Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 32 of 75
Found at i:10016476 original size:21 final size:21
Alignment explanation
Indices: 10016419--10016476 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
10016409 AGGTTTAGGG
*
10016419 GTTAGGGGTTTAAGAGTTAAAT
1 GTTAGAGGTTT-AGAGTTAAAT
*
10016441 GTTAGAGGTTAAGAGTTAGGAAT
1 GTTAGAGGTTTAGAGTTA--AAT
10016464 -TTA-AGGTTTAGAG
1 GTTAGAGGTTTAGAG
10016477 ATTTAGGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 16 0.52
22 12 0.39
23 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.34
Consensus pattern (21 bp):
GTTAGAGGTTTAGAGTTAAAT
Found at i:10027044 original size:22 final size:22
Alignment explanation
Indices: 10027016--10027058 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10027006 CTTTGGCGCT
*
10027016 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
10027038 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
10027059 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:10030211 original size:25 final size:25
Alignment explanation
Indices: 10030183--10030232 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10030173 AATTTTTAAA
10030183 ATCAAACCGCTATTATTGGTTTTGG
1 ATCAAACCGCTATTATTGGTTTTGG
10030208 ATCAAACCGCTATTATTGGTTTTGG
1 ATCAAACCGCTATTATTGGTTTTGG
10030233 GTATTTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (25 bp):
ATCAAACCGCTATTATTGGTTTTGG
Found at i:10030742 original size:18 final size:19
Alignment explanation
Indices: 10030713--10030775 Score: 76
Period size: 18 Copynumber: 3.3 Consensus size: 19
10030703 TTTTAGATTT
10030713 TTTTTTGAAATTTTTAT-AA
1 TTTTTTG-AATTTTTATAAA
10030732 TTTTTTGAATTTTTATAAA
1 TTTTTTGAATTTTTATAAA
* *
10030751 TATTTTG-ATTTTTAAAAA
1 TTTTTTGAATTTTTATAAA
10030769 TTATTTT
1 TT-TTTT
10030776 AAACTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 20 0.51
19 19 0.49
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTTTGAATTTTTATAAA
Found at i:10034418 original size:19 final size:19
Alignment explanation
Indices: 10034368--10034416 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
10034358 TTTCTCAATT
* * *
10034368 TAAGTATGTTAAAGTAAAA
1 TAAGTTTGTTTAATTAAAA
*
10034387 TAATTTTGTTTAATTAAAA
1 TAAGTTTGTTTAATTAAAA
10034406 TATAGTTTGTT
1 TA-AGTTTGTT
10034417 AACCTATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (19 bp):
TAAGTTTGTTTAATTAAAA
Found at i:10038894 original size:32 final size:32
Alignment explanation
Indices: 10038857--10038917 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
10038847 TGAAAATTTT
10038857 ATTTAATTCATCTAA-A-TTATAAAAAAATTGCA
1 ATTTAA-TCA-CTAATATTTATAAAAAAATTGCA
*
10038889 ATTTAATCACTAATATTTATAAAATAATT
1 ATTTAATCACTAATATTTATAAAAAAATT
10038918 AATATTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 4 0.15
32 18 0.69
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (32 bp):
ATTTAATCACTAATATTTATAAAAAAATTGCA
Found at i:10044946 original size:18 final size:18
Alignment explanation
Indices: 10044925--10044968 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10044915 GTAAAAAATA
*
10044925 ATAAAAATATTAAAATCG
1 ATAAAAATATAAAAATCG
**
10044943 ATAAAAATATAAAAATTT
1 ATAAAAATATAAAAATCG
10044961 ATAAAAAT
1 ATAAAAAT
10044969 TATAGATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAAAAATATAAAAATCG
Found at i:10044971 original size:9 final size:9
Alignment explanation
Indices: 10044918--10044972 Score: 51
Period size: 10 Copynumber: 6.1 Consensus size: 9
10044908 ACACATGGTA
*
10044918 AAAAATAAT
1 AAAAATTAT
10044927 AAAAA-TAT
1 AAAAATTAT
* *
10044935 TAAAATCGAT
1 AAAAAT-TAT
10044945 AAAAA-TAT
1 AAAAATTAT
10044953 AAAAATTTAT
1 AAAAA-TTAT
10044963 AAAAATTAT
1 AAAAATTAT
10044972 A
1 A
10044973 GATGATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
8 13 0.35
9 10 0.27
10 14 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:10048908 original size:35 final size:35
Alignment explanation
Indices: 10048862--10048932 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
10048852 AATTAATTGA
10048862 ACTCGAATTATACAGTAGGTCAATATTCCATTTTC
1 ACTCGAATTATACAGTAGGTCAATATTCCATTTTC
10048897 ACTCGAATTATACAGTAGGTCAATATTCCATTTTC
1 ACTCGAATTATACAGTAGGTCAATATTCCATTTTC
10048932 A
1 A
10048933 AAGGTATCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (35 bp):
ACTCGAATTATACAGTAGGTCAATATTCCATTTTC
Found at i:10049049 original size:40 final size:40
Alignment explanation
Indices: 10048983--10049112 Score: 208
Period size: 40 Copynumber: 3.3 Consensus size: 40
10048973 CAGAGCATGA
* * *
10048983 ATGTGCATTCA-GGGTATCGAAATACAAACAGGGGCACGT
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAT
* *
10049022 ATGTGCATTCAGGGGTACCGAAGTACAAATAGGAGCACAT
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAT
10049062 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAT
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAT
10049102 ATGTGCATTCA
1 ATGTGCATTCA
10049113 ATAATATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 11 0.13
40 72 0.87
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (40 bp):
ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAT
Found at i:10050811 original size:42 final size:42
Alignment explanation
Indices: 10050694--10050975 Score: 352
Period size: 42 Copynumber: 6.6 Consensus size: 42
10050684 AAAGGCATTT
* * * *
10050694 GCGGCGCTTACAGAAAAAACGTCGCTAAAAATCATATTTTTTA
1 GCGGCGCTTA-GGAAAAAACGCCGCTAAAGATCATATTCTTTA
* * *
10050737 GCGGCGCTAAGGAAAAAAATGCCGCTAAAGATCATCTTCTTTA
1 GCGGCGCTTAGG-AAAAAACGCCGCTAAAGATCATATTCTTTA
* * *
10050780 GCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTA
1 GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATATTCTTTA
10050822 GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATATTCTTTA
1 GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATATTCTTTA
* *
10050864 GCGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATATTCTTTA
* * *
10050906 GAGGCGCTTAGGAAGAAAACGCCGCTAAA-AGTAATATTCTATA
1 GCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TCATATTCTTTA
* *
10050949 GCGGCG-TTTGGTCAAAAACGCCGCTAA
1 GCGGCGCTTAGG-AAAAAACGCCGCTAA
10050976 TAGTAGTGTT
Statistics
Matches: 210, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
42 137 0.65
43 73 0.35
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATATTCTTTA
Found at i:10050951 original size:85 final size:84
Alignment explanation
Indices: 10050706--10050975 Score: 362
Period size: 85 Copynumber: 3.2 Consensus size: 84
10050696 GGCGCTTACA
* * * * * *
10050706 GAAAAAACGTCGCTAAAAATCATATTTTTTAGCGGCGCTAAGGAAAAAAATGCCGCTAAAGATCA
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAAAGATCA
* **
10050771 TCTTCTTTAGCGGCGCTTAT
65 TATTCTTTAGCGGCGCTTGG
*
10050791 GAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCAT
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCAT
10050856 ATTCTTTAGCGGCGCTTGG
66 ATTCTTTAGCGGCGCTTGG
* *
10050875 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGAGGCGCTTAGGAAGAAAACGCCGCTAAA-AGTA
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TC
* *
10050939 ATATTCTATAGCGGCGTTTGG
64 ATATTCTTTAGCGGCGCTTGG
**
10050960 TCAAAAACGCCGCTAA
1 GAAAAAACGCCGCTAA
10050976 TAGTAGTGTT
Statistics
Matches: 166, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
84 81 0.49
85 85 0.51
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (84 bp):
GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCAT
ATTCTTTAGCGGCGCTTGG
Found at i:10057629 original size:67 final size:67
Alignment explanation
Indices: 10057557--10057691 Score: 245
Period size: 67 Copynumber: 2.0 Consensus size: 67
10057547 TTTGTTGAGA
*
10057557 ATTCATTATATAATGAATTTATTAAACATTCAATCAATTA-ACTAACCAAAATTGATAATTCATT
1 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTACA-TAACCAAAATTGATAATTCATT
10057621 GAC
65 GAC
10057624 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTACATAACCAAAATTGATAATTCATTG
1 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTACATAACCAAAATTGATAATTCATTG
10057689 AC
66 AC
10057691 A
1 A
10057692 GTCAATCAAT
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 65 0.98
68 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.36
Consensus pattern (67 bp):
ATTCATTATATAATGAATTTATAAAACATTCAATCAATTACATAACCAAAATTGATAATTCATTG
AC
Found at i:10062366 original size:41 final size:42
Alignment explanation
Indices: 10062267--10062386 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 42
10062257 GCGCTTCAAC
*
10062267 AAAAACGCTGCTAAAACCCCTAACATTAGCGGTGCTTATCAT
1 AAAAACGCTGCTAAAAGCCCTAACATTAGCGGTGCTTATCAT
* * * * *
10062309 AGAAACG-TCGCTAAAAGTCTTAACTTTAGCGTTGCTTAT-AT
1 AAAAACGCT-GCTAAAAGCCCTAACATTAGCGGTGCTTATCAT
* * * *
10062350 AAAAACGCTGCTAAAAGACCAAATATTAGCGGCGCTT
1 AAAAACGCTGCTAAAAGCCCTAACATTAGCGGTGCTT
10062387 CAAAGAAATC
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
41 30 0.48
42 32 0.52
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (42 bp):
AAAAACGCTGCTAAAAGCCCTAACATTAGCGGTGCTTATCAT
Found at i:10065271 original size:21 final size:21
Alignment explanation
Indices: 10065245--10065288 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10065235 TTACTAATTC
10065245 TAAAAA-TTCTAAAATATA-TTT
1 TAAAAAGTT-TAAAA-ATACTTT
10065266 TAAAAAGTTTAAAAATACTTT
1 TAAAAAGTTTAAAAATACTTT
10065287 TA
1 TA
10065289 TGTTAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 16 0.76
22 2 0.10
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAAAGTTTAAAAATACTTT
Found at i:10066821 original size:13 final size:11
Alignment explanation
Indices: 10066793--10066824 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
10066783 TCTTTCAATA
10066793 TTCTCTCAAAT
1 TTCTCTCAAAT
10066804 TTCTCTCAAAT
1 TTCTCTCAAAT
*
10066815 TCCTCTCAAA
1 TTCTCTCAAA
10066825 GCTCTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:10066830 original size:22 final size:22
Alignment explanation
Indices: 10066787--10066831 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10066777 CTTCAATCTT
**
10066787 TCAATATTCTCTCAAATTTCTC
1 TCAATATTCTCTCAAAGCTCTC
10066809 TCAA-ATTCCTCTCAAAGCTCTC
1 TCAATATT-CTCTCAAAGCTCTC
10066831 T
1 T
10066832 TTAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.40
Consensus pattern (22 bp):
TCAATATTCTCTCAAAGCTCTC
Found at i:10070722 original size:126 final size:125
Alignment explanation
Indices: 10070485--10070771 Score: 412
Period size: 126 Copynumber: 2.3 Consensus size: 125
10070475 GCCAAATAGG
* * * *
10070485 AACTACTGTAACAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGATATTGAATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGAATCC
* * *
10070550 TGCTTGAAGCGTTTTTGACACTATTTGCTTAGAAACATCTTTTCAAAATTATTTTTTCAGA
66 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTA-TTTTTCAGA
* * *
10070611 AACTACTGTAGCAAAAGAGCGTTCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAATGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGAATCC
* * * *
10070676 TGCTTAAAGCGTTTTTGGCACTATTTGCTCATAAACGTCTTCTCAAAATTATTTTTCAGG
66 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTCAGA
* * *
10070736 AACTATTATAGCAAAAGAGCGTCCACGTAGGAGCTT
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
10070772 TTTTAAATTA
Statistics
Matches: 142, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
125 39 0.27
126 103 0.73
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (125 bp):
AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGAATCC
TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTCAGA
Found at i:10071091 original size:96 final size:96
Alignment explanation
Indices: 10070808--10071296 Score: 650
Period size: 97 Copynumber: 5.1 Consensus size: 96
10070798 AGTAACCTTA
* * * * * *
10070808 AACCCCAAACCCTAATTTATTTGA-GTTTTCCTTAAAAACCTTAAACCCTAAACCCTAATCTATT
1 AACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAAT
*
10070872 TTTTTAAAAAAATTATAATTAATTTACTCAAGT
66 TTTTT--AAAATTTATAATTAATTTACTCAAGT
* * * *
10070905 AACCATAAACCCTAATTTATTTGA-TTTTTTCTTAAAAACCTTAAACCCT-AA-TCTAAT-T--T
1 AACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAAT
*
10070964 TTTTTAAAAAATTATAATTAATTTACTCAAGT
66 TTTTT-AAAATTTATAATTAATTTACTCAAGT
* * * *
10070996 AACCTTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCCTGAACGCTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAAT
*
10071061 TTTTTAAAATTTATAATCAATTTACTCAAGT
66 TTTTTAAAATTTATAATTAATTTACTCAAGT
* * *
10071092 AACCCTAAATCCTAATTTATTTGATTTTTTCCTTAAAAACCAAAAACACTAAACCCTAATCTAAA
1 AACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCATAAACACTAAACCCTAATCT-AA
*
10071157 TTTTTTAAAATTTATAACTAATTTACTCAAGT
65 TTTTTTAAAATTTATAATTAATTTACTCAAGT
*
10071189 AACCCTAAACCCTAATTTATTTGATTTTTTTCCTTAAAAACCATAAACACCAAACCCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGATTTTTTT-CTTAAAAACCATAAACACTAAACCCTAATCTAA
* * *
10071254 TTTTTTAAAATTTATAATTAATTTAATTAAGA
65 TTTTTTAAAATTTATAATTAATTTACTCAAGT
*
10071286 AACTCTAAACC
1 AACCCTAAACC
10071297 TTAAACCCTA
Statistics
Matches: 354, Mismatches: 30, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
91 50 0.14
92 28 0.08
93 2 0.01
94 6 0.02
95 6 0.02
96 81 0.23
97 152 0.43
98 29 0.08
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.39
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAAT
TTTTTAAAATTTATAATTAATTTACTCAAGT
Found at i:10075668 original size:38 final size:39
Alignment explanation
Indices: 10075535--10075656 Score: 122
Period size: 40 Copynumber: 3.1 Consensus size: 39
10075525 TTTTCGACAA
* * * *
10075535 AAAACGCCACTAAGAATCAAGCATTAGTGGCGCTTTTAT-A
1 AAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTTT-TCG
* ** * *
10075575 AAAACACCGCTAAAGGTCTAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTTTTCG
10075615 AAAACGCCGCTAAAAATAAGCATTAGCGGCG-TTTTTCG
1 AAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTCG
10075653 AAAA
1 AAAA
10075657 GCGTCGCAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
38 10 0.15
39 14 0.21
40 44 0.65
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTCG
Found at i:10075771 original size:41 final size:40
Alignment explanation
Indices: 10075709--10075822 Score: 149
Period size: 40 Copynumber: 2.8 Consensus size: 40
10075699 TTTTGAGGCA
* * *
10075709 TTTAGCAACGTTTTTGAAAAAGCACCGCTAATGCTCGGGCC
1 TTTAGCGACGTTTTTGAAAAAGCGCCGCTAATACTC-GGCC
*
10075750 TTTAGCGACGTTTTT-ATAAAAGCGCCACTAATACTCGGCC
1 TTTAGCGACGTTTTTGA-AAAAGCGCCGCTAATACTCGGCC
* *
10075790 TTTAGCGGCATTTTTGAAAAAGCGCCGCTAATA
1 TTTAGCGACGTTTTTGAAAAAGCGCCGCTAATA
10075823 ATAATAAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 33 0.52
41 31 0.48
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (40 bp):
TTTAGCGACGTTTTTGAAAAAGCGCCGCTAATACTCGGCC
Found at i:10076393 original size:15 final size:15
Alignment explanation
Indices: 10076373--10076409 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
10076363 CCATGAACTT
10076373 GGATTTTCATTCTTG
1 GGATTTTCATTCTTG
10076388 GGATTTTCATTCTTG
1 GGATTTTCATTCTTG
*
10076403 GAATTTT
1 GGATTTT
10076410 TGTGAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.19, T:0.54
Consensus pattern (15 bp):
GGATTTTCATTCTTG
Found at i:10078048 original size:3 final size:3
Alignment explanation
Indices: 10078040--10078076 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10078030 TACACTAGTT
10078040 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10078077 GATGTTACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10079591 original size:18 final size:18
Alignment explanation
Indices: 10079568--10079783 Score: 423
Period size: 18 Copynumber: 12.0 Consensus size: 18
10079558 TATTTTTCAT
10079568 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
10079586 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
10079604 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
10079622 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
10079640 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
10079658 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
10079676 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
10079694 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
10079712 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
10079730 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
10079748 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
*
10079766 TTGCTTCAATTTCCATGC
1 TTGCTTCAATTTCTATGC
10079784 CTTACAATAA
Statistics
Matches: 197, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
18 197 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.50
Consensus pattern (18 bp):
TTGCTTCAATTTCTATGC
Found at i:10081070 original size:18 final size:18
Alignment explanation
Indices: 10081047--10081106 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
10081037 ATGTAATTCT
10081047 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
10081065 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
10081082 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
10081100 AATGTAA
1 AATGTAA
10081107 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:10081377 original size:44 final size:44
Alignment explanation
Indices: 10081300--10081431 Score: 180
Period size: 43 Copynumber: 3.0 Consensus size: 44
10081290 AAGTCATGTT
* * *
10081300 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTC-TGGTC
1 TTTAGCGACATTTGTGGAAAAAGCGCCGCTAAAGGTTCTTGGTC
*
10081343 TTTAGTGACATTTGTCGGAAAAAGCGCCGCTAAA-GTTCTTGGTC
1 TTTAGCGACATTTGT-GGAAAAAGCGCCGCTAAAGGTTCTTGGTC
* *
10081387 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG-TCTTGGTC
1 TTTAGCGACATTTGTGGAAAAAGCGCCGCTAAAGGTTCTTGGTC
10081430 TT
1 TT
10081432 GCTAAATTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
43 44 0.56
44 35 0.44
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (44 bp):
TTTAGCGACATTTGTGGAAAAAGCGCCGCTAAAGGTTCTTGGTC
Found at i:10090727 original size:50 final size:50
Alignment explanation
Indices: 10090617--10090730 Score: 147
Period size: 50 Copynumber: 2.3 Consensus size: 50
10090607 GGTAAAGAGA
* * **
10090617 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
** * * *
10090667 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
10090717 TCCCATGTAAGACC
1 TCCCATGTAAGACC
10090731 GTATCTGAGA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.20
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
Found at i:10096520 original size:50 final size:50
Alignment explanation
Indices: 10096420--10096653 Score: 202
Period size: 50 Copynumber: 4.6 Consensus size: 50
10096410 GAGATCCTAC
**
10096420 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGG--T-ACCGA-G--ATGAGAGGTCCCAT
* **
10096476 GTAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCAT
* * * * * **
10096526 GTAAGACCATGTTTGGGACATGGCATGGGCACCGATATAAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCAT
* * * * * * **
10096576 GTAAGACCATGTCTGGGATATGACGTTGGTA--GTACAAGAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGTACCG-AGATGAGAGGTCCCAT
*
10096625 GTAAGACCATGTCTGGGACATGGCTTTGG
1 GTAAGACCATGTCTGGGACATGGCATTGG
10096654 CATGTTATTA
Statistics
Matches: 147, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 36 0.24
50 77 0.52
52 1 0.01
53 3 0.02
54 1 0.01
56 28 0.19
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCAT
Found at i:10101783 original size:22 final size:21
Alignment explanation
Indices: 10101742--10101804 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
10101732 AATCTTCAAG
10101742 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
10101761 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAG-AGATAT
* *
10101783 GATTTTGTAATCTTAGAGATAT
1 GA-TATGCAATCTTAGAGATAT
10101805 AATTTGTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
19 13 0.34
22 14 0.37
23 11 0.29
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (21 bp):
GATATGCAATCTTAGAGATAT
Found at i:10101812 original size:21 final size:23
Alignment explanation
Indices: 10101755--10101812 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
10101745 ATGCAATCTT
* *
10101755 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
10101777 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
10101799 AGATAT-AATTTGTA
1 AGATATGAATTTGTA
10101813 GATATCCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 7 0.23
22 13 0.42
23 11 0.35
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:10102046 original size:23 final size:23
Alignment explanation
Indices: 10102002--10102046 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
10101992 TCTTATTTTG
* *
10102002 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
10102025 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
10102047 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:10102440 original size:18 final size:18
Alignment explanation
Indices: 10102417--10102451 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10102407 ACAAATTACA
*
10102417 TGGCCCAATTTCAAACAG
1 TGGCCCAATTACAAACAG
*
10102435 TGGCCCAGTTACAAACA
1 TGGCCCAATTACAAACA
10102452 CGGCCCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (18 bp):
TGGCCCAATTACAAACAG
Found at i:10102587 original size:20 final size:20
Alignment explanation
Indices: 10102545--10102593 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
10102535 CACCTGCAAG
*
10102545 GAAACAAAACAACAAGGAAA
1 GAAACAAAACAACAAAGAAA
* * *
10102565 GAAATAAAACAGCAAAGATA
1 GAAACAAAACAACAAAGAAA
*
10102585 GAAAGAAAA
1 GAAACAAAA
10102594 TCAAAGATTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.69, C:0.10, G:0.16, T:0.04
Consensus pattern (20 bp):
GAAACAAAACAACAAAGAAA
Found at i:10103658 original size:25 final size:25
Alignment explanation
Indices: 10103608--10103658 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
10103598 AAAAATTAGT
* *
10103608 TAATTTTGATAATATAATTTTTTTA
1 TAATTTTCATAATATAATTTTATTA
*
10103633 TAATTTTCAT-ATGTAATTATTATTA
1 TAATTTTCATAATATAATT-TTATTA
10103658 T
1 T
10103659 TTTATTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (25 bp):
TAATTTTCATAATATAATTTTATTA
Found at i:10107709 original size:44 final size:44
Alignment explanation
Indices: 10107655--10108161 Score: 646
Period size: 44 Copynumber: 11.8 Consensus size: 44
10107645 AAGATAGTAG
* **
10107655 TCCTGTCTCCCTGGAAAGCAGTGGAATAGGTTGAAGATTGT-AA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * *
10107698 GTCATATCTCCCTAGTCAGTAGTGGAATAGGTTGAAGATTGTGAA
1 -TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
10107743 TCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
10107787 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * * *
10107831 TCCTATCTCCCTGGTCAGCAATGGAATAGGTTGAAAATTTTGAG
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* *
10107875 TCCTATCTCCCTGGTCAGCAGTAGAATAGTTTGAAGATTGT-AA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
10107918 GTTCTATCTCCCTGGTCAGCAGTGG-A-A---T--AG---GTGAA
1 -TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
10107953 TCCTATCTCCCTGGTCAGCAGT-GAATAGGTTGAAAATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* *
10107996 TCTTATCTCTCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * *
10108040 TCTTATCTCCCTGGTTAGCAGTGGAATGGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* *
10108084 -CTTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*** * *
10108127 TCCTATCTTATTGGGCAGCAGTGGAGTAGGTTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAA
10108162 AATAACAGAT
Statistics
Matches: 405, Mismatches: 43, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.00
34 24 0.06
35 3 0.01
37 2 0.00
38 1 0.00
39 1 0.00
40 1 0.00
42 1 0.00
43 67 0.17
44 302 0.75
45 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (44 bp):
TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
Found at i:10108047 original size:121 final size:122
Alignment explanation
Indices: 10107826--10108161 Score: 401
Period size: 121 Copynumber: 2.7 Consensus size: 122
10107816 GTTGAAGATT
* * * * *
10107826 GTGAATCCTATCTCCCTGGTCAGCAATGGAATAGGTTGAAAATTTTGAGTCCTATCTCCCTGGTC
1 GTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAAATTGTGAATCCTATCTCTCTGGTC
* *
10107891 AGCAGTAGAATAGTTTGAAGATTGTAAGTTCTATCTCCCTGGTCAGCAGTGGAATAG
66 AGCAGTGGAATAGGTTGAAGATTGTAAGTTCTATCTCCCTGGTCAGCAGTGGAATAG
*
10107948 GTGAATCCTATCTCCCTGGTCAGCAGT-GAATAGGTTGAAAATTGTGAATCTTATCTCTCTGGTC
1 GTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAAATTGTGAATCCTATCTCTCTGGTC
* *
10108012 AGCAGTGGAATAGGTTGAAGATTGTGAA--TCTTATCTCCCTGGTTAGCAGTGGAATGG
66 AGCAGTGGAATAGGTTGAAGATTGT-AAGTTC-TATCTCCCTGGTCAGCAGTGGAATAG
* *
10108069 GTTGAAGATTGTGAACTTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGATTGTGAATCCTATC
1 G-TG-A-A---T---CCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAAATTGTGAATCCTATC
* * *
10108134 T-TATTGGGCAGCAGTGGAGTAGGTTGAA
57 TCT-CTGGTCAGCAGTGGAATAGGTTGAA
10108162 AATAACAGAT
Statistics
Matches: 186, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
120 2 0.01
121 81 0.44
122 30 0.16
123 1 0.01
124 1 0.01
127 1 0.01
130 21 0.11
131 49 0.26
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (122 bp):
GTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAAATTGTGAATCCTATCTCTCTGGTC
AGCAGTGGAATAGGTTGAAGATTGTAAGTTCTATCTCCCTGGTCAGCAGTGGAATAG
Found at i:10108076 original size:165 final size:165
Alignment explanation
Indices: 10107782--10108113 Score: 497
Period size: 165 Copynumber: 2.0 Consensus size: 165
10107772 GTTGAAGATT
*
10107782 GTGAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTC
1 GTGAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTC
* * *
10107847 AGCAATGGAATAGGTTGAAAATTTTGAGTCCTATCTCCCTGGTCAGCAGTAGAATAGTTTGAAGA
66 AGCAATGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGA
* *
10107912 TTGT-AAGTTCTATCTCCCTGGTCAGCAGTGGAATAG
131 TTGTGAA-CT-TATCTCCCTGGTCAGCAGTAGAATAG
* * *
10107948 GTGAATCCTATCTCCCTGGTCAGCAGT-GAATAGGTTGAAAATTGTGAATCTTATCTCTCTGGTC
1 GTGAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTC
* * * * * *
10108012 AGCAGTGGAATAGGTTGAAGATTGTGAATCTTATCTCCCTGGTTAGCAGTGGAATGGGTTGAAGA
66 AGCAATGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGA
10108077 TTGTGAACTTATCTCCCTGGTCAGCAGTAGAATAG
131 TTGTGAACTTATCTCCCTGGTCAGCAGTAGAATAG
10108112 GT
1 GT
10108114 TGAAGATTGT
Statistics
Matches: 150, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
164 27 0.18
165 95 0.63
166 28 0.19
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (165 bp):
GTGAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTC
AGCAATGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGA
TTGTGAACTTATCTCCCTGGTCAGCAGTAGAATAG
Found at i:10108097 original size:87 final size:87
Alignment explanation
Indices: 10107948--10108164 Score: 310
Period size: 87 Copynumber: 2.5 Consensus size: 87
10107938 AGTGGAATAG
*
10107948 GTGAATCCTATCTCCCTGGTCAGCAGTGAATAGGTTGAAAATTGTGAATCTTATCTCTCTGGTCA
1 GTGAATCCTATCTCCCTGGTCAGCAGTGAATAGGTTGAAAATTGTGAATCTTATCTCCCTGGTCA
*
10108013 GCAGTGGAATAGGTTGAAGATT
66 GCAGTAGAATAGGTTGAAGATT
* * * *
10108035 GTGAATCTTATCTCCCTGGTTAGCAGTGGAATGGGTTGAAGATTGTGAA-CTTATCTCCCTGGTC
1 GTGAATCCTATCTCCCTGGTCAGCAGT-GAATAGGTTGAAAATTGTGAATCTTATCTCCCTGGTC
10108099 AGCAGTAGAATAGGTTGAAGATT
65 AGCAGTAGAATAGGTTGAAGATT
*** * *
10108122 GTGAATCCTATCTTATTGGGCAGCAGTGGAGTAGGTTGAAAAT
1 GTGAATCCTATCTCCCTGGTCAGCAGT-GAATAGGTTGAAAAT
10108165 AACAGATCTT
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 95 0.83
88 19 0.17
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (87 bp):
GTGAATCCTATCTCCCTGGTCAGCAGTGAATAGGTTGAAAATTGTGAATCTTATCTCCCTGGTCA
GCAGTAGAATAGGTTGAAGATT
Found at i:10108236 original size:89 final size:88
Alignment explanation
Indices: 10108143--10108533 Score: 354
Period size: 89 Copynumber: 4.4 Consensus size: 88
10108133 CTTATTGGGC
* * * *
10108143 AGCAGTGGAGTAGGTTGAAAATAACAGATCTTGTATTCCTGTATTGACAGCGAAGTAGATCGAAG
1 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAG
*
10108208 ATAGCAAGTCCTATCTCCCTGAGT
66 ACA-CAAGTCCTATCTCCCTGAGT
* * * *
10108232 AGCAGTGGAGTAGGTTGAAAAGAGTAGATCTTGTCTTCCTGTACTGATAGCGAAACAGATCGAAG
1 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAG
* *
10108297 ATAGCAAGTCTTATCTCCCTGAGT
66 ACA-CAAGTCCTATCTCCCTGAGT
* * * * * * ** *
10108321 TGCAGCGGAGCAGGCTGAAGATAGCAGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAG
1 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAG
* *
10108386 ACACCAG-CCT-TGCCTCCTTGAGTT
66 ACACAAGTCCTAT--CTCCCTGAG-T
* ** * ** * * * * * * *
10108410 TGCAGCAGAGCAGACTGAAAATAGCAGATCTTATCTTCCTATACTGGCAGTGAAGTAGATCAAAA
1 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAG
* *
10108475 ACACCAGTCCTATCTCCCTGAGA
66 ACACAAGTCCTATCTCCCTGAGT
* * * *
10108498 AGTAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCT
1 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCT
10108534 CCCTAGGCAG
Statistics
Matches: 250, Mismatches: 47, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
86 1 0.00
87 2 0.01
88 36 0.14
89 207 0.83
90 3 0.01
91 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (88 bp):
AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAG
ACACAAGTCCTATCTCCCTGAGT
Found at i:10108386 original size:45 final size:45
Alignment explanation
Indices: 10108257--10108386 Score: 124
Period size: 44 Copynumber: 2.9 Consensus size: 45
10108247 TGAAAAGAGT
* * *
10108257 AGATCTTGTCTTCCTGTACTGATAGCGAAACAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGTAGCGAAGCAGATCGAAGATAGC
* * * * *
10108302 A-AGTCTTATCTCCCTG-AGTT-GCAGCGGAGCAG-GCTGAAGATAGC
1 AGA-TCTTGTCTTCCTGTA-TTGGTAGCGAAGCAGATC-GAAGATAGC
*
10108346 AGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAGA
1 AGATCTTGTCTTCCTGTATTGGTAGCGAAGCAGATCGAAGA
10108387 CACCAGCCTT
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
43 1 0.02
44 33 0.52
45 29 0.45
46 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (45 bp):
AGATCTTGTCTTCCTGTATTGGTAGCGAAGCAGATCGAAGATAGC
Found at i:10108653 original size:131 final size:130
Alignment explanation
Indices: 10108480--10108874 Score: 555
Period size: 131 Copynumber: 3.0 Consensus size: 130
10108470 CAAAAACACC
* * *
10108480 AGTCCTATCTCCCTGAG-AAGTAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAGGCAG
1 AGTCCTATCTCCCTAAGCAA-TAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAG
* * *
10108544 TAGTAGAGCAGATTGAAGACAGCGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCA
65 TAGTGGAGCAGATCGAAGAC-GCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCA
10108609 CT
129 CT
*
10108611 AGTCCTATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCATT
1 AGTCCTATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGT
* * * *
10108676 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGGTAGTAGTTAAGTAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGA-CGCGAATCTTATCTTCCCGAGGTAGTAG-GAAGCAGATTTAAGCCA
*
10108741 CC
129 CT
*
10108743 AGTCCTATCTCCCTACAGC---AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCTCTAAGCAG
1 AGTCCTATCTCCCTA-AGCAATAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAG
* * *
10108805 TAGTGGAGCAGATCAAAGACGACGAGTCTTATCTTTCCGAGGTAGTAGGGAAGCAGATTTAAGCC
65 TAGTGGAGCAGATCGAAGACG-CGAATCTTATCTTCCCGAGGTAGTA-GGAAGCAGATTTAAGCC
10108870 ACT
128 ACT
10108873 AG
1 AG
10108875 CCTCATTTCA
Statistics
Matches: 236, Mismatches: 22, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
129 1 0.00
130 99 0.42
131 100 0.42
132 33 0.14
133 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (130 bp):
AGTCCTATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACT
Found at i:10108812 original size:44 final size:44
Alignment explanation
Indices: 10108482--10108817 Score: 161
Period size: 44 Copynumber: 7.7 Consensus size: 44
10108472 AAAACACCAG
* * * *
10108482 TCCTATCTCCCTGAGAAGTAGTGGAGTAGGTTGAAAATTGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGA
* * * * ** *
10108526 TCCTGTCTCCCTAGGCAGTAGTAGAGCAGATTGAAGACAG-CGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAG-A
* * * * ****
10108570 TCTTATCTTCCC-GAG-A-TAGTAGGAAGCAGATTTAAGCCACTAG-
1 TCCTATC-TCCCTAAGCAGTAGT-GG-AGTAGATTGAAGATTGTAGA
* *
10108613 TCCTATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGA
* * * * **
10108657 TCCTGTCTCCCTAAGCATTAGTGGAGCAGATCGAAGA-TGGCGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAG-A
* * ** * *****
10108701 TCTTATCTTCCC-AAGGTAGTAGTTAAGTAGATTTAAGCCACCAG-
1 TCCTATC-TCCCTAA-GCAGTAGTGGAGTAGATTGAAGATTGTAGA
* *
10108745 TCCTATCTCCCT-A-CAGCAGTGGAGTAGGTTGAAGATTGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGA
* * *
10108787 TCCTGTCTCTCTAAGCAGTAGTGGAGCAGAT
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGAT
10108818 CAAAGACGAC
Statistics
Matches: 208, Mismatches: 67, Indels: 34
0.67 0.22 0.11
Matches are distributed among these distances:
41 17 0.08
42 18 0.09
43 32 0.15
44 112 0.54
45 28 0.13
46 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGA
Found at i:10109340 original size:19 final size:19
Alignment explanation
Indices: 10109316--10109369 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
10109306 AATCTTCAAG
10109316 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
10109335 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
10109354 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
10109370 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10109391 original size:23 final size:22
Alignment explanation
Indices: 10109316--10109392 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 22
10109306 AATCTTCAAG
10109316 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
10109335 GATATGCAAT-TT--TAGATAT
1 GATATGCAATCTTAGAAGATAT
10109354 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
10109376 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
10109393 TATTTAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.04
19 26 0.52
20 2 0.04
22 8 0.16
23 12 0.24
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:10109640 original size:23 final size:23
Alignment explanation
Indices: 10109596--10109640 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
10109586 TCTTATTTTG
* *
10109596 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
10109619 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
10109641 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:10117653 original size:21 final size:20
Alignment explanation
Indices: 10117629--10117678 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 20
10117619 TACAAGTAAG
10117629 AGCTTTTAGAACCTTATTTT
1 AGCTTTTAGAACCTTATTTT
10117649 AAGCTTTTAGAACCTTATTTT
1 -AGCTTTTAGAACCTTATTTT
10117670 AGTCTTTTA
1 AG-CTTTTA
10117679 CGCACTCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (20 bp):
AGCTTTTAGAACCTTATTTT
Found at i:10121957 original size:29 final size:30
Alignment explanation
Indices: 10121907--10121963 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
10121897 GGGGAAGGGA
*
10121907 AAAGAAATAAAATAAATAGAAAATAAAAAC
1 AAAGAAATAAAATAAATAGAAAAGAAAAAC
*
10121937 AAAGAAA-AAAATAGAA-CGAAAAGAAAA
1 AAAGAAATAAAATA-AATAGAAAAGAAAA
10121964 TGACATAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.77, C:0.04, G:0.11, T:0.09
Consensus pattern (30 bp):
AAAGAAATAAAATAAATAGAAAAGAAAAAC
Found at i:10122100 original size:12 final size:11
Alignment explanation
Indices: 10122081--10122110 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
10122071 AAAAGGAAGG
10122081 GAAAAAAGAAA
1 GAAAAAAGAAA
10122092 GAAAGAAAGAAA
1 GAAA-AAAGAAA
10122104 GAAAAAA
1 GAAAAAA
10122111 CAAAAAGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:10126248 original size:20 final size:20
Alignment explanation
Indices: 10126223--10126260 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10126213 GAATTTAAAA
*
10126223 ATTAAACTAAAAACAAAAGT
1 ATTAAAATAAAAACAAAAGT
*
10126243 ATTAAAATAAAAATAAAA
1 ATTAAAATAAAAACAAAA
10126261 AATGGCTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (20 bp):
ATTAAAATAAAAACAAAAGT
Found at i:10135784 original size:15 final size:17
Alignment explanation
Indices: 10135764--10135795 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
10135754 ACAAAACGAG
10135764 AATAA-TTAAT-ACAAA
1 AATAATTTAATCACAAA
10135779 AATAATTTAATCACAAA
1 AATAATTTAATCACAAA
10135796 TAAACCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATTTAATCACAAA
Found at i:10135886 original size:25 final size:26
Alignment explanation
Indices: 10135849--10135900 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
10135839 AGAATAAAAA
*
10135849 TTTATAAGGCACAAAT-TATAATATAT
1 TTTATAAGACACAAATATAT-ATATAT
*
10135875 TTTATAA-ACACACATATATATATAT
1 TTTATAAGACACAAATATATATATAT
10135900 T
1 T
10135901 AAAAATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (26 bp):
TTTATAAGACACAAATATATATATAT
Found at i:10137526 original size:28 final size:28
Alignment explanation
Indices: 10137491--10137553 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
10137481 AGATAAACAT
10137491 ATATATTTATATAATTTTCCAAAACCAC
1 ATATATTTATATAATTTTCCAAAACCAC
10137519 ATATATTTATATAATTTTCCAAAACCAC
1 ATATATTTATATAATTTTCCAAAACCAC
10137547 ATATATT
1 ATATATT
10137554 AAACTAATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (28 bp):
ATATATTTATATAATTTTCCAAAACCAC
Found at i:10137561 original size:28 final size:28
Alignment explanation
Indices: 10137491--10137561 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
10137481 AGATAAACAT
*
10137491 ATATATTTATATAATTTTCCAAAACCAC
1 ATATATTTAAATAATTTTCCAAAACCAC
*
10137519 ATATATTTATATAATTTTCCAAAACCAC
1 ATATATTTAAATAATTTTCCAAAACCAC
10137547 ATATA-TTAAACTAAT
1 ATATATTTAAA-TAAT
10137562 CAAAACATGC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 4 0.10
28 37 0.90
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (28 bp):
ATATATTTAAATAATTTTCCAAAACCAC
Found at i:10140205 original size:20 final size:20
Alignment explanation
Indices: 10140164--10140205 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
10140154 TCAATTAAAC
*
10140164 TATTAATTTAATTAGATGAA
1 TATTAATTTAATTAAATGAA
*
10140184 TATTTATTTAGATTAAAT-AA
1 TATTAATTTA-ATTAAATGAA
10140204 TA
1 TA
10140206 AGTCTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
TATTAATTTAATTAAATGAA
Found at i:10142838 original size:129 final size:129
Alignment explanation
Indices: 10142682--10142937 Score: 503
Period size: 129 Copynumber: 2.0 Consensus size: 129
10142672 GTTAGATTTT
*
10142682 TTATTTTCAAAACTAAAACAAACTCTGAAAATTTTCTGTTTCAAGGTTAAGTAATCATTTAAGTA
1 TTATTTTCAAAACTAAAACAAACTCTGAAAATTTTCCGTTTCAAGGTTAAGTAATCATTTAAGTA
10142747 TTTTTCTAAAAATAAAATATATGGTTTGTAACACATTATTATTTTAATATTAGAAATGATATTA
66 TTTTTCTAAAAATAAAATATATGGTTTGTAACACATTATTATTTTAATATTAGAAATGATATTA
10142811 TTATTTTCAAAACTAAAACAAACTCTGAAAATTTTCCGTTTCAAGGTTAAGTAATCATTTAAGTA
1 TTATTTTCAAAACTAAAACAAACTCTGAAAATTTTCCGTTTCAAGGTTAAGTAATCATTTAAGTA
10142876 TTTTTCTAAAAATAAAATATATGGTTTGTAACACATTATTATTTTAATATTAGAAATGATAT
66 TTTTTCTAAAAATAAAATATATGGTTTGTAACACATTATTATTTTAATATTAGAAATGATAT
10142938 GCTAACATTA
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (129 bp):
TTATTTTCAAAACTAAAACAAACTCTGAAAATTTTCCGTTTCAAGGTTAAGTAATCATTTAAGTA
TTTTTCTAAAAATAAAATATATGGTTTGTAACACATTATTATTTTAATATTAGAAATGATATTA
Found at i:10146430 original size:23 final size:22
Alignment explanation
Indices: 10146387--10146430 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
10146377 TTCTAAGTCG
10146387 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
10146410 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
10146431 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:10146543 original size:45 final size:45
Alignment explanation
Indices: 10146475--10146562 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
10146465 AACATATACT
*
10146475 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGATTCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
10146520 CGGTGGAATT-AGCACATATCAACCACCTTACTAATCAATGATG
1 CGGTGG-ATTCAGCACATAGCAACCACCTTACTAATCAATGATG
10146563 GTCGGTTCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 37 0.93
46 3 0.08
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (45 bp):
CGGTGGATTCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:10146635 original size:51 final size:51
Alignment explanation
Indices: 10146564--10146704 Score: 166
Period size: 50 Copynumber: 2.8 Consensus size: 51
10146554 TCAATGATGG
*
10146564 TCGGTTCACATAGTAGCCTGCACATAGTACTACACACGTGGTCGAAACTATC-
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGG-CG-AACTATCT
* * *
10146616 T-GGTACGCATAATAGCCTGCACATAGTACTACACA--T-GCGACCTATCATT
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGGCGAACTATC--T
*
10146665 TCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTG
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTG
10146705 ACCATCACTT
Statistics
Matches: 75, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
46 6 0.08
47 2 0.03
48 1 0.01
49 2 0.03
50 31 0.41
51 31 0.41
52 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (51 bp):
TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGGCGAACTATCT
Found at i:10160389 original size:276 final size:276
Alignment explanation
Indices: 10159896--10160868 Score: 1869
Period size: 276 Copynumber: 3.5 Consensus size: 276
10159886 GAAAAATGAA
* *
10159896 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
1 TTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAATA
* *
10159961 TAA-TTTTTCATAATAAT-AAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TAACTATTTC-TATTAATAAAATTT-GTAAAATATATACAATTAATATTTTGTATGAATCAAATT
10160024 CATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTATAA
129 CATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTATAA
10160089 TTAATTAATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGA
194 TTAATTAATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGA
10160154 ATCAAATTCATATATTAC
259 ATCAAATTCATATATTAC
10160172 TTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAATA
1 TTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAATA
10160237 TAACTATTTCTATTAATAAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
66 TAACTATTTCTATTAATAAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
10160302 TATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTATAATT
131 TATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTATAATT
10160367 AATTAATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGAAT
196 AATTAATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGAAT
10160432 CAAATTCATATATTAC
261 CAAATTCATATATTAC
10160448 TTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAATA
1 TTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAATA
10160513 TAACTATTTCTATTAATAAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
66 TAACTATTTCTATTAATAAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
10160578 TATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTATAATT
131 TATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTATAATT
10160643 AATTAATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGAAT
196 AATTAATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGAAT
10160708 CAAATTCATATATTAC
261 CAAATTCATATATTAC
10160724 TTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAATA
1 TTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAATA
10160789 TAACTATTTCTATTAATAAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
66 TAACTATTTCTATTAATAAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
*
10160854 TATATTAATTTTATT
131 TATATTAATTATATT
10160869 TATGTTCTCC
Statistics
Matches: 690, Mismatches: 5, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
276 679 0.98
277 11 0.02
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (276 bp):
TTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAATA
TAACTATTTCTATTAATAAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
TATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTATAATT
AATTAATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGAAT
CAAATTCATATATTAC
Found at i:10160869 original size:138 final size:137
Alignment explanation
Indices: 10159894--10160868 Score: 1571
Period size: 138 Copynumber: 7.1 Consensus size: 137
10159884 TAGAAAAATG
*
10159894 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
10159959 TATAA-TTTTTCATAATAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
66 TATAACTATTTC-TATTAATAAATTT-GTAAAATATATACAATTAATATTTTGTATGAATCAAAT
10160023 TCATATATT
129 TCATATATT
* *
10160032 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA-CTATAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGA-AATTAATTA
* * * *
10160096 ATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGAATCAAAT
65 ATATAACTATTTCTATTAATAAATTTG-TAAAATATATACAATTAATATTTTGTATGAATCAAAT
10160161 TCATATATT
129 TCATATATT
* *
10160170 ACTTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
10160235 TATAACTATTTCTATTAATAAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTATTTCTATTAAT-AAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
10160300 CATATATT
130 CATATATT
* *
10160308 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA-CTATAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGA-AATTAATTA
* * * *
10160372 ATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGAATCAAAT
65 ATATAACTATTTCTATTAATAAATTTG-TAAAATATATACAATTAATATTTTGTATGAATCAAAT
10160437 TCATATATT
129 TCATATATT
* *
10160446 ACTTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
10160511 TATAACTATTTCTATTAATAAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTATTTCTATTAAT-AAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
10160576 CATATATT
130 CATATATT
* *
10160584 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA-CTATAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGA-AATTAATTA
* * * *
10160648 ATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGAATCAAAT
65 ATATAACTATTTCTATTAATAAATTTG-TAAAATATATACAATTAATATTTTGTATGAATCAAAT
10160713 TCATATATT
129 TCATATATT
* *
10160722 ACTTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
10160787 TATAACTATTTCTATTAATAAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTATTTCTATTAAT-AAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
10160852 CATATATT
130 CATATATT
*
10160860 AATTTTATT
1 AATTATATT
10160869 TATGTTCTCC
Statistics
Matches: 775, Mismatches: 49, Indels: 26
0.91 0.06 0.03
Matches are distributed among these distances:
137 19 0.02
138 728 0.94
139 28 0.04
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.46
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTATTTCTATTAATAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:10160951 original size:17 final size:17
Alignment explanation
Indices: 10160929--10160962 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10160919 TCTAACTATC
10160929 AAATTAAATTAATTCAA
1 AAATTAAATTAATTCAA
*
10160946 AAATTAATTTAATTCAA
1 AAATTAAATTAATTCAA
10160963 GTGACAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTAAATTAATTCAA
Found at i:10185762 original size:23 final size:23
Alignment explanation
Indices: 10185736--10185785 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
10185726 GGGGTTATAG
*
10185736 AATACGTCACAAAGGCATCACAA
1 AATACGCCACAAAGGCATCACAA
* * *
10185759 AATATGCCATAAAGGCATCATAA
1 AATACGCCACAAAGGCATCACAA
10185782 AATA
1 AATA
10185786 AATCTTATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.18
Consensus pattern (23 bp):
AATACGCCACAAAGGCATCACAA
Found at i:10190113 original size:40 final size:39
Alignment explanation
Indices: 10190056--10190201 Score: 193
Period size: 40 Copynumber: 3.7 Consensus size: 39
10190046 TGCTCAGACA
**
10190056 AGCCATACCTACCGAATCTACTGAAACGTATGCACTTTCG
1 AGCCATACCTATTGAATCTACTGAAA-GTATGCACTTTCG
* * *
10190096 AGCCATACTTATTGAATCTATTGGAAAGTATGCACTTTTG
1 AGCCATACCTATTGAATCTACT-GAAAGTATGCACTTTCG
* * *
10190136 AGCCACACCTACTGAATCTACTGAAATGTATGCACTTTCA
1 AGCCATACCTATTGAATCTACTGAAA-GTATGCACTTTCG
10190176 AGCCATACCTATTGAATCTACTGAAA
1 AGCCATACCTATTGAATCTACTGAAA
10190202 AGAATGCTCT
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.04
40 83 0.91
41 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (39 bp):
AGCCATACCTATTGAATCTACTGAAAGTATGCACTTTCG
Found at i:10190674 original size:18 final size:19
Alignment explanation
Indices: 10190645--10190680 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10190635 ACTTGTTTGC
*
10190645 TTAAGTTGAAATGAATGAT
1 TTAAGTTGAAATCAATGAT
10190664 TTAAG-TGAAATCAATGA
1 TTAAGTTGAAATCAATGA
10190681 CCCTATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (19 bp):
TTAAGTTGAAATCAATGAT
Found at i:10191553 original size:22 final size:21
Alignment explanation
Indices: 10191518--10191558 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
10191508 TAGTTGTAAC
10191518 ATTAATTAAATTAATTGTTGT
1 ATTAATTAAATTAATTGTTGT
*
10191539 ATTAATTTAATTTAATTGTT
1 ATTAA-TTAAATTAATTGTT
10191559 AAATTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTAATTAAATTAATTGTTGT
Found at i:10191564 original size:22 final size:21
Alignment explanation
Indices: 10191505--10191565 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
10191495 TTGGTATTGT
*
10191505 ATTTAGTTG-TAACATTAATTA
1 ATTTAATTGTTAA-ATTAATTA
* **
10191526 AATTAATTGTTGTATTAATTTA
1 ATTTAATTGTTAAATTAA-TTA
10191548 ATTTAATTGTTAAATTAA
1 ATTTAATTGTTAAATTAA
10191566 ACACATTATA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (21 bp):
ATTTAATTGTTAAATTAATTA
Found at i:10193243 original size:17 final size:16
Alignment explanation
Indices: 10193219--10193251 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
10193209 TATAATATGT
10193219 TATTATTTATATTATA
1 TATTATTTATATTATA
10193235 TATTGATTTATATTATA
1 TATT-ATTTATATTATA
10193252 AAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTATTTATATTATA
Found at i:10200738 original size:3 final size:3
Alignment explanation
Indices: 10200730--10200773 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
10200720 CAACTAGCTT
10200730 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10200774 CTAATGATCC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10203004 original size:25 final size:25
Alignment explanation
Indices: 10202976--10203099 Score: 68
Period size: 25 Copynumber: 5.0 Consensus size: 25
10202966 AGCCTTCATG
10202976 GTGATTTATTTGGGAAGCCTTTGTA
1 GTGATTTATTTGGGAAGCCTTTGTA
* * ** *** *
10203001 GTGAGTCACCTATAAAGCCTTTGTG
1 GTGATTTATTTGGGAAGCCTTTGTA
* **
10203026 GGGATTTATTTGGGAAGCCTTTACA
1 GTGATTTATTTGGGAAGCCTTTGTA
* * * * * * *
10203051 GTAAGTCACTTGTGAAGCTTTTGTG
1 GTGATTTATTTGGGAAGCCTTTGTA
* *
10203076 GCGATTTATTTTGGAAGCCTTTGT
1 GTGATTTATTTGGGAAGCCTTTGT
10203100 GGCGAGTCAC
Statistics
Matches: 62, Mismatches: 37, Indels: 0
0.63 0.37 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.40
Consensus pattern (25 bp):
GTGATTTATTTGGGAAGCCTTTGTA
Found at i:10203019 original size:50 final size:50
Alignment explanation
Indices: 10202978--10203278 Score: 300
Period size: 50 Copynumber: 6.0 Consensus size: 50
10202968 CCTTCATGGT
* * * *
10202978 GATTTATTTGGGAAGCCTTTGTAGTGAGTCACCTATAAAGCCTTTGTGGG
1 GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCTTTGTGGC
*** ** * * *
10203028 GATTTATTTGGGAAGCCTTTACAGTAAGTCACTTGTGAAGCTTTTGTGGC
1 GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCTTTGTGGC
* * *
10203078 GATTTATTTTGGAAGCCTTTGTGGCGAGTCACCTATAAAG-CTCTTGTAGC
1 GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCT-TTGTGGC
* * * * * *
10203128 AATTTATTTAGGAAGCATTTGTGGCAAGTCACCTGTAAAGCCCTTGTGGA
1 GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCTTTGTGGC
* * * *
10203178 AATTTATTTGGGAAGCCTTTCTGGAGAGTCACCTGTAAAGCCTTTGTGGT
1 GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCTTTGTGGC
* * * * *
10203228 GATTTATTTGGGGAGCCCTTGTGGC-ATGTTACTTGTAAAGCCTATGTGGC
1 GATTTATTTGGGAAGCCTTTGTGGCGA-GTCACCTGTAAAGCCTTTGTGGC
10203278 G
1 G
10203279 TAATGTCTGG
Statistics
Matches: 205, Mismatches: 43, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
49 2 0.01
50 202 0.99
51 1 0.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (50 bp):
GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCTTTGTGGC
Found at i:10203233 original size:100 final size:100
Alignment explanation
Indices: 10202979--10203269 Score: 332
Period size: 100 Copynumber: 2.9 Consensus size: 100
10202969 CTTCATGGTG
* * *
10202979 ATTTATTTGGGAAGCCTTTGTAGTGAGTCACCTATAAAGCCTTTGTGGGGATTTATTTGGGAAGC
1 ATTTATTTGGGAAGCCTTTGTGGAGAGTCACCTATAAAGCCTTTGTGGCGATTTATTTGGGAAGC
*** * * ** **
10203044 CTTTACAGTAAGTCACTTGTGAAGCTTTTGTGGCG
66 CTTTGTGGCAAGTCACTTGTAAAGCCCTTGTGGAA
* * * * *
10203079 ATTTATTTTGGAAGCCTTTGTGGCGAGTCACCTATAAAG-CTCTTGTAGCAATTTATTTAGGAAG
1 ATTTATTTGGGAAGCCTTTGTGGAGAGTCACCTATAAAGCCT-TTGTGGCGATTTATTTGGGAAG
* *
10203143 CATTTGTGGCAAGTCACCTGTAAAGCCCTTGTGGAA
65 CCTTTGTGGCAAGTCACTTGTAAAGCCCTTGTGGAA
* * * *
10203179 ATTTATTTGGGAAGCCTTTCTGGAGAGTCACCTGTAAAGCCTTTGTGGTGATTTATTTGGGGAGC
1 ATTTATTTGGGAAGCCTTTGTGGAGAGTCACCTATAAAGCCTTTGTGGCGATTTATTTGGGAAGC
* * *
10203244 CCTTGTGGCATGTTACTTGTAAAGCC
66 CTTTGTGGCAAGTCACTTGTAAAGCC
10203270 TATGTGGCGT
Statistics
Matches: 157, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
99 2 0.01
100 153 0.97
101 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (100 bp):
ATTTATTTGGGAAGCCTTTGTGGAGAGTCACCTATAAAGCCTTTGTGGCGATTTATTTGGGAAGC
CTTTGTGGCAAGTCACTTGTAAAGCCCTTGTGGAA
Found at i:10203268 original size:150 final size:150
Alignment explanation
Indices: 10202979--10203252 Score: 370
Period size: 150 Copynumber: 1.8 Consensus size: 150
10202969 CTTCATGGTG
* * ** * **
10202979 ATTTATTTGGGAAGCCTTTGTAGTGAGTCACCTATAAAGCCTTTGTGGGGATTTATTTGGGAAGC
1 ATTTATTTAGGAAGCATTTGTAGCAAGTCACCTATAAAGCCCTTGTGGAAATTTATTTGGGAAGC
* * * * * *
10203044 CTTTACAGTAAGTCACTTGTGAAGCTTTTGTGGCGATTTATTTTGGAAGCCTTTGTGGCGAGTCA
66 CTTTACAGGAAGTCACCTGTAAAGCCTTTGTGGCGATTTATTTGGGAAGCCCTTGTGGCGAGTCA
10203109 CCTATAAAGCTCTTGTAGCA
131 CCTATAAAGCTCTTGTAGCA
* *
10203129 ATTTATTTAGGAAGCATTTGTGGCAAGTCACCTGTAAAGCCCTTGTGGAAATTTATTTGGGAAGC
1 ATTTATTTAGGAAGCATTTGTAGCAAGTCACCTATAAAGCCCTTGTGGAAATTTATTTGGGAAGC
* * *
10203194 CTTT-CTGGAGAGTCACCTGTAAAGCCTTTGTGGTGATTTATTTGGGGAGCCCTTGTGGC
66 CTTTACAGGA-AGTCACCTGTAAAGCCTTTGTGGCGATTTATTTGGGAAGCCCTTGTGGC
10203253 ATGTTACTTG
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
149 3 0.03
150 102 0.97
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (150 bp):
ATTTATTTAGGAAGCATTTGTAGCAAGTCACCTATAAAGCCCTTGTGGAAATTTATTTGGGAAGC
CTTTACAGGAAGTCACCTGTAAAGCCTTTGTGGCGATTTATTTGGGAAGCCCTTGTGGCGAGTCA
CCTATAAAGCTCTTGTAGCA
Found at i:10204731 original size:15 final size:14
Alignment explanation
Indices: 10204707--10204741 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
10204697 CAACATATAA
10204707 AAAG-AAATAAGTGT
1 AAAGAAAATAA-TGT
10204721 AAAGAAAATAATGT
1 AAAGAAAATAATGT
10204735 AAAGAAA
1 AAAGAAA
10204742 GTAAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (14 bp):
AAAGAAAATAATGT
Found at i:10206487 original size:20 final size:21
Alignment explanation
Indices: 10206451--10206495 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
10206441 AATGTTCCTA
*
10206451 AAAGAAATGTTTTCAAAATGC
1 AAAGAAATGTTTCCAAAATGC
*
10206472 AAAGAAA-GTTTCCAAAATTC
1 AAAGAAATGTTTCCAAAATGC
10206492 AAAG
1 AAAG
10206496 TGACCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.24
Consensus pattern (21 bp):
AAAGAAATGTTTCCAAAATGC
Found at i:10211010 original size:10 final size:10
Alignment explanation
Indices: 10210995--10211024 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10210985 TGTGTGATGA
10210995 TATAATATGT
1 TATAATATGT
10211005 TATAATATGT
1 TATAATATGT
10211015 TATAAT-TGT
1 TATAATATGT
10211024 T
1 T
10211025 TTATCATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TATAATATGT
Found at i:10211305 original size:37 final size:37
Alignment explanation
Indices: 10211228--10211305 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
10211218 TTTTTTGACT
* * *
10211228 TGTTTTCGGTTAGACTAGCTATTATAAGCATCTTGTG
1 TGTTTTCGGTTAGACTAGCTATTAGAAGCATCTGGCG
* * * *
10211265 TGTTTTTGGTTGGACTAGCTCTTAGGAGCATCTGGCG
1 TGTTTTCGGTTAGACTAGCTATTAGAAGCATCTGGCG
10211302 TGTT
1 TGTT
10211306 ATCAGGTGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.17, C:0.14, G:0.27, T:0.42
Consensus pattern (37 bp):
TGTTTTCGGTTAGACTAGCTATTAGAAGCATCTGGCG
Found at i:10225223 original size:57 final size:58
Alignment explanation
Indices: 10225133--10225256 Score: 160
Period size: 57 Copynumber: 2.2 Consensus size: 58
10225123 ATAGAAACAG
* *
10225133 TGAAAATGAAGAAAAGGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGAAGAAAAGGGAAACATTTGGAAATGAATACGGTTTTCTCCAAAATGAAAA
* * * * * * *
10225191 TGAAAATGGAG-AAATGGAATCATTTGGAAATGAATGCGGTTTTCTTCAAATTTAAAA
1 TGAAAATGAAGAAAAGGGAAACATTTGGAAATGAATACGGTTTTCTCCAAAATGAAAA
10225248 TGAAAATGA
1 TGAAAATGA
10225257 CTTGGAAATG
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
57 46 0.82
58 10 0.18
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.28
Consensus pattern (58 bp):
TGAAAATGAAGAAAAGGGAAACATTTGGAAATGAATACGGTTTTCTCCAAAATGAAAA
Found at i:10225752 original size:17 final size:19
Alignment explanation
Indices: 10225720--10225755 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
10225710 AAAAGTTCCA
10225720 CTCATCTTTTCTATTTCTT
1 CTCATCTTTTCTATTTCTT
10225739 CTCAT-TTTTC-ATTTCTT
1 CTCATCTTTTCTATTTCTT
10225756 TCCTCTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 5 0.29
19 5 0.29
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (19 bp):
CTCATCTTTTCTATTTCTT
Found at i:10226561 original size:38 final size:38
Alignment explanation
Indices: 10226519--10226609 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
10226509 TTGCATGTTT
* * *
10226519 AGCATGCCTACTATTACTGTTGAATTGAATTCAAGTTA
1 AGCATGTCTACTATTACTGTTGAACTGAATACAAGTTA
* * *
10226557 AGCATGTTTA-TAGATACTGTTGAACTGAATACATGTTA
1 AGCATGTCTACTA-TTACTGTTGAACTGAATACAAGTTA
10226595 AGCATGTCTACTATT
1 AGCATGTCTACTATT
10226610 TCTATATGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
37 2 0.05
38 39 0.91
39 2 0.05
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (38 bp):
AGCATGTCTACTATTACTGTTGAACTGAATACAAGTTA
Found at i:10228330 original size:19 final size:19
Alignment explanation
Indices: 10228303--10228340 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10228293 TGATCTTTAT
*
10228303 GAATTATAATACTTTAAAA
1 GAATAATAATACTTTAAAA
10228322 GAATAATAATACTTTAAAA
1 GAATAATAATACTTTAAAA
10228341 TCTAATAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (19 bp):
GAATAATAATACTTTAAAA
Found at i:10229181 original size:17 final size:17
Alignment explanation
Indices: 10229159--10229193 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10229149 AGTTATTTTA
*
10229159 TCTTTTAATTTTTCTTT
1 TCTTTTAAATTTTCTTT
*
10229176 TCTTTTAAATTTTGTTT
1 TCTTTTAAATTTTCTTT
10229193 T
1 T
10229194 ATTTCTCTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTAAATTTTCTTT
Found at i:10238112 original size:51 final size:52
Alignment explanation
Indices: 10238030--10238139 Score: 150
Period size: 51 Copynumber: 2.1 Consensus size: 52
10238020 TAGAAATGGG
* * *
10238030 GAAAATGGAGAGAAGGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAAT
1 GAAAATGGAGAGAAGAGAAACATTTGAAAATGAATATGGTTTTCTCCAAAAT
* * *
10238082 GAAAATGGAGA-AATAGAATCATTTGAAAATGAATGTGGTTTTCTCCAAAAT
1 GAAAATGGAGAGAAGAGAAACATTTGAAAATGAATATGGTTTTCTCCAAAAT
*
10238133 TAAAATG
1 GAAAATG
10238140 AAAATCACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 40 0.78
52 11 0.22
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (52 bp):
GAAAATGGAGAGAAGAGAAACATTTGAAAATGAATATGGTTTTCTCCAAAAT
Found at i:10253702 original size:95 final size:97
Alignment explanation
Indices: 10253544--10253736 Score: 372
Period size: 95 Copynumber: 2.0 Consensus size: 97
10253534 TGAGATATTC
10253544 TTGTATTAATTAGCCCTTTCTTTTTGTTCTGTAAGAAGCCAAAGTACACACACACACAC-AAAAA
1 TTGTATTAATTAGCCCTTTCTTTTTGTTCTGTAAGAAGCCAAAGTACACACACACACACAAAAAA
10253608 AAAAAAAAACCTTGTGACAAAG-AAGAGAGAT
66 AAAAAAAAACCTTGTGACAAAGAAAGAGAGAT
10253639 TTGTATTAATTAGCCCTTTCTTTTTGTTCTGTAAGAAGCCAAAGTACACACACACACACAAAAAA
1 TTGTATTAATTAGCCCTTTCTTTTTGTTCTGTAAGAAGCCAAAGTACACACACACACACAAAAAA
10253704 AAAAAAAAACCTTGTGACAAAGAAAGAGAGAT
66 AAAAAAAAACCTTGTGACAAAGAAAGAGAGAT
10253736 T
1 T
10253737 GTTAATGGAG
Statistics
Matches: 96, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
95 59 0.61
96 27 0.28
97 10 0.10
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (97 bp):
TTGTATTAATTAGCCCTTTCTTTTTGTTCTGTAAGAAGCCAAAGTACACACACACACACAAAAAA
AAAAAAAAACCTTGTGACAAAGAAAGAGAGAT
Found at i:10259539 original size:18 final size:20
Alignment explanation
Indices: 10259503--10259551 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
10259493 TATAATTTTT
*
10259503 AAAAAAATATATAATACATC
1 AAAAAAATATATAAAACATC
*
10259523 AAAAAAAT-TA-AAAACATT
1 AAAAAAATATATAAAACATC
10259541 AAAATAAATAT
1 AAAA-AAATAT
10259552 TTCCCAACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 10 0.40
19 6 0.24
20 9 0.36
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAAATATATAAAACATC
Found at i:10259780 original size:20 final size:19
Alignment explanation
Indices: 10259741--10259797 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
10259731 AAAATAGTGA
*
10259741 AAAAAAACAACAAGAA-AAT
1 AAAAAAACAAGAA-AACAAT
10259760 AAGAAAAACAAGAAAACAAT
1 AA-AAAAACAAGAAAACAAT
*
10259780 AAAAAAA-AAGACAACAAT
1 AAAAAAACAAGAAAACAAT
10259798 TTTTTTTGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 10 0.29
19 9 0.26
20 15 0.44
ACGTcount: A:0.77, C:0.11, G:0.07, T:0.05
Consensus pattern (19 bp):
AAAAAAACAAGAAAACAAT
Found at i:10259783 original size:17 final size:17
Alignment explanation
Indices: 10259749--10259784 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10259739 GAAAAAAAAC
*
10259749 AACAAGAAAATAAGAAA
1 AACAAGAAAACAAGAAA
*
10259766 AACAAGAAAACAATAAA
1 AACAAGAAAACAAGAAA
10259783 AA
1 AA
10259785 AAAAGACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.06
Consensus pattern (17 bp):
AACAAGAAAACAAGAAA
Found at i:10263573 original size:33 final size:32
Alignment explanation
Indices: 10263536--10263598 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
10263526 TGTTACTGTC
10263536 ACTGTAATGGGCTAAGG-CTACACTGATACTGAT
1 ACTGTAATGGGCTAAGGCCTA-ACTGA-ACTGAT
*
10263569 ACTGTAATGGGCTATGGCCTAACTGAACTG
1 ACTGTAATGGGCTAAGGCCTAACTGAACTG
10263599 TTATTGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 21 0.75
34 3 0.11
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (32 bp):
ACTGTAATGGGCTAAGGCCTAACTGAACTGAT
Found at i:10286216 original size:17 final size:18
Alignment explanation
Indices: 10286194--10286230 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
10286184 TTATTCTTTT
10286194 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
10286211 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
10286229 AT
1 AT
10286231 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:10286950 original size:1 final size:1
Alignment explanation
Indices: 10286944--10287015 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
10286934 TTCAAACTAG
* ** * * ** ** *
10286944 AAAAAAAATAAAAAATCAAAAAAAATAAAAAAAATAAAAAAAATCAAAAAATTAAAAAAAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10287009 AAAAAAA
1 AAAAAAA
10287016 TCGAAGTCAA
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (1 bp):
A
Found at i:10286958 original size:9 final size:9
Alignment explanation
Indices: 10286944--10287013 Score: 99
Period size: 9 Copynumber: 7.9 Consensus size: 9
10286934 TTCAAACTAG
10286944 AAAAAAAAT
1 AAAAAAAAT
10286953 --AAAAAAT
1 AAAAAAAAT
10286960 CAAAAAAAAT
1 -AAAAAAAAT
10286970 AAAAAAAAT
1 AAAAAAAAT
10286979 AAAAAAAAT
1 AAAAAAAAT
* *
10286988 CAAAAAATT
1 AAAAAAAAT
10286997 AAAAAAAAT
1 AAAAAAAAT
10287006 AAAAAAAA
1 AAAAAAAA
10287014 AATCGAAGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
7 7 0.13
9 40 0.74
10 7 0.13
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:10286967 original size:18 final size:16
Alignment explanation
Indices: 10286944--10287015 Score: 92
Period size: 17 Copynumber: 4.2 Consensus size: 16
10286934 TTCAAACTAG
10286944 AAAAAAAATAAAAAAT
1 AAAAAAAATAAAAAAT
10286960 CAAAAAAAATAAAAAAAAT
1 -AAAAAAAAT--AAAAAAT
10286979 AAAAAAAATCAAAAAATT
1 AAAAAAAAT-AAAAAA-T
10286997 AAAAAAAATAAAAAA-
1 AAAAAAAATAAAAAAT
10287012 AAAA
1 AAAA
10287016 TCGAAGTCAA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
15 4 0.08
17 21 0.41
18 19 0.37
19 7 0.14
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAAAAAATAAAAAAT
Found at i:10286983 original size:27 final size:26
Alignment explanation
Indices: 10286944--10287012 Score: 104
Period size: 26 Copynumber: 2.6 Consensus size: 26
10286934 TTCAAACTAG
10286944 AAAAAAAAT-AAAAAATCAAAAAAAAT
1 AAAAAAAATAAAAAAATC-AAAAAAAT
*
10286970 AAAAAAAATAAAAAAAATCAAAAAATT
1 AAAAAAAAT-AAAAAAATCAAAAAAAT
10286997 AAAAAAAATAAAAAAA
1 AAAAAAAATAAAAAAA
10287013 AAATCGAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 16 0.40
27 16 0.40
28 8 0.20
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.12
Consensus pattern (26 bp):
AAAAAAAATAAAAAAATCAAAAAAAT
Found at i:10287013 original size:27 final size:28
Alignment explanation
Indices: 10286944--10287013 Score: 110
Period size: 27 Copynumber: 2.6 Consensus size: 28
10286934 TTCAAACTAG
10286944 AAAAAAAAT--AAAAAATCAAAAAAAAT
1 AAAAAAAATAAAAAAAATCAAAAAAAAT
*
10286970 AAAAAAAATAAAAAAAATC-AAAAAATT
1 AAAAAAAATAAAAAAAATCAAAAAAAAT
10286997 AAAAAAAATAAAAAAAA
1 AAAAAAAATAAAAAAAA
10287014 AATCGAAGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 9 0.22
27 24 0.59
28 8 0.20
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (28 bp):
AAAAAAAATAAAAAAAATCAAAAAAAAT
Found at i:10287044 original size:6 final size:6
Alignment explanation
Indices: 10287033--10287075 Score: 61
Period size: 6 Copynumber: 7.0 Consensus size: 6
10287023 CAAAATAGAA
10287033 AAAAAG AAAAAG AAAAA- AAGAGAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AA-A-AAG AAAAAG AAAAAG AAAAAG
10287076 GAGAGGTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 2 0.06
6 27 0.79
7 3 0.09
8 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:10287051 original size:24 final size:25
Alignment explanation
Indices: 10287024--10287074 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
10287014 AATCGAAGTC
*
10287024 AAAATAGAA-AAAAAGAAAAAGAAA
1 AAAAGAGAAGAAAAAGAAAAAGAAA
10287048 AAAAGAGAAGAAAAAGAAAAAGAAA
1 AAAAGAGAAGAAAAAGAAAAAGAAA
10287073 AA
1 AA
10287075 GGAGAGGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (25 bp):
AAAAGAGAAGAAAAAGAAAAAGAAA
Found at i:10289650 original size:100 final size:100
Alignment explanation
Indices: 10289462--10289802 Score: 481
Period size: 100 Copynumber: 3.4 Consensus size: 100
10289452 TAATCATAGT
* *
10289462 TTGCAATTTAAAAGATTGAGGCCACAACGGCAAATCTTACTTTCTCAAGCGGTGCAGCGGAACAG
1 TTGCAA-TCAAAAGATTGAGGCCACAACGGCGAATCTTACTTTCTCAAGCGGTGCAGCGGAACAG
*
10289527 ATTGAAGCTACAACGGCGGATCTCACTTCCATGACA
65 ATTGAAGCTACAACGACGGATCTCACTTCCATGACA
*
10289563 TTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTACTTTCTCAAGCGGTGCAGCGGAATAGA
1 TTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTACTTTCTCAAGCGGTGCAGCGGAACAGA
* *
10289628 TTGAAGCTACAACGACGAATCTCACTTCCTTGACA
66 TTGAAGCTACAACGACGGATCTCACTTCCATGACA
* * *
10289663 TTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTA-TTTCT-AGGCGGCGCAGTGGAACAGA
1 TTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTACTTTCTCAAGCGGTGCAGCGGAACAGA
* * *
10289726 TTGAAGCTACAGC-AGCGGATCTTACTTCCCTGACA
66 TTGAAGCTACAACGA-CGGATCTCACTTCCATGACA
* * * * *
10289761 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTT
1 TTGCAATCAA-AAGATTGAGGCCACAACGGCGAATCTTACTT
10289803 CCCTGACATT
Statistics
Matches: 218, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
97 1 0.00
98 54 0.25
99 29 0.13
100 128 0.59
101 6 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (100 bp):
TTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTACTTTCTCAAGCGGTGCAGCGGAACAGA
TTGAAGCTACAACGACGGATCTCACTTCCATGACA
Found at i:10289781 original size:50 final size:50
Alignment explanation
Indices: 10289723--10289852 Score: 251
Period size: 50 Copynumber: 2.6 Consensus size: 50
10289713 GCAGTGGAAC
*
10289723 AGATTGAAGCTACAGCAGCGGATCTTACTTCCCTGACATTGCAATTAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGA
10289773 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGA
10289823 AGATTGAAGCTACAACAGCGGATCTTACTT
1 AGATTGAAGCTACAACAGCGGATCTTACTT
10289853 NNNNNNNNNN
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGA
Found at i:10290770 original size:44 final size:44
Alignment explanation
Indices: 10290654--10290784 Score: 158
Period size: 44 Copynumber: 3.0 Consensus size: 44
10290644 CCATGAAGAG
* *
10290654 TCACAAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA
*
10290698 TCACAAATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA
* ** * *
10290742 TGATGAATCCTATACT-TCTGAAGTTGCAGTAG-GTCGGATTAAA
1 TCACAAATCCTAT-CTCCCTGAAGTTGCAGTGGAGT-GGATTAAA
10290785 TCTACCATAG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
43 2 0.03
44 72 0.95
45 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
TCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA
Found at i:10302787 original size:28 final size:28
Alignment explanation
Indices: 10302755--10302817 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
10302745 AAACTCATAA
*
10302755 TAAGTGTTGAGCTACCT-CAAATGAACAG
1 TAAGTGGTGAGCT-CCTGCAAATGAACAG
* *
10302783 TAAGTGGTGAGCTCTTGCAAATGAATAG
1 TAAGTGGTGAGCTCCTGCAAATGAACAG
10302811 TAAGTGG
1 TAAGTGG
10302818 CAAGCTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (28 bp):
TAAGTGGTGAGCTCCTGCAAATGAACAG
Found at i:10308218 original size:25 final size:24
Alignment explanation
Indices: 10308190--10308243 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
10308180 GAAAATTGTG
*
10308190 AAAAAAAAAAACTCTTTAAAAGTTT
1 AAAAAAAAAAA-TATTTAAAAGTTT
* * *
10308215 AAAAAATAAAATATTTGAAATTTT
1 AAAAAAAAAAATATTTAAAAGTTT
10308239 AAAAA
1 AAAAA
10308244 TTTATGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAAAAAAAATATTTAAAAGTTT
Found at i:10317101 original size:8 final size:8
Alignment explanation
Indices: 10317088--10317117 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
10317078 TCTTAATGTT
10317088 TTTTTTTC
1 TTTTTTTC
10317096 TTTTTTTCC
1 TTTTTTT-C
10317105 TTTTTTTC
1 TTTTTTTC
10317113 TTTTT
1 TTTTT
10317118 CGATTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:10324902 original size:50 final size:50
Alignment explanation
Indices: 10324848--10325042 Score: 153
Period size: 50 Copynumber: 3.9 Consensus size: 50
10324838 AATTTGTTCC
*
10324848 ACTACACTGCTAGGGAAGTGAGATTCGCCATTGTGGTTTTAATCTTTTTA
1 ACTACACTGCTAGGGAAGTGAGATTCGCCATTGTGGCTTTAATCTTTTTA
* * * * * **
10324898 ACTACAATG-TCGGGGAAGAGAGATTCACCGA-TGTGGCTTTAATCTGTTCC
1 ACTACACTGCT-AGGGAAGTGAGATTCGCC-ATTGTGGCTTTAATCTTTTTA
* * * * * *
10324948 ACTGCACTGCCAGGGAAGTAAGATTTGCTATTGTAGCTTTAATCTTTTTA
1 ACTACACTGCTAGGGAAGTGAGATTCGCCATTGTGGCTTTAATCTTTTTA
* * * ** **
10324998 ACTGCATTG-TCGGGAAAGCAAGATTCGCTGTTGTGGCTTTAATCT
1 ACTACACTGCTAGGG-AAGTGAGATTCGCCATTGTGGCTTTAATCT
10325043 GTTACATCGC
Statistics
Matches: 112, Mismatches: 28, Indels: 10
0.75 0.19 0.07
Matches are distributed among these distances:
49 5 0.04
50 106 0.95
51 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (50 bp):
ACTACACTGCTAGGGAAGTGAGATTCGCCATTGTGGCTTTAATCTTTTTA
Found at i:10324963 original size:100 final size:100
Alignment explanation
Indices: 10324842--10325045 Score: 275
Period size: 100 Copynumber: 2.0 Consensus size: 100
10324832 AACTTCAATT
* * * *
10324842 TGTTCCACTACACTGCTAGGGAAGTGAGATTCGCCATTGTGGTTTTAATCTTTTTAACTACAATG
1 TGTTCCACTACACTGCCAGGGAAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTACAATG
*
10324907 TCGGGGAAG-AGAGATTCACCGATGTGGCTTTAATC
66 TCGGGAAAGCA-AGATTCACCGATGTGGCTTTAATC
* * * * *
10324942 TGTTCCACTGCACTGCCAGGGAAGTAAGATTTGCTATTGTAGCTTTAATCTTTTTAACTGCATTG
1 TGTTCCACTACACTGCCAGGGAAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTACAATG
* * *
10325007 TCGGGAAAGCAAGATTCGCTGTTGTGGCTTTAATC
66 TCGGGAAAGCAAGATTCACCGATGTGGCTTTAATC
10325042 TGTT
1 TGTT
10325046 ACATCGCCTG
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 89 0.99
101 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (100 bp):
TGTTCCACTACACTGCCAGGGAAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTACAATG
TCGGGAAAGCAAGATTCACCGATGTGGCTTTAATC
Found at i:10325248 original size:44 final size:45
Alignment explanation
Indices: 10325164--10325287 Score: 130
Period size: 44 Copynumber: 2.8 Consensus size: 45
10325154 CCTTCATTTT
* * *
10325164 AATCCGCTCCACTGTAATCTCAAGGA-A-ATAGGATTACTGGCTTA
1 AATCTGCTCCACTGTAATCTC-AGGAGAGATAAGATTTCTGGCTTA
* *
10325208 AATCTGCTCCGCTGTAATCTC-GGAGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGAGAGATAAGATTTCTGGCTTA
* * * *
10325252 AATCTACTCCATTGTAACCTCAGG-GAGATGAGATTT
1 AATCTGCTCCACTGTAATCTCAGGAGAGATAAGATTT
10325288 GAAATTCTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.04
43 1 0.01
44 61 0.91
45 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
AATCTGCTCCACTGTAATCTCAGGAGAGATAAGATTTCTGGCTTA
Found at i:10325428 original size:175 final size:175
Alignment explanation
Indices: 10325208--10325636 Score: 671
Period size: 175 Copynumber: 2.5 Consensus size: 175
10325198 TACTGGCTTA
* * * * * ** *
10325208 AATCTGCTCCGCTGTAATCTC-GGAGAGATAAGATTTCTGGCTTCAATCTACTCCATTGTAACCT
1 AATCTGCTCCACTGTAATCTCAGG-GAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCT
* *
10325272 CAGGGAGATGAGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGAT
65 CAGGGAGATAAGATTTGAAATTCTTCGGTCTATTCCCCTATAATCTCAGGGAGATAAGACCTGAT
* *
10325337 ACGATCTACTCTACTGTAATTTTAGAGAGATAAGATCCTTTATTTT
130 ACGATCTACTCTACTGTAATTTCAGAGAGAGAAGATCCTTTATTTT
* *
10325383 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTTCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
* * * *
10325448 AGGGATATAAGATTTGAAATTCTTCGGTTTATTCCCCTATAATCTTAGGGAGATAAGACCTGATG
66 AGGGAGATAAGATTTGAAATTCTTCGGTCTATTCCCCTATAATCTCAGGGAGATAAGACCTGATA
10325513 CGATCTACTCTACTGTAATTTCAGAGAGAGAAGATCCTTTATTTT
131 CGATCTACTCTACTGTAATTTCAGAGAGAGAAGATCCTTTATTTT
*
10325558 AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTTAATCTGCTCCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
10325623 AGGGAGATAAGATT
66 AGGGAGATAAGATT
10325637 CTTTATTTTA
Statistics
Matches: 231, Mismatches: 22, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
175 229 0.99
176 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (175 bp):
AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
AGGGAGATAAGATTTGAAATTCTTCGGTCTATTCCCCTATAATCTCAGGGAGATAAGACCTGATA
CGATCTACTCTACTGTAATTTCAGAGAGAGAAGATCCTTTATTTT
Found at i:10325442 original size:219 final size:219
Alignment explanation
Indices: 10325063--10325462 Score: 712
Period size: 219 Copynumber: 1.8 Consensus size: 219
10325053 CTGAAAAGTA
*
10325063 AGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACT
1 AGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACT
*
10325128 CTATTGTAATTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAAT
66 CTACTGTAATTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAAT
10325193 AGGATTACTGGCTTAAATCTGCTCCGCTGTAATCTC-GGAGAGATAAGATTTCTGGCTTCAATCT
131 AGGATTACTGGCTTAAATCTGCTCCGCTGTAATCTCAGG-GAGATAAGATTTCTGGCTTCAATCT
10325257 ACTCCATTGTAACCTCAGGGAGATG
195 ACTCCATTGTAACCTCAGGGAGATG
10325282 AGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACT
1 AGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACT
* * *
10325347 CTACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAAT
66 CTACTGTAATTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAAT
* * *
10325412 AGGATTACTGGCTTCAATCTGCTTCGCTGTAATCTCAGGGATATAAGATTT
131 AGGATTACTGGCTTAAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
10325463 GAAATTCTTC
Statistics
Matches: 172, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
219 170 0.99
220 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (219 bp):
AGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACT
CTACTGTAATTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAAT
AGGATTACTGGCTTAAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTA
CTCCATTGTAACCTCAGGGAGATG
Found at i:10325574 original size:219 final size:216
Alignment explanation
Indices: 10325081--10325763 Score: 502
Period size: 219 Copynumber: 3.1 Consensus size: 216
10325071 AATTCTTCGG
* * * * * * * *
10325081 TCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTATTGTAATTTCAGAGA
1 TCTACTCCACTGTAATCTCAGAGAGAGAAGACCTGATACAATCTACTCCACTGTAATTTCAGAGA
10325146 GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAATAGGATTACTGGCTTAAAT
66 GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAATAGGATTACTGGCTTAAAT
* * *
10325211 CTGCTCCGCTGTAATCTCGGAGAGATAAGATTTCTGGCTTCAATCTACTCCATTGTAACCTCAGG
131 CTGCTCCGCTGTAATCTCGGAGAGATAAGATTTATGGCTTCAATCTACTCCACTATAACCTCAGG
* ** * *
10325276 GAGATGAGATTTGAAATTCTTCGG
196 GAGATAAGACCTG-AA-T-TGCGA
* * * * * * *
10325300 TCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAATTTTAGAGA
1 TCTACTCCACTGTAATCTCAGAGAGAGAAGACCTGATACAATCTACTCCACTGTAATTTCAGAGA
* * *
10325365 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAAT
66 GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAATAGGATTACTGGCTTAAAT
* * * ** * * * *
10325430 CTGCTTCGCTGTAATCTCAGG-GATATAAGATTTGAAAT-TCTTCGGTTTATTCCCCTATAATCT
131 CTGCTCCGCTGTAATCTC-GGAGAGATAAGATTT---ATGGCTTCAATCTACTCCACTATAACCT
*
10325493 TAGGGAGATAAGACCTG-A-TGCGA
192 CAGGGAGATAAGACCTGAATTGCGA
* * * ** * *
10325516 TCTACTCTACTGTAATTTCAGAGAGAGAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAG
1 TCTACTCCACTGTAATCTCAGAGAGAGAAGA-CC-TGA-TACAATCTACTCCACTGTAATTTCAG
* * * * * * * * * * ***
10325581 GGAAATAGGATTACTGGC--TTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT-CTTTAT
63 AGAGATAAGA-TCCT-TCATTTTAATCCGCTCCACTGTAATCTCAAGGAAATAGGATTAC-TGGC
* * * * * * * * *
10325643 TTTAATCCGCTCCACTGTAATTTTAGG-GAGAT-AGAATTACTAGCTTCAATCTACTCCGCTGTA
125 TTAAATCTGCTCCGCTGTAA-TCTCGGAGAGATAAGATTTA-TGGCTTCAATCTACTCCACTATA
* * * *
10325706 ATCTCAGGGAGATAAGATCTGAAATTCTTCGG
188 ACCTCAGGGAGATAAGACCTG-AA-T-TGCGA
* *
10325738 TCTATTCCACTGTAATCTCAGGGAGA
1 TCTACTCCACTGTAATCTCAGAGAGA
10325764 TAGGATTATT
Statistics
Matches: 372, Mismatches: 74, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
215 1 0.00
216 29 0.08
217 35 0.09
218 8 0.02
219 237 0.64
220 7 0.02
221 29 0.08
222 26 0.07
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (216 bp):
TCTACTCCACTGTAATCTCAGAGAGAGAAGACCTGATACAATCTACTCCACTGTAATTTCAGAGA
GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAATAGGATTACTGGCTTAAAT
CTGCTCCGCTGTAATCTCGGAGAGATAAGATTTATGGCTTCAATCTACTCCACTATAACCTCAGG
GAGATAAGACCTGAATTGCGA
Found at i:10325603 original size:44 final size:44
Alignment explanation
Indices: 10325558--10325787 Score: 203
Period size: 44 Copynumber: 5.2 Consensus size: 44
10325548 CCTTTATTTT
* *
10325558 AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
* * *** *
10325602 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT-CTTTATTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTAC-TGGCTTC
* * * * *
10325646 AATCCGCTCCACTGTAATTTTAGGGAGATAGAATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
* * * * *
10325690 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-T--ACTGGCTTC
** ** *
10325736 GGTCTATTCCACTGTAATCTCAGGGAGATAGGATTATTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
10325780 AATCTGCT
1 AATCTGCT
10325788 TCCTTACACT
Statistics
Matches: 144, Mismatches: 36, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
43 3 0.02
44 103 0.72
45 3 0.02
46 33 0.23
47 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
Found at i:10325646 original size:88 final size:88
Alignment explanation
Indices: 10325208--10325787 Score: 388
Period size: 88 Copynumber: 6.6 Consensus size: 88
10325198 TACTGGCTTA
* * * * ** *
10325208 AATCTGCTCCGCTGTAATCTC-GGAGAGATAAGATTTCTGGCTTCAATCTACTCCATTGTAACCT
1 AATCTGCTCCACTGTAATCTCAGG-GAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCT
* **
10325272 CAGGGAGATGAGATT-TGAAATTCTT
65 CAGGGAGATAAGATTCT-TTATT-TT
** ** * * * * * * * ** *
10325297 CGGTCTATTCCCCTGTAATCTCAGGGAGATAAGA--CCT-GATACGATCTACTCTACTGTAATTT
1 -AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCT
* * *
10325359 TAGAGAGATAAGATCCTTTATTTT
65 CAGGGAGATAAGATTCTTTATTTT
* * *
10325383 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTTCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
* **
10325448 AGGGATATAAGATT-TGAAATTCTT
66 AGGGAGATAAGATTCT-TTATT-TT
** * ** * * * * * * * * * ** *
10325472 CGGTTTATTCCCCTATAATCTTAGGGAGATAAGA--CCT-GATGCGATCTACTCTACTGTAATTT
1 -AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCT
* * *
10325534 CAGAGAGAGAAGATCCTTTATTTT
65 CAGGGAGATAAGATTCTTTATTTT
* *
10325558 AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTTAATCTGCTCCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
10325623 AGGGAGATAAGATTCTTTATTTT
66 AGGGAGATAAGATTCTTTATTTT
* * * * * *
10325646 AATCCGCTCCACTGTAATTTTAGGGAGATAGAATTACTAGCTTCAATCTACTCCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
**
10325711 AGGGAGATAAGA-TCTGAAATTCTT
66 AGGGAGATAAGATTCT-TTATT-TT
** ** *
10325735 CGGTCTATTCCACTGTAATCTCAGGGAGATAGGATTATTGGCTTCAATCTGCT
1 -AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCT
10325788 TCCTTACACT
Statistics
Matches: 364, Mismatches: 111, Indels: 30
0.72 0.22 0.06
Matches are distributed among these distances:
85 48 0.13
86 4 0.01
87 71 0.20
88 147 0.40
89 4 0.01
90 88 0.24
91 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (88 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
AGGGAGATAAGATTCTTTATTTT
Found at i:10326020 original size:117 final size:117
Alignment explanation
Indices: 10325814--10326043 Score: 415
Period size: 117 Copynumber: 2.0 Consensus size: 117
10325804 TAAGATTCGC
* *
10325814 CGTCTTCGATATGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCCAACCTATTCCACT
1 CGTCTTCGATATGCTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCCAACCTATTCCACT
10325879 GCTGGTCAGGGAGCTAGGACTTGTAATCTTCAACCTATTCCACTGCTGGTTA
66 GCTGGTCAGGGAGCTAGGACTTGTAATCTTCAACCTATTCCACTGCTGGTTA
* * *
10325931 CGTCTTCGATCTGCTCTGCTATTGCTTAGGAAGACAAGATCTGTAATTTCCCAACCTATTCCACT
1 CGTCTTCGATATGCTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCCAACCTATTCCACT
10325996 GCTGGTCAGGGAGCTAGGACTTGTAATCTTCAACCTATTCCACTGCTG
66 GCTGGTCAGGGAGCTAGGACTTGTAATCTTCAACCTATTCCACTGCTG
10326044 ACCAGGGATA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 108 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (117 bp):
CGTCTTCGATATGCTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCCAACCTATTCCACT
GCTGGTCAGGGAGCTAGGACTTGTAATCTTCAACCTATTCCACTGCTGGTTA
Found at i:10328463 original size:5 final size:6
Alignment explanation
Indices: 10328455--10328488 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10328445 TCTTTTGCTT
* *
10328455 TTTTGT TTTTGA TTTTGT TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
10328489 TTTTAATTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (6 bp):
TTTTGA
Found at i:10328470 original size:12 final size:12
Alignment explanation
Indices: 10328455--10328489 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
10328445 TCTTTTGCTT
10328455 TTTTGTTTTTGA
1 TTTTGTTTTTGA
10328467 TTTTGTTTTTGA
1 TTTTGTTTTTGA
10328479 TTTTGATTTTT
1 TTTTG-TTTTT
10328490 TTTAATTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (12 bp):
TTTTGTTTTTGA
Found at i:10328475 original size:18 final size:17
Alignment explanation
Indices: 10328453--10328492 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
10328443 TTTCTTTTGC
*
10328453 TTTTTTGTTTTTGATTT
1 TTTTTTGATTTTGATTT
10328470 TGTTTTTGATTTTGATTT
1 T-TTTTTGATTTTGATTT
10328488 TTTTT
1 TTTTT
10328493 AATTGCATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.07, C:0.00, G:0.12, T:0.80
Consensus pattern (17 bp):
TTTTTTGATTTTGATTT
Found at i:10354484 original size:24 final size:24
Alignment explanation
Indices: 10354433--10354484 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
10354423 CAAAGCCACT
* **
10354433 AAAAACATTAAAATAAATGTTTCT
1 AAAAAAATTAAAATAAATGTTTAA
10354457 AAAAAAATTAAAAATAAAT-TTTAA
1 AAAAAAATT-AAAATAAATGTTTAA
10354481 AAAA
1 AAAA
10354485 GTCTTTATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAAAAATTAAAATAAATGTTTAA
Found at i:10355700 original size:7 final size:7
Alignment explanation
Indices: 10355688--10355713 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10355678 GAAATGAGCA
10355688 TGATATG
1 TGATATG
10355695 TGATATG
1 TGATATG
10355702 TGATATG
1 TGATATG
10355709 TGATA
1 TGATA
10355714 CAATTTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (7 bp):
TGATATG
Found at i:10357363 original size:29 final size:30
Alignment explanation
Indices: 10357276--10357362 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 30
10357266 TTCACTCAAC
*
10357276 GTGCAATATTATACAT-AAAGTTTGATTTT
1 GTGCAATTTTATACATGAAAGTTTGATTTT
* * **
10357305 GTGCAATGTTATATATG-AAGTTCAATTTT
1 GTGCAATTTTATACATGAAAGTTTGATTTT
*
10357334 GTGCAATTTTATACATGAAATTTTGATTT
1 GTGCAATTTTATACATGAAAGTTTGATTT
10357363 GATTCAATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 39 0.83
30 8 0.17
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (30 bp):
GTGCAATTTTATACATGAAAGTTTGATTTT
Found at i:10361913 original size:15 final size:15
Alignment explanation
Indices: 10361893--10361926 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
10361883 GCTTCTGTGG
10361893 GATCGTCTTATGCTA
1 GATCGTCTTATGCTA
10361908 GATCGTCTTATGCTA
1 GATCGTCTTATGCTA
10361923 GATC
1 GATC
10361927 AACGCTTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (15 bp):
GATCGTCTTATGCTA
Found at i:10362811 original size:10 final size:10
Alignment explanation
Indices: 10362796--10362833 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
10362786 CCCCAAATTA
10362796 TTTTTTTTTC
1 TTTTTTTTTC
*
10362806 TTTTTTTTTG
1 TTTTTTTTTC
*
10362816 TTTTTTTCTC
1 TTTTTTTTTC
10362826 TTTTTTTT
1 TTTTTTTT
10362834 ATGCTTTAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:10362821 original size:18 final size:19
Alignment explanation
Indices: 10362798--10362833 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
10362788 CCAAATTATT
10362798 TTTTTTTCT-TTTTTTTTG
1 TTTTTTTCTCTTTTTTTTG
10362816 TTTTTTTCTCTTTTTTTT
1 TTTTTTTCTCTTTTTTTT
10362834 ATGCTTTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (19 bp):
TTTTTTTCTCTTTTTTTTG
Found at i:10362821 original size:20 final size:20
Alignment explanation
Indices: 10362796--10362833 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10362786 CCCCAAATTA
*
10362796 TTTTTTTTTCTTTTTTTTTG
1 TTTTTTTCTCTTTTTTTTTG
10362816 TTTTTTTCTCTTTTTTTT
1 TTTTTTTCTCTTTTTTTT
10362834 ATGCTTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (20 bp):
TTTTTTTCTCTTTTTTTTTG
Done.