCTTATGAACTCACCAATGCCATGCTTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
38911213 GCATAGTCTTACATGAGACCTTTGCCTTATAGTAACTCATCAA
66 GCATAGTCTTACATGAGACCTTTGCCTTATAGTAACTCATCAA
*
38911256 TGCCATGTCTTGACATGGTCTTCCATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* * *
38911321 GCAT-GTTCTTACATGGGACTTTTTCCTTATAGTAACTCATCAA
66 GCATAG-TCTTACATGAGACCTTTGCCTTATAGTAACTCATCAA
* *
38911364 TGCCATGTCTTGGCATGGTCTTACATGATATCC
1 TGCCATGTCTTGACATGGTCTTACATGGTATCC
38911397 ATATCTTACC
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
107 1 0.01
108 126 0.99
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATAGTCTTACATGAGACCTTTGCCTTATAGTAACTCATCAA
Found at i:38911433 original size:47 final size:47
Alignment explanation
Indices: 38911377--38911546 Score: 164
Period size: 47 Copynumber: 3.5 Consensus size: 47
38911367 CATGTCTTGG
*
38911377 CATGGTCTTACATGATATCCATATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* * * ***
38911424 CATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATG--CCTTGG
1 CATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AATGCCATGTTCC-AAA
*
38911478 CATGGTCTTACATGATATCTTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
*
38911525 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGATATCCTT
38911547 GCCTTAGTCC
Statistics
Matches: 96, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
46 9 0.09
47 42 0.44
48 4 0.04
49 3 0.03
52 3 0.03
53 4 0.04
54 22 0.23
55 9 0.09
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:38911483 original size:101 final size:102
Alignment explanation
Indices: 38911345--38911552 Score: 364
Period size: 101 Copynumber: 2.0 Consensus size: 102
38911335 GGGACTTTTT
*
38911345 CCTTATAGTAACTCATCAATGCCATGTCTTGGCATGGTCTTACATGATATCCATATCTTACCAAA
1 CCTTATAGTAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCATATCTTACCAAA
38911410 TGCCATGTTCCAAACATGGTCTTACATGGTATCCTTG
66 TGCCATGTTCCAAACATGGTCTTACATGGTATCCTTG
* * **
38911447 TCTTATAG-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCTTTATCTTACCAAA
1 CCTTATAGTAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCATATCTTACCAAA
38911511 TGCCATGTTCCAAACATGGTCTTACATGGTATCCTTG
66 TGCCATGTTCCAAACATGGTCTTACATGGTATCCTTG
38911548 CCTTA
1 CCTTA
38911553 GTCCCAATGC
Statistics
Matches: 100, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 93 0.93
102 7 0.07
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (102 bp):
CCTTATAGTAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCATATCTTACCAAA
TGCCATGTTCCAAACATGGTCTTACATGGTATCCTTG
Found at i:38920076 original size:30 final size:31
Alignment explanation
Indices: 38920028--38920085 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
38920018 TTCCCGGGCC
* *
38920028 TAGGGGCAAAAGTGTAATTATGT-AAAAGTT
1 TAGGGGAAAAAGTATAATTATGTCAAAAGTT
* *
38920058 TAGGGGAAAAATTATAATTTTGTCAAAA
1 TAGGGGAAAAAGTATAATTATGTCAAAA
38920086 TATGATTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (31 bp):
TAGGGGAAAAAGTATAATTATGTCAAAAGTT
Found at i:38920627 original size:49 final size:50
Alignment explanation
Indices: 38920471--38920698 Score: 271
Period size: 49 Copynumber: 4.6 Consensus size: 50
38920461 ATATGATGAA
* * * * *
38920471 TAAGAGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTATGTGTACCAGATAA-TTAGATCACATGTGTAGTAC
* * * * ** * *
38920522 TAAGTGAAGGCTATTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTATGTGTACCAGATAATTAGATCACATGTGTAGTAC
*
38920572 TAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACATGTGTAGTAC
1 TAAGTGCAGGCTACTATGTGTACCAGATAATTAGATCACATGTGTAGTAC
* * *
38920621 TAAGTGCAGGCTACTACGTGTACCAGATAATT-TATCGCATGTGTAGTAC
1 TAAGTGCAGGCTACTATGTGTACCAGATAATTAGATCACATGTGTAGTAC
*
38920670 TAAGTGCAGGCTACTATGCGTACCAGATA
1 TAAGTGCAGGCTACTATGTGTACCAGATA
38920699 GCTTGGCTAC
Statistics
Matches: 153, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
49 88 0.58
50 44 0.29
51 21 0.14
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
TAAGTGCAGGCTACTATGTGTACCAGATAATTAGATCACATGTGTAGTAC
Found at i:38920695 original size:98 final size:100
Alignment explanation
Indices: 38920471--38920698 Score: 309
Period size: 98 Copynumber: 2.3 Consensus size: 100
38920461 ATATGATGAA
* * * *
38920471 TAAGAGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGAAGGCTAT
1 TAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGTGTAGTACTAAGTGAAGGCTAC
* * *
38920536 TACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
66 TACGTGTACCAGATAGTTA-GTCACATGTGTAGTAC
* * *
38920572 TAAGTGCAGGCTACTATGTGTACCAGATAA-TT-GGTCACATGTGTAGTACTAAGTGCAGGCTAC
1 TAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGTGTAGTACTAAGTGAAGGCTAC
* *
38920635 TACGTGTACCAGATAATTTA-TCGCATGTGTAGTAC
66 TACGTGTACCAGAT-AGTTAGTCACATGTGTAGTAC
38920670 TAAGTGCAGGCTACTATGCGTACCAGATA
1 TAAGTGCAGGCTACTATGCGTACCAGATA
38920699 GCTTGGCTAC
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
98 41 0.36
99 40 0.35
100 5 0.04
101 27 0.24
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (100 bp):
TAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGTGTAGTACTAAGTGAAGGCTAC
TACGTGTACCAGATAGTTAGTCACATGTGTAGTAC
Found at i:38925240 original size:40 final size:41
Alignment explanation
Indices: 38925186--38925282 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
38925176 CTATCTCGGT
38925186 ATCGCACACTTAGTGCCT-CCTATAACCGAAACTATTCCAA
1 ATCGCACACTTAGTGCCTACCTATAACCGAAACTATTCCAA
* ** * * *
38925226 TTCGCACACTTAGTG-CTATTTATAGCCGAAGCTATTTCAA
1 ATCGCACACTTAGTGCCTACCTATAACCGAAACTATTCCAA
38925266 ATCGCACACTTAGTGCC
1 ATCGCACACTTAGTGCC
38925283 GAACATAGTC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.04
40 45 0.94
41 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (41 bp):
ATCGCACACTTAGTGCCTACCTATAACCGAAACTATTCCAA
Found at i:38931008 original size:27 final size:27
Alignment explanation
Indices: 38930975--38931453 Score: 234
Period size: 27 Copynumber: 17.7 Consensus size: 27
38930965 CCTCAAATTG
*
38930975 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ****
38931002 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * ****
38931029 TAGAATTATCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *** *
38931056 TAGAATTACTATTTTACCCTTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ***** *
38931083 TAGAATTACTGTTTTACCCTCAATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
38931110 TAAAATTACTAAAATA-CCTTGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
38931136 CAAAATTACCAAAATACCCTCGA-TCA
1 TAAAATTACCAAAATACCCTCGATTTA
* ** * *
38931162 GTAGAATTACCAAAATA-CCTTAATCTG
1 -TAAAATTACCAAAATACCCTCGATTTA
* * * * *
38931189 TAAAATTGCTAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
38931216 TAAAATTACCGAAATACCCTCAATTTT
1 TAAAATTACCAAAATACCCTCGATTTA
* *
38931243 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTA
* *
38931270 TAAAATTACCAAAATACCACT-GGTTTG
1 TAAAATTACCAAAATACC-CTCGATTTA
* * * *
38931297 TGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
38931324 TAAAATTACCAAAATACCC-CTGATTTA
1 TAAAATTACCAAAATACCCTC-GATTTA
* * * *
38931351 CAAAGTTA-CAGAAATACCCTTGACTTTC
1 TAAAATTACCA-AAATACCCTCGA-TTTA
** * *
38931379 TAAAAATTATGAAAATACCATTGATTTA
1 T-AAAATTACCAAAATACCCTCGATTTA
* ** * * *
38931407 CAAAATTACTGAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
38931434 TAGATTTACCAAAACACCCT
1 TAAAATTACCAAAATACCCT
38931454 TGTAGGATGA
Statistics
Matches: 357, Mismatches: 81, Indels: 28
0.77 0.17 0.06
Matches are distributed among these distances:
26 47 0.13
27 285 0.80
28 7 0.02
29 17 0.05
30 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:38931305 original size:81 final size:80
Alignment explanation
Indices: 38931110--38931344 Score: 310
Period size: 81 Copynumber: 2.9 Consensus size: 80
38931100 CCTCAATTTA
* ** * * ** *
38931110 TAAAATTACTAAAATACCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAGAATTACCAA
1 TAAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
38931175 AATA-CCTTAATCTG
66 AATACCCCTAATCTG
* *
38931189 TAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTTTAAAATTACCA
1 TAAAATTACTAAAATACCC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
* *
38931254 AAATACCCCTAGTTTG
65 AAATACCCCTAATCTG
* *
38931270 TAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 TAAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
38931335 AAATACCCCT
65 AAATACCCCT
38931345 GATTTACAAA
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
79 17 0.12
80 42 0.31
81 76 0.56
82 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
TAAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAATCTG
Found at i:38931366 original size:81 final size:81
Alignment explanation
Indices: 38931110--38931372 Score: 306
Period size: 81 Copynumber: 3.3 Consensus size: 81
38931100 CCTCAATTTA
* ** * * ** *
38931110 TAAAATTACTAAAATA-CCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAGAATTACCA
1 TAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
*
38931174 AAATA-CCTTA-ATCTG
66 AAATACCCCTAGAT-TG
* * *
38931189 TAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTTTAAAATTACCA
1 TAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
*
38931254 AAATACCCCTAGTTTG
66 AAATACCCCTAGATTG
*
38931270 TAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACC
1 TAAAATTACCAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACC
38931334 AAAATACCCCT-GATT-
65 AAAATACCCCTAGATTG
38931349 TACAAAGTTA-CAGAAATACCCTTG
1 TA-AAA-TTACCA-AAATACCCTTG
38931373 ACTTTCTAAA
Statistics
Matches: 160, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
79 17 0.11
80 54 0.34
81 87 0.54
82 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
AAATACCCCTAGATTG
Found at i:38931516 original size:27 final size:27
Alignment explanation
Indices: 38931486--38931573 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
38931476 ACCTCTATTA
38931486 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
* * *
38931513 GGTAAAGAGACCGCAAAGCCCTTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
* ** * *
38931540 AGTAAAGTGACTGTAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
38931567 GGTAAAA
1 GGTAAAA
38931574 TAATGAATAT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:38932407 original size:26 final size:26
Alignment explanation
Indices: 38932378--38932549 Score: 249
Period size: 26 Copynumber: 6.7 Consensus size: 26
38932368 GAGGAAGTGC
* **
38932378 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
38932404 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
38932430 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
38932456 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* ***
38932482 AAAAGGGCTTATGCCCCTGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTACCG
38932508 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
38932533 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
38932550 ATTATTAAAG
Statistics
Matches: 131, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 28 0.21
26 103 0.79
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:38932456 original size:52 final size:52
Alignment explanation
Indices: 38932378--38932549 Score: 303
Period size: 52 Copynumber: 3.3 Consensus size: 52
38932368 GAGGAAGTGC
*
38932378 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
38932430 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* *
38932482 AAAAGGGCTTATGCCCCTGTTTATTAAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
38932533 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
38932550 ATTATTAAAG
Statistics
Matches: 116, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 6 0.05
51 25 0.22
52 85 0.73
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:38932762 original size:42 final size:42
Alignment explanation
Indices: 38932697--38932786 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
38932687 TAGTCTCCCC
* ** *
38932697 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
38932739 AAATGGGCTTGCATATATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
38932781 AAATGG
1 AAATGG
38932787 CCCTGAGGGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:38932846 original size:31 final size:31
Alignment explanation
Indices: 38932811--38932885 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
38932801 CGTTTACAGT
38932811 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* *
38932842 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
38932873 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
38932886 TAGTAACCGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:38936393 original size:23 final size:21
Alignment explanation
Indices: 38936333--38936398 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
38936323 ACATGCCTGT
* *
38936333 GTGTGGCCAATGGACACGCCT
1 GTGTGGCCAAGGGACACGCCC
38936354 GTGTGGCCAAGGGACACGCCC
1 GTGTGGCCAAGGGACACGCCC
* *
38936375 GTGTGGCCATGGGACACACCC
1 GTGTGGCCAAGGGACACGCCC
38936396 GTG
1 GTG
38936399 CCTCAAGCCG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.18, C:0.30, G:0.36, T:0.15
Consensus pattern (21 bp):
GTGTGGCCAAGGGACACGCCC
Done.