Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 340 of 770
Found at i:104119122 original size:39 final size:39
Alignment explanation
Indices: 104119031--104119129 Score: 119
Period size: 38 Copynumber: 2.5 Consensus size: 39
104119021 GGTTATAGCG
* *
104119031 ACTCGCACGAATGCCTTCAGGACTTAACCCGGGTTTAGTG
1 ACTCGCACGAATGCCTTC-GGACTTAACCCGGATTTAGTA
* * * *
104119071 ACTTGCAC-AATGCCTTCGGGCTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGACTTAACCCGGATTTAGTA
*
104119109 ACTCGAACGAATGCCTTCGGA
1 ACTCGCACGAATGCCTTCGGA
104119130 TCCTAGTCCG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
38 22 0.45
39 20 0.41
40 7 0.14
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
ACTCGCACGAATGCCTTCGGACTTAACCCGGATTTAGTA
Found at i:104119181 original size:40 final size:39
Alignment explanation
Indices: 104118991--104119181 Score: 145
Period size: 40 Copynumber: 4.8 Consensus size: 39
104118981 GGATATAACG
* ** *
104118991 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAG-C
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTC
* * * * *
104119030 GACTCGCACGAATGCCTTCAGGACTTAACCCGGGTTTAGTG
1 -ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTC
* * * *
104119071 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTC
* * *
104119109 ACTCGAACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATATAGTC
* *
104119149 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
104119182 CATCATTCGA
Statistics
Matches: 118, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
38 22 0.19
39 20 0.17
40 69 0.58
41 7 0.06
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTC
Found at i:104124132 original size:28 final size:29
Alignment explanation
Indices: 104124065--104124165 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
104124055 ATAGTGAATC
*
104124065 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
*
104124094 CGCAAACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
104124122 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
104124152 CGCACACTTAGTGC
1 CGCACACTTAGTGC
104124166 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.35
29 19 0.31
30 19 0.31
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:104125618 original size:46 final size:46
Alignment explanation
Indices: 104125565--104125740 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
104125555 TATTTGGGCA
104125565 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
104125611 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
** *
104125658 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAAATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
104125704 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104125741 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.60
47 33 0.30
48 2 0.02
50 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:104125720 original size:93 final size:93
Alignment explanation
Indices: 104125561--104125732 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
104125551 GGGATATTTG
** * *
104125561 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAAATGCGAACGCCCGAACTCGTTGAG
104125626 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
104125654 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAAATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAAATGCGAACGCCCGAACTCGTTGAG
104125719 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
104125733 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAAATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:104127859 original size:15 final size:15
Alignment explanation
Indices: 104127839--104127907 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
104127829 GTATCTTGGG
104127839 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
104127854 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
104127869 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
104127884 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
104127899 TTTCTTTAT
1 TTTCTTTAT
104127908 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:104127908 original size:30 final size:30
Alignment explanation
Indices: 104127830--104127917 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
104127820 CATAGTATCG
* * * *
104127830 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
104127860 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
104127890 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
104127918 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:104130353 original size:46 final size:46
Alignment explanation
Indices: 104130300--104130475 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
104130290 TATTTGGGCA
104130300 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
104130346 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
104130393 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
104130439 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104130476 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:104130455 original size:93 final size:93
Alignment explanation
Indices: 104130296--104130467 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
104130286 GGGATATTTG
* *
104130296 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
104130361 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
104130389 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
104130454 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
104130468 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:104132600 original size:15 final size:15
Alignment explanation
Indices: 104132580--104132648 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
104132570 GTATCTTGGG
104132580 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
104132595 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
104132610 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
104132625 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
104132640 TTTCTTTAT
1 TTTCTTTAT
104132649 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:104132649 original size:30 final size:30
Alignment explanation
Indices: 104132571--104132658 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
104132561 CATAGTATCG
* * * *
104132571 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
104132601 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
104132631 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
104132659 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:104135096 original size:46 final size:46
Alignment explanation
Indices: 104135043--104135218 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
104135033 TATTTGGGCA
104135043 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
104135089 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
104135136 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
104135182 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104135219 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:104135198 original size:93 final size:93
Alignment explanation
Indices: 104135039--104135210 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
104135029 GGGATATTTG
* *
104135039 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
104135104 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
104135132 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
104135197 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
104135211 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:104137341 original size:15 final size:15
Alignment explanation
Indices: 104137321--104137389 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
104137311 GTATCTTGGG
104137321 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
104137336 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
104137351 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
104137366 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
104137381 TTTCTTTAT
1 TTTCTTTAT
104137390 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:104137390 original size:30 final size:30
Alignment explanation
Indices: 104137312--104137399 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
104137302 CATAGTATCG
* * * *
104137312 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
104137342 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
104137372 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
104137400 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:104139835 original size:46 final size:46
Alignment explanation
Indices: 104139782--104139957 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
104139772 TATTTGGGCA
104139782 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
104139828 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
104139875 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
104139921 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104139958 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:104139937 original size:93 final size:93
Alignment explanation
Indices: 104139778--104139949 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
104139768 GGGATATTTG
* *
104139778 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
104139843 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
104139871 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
104139936 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
104139950 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:104148379 original size:21 final size:21
Alignment explanation
Indices: 104148355--104148396 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
104148345 TCATCAGATC
*
104148355 TACAGCTTGAGGCATCGGGGG
1 TACAGCTTGAGGAATCGGGGG
*
104148376 TACAGGTTGAGGAATCGGGGG
1 TACAGCTTGAGGAATCGGGGG
104148397 AGGTGGGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.14, G:0.45, T:0.19
Consensus pattern (21 bp):
TACAGCTTGAGGAATCGGGGG
Found at i:104150645 original size:30 final size:31
Alignment explanation
Indices: 104150591--104150651 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
104150581 ATTTAATATG
*
104150591 AACTTTGGCAAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAAATTACACTTTTGCCCCTA
* *
104150622 AACTTT-GCATAATTTACACTTTTGCCCCTA
1 AACTTTGGCAAAAATTACACTTTTGCCCCTA
104150652 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (31 bp):
AACTTTGGCAAAAATTACACTTTTGCCCCTA
Found at i:104159069 original size:21 final size:20
Alignment explanation
Indices: 104159045--104159084 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
104159035 AAAAAAGTGT
104159045 GAATAT-ATATAAGCTATGGCC
1 GAATATGAT-TAAGCT-TGGCC
104159066 GAATATGATTAAGCTTGGC
1 GAATATGATTAAGCTTGGC
104159085 TATCACATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (20 bp):
GAATATGATTAAGCTTGGCC
Found at i:104161428 original size:42 final size:43
Alignment explanation
Indices: 104161326--104161482 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
104161316 TGTGTTATCG
** * *
104161326 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTACT
1 TGTAAGACCATATCTGGGACATTGGCATCGAC-TATGATTTACT
*
104161370 TGTAAGACCATGTCTGGGACATTGGCATCGTA-TATGATTT-CT
1 TGTAAGACCATATCTGGGACATTGGCATCG-ACTATGATTTACT
* * * * * *
104161412 TGTAAGACCTTATCTGGGACAGTGGCATCAATGTTTGA-TTACA
1 TGTAAGACCATATCTGGGACATTGGCATCGA-CTATGATTTACT
* **
104161455 TGTAAGAACACGTCTGGGACATTGGCAT
1 TGTAAGACCATATCTGGGACATTGGCAT
104161483 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 35 0.37
44 28 0.29
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACATTGGCATCGACTATGATTTACT
Found at i:104169035 original size:40 final size:40
Alignment explanation
Indices: 104168990--104169157 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
104168980 CGGAATATAA
104168990 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
104169030 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
104169070 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
104169110 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
104169150 CCGGATAT
1 CCGGATAT
104169158 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:104176442 original size:21 final size:20
Alignment explanation
Indices: 104176414--104176452 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
104176404 AGATATAATA
104176414 GCCAAGCTTA-ATCATATTTG
1 GCCAAGCTTATAT-ATATTTG
104176434 GCCATAGCTTATATATATT
1 GCCA-AGCTTATATATATT
104176453 CATACATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 11 0.65
22 2 0.12
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (20 bp):
GCCAAGCTTATATATATTTG
Found at i:104185750 original size:80 final size:80
Alignment explanation
Indices: 104185577--104185837 Score: 276
Period size: 80 Copynumber: 3.3 Consensus size: 80
104185567 TATTCGAATG
* * * * * *
104185577 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAAACCCGAAGGC
*
104185642 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * *
104185658 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAACCCGAAGGCA
* *
104185723 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * ** * *
104185738 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGGCCCGAGGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAACCCGAAGGCA
* * *
104185803 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
104185817 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
104185838 ATTACTTGTG
Statistics
Matches: 152, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 93 0.61
81 31 0.20
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:104185791 original size:120 final size:119
Alignment explanation
Indices: 104185577--104185837 Score: 296
Period size: 120 Copynumber: 2.2 Consensus size: 119
104185567 TATTCGAATG
* * *
104185577 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCC-GGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
104185642 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
65 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
104185698 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCC-GGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * * * *
104185761 CATTTATGCTAG-TGACCACATCCGGGCTAAGGCCCGAGGGCCTTGTGCAAGTAGTT
64 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
104185817 ATATCCGGCTAAATCCCGAAG
1 ATATCCGGCTAAATCCCGAAG
104185838 ATTACTTGTG
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 15 0.13
119 19 0.16
120 55 0.46
121 30 0.25
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (119 bp):
ATATCCGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCA
TTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:104185797 original size:40 final size:40
Alignment explanation
Indices: 104185577--104185797 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
104185567 TATTCGAATG
* * *
104185577 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
104185618 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
104185658 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
104185698 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
104185738 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
104185778 ACATCCGGGCTAAGGCCCGA
1 ATATCCGGGCTAAGACCCGA
104185798 GGGCCTTGTG
Statistics
Matches: 154, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 125 0.81
41 28 0.18
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:104187173 original size:68 final size:70
Alignment explanation
Indices: 104187101--104187298 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
104187091 ACACCCTGTA
* * * *
104187101 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
104187163 ATAAAT
65 ATAAAT
*
104187169 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
104187234 ATAAAT
65 ATAAAT
*
104187240 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
104187299 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:104187212 original size:41 final size:41
Alignment explanation
Indices: 104187167--104187284 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
104187157 TGAAAGATAA
104187167 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
104187208 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
104187238 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
104187279 ATGTAG
1 ATGTAG
104187285 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:104187224 original size:71 final size:71
Alignment explanation
Indices: 104187135--104187298 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
104187125 GAGATGTATC
104187135 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
104187200 AGGACA
66 AGGACA
104187206 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
104187271 AGGACA
66 AGGACA
104187277 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
104187299 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:104189052 original size:27 final size:27
Alignment explanation
Indices: 104189013--104189171 Score: 178
Period size: 27 Copynumber: 6.0 Consensus size: 27
104189003 ATCTATACAT
* * *
104189013 CACAT-AGGACAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
104189039 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
104189066 CA-ATGAGGGTAAAACAATCGTTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
104189092 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
104189119 CTCATGAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
104189146 CCCATAGGGGCAAAACAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
104189172 TTAAATTGGG
Statistics
Matches: 110, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
26 25 0.23
27 85 0.77
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:104189103 original size:53 final size:54
Alignment explanation
Indices: 104189022--104189171 Score: 212
Period size: 54 Copynumber: 2.8 Consensus size: 54
104189012 TCACATAGGA
* *
104189022 CAAAACAATCATCTTACCATATAAGGGCAAAATAGTCATTTTACC-AATGAGGG
1 CAAAACAATCATTTTACCACATAAGGGCAAAATAGTCATTTTACCTAATGAGGG
* * *
104189075 TAAAACAATCGTTTTACCACATAAGGGCAAAATAGTCATTTTACCTCATGAGGG
1 CAAAACAATCATTTTACCACATAAGGGCAAAATAGTCATTTTACCTAATGAGGG
* * * *
104189129 CAAAACAGTCATTTTACCCCATAGGGGCAAAACAGTCATTTTA
1 CAAAACAATCATTTTACCACATAAGGGCAAAATAGTCATTTTA
104189172 TTAAATTGGG
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 41 0.48
54 44 0.52
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (54 bp):
CAAAACAATCATTTTACCACATAAGGGCAAAATAGTCATTTTACCTAATGAGGG
Found at i:104194652 original size:12 final size:12
Alignment explanation
Indices: 104194635--104194659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104194625 TACCCACTAT
104194635 TCAAACTTGGGC
1 TCAAACTTGGGC
104194647 TCAAACTTGGGC
1 TCAAACTTGGGC
104194659 T
1 T
104194660 TTAGCAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
TCAAACTTGGGC
Found at i:104196586 original size:27 final size:27
Alignment explanation
Indices: 104196548--104196676 Score: 125
Period size: 27 Copynumber: 4.8 Consensus size: 27
104196538 ACCGTATTAC
* ** *
104196548 AAAATTAACGAAATACCATTGATTTCA
1 AAAATTATCGAAATACCCCTGATTTAA
*
104196575 AAAATTACCGAAATACCCCT-AGTTTAA
1 AAAATTATCGAAATACCCCTGA-TTTAA
* *
104196602 AAAATTATCGAAATACCCCTGGTTTGA
1 AAAATTATCGAAATACCCCTGATTTAA
** *
104196629 AAAATTATCGAAATACCCCCAATTTAG
1 AAAATTATCGAAATACCCCTGATTTAA
* * *
104196656 AAAATTACCAAAATAGCCCTG
1 AAAATTATCGAAATACCCCTG
104196677 GTTCATAAAA
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 82 0.99
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.26
Consensus pattern (27 bp):
AAAATTATCGAAATACCCCTGATTTAA
Found at i:104196632 original size:54 final size:54
Alignment explanation
Indices: 104196548--104196699 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
104196538 ACCGTATTAC
** * * *
104196548 AAAATTAACGAAATACCATTGATTTCAAAAATTACCGAAATACCCCTAGTTTAA
1 AAAATTAACGAAATACCCCTGGTTTCAAAAATTACCGAAATACCCCCAATTTAA
* * * *
104196602 AAAATTATCGAAATACCCCTGGTTTGAAAAATTATCGAAATACCCCCAATTTAG
1 AAAATTAACGAAATACCCCTGGTTTCAAAAATTACCGAAATACCCCCAATTTAA
* * * **
104196656 AAAATTACCAAAATAGCCCTGG-TTCATAAAATTACTAAAATACC
1 AAAATTAACGAAATACCCCTGGTTTCA-AAAATTACCGAAATACC
104196700 TTGGTAGTGT
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 3 0.04
54 78 0.96
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.27
Consensus pattern (54 bp):
AAAATTAACGAAATACCCCTGGTTTCAAAAATTACCGAAATACCCCCAATTTAA
Found at i:104198515 original size:40 final size:40
Alignment explanation
Indices: 104198413--104198595 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 40
104198403 AAATTGAATG
* * * * *
104198413 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
104198453 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
104198493 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCCAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
104198533 AAATCCGGGCT-AGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
104198572 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
104198596 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
39 32 0.27
40 85 0.72
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:104206595 original size:40 final size:40
Alignment explanation
Indices: 104206502--104206683 Score: 181
Period size: 39 Copynumber: 4.6 Consensus size: 40
104206492 AAATTGAATG
* * * * *
104206502 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
104206541 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
104206581 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
104206620 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
104206660 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
104206684 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 64 0.53
40 56 0.47
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:104208178 original size:27 final size:27
Alignment explanation
Indices: 104208124--104208185 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
104208114 GGGTGTTACA
*
104208124 AAAATGACCATAATACCCCTGTAGGGT
1 AAAATGACCATAATACCCCTATAGGGT
* * * *
104208151 AAAATGACCGTAATGCTCCTATATGGT
1 AAAATGACCATAATACCCCTATAGGGT
*
104208178 ATAATGAC
1 AAAATGAC
104208186 GATTATGCCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AAAATGACCATAATACCCCTATAGGGT
Found at i:104216771 original size:44 final size:44
Alignment explanation
Indices: 104216708--104216864 Score: 178
Period size: 43 Copynumber: 3.6 Consensus size: 44
104216698 TATGTGTTAT
* *
104216708 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TGTGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TATATGATTTA
*
104216752 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTTA
* ** * * * *
104216794 CTTGTAAGACCTTGTCTGGGACAGTGGCATCAATGTTTGA-TTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTTA
*
104216837 CATGTAAGACCACGTCTGGGACATTGGC
1 CGTGTAAGACCACGTCTGGGACATTGGC
104216865 GTTGTACGAG
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 31 0.32
43 36 0.37
44 30 0.31
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTTA
Found at i:104218044 original size:16 final size:17
Alignment explanation
Indices: 104218018--104218050 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
104218008 AAGGAAAATA
*
104218018 ATATGATATGTTTATAG
1 ATATGATATGTATATAG
104218035 ATAT-ATATGTATATAG
1 ATATGATATGTATATAG
104218051 CCAAGTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (17 bp):
ATATGATATGTATATAG
Found at i:104228564 original size:21 final size:20
Alignment explanation
Indices: 104228536--104228575 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
104228526 AGATATAATA
104228536 GCCAAGCTTA-ATCATATTCG
1 GCCAAGCTTATAT-ATATTCG
104228556 GCCATAGCTTATATATATTC
1 GCCA-AGCTTATATATATTC
104228576 ATACATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (20 bp):
GCCAAGCTTATATATATTCG
Found at i:104233315 original size:22 final size:22
Alignment explanation
Indices: 104233287--104233333 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
104233277 ACCACGCTTT
104233287 TTAGGAACACATTGCACTGGAC
1 TTAGGAACACATTGCACTGGAC
104233309 TTAGGAACACATTGCACTGGAC
1 TTAGGAACACATTGCACTGGAC
104233331 TTA
1 TTA
104233334 CCCAATTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (22 bp):
TTAGGAACACATTGCACTGGAC
Found at i:104237020 original size:24 final size:24
Alignment explanation
Indices: 104236988--104237037 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
104236978 AATATGACTT
104236988 TTGTTTTATTTTAATTAGGGTTAA
1 TTGTTTTATTTTAATTAGGGTTAA
104237012 TTGTTTTATTTTAATTAGGGTTAA
1 TTGTTTTATTTTAATTAGGGTTAA
104237036 TT
1 TT
104237038 ATTCAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (24 bp):
TTGTTTTATTTTAATTAGGGTTAA
Found at i:104238748 original size:43 final size:42
Alignment explanation
Indices: 104238678--104238797 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 42
104238668 CACAGAGTAC
* * * *
104238678 CGTACCAATGCCATAACCCAGAGATGGTCTTATATGTAA-TCT
1 CGTATCAATGCCATAACCCAGATATGGTCTTACACG-AAGTCT
* *
104238720 CGTATCAATGCCAATAACCTAGCTATGGTCTTACACGAAGTCT
1 CGTATCAATGCC-ATAACCCAGATATGGTCTTACACGAAGTCT
* *
104238763 CGTATCGATGCCATATCCCAGATATGGTCTTACAC
1 CGTATCAATGCCATAACCCAGATATGGTCTTACAC
104238798 ATAATCTCAG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
CGTATCAATGCCATAACCCAGATATGGTCTTACACGAAGTCT
Found at i:104238877 original size:16 final size:16
Alignment explanation
Indices: 104238837--104238887 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
104238827 GGTTCACTGG
*
104238837 AATAGAATAGGGCTGT
1 AATAGAATAGAGCTGT
104238853 AAT-GAAATAGAGCTGT
1 AATAG-AATAGAGCTGT
104238869 AATAGAATA-AGGCTGT
1 AATAGAATAGA-GCTGT
104238885 AAT
1 AAT
104238888 CAACAATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 2 0.06
16 28 0.90
17 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
AATAGAATAGAGCTGT
Found at i:104239083 original size:6 final size:6
Alignment explanation
Indices: 104239072--104239101 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
104239062 AATATAATTT
104239072 AATAAA AATAAA AATAAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA
104239102 TAATTTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:104244463 original size:27 final size:27
Alignment explanation
Indices: 104244424--104244580 Score: 192
Period size: 27 Copynumber: 5.9 Consensus size: 27
104244414 ATCTATACAT
* * *
104244424 CACAT-AGGACAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
104244450 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
104244477 CA-ATGAGGGTAAAACAGTCGTTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
104244503 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
104244530 CTCATGAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
104244557 CCCATAAGGGCAAAACAGTCATTT
1 CACATAAGGGCAAAACAGTCATTT
104244581 CATTAAATTG
Statistics
Matches: 111, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 26 0.23
27 85 0.77
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:104244514 original size:53 final size:54
Alignment explanation
Indices: 104244433--104244580 Score: 217
Period size: 54 Copynumber: 2.8 Consensus size: 54
104244423 TCACATAGGA
* * *
104244433 CAAAACAATCATCTTACCATATAAGGGCAAAATAGTCATTTTACC-AATGAGGG
1 CAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTACCTAATGAGGG
* * *
104244486 TAAAACAGTCGTTTTACCACATAAGGGCAAAATAGTCATTTTACCTCATGAGGG
1 CAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTACCTAATGAGGG
* *
104244540 CAAAACAGTCATTTTACCCCATAAGGGCAAAACAGTCATTT
1 CAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTT
104244581 CATTAAATTG
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 40 0.48
54 44 0.52
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (54 bp):
CAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTACCTAATGAGGG
Found at i:104250466 original size:40 final size:40
Alignment explanation
Indices: 104250381--104250531 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
104250371 AATTGAATGA
* * *
104250381 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
104250421 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
104250462 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
104250501 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
104250532 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:104250545 original size:40 final size:40
Alignment explanation
Indices: 104250418--104250547 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
104250408 ATGCTGGAAA
* * * *
104250418 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
104250458 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
104250498 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
104250538 TTATATCCGG
1 TTATATCCGG
104250548 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:104254321 original size:40 final size:39
Alignment explanation
Indices: 104254276--104254483 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
104254266 CGGAATACAA
*
104254276 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
104254316 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
104254356 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
104254396 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
104254436 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
104254476 CCGGATAT
1 CCGGATAT
104254484 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:104254416 original size:80 final size:80
Alignment explanation
Indices: 104254276--104254482 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
104254266 CGGAATACAA
* * *
104254276 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
*
104254341 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* ** * *
104254356 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACA-ACGACTAGCACAAAT
*
104254420 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
104254436 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
104254483 TCATTCAATT
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:104264068 original size:15 final size:15
Alignment explanation
Indices: 104264020--104264068 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
104264010 GTGTTGTAAA
104264020 TTGGATTT-TCTTATC
1 TTGGATTTCT-TTATC
* *
104264035 ATGAATTTCTTTATC
1 TTGGATTTCTTTATC
*
104264050 TTGGATTTCTTTATT
1 TTGGATTTCTTTATC
104264065 TTGG
1 TTGG
104264069 GCTTCTCCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 27 0.96
16 1 0.04
ACGTcount: A:0.16, C:0.10, G:0.14, T:0.59
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:104265948 original size:58 final size:58
Alignment explanation
Indices: 104265858--104265978 Score: 242
Period size: 58 Copynumber: 2.1 Consensus size: 58
104265848 GTTGATCTCA
104265858 AATATAGAAAAGGATCTAGCCCGGACGGGTGTTCCTTGAATGATCGAGCCTCCTAAAG
1 AATATAGAAAAGGATCTAGCCCGGACGGGTGTTCCTTGAATGATCGAGCCTCCTAAAG
104265916 AATATAGAAAAGGATCTAGCCCGGACGGGTGTTCCTTGAATGATCGAGCCTCCTAAAG
1 AATATAGAAAAGGATCTAGCCCGGACGGGTGTTCCTTGAATGATCGAGCCTCCTAAAG
104265974 AATAT
1 AATAT
104265979 GTGTGCGTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (58 bp):
AATATAGAAAAGGATCTAGCCCGGACGGGTGTTCCTTGAATGATCGAGCCTCCTAAAG
Found at i:104270849 original size:47 final size:47
Alignment explanation
Indices: 104270785--104270975 Score: 319
Period size: 47 Copynumber: 4.1 Consensus size: 47
104270775 ACACGCTTCG
* * * * **
104270785 CATTAGCCATTCAGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
104270832 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
104270879 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
104270926 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
104270973 CAT
1 CAT
104270976 AAAATCCTAA
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 136 1.00
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:104282548 original size:41 final size:40
Alignment explanation
Indices: 104282490--104282636 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
104282480 GAGCTTGGTC
104282490 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGC-TTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
104282531 TCGAAGGGCTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGCTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * *
104282571 CCGAAGGGCCTTCGAGCCAGTGGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGG-CTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
104282612 TCGAAGGGCTTTGAGCCAGTGCTAA
1 TCGAAGGGCTTTGAGCCAGTGCTAA
104282637 GAATCGGGCT
Statistics
Matches: 90, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
38 4 0.04
39 1 0.01
40 45 0.50
41 37 0.41
43 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCGAAGGGCTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:104282648 original size:40 final size:40
Alignment explanation
Indices: 104282478--104282636 Score: 166
Period size: 41 Copynumber: 3.9 Consensus size: 40
104282468 GGGTCTAAAT
104282478 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGCTAATAA
* * * *
104282519 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTT-GAGCCAGTGCTAATAA
* *
104282559 CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTCT-CGAAGGG-CTTTGAGCCAGT-G-CTAATAA
104282600 CCGAGCTTGGTCTCGAAGGGCTTTGAGCCAGTGCTAA
1 CCGAGCTTGGTCTCGAAGGGCTTTGAGCCAGTGCTAA
104282637 GAATCGGGCT
Statistics
Matches: 100, Mismatches: 9, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
38 4 0.04
39 2 0.02
40 43 0.43
41 46 0.46
42 2 0.02
43 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAGCTTGGTCTCGAAGGGCTTTGAGCCAGTGCTAATAA
Found at i:104282654 original size:81 final size:80
Alignment explanation
Indices: 104282491--104282658 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 80
104282481 AGCTTGGTCT
* * * *
104282491 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTGTCA
1 CGAAGGGCCTTCGAGCCAGTGCTAAT-ACCGAACTTAGTCTCGAAGGGCTTTAGAGCCAGTGTAA
*
104282556 TAACCGGACTTAGTTC
65 GAACCGGACTTAGTTC
* *
104282572 CGAAGGGCCTTCGAGCCAGTGGTCTAAT-CCGAGCTTGGTCTCGAAGGGCTTT-GAGCCAGTGCT
1 CGAAGGGCCTTCGAGCCAGT-G-CTAATACCGAACTTAGTCTCGAAGGGCTTTAGAGCCAGTG-T
* *
104282635 AAGAATCGGGCTT-GATTC
63 AAGAACCGGACTTAG-TTC
104282653 CGAAGG
1 CGAAGG
104282659 ATGTTTGTGC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
80 10 0.14
81 58 0.78
82 1 0.01
83 5 0.07
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (80 bp):
CGAAGGGCCTTCGAGCCAGTGCTAATACCGAACTTAGTCTCGAAGGGCTTTAGAGCCAGTGTAAG
AACCGGACTTAGTTC
Found at i:104286225 original size:18 final size:18
Alignment explanation
Indices: 104286204--104286249 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
104286194 AATGAATCTT
104286204 AATTGTGAAATAAACAAC
1 AATTGTGAAATAAACAAC
104286222 AATTGTGAAATAAACAAC
1 AATTGTGAAATAAACAAC
**
104286240 TTTTGTGAAA
1 AATTGTGAAA
104286250 GAACTTCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.50, C:0.09, G:0.13, T:0.28
Consensus pattern (18 bp):
AATTGTGAAATAAACAAC
Found at i:104287092 original size:38 final size:38
Alignment explanation
Indices: 104287041--104287232 Score: 264
Period size: 38 Copynumber: 5.1 Consensus size: 38
104287031 TAAAAGAAGT
* *
104287041 AATCCGAACTTAAAGTTCGCAAGCTATATGCTGGAATA
1 AATCCGGACTTAAAGTTCGCAGGCTATATGCTGGAATA
* * *
104287079 AATCCGGACTTAAAGTCCGTAGGCTATATGATGGAATA
1 AATCCGGACTTAAAGTTCGCAGGCTATATGCTGGAATA
*
104287117 AATCCGGACTTAAAG-TCTGCGGGCTATATGCTGGAATA
1 AATCCGGACTTAAAGTTC-GCAGGCTATATGCTGGAATA
* *
104287155 AATCCGGACTTAAAGTCCGCAGGCTATATGCTAGAATA
1 AATCCGGACTTAAAGTTCGCAGGCTATATGCTGGAATA
*
104287193 CATCCGGACTTAAAGTTCGCAGGCTA-AGTGCTGGAA-A
1 AATCCGGACTTAAAGTTCGCAGGCTATA-TGCTGGAATA
104287230 AAT
1 AAT
104287233 ATCCATTTAA
Statistics
Matches: 135, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
37 5 0.04
38 129 0.96
39 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (38 bp):
AATCCGGACTTAAAGTTCGCAGGCTATATGCTGGAATA
Found at i:104291008 original size:66 final size:68
Alignment explanation
Indices: 104290932--104291118 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
104290922 TAGTACCACT
*
104290932 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
104290994 CACG
65 CACG
104290998 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
104291063 ATCACG
63 ATCACG
104291069 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
104291119 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:104291043 original size:71 final size:71
Alignment explanation
Indices: 104290955--104291118 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
104290945 CGATTTGTCT
104290955 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104291020 CTTTCA
66 CTTTCA
104291026 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104291091 CTTTCA
66 CTTTCA
104291097 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
104291119 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:104291156 original size:71 final size:70
Alignment explanation
Indices: 104290955--104291152 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
104290945 CGATTTGTCT
* * *
104290955 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
104291020 CTTTCA
65 CTTTCA
* * *
104291026 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
104291091 CTTTCA
65 CTTTCA
* *
104291097 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
104291153 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:104298576 original size:66 final size:68
Alignment explanation
Indices: 104298500--104298686 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
104298490 TAGTACCACT
*
104298500 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
104298562 CACG
65 CACG
104298566 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
104298631 ATCACG
63 ATCACG
104298637 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
104298687 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:104298611 original size:71 final size:71
Alignment explanation
Indices: 104298523--104298686 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
104298513 CGATTTGTCT
104298523 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104298588 CTTTCA
66 CTTTCA
104298594 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104298659 CTTTCA
66 CTTTCA
104298665 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
104298687 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:104298724 original size:71 final size:70
Alignment explanation
Indices: 104298523--104298720 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
104298513 CGATTTGTCT
* * *
104298523 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
104298588 CTTTCA
65 CTTTCA
* * *
104298594 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
104298659 CTTTCA
65 CTTTCA
* *
104298665 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
104298721 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:104303971 original size:38 final size:38
Alignment explanation
Indices: 104303920--104304112 Score: 309
Period size: 38 Copynumber: 5.1 Consensus size: 38
104303910 GTAAAAGAAG
104303920 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
*
104303958 AAATCCGGACTTAAAGTCCACAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
*
104303996 AAATCCGGACTTAAAGTCCGCGGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
* *
104304034 AAATCCGGACTTAAAGTTCGTAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
* *
104304072 AAATCTGGACTTAAAGTCCACAGGCTA-AGTGCTGGAA-
1 AAATCCGGACTTAAAGTCCGCAGGCTATA-TGCTGGAAT
104304109 AAAT
1 AAAT
104304113 ATTCGGGTTA
Statistics
Matches: 144, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
37 5 0.03
38 139 0.97
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (38 bp):
AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
Found at i:104304142 original size:114 final size:114
Alignment explanation
Indices: 104303920--104304142 Score: 308
Period size: 114 Copynumber: 2.0 Consensus size: 114
104303910 GTAAAAGAAG
104303920 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAATAAATCCGGACTTAAAGTCCACAGGCTA
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAATAAATCCGGACTTAAAGTCCACAGGCTA
* * * *
104303985 TATGCTGGAATAAATCCGGACTTAAAGTCCGCGGGCTATATGCTGGAAT
66 TATGCTGGAAAAAATCCGGACTTAAAGCCCGCAGGCTACATGCTGGAAT
* * *
104304034 AAATCCGGACTTAAAGTTCGTAGGCTATATGCTGGAATAAATCTGGACTTAAAGTCCACAGGCTA
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAATAAATCCGGACTTAAAGTCCACAGGCTA
* * *
104304099 -AGTGCTGGAAAAATATTCGG-GTTAAGGACCCGCAGGCT-CATGCT
66 TA-TGCTGGAAAAA-ATCCGGACTTAAAG-CCCGCAGGCTACATGCT
104304143 AGTAATGTAT
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
113 1 0.01
114 82 0.85
115 13 0.14
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (114 bp):
AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAATAAATCCGGACTTAAAGTCCACAGGCTA
TATGCTGGAAAAAATCCGGACTTAAAGCCCGCAGGCTACATGCTGGAAT
Found at i:104305689 original size:49 final size:49
Alignment explanation
Indices: 104305492--104305714 Score: 171
Period size: 49 Copynumber: 4.7 Consensus size: 49
104305482 TGAGACGAGT
* *
104305492 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGA-AA
* * * * * *
104305540 GCTAGTGTATGACTTGTCTGGGACATGGCGTCAG-CTTG-T-TGTG--T
1 GCTAGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
* * * *
104305584 G-TCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGA
1 GCT-AGTGTAAGACTTGTCTGGGACATGGCATCGGC-CTCGATATATGAAA
* * *
104305633 GCCAGTGTAAGGCTTGTCTGAGACATGGCATCGGCCTCGATATATGAAA
1 GCTAGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
* *
104305682 GTTAGTGTAAGAACTAT-T-TGGGACACGGCATCG
1 GCTAGTGTAAG-ACT-TGTCTGGGACATGGCATCG
104305715 ACTTTAATGT
Statistics
Matches: 133, Mismatches: 29, Indels: 25
0.71 0.16 0.13
Matches are distributed among these distances:
43 1 0.01
44 27 0.20
45 1 0.01
46 4 0.03
47 2 0.02
48 28 0.21
49 66 0.50
50 3 0.02
51 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (49 bp):
GCTAGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
Found at i:104310186 original size:5 final size:6
Alignment explanation
Indices: 104310130--104310185 Score: 51
Period size: 6 Copynumber: 8.7 Consensus size: 6
104310120 TTTGATATCA
*
104310130 AAAAAT AAAAACTT CAAAAAT AAAAAT AAGCAAA- ACAAAT AAAAAT AAAAAT
1 AAAAAT AAAAA--T -AAAAAT AAAAAT AA--AAAT AAAAAT AAAAAT AAAAAT
104310182 AAAA
1 AAAA
104310186 TCTAACCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
5 3 0.07
6 28 0.67
7 2 0.05
8 4 0.10
9 5 0.12
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:104310516 original size:37 final size:36
Alignment explanation
Indices: 104310475--104310668 Score: 153
Period size: 37 Copynumber: 5.3 Consensus size: 36
104310465 TCCATCTGAA
* *
104310475 AACACACCAAATGCACATAAGACCTCATCCACCCGAT
1 AACACACCAAATGCTCATAAGAGCT-ATCCACCCGAT
* * *
104310512 AACACACCAATTGCT-TTCAAGAGCTAGTCCAACC--T
1 AACACACCAAATGCTCAT-AAGAGCTA-TCCACCCGAT
* *
104310547 AACGACGCCAAATGCTCATAAGAGCTTAACCACCCGAT
1 AAC-ACACCAAATGCTCATAAGAGC-TATCCACCCGAT
** * * **
104310585 AACATGCCAATTGCTCCTAAGAGCTAGTCCAAACGA-
1 AACACACCAAATGCTCATAAGAGCTA-TCCACCCGAT
** *
104310621 AACATGCCAAATGCTCATAAGAGCTGAACCACCCGAT
1 AACACACCAAATGCTCATAAGAGCT-ATCCACCCGAT
104310658 AACACACCAAA
1 AACACACCAAA
104310669 ACAAGGAGTA
Statistics
Matches: 124, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
35 4 0.03
36 54 0.44
37 62 0.50
38 4 0.03
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.16
Consensus pattern (36 bp):
AACACACCAAATGCTCATAAGAGCTATCCACCCGAT
Found at i:104310607 original size:73 final size:73
Alignment explanation
Indices: 104310474--104310667 Score: 248
Period size: 73 Copynumber: 2.7 Consensus size: 73
104310464 ATCCATCTGA
* * * * *
104310474 AAACACACCAAATGCACATAAGACCTCATCCACCCGATAACACACCAATTGCTTTCAAGAGCTAG
1 AAACACGCCAAATGCTCATAAGAGCTCAACCACCCGATAACACACCAATTGCTCTCAAGAGCTAG
104310539 TCC-AACC
66 TCCAAACC
* * **
104310546 TAACGACGCCAAATGCTCATAAGAGCTTAACCACCCGATAACATGCCAATTGCTC-CTAAGAGCT
1 AAAC-ACGCCAAATGCTCATAAGAGCTCAACCACCCGATAACACACCAATTGCTCTC-AAGAGCT
*
104310610 AGTCCAAACG
64 AGTCCAAACC
* *
104310620 AAACATGCCAAATGCTCATAAGAGCTGAACCACCCGATAACACACCAA
1 AAACACGCCAAATGCTCATAAGAGCTCAACCACCCGATAACACACCAA
104310668 AACAAGGAGT
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
72 4 0.04
73 94 0.90
74 6 0.06
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.16
Consensus pattern (73 bp):
AAACACGCCAAATGCTCATAAGAGCTCAACCACCCGATAACACACCAATTGCTCTCAAGAGCTAG
TCCAAACC
Found at i:104310636 original size:36 final size:36
Alignment explanation
Indices: 104310530--104310645 Score: 119
Period size: 36 Copynumber: 3.2 Consensus size: 36
104310520 AATTGCTTTC
** *
104310530 AAGAGCTAGTCC-AACCTAACGACGCCAAATGCTCAT
1 AAGAGCTAGTCCAAACGAAAC-ATGCCAAATGCTCAT
* ** * *
104310566 AAGAGCTTA-ACCACCCGATAACATGCCAATTGCTCCT
1 AAGAGC-TAGTCCAAACGA-AACATGCCAAATGCTCAT
104310603 AAGAGCTAGTCCAAACGAAACATGCCAAATGCTCAT
1 AAGAGCTAGTCCAAACGAAACATGCCAAATGCTCAT
104310639 AAGAGCT
1 AAGAGCT
104310646 GAACCACCCG
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
36 33 0.52
37 27 0.43
38 3 0.05
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.18
Consensus pattern (36 bp):
AAGAGCTAGTCCAAACGAAACATGCCAAATGCTCAT
Found at i:104312987 original size:40 final size:39
Alignment explanation
Indices: 104312929--104313121 Score: 131
Period size: 40 Copynumber: 4.8 Consensus size: 39
104312919 GGATATAGCG
* * * *
104312929 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGTT-TAGTA
* *
104312969 ATTCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAATA
1 ACTCGCACAATTGCCTTCGGGACA-TAGCCCGG-TTTAGTA
* * * *
104313009 ACTCGCACGAA-TGCCTTCGGGACTTAACCCGATTTTGGTA
1 ACTCGCAC-AATTGCCTTCGGGACATAGCCCG-GTTTAGTA
* * * *
104313049 ACTCGCACAAATGCCTTCGGGA-GTTGACCCGGATTTAGTC
1 ACTCGCACAATTGCCTTCGGGACATAG-CCCGG-TTTAGTA
* ** *
104313089 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAATTGCCTTCGGGACATAGCCCGG
104313122 ACACCATTCG
Statistics
Matches: 121, Mismatches: 22, Indels: 19
0.75 0.14 0.12
Matches are distributed among these distances:
39 4 0.03
40 88 0.73
41 27 0.22
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
ACTCGCACAATTGCCTTCGGGACATAGCCCGGTTTAGTA
Found at i:104313055 original size:80 final size:81
Alignment explanation
Indices: 104312971--104313120 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 81
104312961 TTATAGTGAT
* * * *
104312971 TCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAATAAC-TCGCACGAATGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAATAACTTAGCACAAAAGCCTTCGGGACTT
104313034 AACCCGATTTTGGTAAC
65 AACCCGATTTTGGTAAC
* * *
104313051 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAATAACTTAGCACAAAAGCCTTCGGGACTTA
*
104313116 GCCCG
66 ACCCG
104313121 GACACCATTC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 34 0.57
81 26 0.43
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAATAACTTAGCACAAAAGCCTTCGGGACTTA
ACCCGATTTTGGTAAC
Found at i:104313098 original size:41 final size:39
Alignment explanation
Indices: 104312971--104313122 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
104312961 TTATAGTGAT
* *
104312971 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAATAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * *
104313011 TCGCACGAATGCCTTCGGGACTTAACCC-GATTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGA-TTTAGTAAC
* *
104313051 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
104313091 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGA
104313123 CACCATTCGA
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.02
40 63 0.67
41 29 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:104317231 original size:25 final size:25
Alignment explanation
Indices: 104317197--104317249 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
104317187 TGCACCACAC
104317197 GGCCAGAGACACATCCGTGTGCCTT
1 GGCCAGAGACACATCCGTGTGCCTT
* *
104317222 GGCCAGAGACACATCTGTTTGCCTT
1 GGCCAGAGACACATCCGTGTGCCTT
104317247 GGC
1 GGC
104317250 TATGGGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.19, C:0.30, G:0.28, T:0.23
Consensus pattern (25 bp):
GGCCAGAGACACATCCGTGTGCCTT
Found at i:104318461 original size:47 final size:48
Alignment explanation
Indices: 104318297--104318464 Score: 132
Period size: 47 Copynumber: 3.6 Consensus size: 48
104318287 ATAAGTAACC
** * *
104318297 TATACCATGGC-CCTTAGCCAAATCAAGATAACTTATTCCGGAGTACC
1 TATACCATGGCTCGATAGCCAAATCAAGATAACTTATCCCGGAGTACT
* * ** * ** **
104318344 TATACCATGGC-CTG-TAGCCAAATCAAGGTATCTCCTCTCAAAAAACCT
1 TATACCATGGCTC-GATAGCCAAATCAAGATAACTTATCCCGGAGTA-CT
* **
104318392 TA-ATCATGGCTCGA-AGAAAAATCAAGATAACTTATCCCGGAGTACT
1 TATACCATGGCTCGATAGCCAAATCAAGATAACTTATCCCGGAGTACT
104318438 TATACCATGGCTC-ATAGCCAAATCAAG
1 TATACCATGGCTCGATAGCCAAATCAAG
104318465 GCAACTCCTT
Statistics
Matches: 88, Mismatches: 27, Indels: 12
0.69 0.21 0.09
Matches are distributed among these distances:
46 5 0.06
47 79 0.90
48 4 0.05
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (48 bp):
TATACCATGGCTCGATAGCCAAATCAAGATAACTTATCCCGGAGTACT
Found at i:104318508 original size:94 final size:94
Alignment explanation
Indices: 104318293--104318511 Score: 287
Period size: 94 Copynumber: 2.3 Consensus size: 94
104318283 ATCGATAAGT
* * * * * *
104318293 AACCTATACCATGGCCCTTAGCCAAATCAAGATAACTTATTCCGGAGTACCTATACCATGGCCTG
1 AACCTAAATCATGGCTCGTAGCCAAATCAAGATAACTTATCCCGGAGTACCTATACCATGGCCTA
* *
104318358 TAGCCAAATCAAGGTATCTCCTCTCAAAA
66 TAGCCAAATCAAGGCAACTCCTCTCAAAA
* * ** *
104318387 AACCTTAATCATGGCTCGAAGAAAAATCAAGATAACTTATCCCGGAGTACTTATACCATGG-CTC
1 AACCTAAATCATGGCTCGTAGCCAAATCAAGATAACTTATCCCGGAGTACCTATACCATGGCCT-
*
104318451 ATAGCCAAATCAAGGCAACTCCTTTCAAAA
65 ATAGCCAAATCAAGGCAACTCCTCTCAAAA
*
104318481 TACCTAAATCATGGCTCGTAGCCAAATCAAG
1 AACCTAAATCATGGCTCGTAGCCAAATCAAG
104318512 GTATTATTCG
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
93 2 0.02
94 103 0.98
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (94 bp):
AACCTAAATCATGGCTCGTAGCCAAATCAAGATAACTTATCCCGGAGTACCTATACCATGGCCTA
TAGCCAAATCAAGGCAACTCCTCTCAAAA
Found at i:104319642 original size:13 final size:13
Alignment explanation
Indices: 104319624--104319648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104319614 ACAAACGATA
104319624 AAATTTTCACACG
1 AAATTTTCACACG
104319637 AAATTTTCACAC
1 AAATTTTCACAC
104319649 ATATCACATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:104338901 original size:28 final size:28
Alignment explanation
Indices: 104338869--104338935 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
104338859 GAGATTGGCT
*
104338869 CTAAGTGTGCGAGTTTAATT-GTATAGCA
1 CTAAGTGTGCGAGTTTAATTATTA-AGCA
*
104338897 CTAAGTGTGCGAGTTTGATTATTAAGCA
1 CTAAGTGTGCGAGTTTAATTATTAAGCA
104338925 CTAAGTGTGCG
1 CTAAGTGTGCG
104338936 GACTTACTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTAATTATTAAGCA
Found at i:104340489 original size:29 final size:28
Alignment explanation
Indices: 104340455--104340557 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
104340445 TACTCAATCA
*
104340455 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
104340484 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
104340513 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
104340542 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
104340558 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:104348409 original size:29 final size:28
Alignment explanation
Indices: 104348375--104348477 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
104348365 TACTCAATCA
*
104348375 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
104348404 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
104348433 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
104348462 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
104348478 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:104361004 original size:28 final size:28
Alignment explanation
Indices: 104360972--104361041 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
104360962 AATGAGATTG
*
104360972 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
104361000 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
104361028 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104361042 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:104369087 original size:45 final size:43
Alignment explanation
Indices: 104369038--104369192 Score: 140
Period size: 41 Copynumber: 3.6 Consensus size: 43
104369028 ATGTGTTCTT
*
104369038 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATATATGGTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCG-TATAT-TGGTTAC
* * * *
104369083 GTGTATGACCATGTCTGGGACATCGGCATCGTAT-TTGATT-C
1 GTGTAAGACCACGTCTGGGACATTGGCATCGTATATTGGTTAC
* * *
104369124 GTGTAAGACC-CTGCCTGGGACACTGGCATCG-ATA-TGTGATAGC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGTATATTG-GTTA-C
* *
104369167 ATGTAAGACCACGTCTGGGACGTTGG
1 GTGTAAGACCACGTCTGGGACATTGG
104369193 AATTGTACGA
Statistics
Matches: 88, Mismatches: 16, Indels: 14
0.75 0.14 0.12
Matches are distributed among these distances:
40 4 0.05
41 27 0.31
42 4 0.05
43 22 0.25
44 4 0.05
45 27 0.31
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGTATATTGGTTAC
Found at i:104375771 original size:48 final size:48
Alignment explanation
Indices: 104375711--104375816 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
104375701 CGGCCACAAT
* *
104375711 ATATACACATCTCATACATATTTCACATTAACCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAACCATTCGGCTTTACCAC
*
104375759 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAACCATTCGGCTTTACCAC
* *
104375807 ACATATATAT
1 ATATACATAT
104375817 ATTTATCTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAACCATTCGGCTTTACCAC
Found at i:104384968 original size:47 final size:47
Alignment explanation
Indices: 104384911--104385717 Score: 1069
Period size: 47 Copynumber: 17.3 Consensus size: 47
104384901 GTATGAGATA
104384911 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
104384958 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
104385005 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
104385052 TATATGTTTGATAAGGCCTAATGGCCGATGTGATGAATGTGATAAG-G
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA-AAGTG
** * * * * *
104385099 CCTA-ATGGCCGAT--GTG-ATGAATGTG--AAAGTGTAT-ATGTGTGATAAG-G
1 TATATAT-G-TGATAAG-GCCT-AATG-GCCGATGTG-ATGA-ATGTGA-AAGTG
** * *
104385146 CCTA-ATGAGGCCTAATGGCC-----G---ATGTGATGAATGTGAAAGTG
1 TATATATG-TG-ATAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104385187 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104385234 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104385281 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
104385328 TATATGTGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
104385375 TATATGTGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104385422 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
104385469 TATATGTGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
104385516 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
104385563 CATAT-TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
104385609 CATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG
* * * *
104385656 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104385703 TATAAATGTGATAAG
1 TATATATGTGATAAG
104385718 TCCCGAAGGG
Statistics
Matches: 699, Mismatches: 34, Indels: 54
0.89 0.04 0.07
Matches are distributed among these distances:
39 4 0.01
40 6 0.01
41 11 0.02
42 7 0.01
43 1 0.00
44 1 0.00
46 57 0.08
47 602 0.86
48 8 0.01
49 1 0.00
50 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:104385098 original size:31 final size:31
Alignment explanation
Indices: 104385060--104385124 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
104385050 TGTATATGTT
104385060 TGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATG
104385091 TGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATG
104385122 TGA
1 TGA
104385125 AAGTGTATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (31 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:104385595 original size:22 final size:22
Alignment explanation
Indices: 104385521--104385595 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
104385511 AAGTGTATAT
*
104385521 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCA
* *
104385543 ATGTGATGAATG--TGAAAGTG-CA
1 ATGTGAT-AAGGCCT-AATG-GCCA
104385565 TATTGTGATAAGGCCTAATGGCCA
1 -A-TGTGATAAGGCCTAATGGCCA
104385589 ATGTGAT
1 ATGTGAT
104385596 GAATGTGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
21 1 0.03
22 17 0.43
23 10 0.25
24 11 0.28
25 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCA
Found at i:104388306 original size:40 final size:40
Alignment explanation
Indices: 104387825--104388274 Score: 747
Period size: 40 Copynumber: 11.2 Consensus size: 40
104387815 GAGAACTGAG
104387825 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
104387865 AGTGATATAACCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
104387905 AGTGATATATTCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
104387945 AGTGATATAACCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
104387985 AGTGATATATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
104388025 AGTGATATAACCGGACTAACTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
104388065 AGTGATATATCCGGACTAAGTTCCAAAGAGCATTTGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
104388105 AGTGATATAACCGTACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
104388145 AGTGATACATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
104388185 AGTGATATAACAGGACTAACTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
104388225 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
104388265 AGTGATATAT
1 AGTGATATAT
104388275 TCGGGCGAAA
Statistics
Matches: 379, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 379 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:104391470 original size:47 final size:47
Alignment explanation
Indices: 104391413--104392014 Score: 778
Period size: 47 Copynumber: 12.3 Consensus size: 47
104391403 GTATGACATA
104391413 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104391460 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATAAG-G
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA-AAGTG
* ** *
104391507 CCTAATGGTCGATGTGATGAATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --T-AT-AT--ATGTGAT-AA-G-G-CCTAATG-------GCCGATGTGATGAATGTGAAAGTG
*
104391571 TATATGTGTGATAAGGCCTAATGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTG---A----TAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104391626 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
104391673 TATATATGTGATAAGGCCTAATGGCCG-TGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104391719 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
104391766 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
104391813 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
104391860 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
104391907 CATATATGTGATAAGGCCGAATGGCC-AAGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
104391953 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104392000 TATAAATGTGATAAG
1 TATATATGTGATAAG
104392015 TCCCGAAGGG
Statistics
Matches: 504, Mismatches: 23, Indels: 56
0.86 0.04 0.10
Matches are distributed among these distances:
46 88 0.17
47 315 0.62
48 6 0.01
49 1 0.00
50 2 0.00
51 1 0.00
52 1 0.00
53 6 0.01
54 2 0.00
55 35 0.07
56 1 0.00
57 4 0.01
58 4 0.01
60 1 0.00
61 3 0.01
62 5 0.01
63 4 0.01
64 24 0.05
65 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:104391503 original size:31 final size:31
Alignment explanation
Indices: 104391466--104391565 Score: 173
Period size: 31 Copynumber: 3.2 Consensus size: 31
104391456 AGTGTATATG
104391466 TGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAA
*
104391497 TGTGATAAGGCCTAATGGTCGATGTGATGAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAA
104391528 TGTGTGATAAGGCCTAATGGCCGATGTGATGAA
1 --TGTGATAAGGCCTAATGGCCGATGTGATGAA
104391561 TGTGA
1 TGTGA
104391566 AAGTGTATAT
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
31 35 0.54
33 30 0.46
ACGTcount: A:0.28, C:0.11, G:0.33, T:0.28
Consensus pattern (31 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:104391539 original size:33 final size:33
Alignment explanation
Indices: 104391463--104391564 Score: 181
Period size: 33 Copynumber: 3.2 Consensus size: 33
104391453 GAAAGTGTAT
104391463 ATGTGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGTGATAAGGCCTAATGGCCGATGTGATGA
*
104391496 A--TGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGTGATAAGGCCTAATGGCCGATGTGATGA
104391527 ATGTGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGTGATAAGGCCTAATGGCCGATGTGATGA
104391560 ATGTG
1 ATGTG
104391565 AAAGTGTATA
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
31 30 0.46
33 35 0.54
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.28
Consensus pattern (33 bp):
ATGTGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:104391849 original size:187 final size:188
Alignment explanation
Indices: 104391527--104392014 Score: 764
Period size: 187 Copynumber: 2.6 Consensus size: 188
104391517 GATGTGATGA
*
104391527 ATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
1 ATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG---A----TAA
*
104391592 TGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGT
59 -GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * *
104391657 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-GTGTGATGAATGTGAAAGTGTA
123 GATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCA
104391721 T
188 T
104391722 ATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
1 ATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
104391787 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
66 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
104391852 TGAAAGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCAT
131 TGAAAGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCAT
* * * * *
104391910 ATATGTGATAAGGCCGAATGGCC-AAGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAG
1 ATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * *
104391974 TGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
104392015 TCCCGAAGGG
Statistics
Matches: 278, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
187 179 0.64
188 45 0.16
192 1 0.00
195 53 0.19
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (188 bp):
ATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
TGAAAGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCAT
Found at i:104391893 original size:234 final size:237
Alignment explanation
Indices: 104391530--104392014 Score: 769
Period size: 234 Copynumber: 2.0 Consensus size: 237
104391520 GTGATGAATG
*
104391530 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG--AA---CTAATGG
* * * *
104391595 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGAT
61 CCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCAATGTGAT
* * ** *
104391660 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGTGTGATGAATGTGAAAGTGTATATG
126 GAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCAAGTGATGAATGTGAAAGTGTATATA
* * *
104391725 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
191 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAA
104391772 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-A-TAA-GGCCTAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAACTAATGGCCTAA
104391834 TGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
66 TGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
104391899 TGAAAGTGCATATATGTGATAAGGCCGAATGGCCAAGTGATGAATGTGAAAGTGTATATATGTGA
131 TGAAAGTGCATATATGTGATAAGGCCGAATGGCCAAGTGATGAATGTGAAAGTGTATATATGTGA
* *
104391964 TAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGTATAAA
196 TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAA
104392006 TGTGATAAG
1 TGTGATAAG
104392015 TCCCGAAGGG
Statistics
Matches: 228, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
234 174 0.76
235 3 0.01
239 1 0.00
242 50 0.22
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (237 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAACTAATGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
TGAAAGTGCATATATGTGATAAGGCCGAATGGCCAAGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAA
Found at i:104392188 original size:37 final size:37
Alignment explanation
Indices: 104392129--104392211 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
104392119 CCGAGCTCTA
* *
104392129 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
* *
104392166 AAGACCCGATGACCATGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
104392203 AAGCCCCGA
1 AAGACCCGA
104392212 ACTAAAGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.22
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
Found at i:104396696 original size:28 final size:29
Alignment explanation
Indices: 104396665--104396721 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
104396655 TAAAGTGATT
*
104396665 TTTGACAAAAGTGTCAATT-AGGGATTAA
1 TTTGACAAAAGTGTAAATTGAGGGATTAA
* *
104396693 TTTGAGAAAAGTGTAAATTGAGGGGTTAA
1 TTTGACAAAAGTGTAAATTGAGGGATTAA
104396722 ATTGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.32
Consensus pattern (29 bp):
TTTGACAAAAGTGTAAATTGAGGGATTAA
Found at i:104396730 original size:29 final size:28
Alignment explanation
Indices: 104396666--104396730 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
104396656 AAAGTGATTT
* * *
104396666 TTGACAAAAGTGTCAATTAGGGATTAAT
1 TTGAGAAAAGTGTAAATTAGGGATTAAA
*
104396694 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAGTGTAAATT-AGGGATTAAA
*
104396723 TTGTGAAA
1 TTGAGAAA
104396731 TAAGTGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (28 bp):
TTGAGAAAAGTGTAAATTAGGGATTAAA
Found at i:104402724 original size:23 final size:23
Alignment explanation
Indices: 104402698--104402747 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
104402688 ACTCCATGCA
104402698 ATGCAACATA-ATATCATACATGG-
1 ATGCAACATACATAT-A-ACATGGC
*
104402721 ATGCAATATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
104402744 ATGC
1 ATGC
104402748 TCAAATACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:104402840 original size:27 final size:27
Alignment explanation
Indices: 104402779--104402875 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 27
104402769 GTAGAACAAA
* *
104402779 TCTGTCATTTTACCTTACTAGGGTATT
1 TCTGTCATTTTACCCTACTGGGGTATT
*
104402806 AC-GATCATTTTACCCTACTGGGGTATT
1 TCTG-TCATTTTACCCTACTGGGGTATT
* * *
104402833 TCTGTCATTCTACCTTA-TGGGGTAGT
1 TCTGTCATTTTACCCTACTGGGGTATT
*
104402859 TCAGTCATTTTACCCTA
1 TCTGTCATTTTACCCTA
104402876 TGATGGTATT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
26 23 0.40
27 34 0.59
28 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (27 bp):
TCTGTCATTTTACCCTACTGGGGTATT
Found at i:104402865 original size:26 final size:26
Alignment explanation
Indices: 104402810--104402877 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
104402800 GGTATTACGA
* *
104402810 TCATTTTACCCTACTGGGGTATTTCTG
1 TCATTTTACCCTA-TGGGGTAGTTCAG
* *
104402837 TCATTCTACCTTATGGGGTAGTTCAG
1 TCATTTTACCCTATGGGGTAGTTCAG
104402863 TCATTTTACCCTATG
1 TCATTTTACCCTATG
104402878 ATGGTATTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
26 24 0.69
27 11 0.31
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.43
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTAGTTCAG
Found at i:104405002 original size:31 final size:31
Alignment explanation
Indices: 104404959--104405042 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
104404949 TCAAGCTCAG
104404959 CATAT-ACTGGGCCGAAGCCTTTCCATTATT
1 CATATCACTGGGCCGAAGCCTTTCCATTATT
*
104404989 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTCCATTATT
104405020 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
104405043 ACTGTAACAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATTATT
Found at i:104405307 original size:26 final size:25
Alignment explanation
Indices: 104405262--104405332 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
104405252 CTCTTTTAAT
**
104405262 AACTGGGGCAAAGCCCTTTTTTATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
104405287 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATA
*
104405313 AACTGGGGCAAAGACCTTTT
1 AACTGGGGCAAAGCCCTTTT
104405333 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 19 0.46
26 22 0.54
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:104405456 original size:25 final size:25
Alignment explanation
Indices: 104405428--104405475 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104405418 ATAATTAAAC
* **
104405428 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
104405453 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
104405476 CACATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:104412885 original size:31 final size:31
Alignment explanation
Indices: 104412836--104412951 Score: 146
Period size: 31 Copynumber: 3.8 Consensus size: 31
104412826 TCAAGCTCAA
104412836 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* * * *
104412866 CATATCACTGGGTCAAAGCCTTTCCATTATA
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* * * *
104412897 CATATCATTAGGCCGAAGCATTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
104412928 CATATCACT-GGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
104412952 TATAACAATA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
30 18 0.25
31 53 0.75
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:104413214 original size:26 final size:25
Alignment explanation
Indices: 104413169--104413239 Score: 106
Period size: 26 Copynumber: 2.8 Consensus size: 25
104413159 CTCTTTTAAT
*
104413169 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
104413194 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATA
*
104413220 AACTGAGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
104413240 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 20 0.48
26 22 0.52
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:104413324 original size:5 final size:5
Alignment explanation
Indices: 104413294--104413339 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
104413284 ACATCATGTG
* *
104413294 CATAT CATA- CATAT CATGT GCATAT CATAT CAAAT CATAT -ATAT CA
1 CATAT CATAT CATAT CATAT -CATAT CATAT CATAT CATAT CATAT CA
104413340 AAATCTCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
4 8 0.24
5 22 0.65
6 4 0.12
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (5 bp):
CATAT
Found at i:104413398 original size:25 final size:25
Alignment explanation
Indices: 104413370--104413417 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104413360 ATAATTAAAC
* **
104413370 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
104413395 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
104413418 CACACTCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:104416710 original size:93 final size:93
Alignment explanation
Indices: 104416598--104416768 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
104416588 GCCCATAAGT
* *
104416598 GAACTTGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTTGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
104416662 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
104416691 GAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
104416756 CGAGTTCGGATGC
66 CGAGTTCGGATGC
104416769 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:104416765 original size:46 final size:46
Alignment explanation
Indices: 104416590--104416765 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
104416580 TGTAACCCGC
* * *
104416590 CCATAAGTGAACTTGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
*
104416636 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * * *
104416686 --TTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
104416729 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
104416766 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 60 0.56
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:104417221 original size:30 final size:30
Alignment explanation
Indices: 104417187--104417246 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
104417177 ATTTAATACG
104417187 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
104417217 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
104417247 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:104421370 original size:27 final size:28
Alignment explanation
Indices: 104421340--104421409 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
104421330 ATAGTGTGTC
*
104421340 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
104421367 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
104421395 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
104421410 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:104423027 original size:79 final size:81
Alignment explanation
Indices: 104422926--104423110 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
104422916 ACGACTCGCT
** * *
104422926 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
104422989 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
104423006 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
104423070 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
104423086 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
104423111 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:104423110 original size:40 final size:39
Alignment explanation
Indices: 104422919--104423110 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
104422909 GGATATAACG
* ** * *
104422919 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
104422959 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
104422999 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
104423038 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
104423078 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
104423111 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:104435710 original size:29 final size:29
Alignment explanation
Indices: 104435668--104435740 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
104435658 GTGACAAGAT
104435668 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
104435697 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
104435726 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
104435741 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:104435759 original size:29 final size:29
Alignment explanation
Indices: 104435727--104435799 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
104435717 TGAAAAGTAT
* * *
104435727 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
104435756 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
104435785 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
104435800 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:104443648 original size:29 final size:29
Alignment explanation
Indices: 104443607--104443707 Score: 195
Period size: 29 Copynumber: 3.5 Consensus size: 29
104443597 GTGACAAGAT
104443607 TGGC-CTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
104443635 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
104443664 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
104443693 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
104443708 GAATTTAAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
28 4 0.06
29 68 0.94
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:104443726 original size:29 final size:29
Alignment explanation
Indices: 104443694--104443766 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
104443684 TGAAAAGTAT
* * *
104443694 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
104443723 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
104443752 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
104443767 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:104443727 original size:58 final size:58
Alignment explanation
Indices: 104443611--104443766 Score: 187
Period size: 58 Copynumber: 2.7 Consensus size: 58
104443601 CAAGATTGGC
*
104443611 CTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGC-AAGCTTGAAAAGTATGGCA
1 CTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAA-CTTGAAAAGTACGGCA
*
104443669 CTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAA-TTTAAATTA-TACGGCA
1 CTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAACTTGAAA--AGTACGGCA
* * *
104443727 CTATGTGTGCGAGCTT-AAATCA-CATGGCACTAAGTGTGCG
1 CTAAGTGTGCAAGCTTGAAA--AGTATGGCACTAAGTGTGCG
104443767 TGATCGATTA
Statistics
Matches: 88, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
57 8 0.09
58 76 0.86
59 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (58 bp):
CTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAACTTGAAAAGTACGGCA
Found at i:104450369 original size:45 final size:44
Alignment explanation
Indices: 104450320--104450445 Score: 180
Period size: 45 Copynumber: 2.8 Consensus size: 44
104450310 ATCATTTCAT
*
104450320 CGGCATTATAGCCTGCTAGGCTAGAAAGCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTA-AAGGCCCGAATAGTATCTCAC
* *
104450365 CGGCATTATAGCCTGCTAGGCCCAAAGGCCCGAATAGTGTCTCAC
1 CGGCATTATAGCCTGCTAGG-CTAAAGGCCCGAATAGTATCTCAC
**
104450410 CGGCAAAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CGGCATTATAGCCTGCTAGGCT-AAAGGCCCGAATA
104450446 TAATACTAGC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.01
45 70 0.96
46 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (44 bp):
CGGCATTATAGCCTGCTAGGCTAAAGGCCCGAATAGTATCTCAC
Found at i:104450488 original size:38 final size:38
Alignment explanation
Indices: 104450438--104450607 Score: 234
Period size: 38 Copynumber: 4.5 Consensus size: 38
104450428 GGCTCAAAGG
* * * *
104450438 CCCGAATATAATACTAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
104450476 CCTGGACATAATACCAGCACGAAGCCTGC-GGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
104450513 CCCGGATATATTACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
104450551 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
104450589 CCCGGATATAATTCCAGCA
1 CCCGGATATAATACCAGCA
104450608 TATAGCCTGC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
37 32 0.28
38 84 0.72
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Done.