Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 152 of 187
Found at i:45224216 original size:17 final size:17
Alignment explanation
Indices: 45224196--45224248 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
45224186 CTAAAACCAC
45224196 ATTTAGTTTTCATATCA
1 ATTTAGTTTTCATATCA
** **
45224213 ATTTTTTTTTTTTA-C-
1 ATTTAGTTTTCATATCA
45224228 ATTTAGTTTTCATATCA
1 ATTTAGTTTTCATATCA
45224245 ATTT
1 ATTT
45224249 TTTTTATTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 10 0.38
16 2 0.08
17 14 0.54
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (17 bp):
ATTTAGTTTTCATATCA
Found at i:45224231 original size:32 final size:32
Alignment explanation
Indices: 45224194--45224258 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
45224184 AACTAAAACC
*
45224194 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTATTT
45224226 ACATTTAGTTTTCATATCAATTTTTTTTATTT
1 ACATTTAGTTTTCATATCAATTTTTTTTATTT
45224258 A
1 A
45224259 TAAATTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.63
Consensus pattern (32 bp):
ACATTTAGTTTTCATATCAATTTTTTTTATTT
Found at i:45230414 original size:30 final size:31
Alignment explanation
Indices: 45230378--45230438 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
45230368 AAACCTTTTA
*
45230378 TTTTCCCCCAAAAGTTTTACTCCC-TCCCAT
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
* *
45230408 TTTTCCCCTAAAACTTTTATTCCCTTCCCAT
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
45230439 ACCACCTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.20, C:0.38, G:0.02, T:0.41
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
Found at i:45230584 original size:20 final size:20
Alignment explanation
Indices: 45230548--45230587 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45230538 TTATTTTCCA
*
45230548 AAACTTTTTATTTTCACCCT
1 AAACTTTTTATTCTCACCCT
45230568 AAAC-TTTTACTTCTCACCCT
1 AAACTTTTTA-TTCTCACCCT
45230588 TTAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (20 bp):
AAACTTTTTATTCTCACCCT
Found at i:45231363 original size:18 final size:18
Alignment explanation
Indices: 45231327--45231361 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45231317 AAATAAAGAG
*
45231327 TTAAATAAATAGTTAAAA
1 TTAAATAAATAGTAAAAA
45231345 TTAAATAAA-AGTAAAAA
1 TTAAATAAATAGTAAAAA
45231362 ATGAAATTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
TTAAATAAATAGTAAAAA
Found at i:45231396 original size:16 final size:16
Alignment explanation
Indices: 45231375--45231405 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45231365 AAATTGGATA
*
45231375 TATGTATATGTATATG
1 TATGTATATATATATG
45231391 TATGTATATATATAT
1 TATGTATATATATAT
45231406 TGCCAGGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (16 bp):
TATGTATATATATATG
Found at i:45238817 original size:15 final size:16
Alignment explanation
Indices: 45238797--45238829 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
45238787 GTAAATAATA
45238797 AAATTTAATTC-ATTC
1 AAATTTAATTCTATTC
45238812 AAATTTAATTCTATTC
1 AAATTTAATTCTATTC
45238828 AA
1 AA
45238830 TTAAATCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTAATTCTATTC
Found at i:45246710 original size:22 final size:23
Alignment explanation
Indices: 45246683--45246730 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
45246673 TGGTTTAAGG
45246683 TTTTAGG-GTTTAAGATTAGGGT
1 TTTTAGGTGTTTAAGATTAGGGT
* *
45246705 TTTTAGGTTTTTAAGTTTAGGGT
1 TTTTAGGTGTTTAAGATTAGGGT
45246728 TTT
1 TTT
45246731 AAAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (23 bp):
TTTTAGGTGTTTAAGATTAGGGT
Found at i:45246724 original size:23 final size:22
Alignment explanation
Indices: 45246675--45246730 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
45246665 GTTTTTTGTG
*
45246675 GTTTAAGG-TTTTAGGGTTTAA
1 GTTTAGGGTTTTTAGGGTTTAA
* *
45246696 GATTAGGGTTTTTAGGTTTTTAA
1 GTTTAGGGTTTTTAGG-GTTTAA
45246719 GTTTAGGGTTTT
1 GTTTAGGGTTTT
45246731 AAAGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 6 0.21
22 7 0.24
23 16 0.55
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (22 bp):
GTTTAGGGTTTTTAGGGTTTAA
Found at i:45246975 original size:94 final size:92
Alignment explanation
Indices: 45246826--45247050 Score: 242
Period size: 94 Copynumber: 2.4 Consensus size: 92
45246816 TCGTATTTAT
* **
45246826 GGTTTTTAAAGAAAAAAATCAATTAAATTAGGGTTTAGGATTGAGTAAATTAATTAA-AAT-TTT
1 GGTTTTT-AAG-AAAAAATCAAATAAATTAGGGTTTAGGATTGAGT-AA-TAATTAATAATAAAT
*
45246889 TTAAAAAAAATTAGATTAGGGTTTAGTGTTAAG
62 TT-AAAAAAA-TAGATTAAGGTTTAGTGTTAAG
*
45246922 GGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGT-A-AATTAATTATAAAT
1 GGTTTTTAAGAAAAAATCAAATAAATTAGGGTTT-AGG--A-TTGAGTAATAATTAATAATAAAT
*
45246985 TTAAAAAAATAGATTAAGGTTTAGTGTTTAG
62 TTAAAAAAATAGATTAAGGTTTAGTGTTAAG
* * *
45247016 GGTTTTGAAGGAAAAACTCAAATAAATTAAGGTTT
1 GGTTTTTAA-GAAAAAATCAAATAAATTAGGGTTT
45247051 GGGGGTTTAG
Statistics
Matches: 113, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
94 57 0.50
95 38 0.34
96 11 0.10
97 1 0.01
98 6 0.05
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (92 bp):
GGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGATTGAGTAATAATTAATAATAAATTTAA
AAAAATAGATTAAGGTTTAGTGTTAAG
Found at i:45247075 original size:95 final size:94
Alignment explanation
Indices: 45246779--45247050 Score: 268
Period size: 95 Copynumber: 2.9 Consensus size: 94
45246769 CTTTCTTAAT
*** * * * * * *
45246779 TAAATTAATTATAAATTTTTCAAAATTGGATTAA-GTTTCGTATTTATGGTTTTTAAAGAAAAAA
1 TAAATTAATTATAAATTTAAAAAAATTAGATTAAGGTTTAGT-GTTAAGGGTTTTGAAG-AAAAA
* * *
45246843 ATCAATTAAATTAGGGTTT-AGG--ATTGAG
64 ATCAAATAAATTAAGGTTTAAGGTTATAGAG
* *
45246871 TAAATTAATTA-AAATTTTTTAAAAAAAATTAGATTAGGGTTTAGTGTTAAGGGTTTTTAAGAAA
1 TAAATTAATTATAAA---TTT-AAAAAAATTAGATTAAGGTTTAGTGTTAAGGGTTTTGAAGAAA
* *
45246935 AAATCAAATAAATTAGGGTTTAAGGTTACTTGAG
62 AAATCAAATAAATTAAGGTTTAAGGTTA-TAGAG
* *
45246969 TAAATTAATTATAAATTTAAAAAAA-TAGATTAAGGTTTAGTGTTTAGGGTTTTGAAGGAAAAAC
1 TAAATTAATTATAAATTTAAAAAAATTAGATTAAGGTTTAGTGTTAAGGGTTTTGAA-GAAAAAA
45247033 TCAAATAAATTAAGGTTT
65 TCAAATAAATTAAGGTTT
45247051 GGGGGTTTAG
Statistics
Matches: 153, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
91 3 0.02
92 11 0.07
94 54 0.35
95 56 0.37
96 9 0.06
97 1 0.01
98 16 0.10
99 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.39
Consensus pattern (94 bp):
TAAATTAATTATAAATTTAAAAAAATTAGATTAAGGTTTAGTGTTAAGGGTTTTGAAGAAAAAAT
CAAATAAATTAAGGTTTAAGGTTATAGAG
Found at i:45247452 original size:126 final size:125
Alignment explanation
Indices: 45247086--45247506 Score: 653
Period size: 126 Copynumber: 3.4 Consensus size: 125
45247076 TTGTTAATTT
* * * * *
45247086 AAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGGTCCTAAAAAAATAATTTCGAGAAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAA-AATTTTGAGTAGAC
*
45247151 ATTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
65 ATTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
* * * * * *
45247212 AAAGAAGCTTCCACATGGATGCGCTTTTGCTACGGTAGCTCCTGAAAAATAATTTTGAGTAGACG
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAAAATTTTGAGTAGACA
* * *
45247277 TTTCTAAGCAAATAATGTCAAAAACACTTTAAGCAGAATGCTTTGTCAGCAAAAGTACTG
66 TTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
* **
45247337 AAAGAAGCTCCCACGTGGATGCGCTTTTGCTATTGTAGCTCCTGAACAAAAAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAA-AAAAAATTTTGAGTAGAC
*
45247402 ATTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTATTG
65 ATTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
45247463 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
45247507 TTTGGCCTGA
Statistics
Matches: 266, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
125 110 0.41
126 156 0.59
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (125 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAAAATTTTGAGTAGACA
TTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
Found at i:45253058 original size:11 final size:11
Alignment explanation
Indices: 45253042--45253088 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
45253032 GCTTCTTTTA
45253042 AGAGGAATTTG
1 AGAGGAATTTG
45253053 AGAGGAATTTG
1 AGAGGAATTTG
45253064 AGA-GAATATT-
1 AGAGGAAT-TTG
*
45253074 AGAGAGAAATTG
1 AGAG-GAATTTG
45253086 AGA
1 AGA
45253089 AAAAGGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.23
11 18 0.58
12 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:45258068 original size:33 final size:33
Alignment explanation
Indices: 45258031--45258114 Score: 150
Period size: 33 Copynumber: 2.5 Consensus size: 33
45258021 TCAATTGTAT
45258031 AGACATCTTGTAATTACCCTCACACTCAGACTG
1 AGACATCTTGTAATTACCCTCACACTCAGACTG
*
45258064 AGACATCTTGTAATTGCCCTCACACTCAGACTG
1 AGACATCTTGTAATTACCCTCACACTCAGACTG
*
45258097 ATACATCTTGTAATTACC
1 AGACATCTTGTAATTACC
45258115 TAATTCTCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.30
Consensus pattern (33 bp):
AGACATCTTGTAATTACCCTCACACTCAGACTG
Found at i:45260800 original size:5 final size:6
Alignment explanation
Indices: 45260785--45260852 Score: 66
Period size: 6 Copynumber: 10.8 Consensus size: 6
45260775 GCTTTAAAAT
** *
45260785 TTTTTA TTTTTA TTTTCCC TTTTATT TTTCTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTT-TA TTTT-TA TTT-TTA TTTTTA TTTTTA TTTTTA
45260836 -TTTTA TTTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTT
45260853 TCTTTCCTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
5 5 0.10
6 30 0.58
7 16 0.31
8 1 0.02
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:45260834 original size:27 final size:26
Alignment explanation
Indices: 45260784--45260851 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 26
45260774 TGCTTTAAAA
*
45260784 TTTTTTATTTTTATTTTCCCTTTTAT
1 TTTTTTATTTTTATTTTCACTTTTAT
* *
45260810 TTTTCTTATTTTTATTTTTATTTTTA-
1 TTTT-TTATTTTTATTTTCACTTTTAT
*
45260836 TTTTAT-TTTTTATTTT
1 TTTTTTATTTTTATTTT
45260852 TTCTTTCCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 10 0.27
25 1 0.03
26 8 0.22
27 18 0.49
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTTTATTTTTATTTTCACTTTTAT
Found at i:45260869 original size:3 final size:3
Alignment explanation
Indices: 45260861--45260945 Score: 127
Period size: 3 Copynumber: 28.0 Consensus size: 3
45260851 TTTCTTTCCT
45260861 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
45260909 TT- TCTC TTC TTT TTC TTC TTC TTT TTCC TTC TTC TTC
1 TTC T-TC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC
45260946 CTCAAAACCC
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
2 1 0.01
3 71 0.95
4 3 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:45261076 original size:19 final size:19
Alignment explanation
Indices: 45261046--45261085 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
45261036 CCCCCTCTTC
45261046 TTCCTTCTCTTTTCTC-CT
1 TTCCTTCTCTTTTCTCTCT
45261064 TTCCTTCCTCTTTTCTCTCT
1 TTCCTT-CTCTTTTCTCTCT
45261084 TT
1 TT
45261086 TTTTTGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 10 0.50
20 4 0.20
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCCTTCTCTTTTCTCTCT
Found at i:45261364 original size:30 final size:28
Alignment explanation
Indices: 45261328--45261418 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
45261318 ATAATTTCCA
45261328 AAAAGTTTAGGGGTTAAAATGTAATCTCTT
1 AAAAGTTTAGGGGTTAAAATGTAAT-T-TT
**
45261358 AAAAGTTTAAAGGTTAAAATGTAATTTT
1 AAAAGTTTAGGGGTTAAAATGTAATTTT
* *
45261386 AGAAAGTTAAGGGGTCAAAATGTAATTTT
1 A-AAAGTTTAGGGGTTAAAATGTAATTTT
45261415 AAAA
1 AAAA
45261419 AATGAAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.11
29 25 0.46
30 23 0.43
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (28 bp):
AAAAGTTTAGGGGTTAAAATGTAATTTT
Found at i:45261833 original size:76 final size:75
Alignment explanation
Indices: 45261585--45262307 Score: 612
Period size: 76 Copynumber: 9.5 Consensus size: 75
45261575 ACGACCTGAA
* * * * * * *
45261585 GCTCAACTCACGTCTCGAATTATGAGTTAATCTTTGAAAAACAGAAATTGAAAACACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAATCAGAAATTAAAAATACCTCAGCGT
*
45261650 GCGACCCGAG
66 GTGACCCGAG
* * *
45261660 GCTCAACTCACCTCTAGCATTATGAGTTGATTTTTGAAAGAACATAAATTGAAAAATACCTC-GA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAA-ATCAGAAATT-AAAAATACCTCAG-
45261724 CGTGTGACCCGAG
63 CGTGTGACCCGAG
* * *
45261737 GCTCAACTCACCTTTCGCATTATGAGTTGATTTTTTGAAAATCATAAATTCAAAATACCTCAGCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAATCAGAAATTAAAAATACCTCAGCG
45261802 TGTGACCCGAG
65 TGTGACCCGAG
* * * * * * * *
45261813 ACTCAACTCATCGT-TTGCATTATGAGTTAATTTTTAAAAAAT-AGAAATTTTAAAATACCACGG
1 GCTCAACTCA-CCTCTCGCATTATGAGTTGATTTTT-GAAAATCAGAAA-TTAAAAATACCTCAG
* **
45261876 CATGTG-TTCGAG
63 CGTGTGACCCGAG
* * * *
45261888 GCTTAACTCACCTCTC-AATTTATGAGTTGATTTTCGAAAAAACAGAAATTGAAAAATACCTC-G
1 GCTCAACTCACCTCTCGCA-TTATGAGTTGATTTTTG-AAAATCAGAAATT-AAAAATACCTCAG
*
45261951 CCGTGTG-CCCAAG
63 -CGTGTGACCCGAG
* **
45261964 GCTCAACTCACCTCTCACATTATGAGTTGATTTTTGAAAAAAT-AGAAATTAAAAATACCTTGGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG--AAAATCAGAAATTAAAAATACCTCAGC
* *
45262028 GTGTGACACAAG
64 GTGTGACCCGAG
* * * * *
45262040 GCTTAACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAA-ACCTTAGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAATCAGAAATT-AAAAATACCTCAGC
* * *
45262104 ATGCGACTCGAG
64 GTGTGACCCGAG
* * *
45262116 GCTCAACTCACCTATCGCATTATGTGTTAATTTTTGAAAA-CTAGAAATTTAAAAAATACCTC-G
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAATC-AGAAA-TT-AAAAATACCTCAG
* ** * *
45262179 TCATGTG-TTCTAT
63 -CGTGTGACCCGAG
*
45262192 GCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAAT-AGAAATTGAAAAATACCTC-G
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG--AAAATCAGAAATT-AAAAATACCTCAG
** ** *
45262255 TTATGTG-TTCGAA
63 -CGTGTGACCCGAG
*
45262268 GCCCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAA
45262308 AGGTGAGTCA
Statistics
Matches: 541, Mismatches: 79, Indels: 57
0.80 0.12 0.08
Matches are distributed among these distances:
74 8 0.01
75 111 0.21
76 317 0.59
77 92 0.17
78 13 0.02
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (75 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAATCAGAAATTAAAAATACCTCAGCGT
GTGACCCGAG
Found at i:45262071 original size:152 final size:152
Alignment explanation
Indices: 45261585--45262308 Score: 709
Period size: 152 Copynumber: 4.8 Consensus size: 152
45261575 ACGACCTGAA
* * * * *
45261585 GCTCAACTCACGTCTCGAATTATGAGTTAATCTTTGAAAAACAGAAATTG-AAAACACCTCAGCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTC-GCG
* * * * * *
45261649 TGCGACCCGAGGCTCAACTCACCTCTAGCATTATGAGTTGATTTTTGAAAGAACATAAA-TTGAA
65 TGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTTAAA
* * *
45261713 AAATACCTCGACGTGTGACCCGAG
130 AAATACCTCGGCATGTG-CTCGAG
* * * *
45261737 GCTCAACTCACCTTTCGCATTATGAGTTGATTTTTTGAAAATCATAAATT-CAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAAATACCTC-GC
* * * *
45261801 GTGTGACCCGAGACTCAACTCATCGT-TTGCATTATGAGTTAATTTTT-AAAAAATAGAAATTT-
64 GTGTGACCCGAGGCTCAACTCA-CCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTTA
* * *
45261863 TAAAATACCACGGCATGTGTTCGAG
128 AAAAATACCTCGGCATGTGCTCGAG
* * *
45261888 GCTTAACTCACCTCTC-AATTTATGAGTTGATTTTCGAAAAAACAGAAATTGAAAAATACCTCGC
1 GCTCAACTCACCTCTCGCA-TTATGAGTTGATTTTTG-AAAAACAGAAATTGAAAAATACCTCG-
* *
45261952 CGTGTG-CCCAAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTGAAAAAATAGAAA-TT-
63 CGTGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTTA
* * * *
45262014 AAAAATACCTTGGCGTGTGACACAAG
128 AAAAATACCTCGGCATGTG-CTCGAG
* * * * * *
45262040 GCTTAACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAA-ACCTTAGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAAATACC-TCGC
* * * * * * *
45262104 ATGCGACTCGAGGCTCAACTCACCTATCGCATTATGTGTTAATTTTTG-AAAACTAGAAATTTAA
64 GTGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTTAA
* * * *
45262168 AAAATACCTCGTCATGTGTTCTAT
129 AAAATACCTCGGCATGTGCTCGAG
* * *
45262192 GCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAATAGAAATTGAAAAATACCTCGTT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG-AAAAACAGAAATTGAAAAATACCTCG-C
* ** * *
45262257 ATGTG-TTCGAAGCCCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAA
64 GTGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAA
45262309 GGTGAGTCAA
Statistics
Matches: 470, Mismatches: 81, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
150 8 0.02
151 113 0.24
152 245 0.52
153 102 0.22
154 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (152 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGCGT
GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTTAAAA
AATACCTCGGCATGTGCTCGAG
Found at i:45262117 original size:228 final size:226
Alignment explanation
Indices: 45261586--45262253 Score: 713
Period size: 228 Copynumber: 2.9 Consensus size: 226
45261576 CGACCTGAAG
* * * * * *
45261586 CTCAACTCACGTCTCGAATTATGAGTTAATCTTTGAAAAACAGAAATTGAAAACACCTCAGCGTG
1 CTCAACTCACGTCTCGCATTATGAGTTATTTTTTGAAAATCAGAAATTGAAAAAACCTCAGCATG
* * *
45261651 CGACCCGAGGCTCAACTCACCTCT-AGCATTATGAGTTGATTTTTGAAAGAACATAAATTGAAAA
66 CGACTCGAGGCTCAACTCACCTCTCA--ATTATGAGTTGATTTTTGAAAAAACAGAAATTGAAAA
* *
45261715 ATACCTCGACGTGTGACCCGAGGCTCAACTCACCTTTCGCATTATGAGTTGATTTTTTG--AAAA
129 ATACCTCGACGTGTG-CCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAAA
* * * *
45261778 TCATAAATTCAAAATACCTCAGCGTGTGACCCGAGA
192 T-AGAAATTAAAAATACCTCAGCGTGTGACACAAGA
* ** * * * *
45261814 CTCAACTCATCGT-TTGCATTATGAGTTAATTTTTAAAAAAT-AGAAATTTTAAAATACCACGGC
1 CTCAACTCA-CGTCTCGCATTATGAGTT-ATTTTTTGAAAATCAGAAA-TTGAAAAAACCTCAGC
* * * *
45261877 ATGTG-TTCGAGGCTTAACTCACCTCTCAATTTATGAGTTGATTTTCGAAAAAACAGAAATTGAA
63 ATGCGACTCGAGGCTCAACTCACCTCTCAA-TTATGAGTTGATTTTTGAAAAAACAGAAATTGAA
* *
45261941 AAATACCTCGCCGTGTGCCCAAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTGAAAAAA
127 AAATACCTCGACGTGTGCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAA
** *
45262006 TAGAAATTAAAAATACCTTGGCGTGTGACACAAGG
192 TAGAAATTAAAAATACCTCAGCGTGTGACACAAGA
* * * * * *
45262041 CTTAACTCACCTCTCGCATAATGAGTTGATTTTTTGAAAATCATATATTGAAAAAACCTTAGCAT
1 CTCAACTCACGTCTCGCATTATGAGTT-ATTTTTTGAAAATCAGAAATTGAAAAAACCTCAGCAT
* * * * *
45262106 GCGACTCGAGGCTCAACTCACCTATCGCATTATGTGTTAATTTTTG--AAAACTAGAAATTTAAA
65 GCGACTCGAGGCTCAACTCACCTCTC-AATTATGAGTTGATTTTTGAAAAAAC-AGAAA-TTGAA
* * ** * * *
45262169 AAATACCTCGTCATGTGTTCTATGCTCAACTCACCTCTTGCATTATGAGTTGATTTTTGAAAAAA
127 AAATACCTCGACGTGTGCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAA
45262234 TAGAAATTGAAAAATACCTC
192 TAGAAATT-AAAAATACCTC
45262254 GTTATGTGTT
Statistics
Matches: 364, Mismatches: 62, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
226 13 0.04
227 112 0.31
228 201 0.55
229 38 0.10
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (226 bp):
CTCAACTCACGTCTCGCATTATGAGTTATTTTTTGAAAATCAGAAATTGAAAAAACCTCAGCATG
CGACTCGAGGCTCAACTCACCTCTCAATTATGAGTTGATTTTTGAAAAAACAGAAATTGAAAAAT
ACCTCGACGTGTGCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGA
AATTAAAAATACCTCAGCGTGTGACACAAGA
Found at i:45263996 original size:33 final size:33
Alignment explanation
Indices: 45263952--45264035 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
45263942 CTTATTGTAT
*
45263952 AGACATCTTGTAATTACCCTCACACTCAGACTG
1 AGACATCTTGTAATTACCCGCACACTCAGACTG
*
45263985 AGACATTTTGTAATTACCCGCACACTCAGACTG
1 AGACATCTTGTAATTACCCGCACACTCAGACTG
*
45264018 ATACATCTTGTAATTACC
1 AGACATCTTGTAATTACC
45264036 TAATATTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (33 bp):
AGACATCTTGTAATTACCCGCACACTCAGACTG
Found at i:45264213 original size:51 final size:49
Alignment explanation
Indices: 45264163--45264297 Score: 208
Period size: 44 Copynumber: 2.8 Consensus size: 49
45264153 ACCCGACTAA
*
45264163 ACAAAGACAAAAGAACCAAAAATAGTTGAAAGTGATGGCATACCCAACT
1 ACAAAGACAAAAGAACCAAAACTAGTTGAAAGTGATGGCATACCCAACT
45264212 ---AA-AC-AAAGAACCAAAACTAGTTGAAAGTGATGGCATACCCAACTTT
1 ACAAAGACAAAAGAACCAAAACTAGTTGAAAGTGATGGCATACCCAAC--T
45264258 ACAAAGACAAAAGAACCAAAACTAGTTGAAAGTGATGGCA
1 ACAAAGACAAAAGAACCAAAACTAGTTGAAAGTGATGGCA
45264298 ACAAGAGTGA
Statistics
Matches: 78, Mismatches: 1, Indels: 12
0.86 0.01 0.13
Matches are distributed among these distances:
44 38 0.49
45 2 0.03
46 3 0.04
49 2 0.03
50 2 0.03
51 31 0.40
ACGTcount: A:0.50, C:0.18, G:0.17, T:0.16
Consensus pattern (49 bp):
ACAAAGACAAAAGAACCAAAACTAGTTGAAAGTGATGGCATACCCAACT
Found at i:45270337 original size:13 final size:13
Alignment explanation
Indices: 45270319--45270344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45270309 ATTTTACTTT
45270319 TAATCTGTATAGG
1 TAATCTGTATAGG
45270332 TAATCTGTATAGG
1 TAATCTGTATAGG
45270345 ACTCAGTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TAATCTGTATAGG
Found at i:45275166 original size:33 final size:33
Alignment explanation
Indices: 45275129--45275212 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
45275119 TCAATTGTAT
*
45275129 AGACATCTTGTCATTACCCTCACACTCAGACTG
1 AGACATCTTGTAATTACCCTCACACTCAGACTG
*
45275162 AGACATCTTGTAATTGCCCTCACACTCAGACTG
1 AGACATCTTGTAATTACCCTCACACTCAGACTG
* *
45275195 ATACATCTTGTTATTACC
1 AGACATCTTGTAATTACC
45275213 TAATTGTCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (33 bp):
AGACATCTTGTAATTACCCTCACACTCAGACTG
Found at i:45276133 original size:5 final size:5
Alignment explanation
Indices: 45276121--45276155 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
45276111 AAGAACACAC
*
45276121 ACAAA A-AAA AAAAA ACAAA ACAAA ACAAA ACAAA A
1 ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA A
45276156 AAGAAATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:45278058 original size:15 final size:15
Alignment explanation
Indices: 45278031--45278065 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
45278021 AAACATTTTA
45278031 ATAT-AGATAATAAT
1 ATATAAGATAATAAT
*
45278045 ATATAAGATGATAAT
1 ATATAAGATAATAAT
45278060 ATATAA
1 ATATAA
45278066 ATTTAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
ATATAAGATAATAAT
Found at i:45282197 original size:24 final size:24
Alignment explanation
Indices: 45282139--45282190 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
45282129 CAAATATAAG
* *
45282139 TAATGCAATAAGGTTTAAACGCTT
1 TAATGCAATAAGGTTTAAACACCT
45282163 TAATGCAATAAGGTTTAAACACCT
1 TAATGCAATAAGGTTTAAACACCT
45282187 TAAT
1 TAAT
45282191 CTAATAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (24 bp):
TAATGCAATAAGGTTTAAACACCT
Found at i:45282595 original size:14 final size:14
Alignment explanation
Indices: 45282571--45282631 Score: 72
Period size: 14 Copynumber: 4.3 Consensus size: 14
45282561 CATATCATAC
45282571 AACCTTAAACCCCA
1 AACCTTAAACCCCA
45282585 AACAC-TAAACCCCA
1 AAC-CTTAAACCCCA
*
45282599 AACCTTAATCCCCA
1 AACCTTAAACCCCA
45282613 AA-CTTAAAACCCTCA
1 AACCTT-AAACCC-CA
45282628 AACC
1 AACC
45282632 AAAACCTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 4 0.10
14 30 0.75
15 5 0.12
16 1 0.03
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (14 bp):
AACCTTAAACCCCA
Found at i:45282622 original size:28 final size:29
Alignment explanation
Indices: 45282571--45282631 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
45282561 CATATCATAC
45282571 AACCTTAAACCCCAAACACTAAACCC-CA
1 AACCTTAAACCCCAAACACTAAACCCTCA
* *
45282599 AACCTTAATCCCCAAAC-TTAAAACCCTCA
1 AACCTTAAACCCCAAACACT-AAACCCTCA
45282628 AACC
1 AACC
45282632 AAAACCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 1 0.03
28 22 0.76
29 6 0.21
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (29 bp):
AACCTTAAACCCCAAACACTAAACCCTCA
Found at i:45289715 original size:28 final size:28
Alignment explanation
Indices: 45289682--45289738 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
45289672 ATAAAAGAAG
45289682 TATAATTCTATAGGGATTTTACTTTTAT
1 TATAATTCTATAGGGATTTTACTTTTAT
45289710 TATAATTCTATAGGGATTTTACTTTTAT
1 TATAATTCTATAGGGATTTTACTTTTAT
45289738 T
1 T
45289739 TTATTTTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (28 bp):
TATAATTCTATAGGGATTTTACTTTTAT
Found at i:45291689 original size:22 final size:22
Alignment explanation
Indices: 45291664--45291708 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
45291654 GGGAATCTTC
*
45291664 TGAGTAAGGATAAAATCAAAAA
1 TGAGTAAGGATAAAATAAAAAA
* *
45291686 TGAGTTAGGCTAAAATAAAAAA
1 TGAGTAAGGATAAAATAAAAAA
45291708 T
1 T
45291709 CAAATGGGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (22 bp):
TGAGTAAGGATAAAATAAAAAA
Found at i:45294998 original size:14 final size:15
Alignment explanation
Indices: 45294965--45295001 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
45294955 TAGTGATATT
*
45294965 TAAAATATCAAAAGA
1 TAAAATATTAAAAGA
45294980 T-AAATATTAAAA-A
1 TAAAATATTAAAAGA
45294993 TAAAATATT
1 TAAAATATT
45295002 TTCTTAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 17 0.85
15 1 0.05
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (15 bp):
TAAAATATTAAAAGA
Found at i:45295309 original size:41 final size:41
Alignment explanation
Indices: 45295246--45295404 Score: 191
Period size: 41 Copynumber: 3.9 Consensus size: 41
45295236 TCATTAGTGA
* ** *
45295246 TGTTTTCCT-ATAAACGTTGCAAAAGGTAAGGCAATAGCGG
1 TGTTTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGCAG
*
45295286 CGTTTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGCTA-
1 TGTTTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGC-AG
* *
45295327 TGTTTGTCCCAT-AACGCCGCAAAAGGTAAGGCAATAGCAG
1 TGTTTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGCAG
* *
45295367 TGTTTTTC-CTATAAACACCACAAAAGGTAAGGCAATAG
1 TGTTTTTCTC-ATAAACGCCGCAAAAGGTAAGGCAATAG
45295405 TGTCATTTTA
Statistics
Matches: 103, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 42 0.41
41 59 0.57
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (41 bp):
TGTTTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGCAG
Found at i:45295422 original size:41 final size:38
Alignment explanation
Indices: 45295248--45295427 Score: 155
Period size: 41 Copynumber: 4.4 Consensus size: 38
45295238 ATTAGTGATG
** **
45295248 TTTTCCTATAAACGTTGCAAAAGGTAAGGCAATAGCGGCGT
1 TTTTCC-ATAAACGCCGCAAAAGGTAAGGCAATA--GGTAT
*
45295289 TTTTCTCATAAACGCCGCAAAAGGTAAGGCAATAGCTAT
1 TTTTC-CATAAACGCCGCAAAAGGTAAGGCAATAGGTAT
*
45295328 GTTTGTCCCAT-AACGCCGCAAAAGGTAAGGCAATAGCAGTGT
1 -TTT-T-CCATAAACGCCGCAAAAGGTAAGGCAATAG--GTAT
* *
45295370 TTTTCCTATAAACACCACAAAAGGTAAGGCAATAGTGTCAT
1 TTTTCC-ATAAACGCCGCAAAAGGTAAGGCAATAG-GT-AT
*
45295411 TTTATCCATAAATGCCG
1 TTT-TCCATAAACGCCG
45295428 TGAATTTATT
Statistics
Matches: 115, Mismatches: 14, Indels: 20
0.77 0.09 0.13
Matches are distributed among these distances:
39 4 0.03
40 33 0.29
41 71 0.62
42 7 0.06
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (38 bp):
TTTTCCATAAACGCCGCAAAAGGTAAGGCAATAGGTAT
Found at i:45299017 original size:18 final size:18
Alignment explanation
Indices: 45298994--45299032 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
45298984 ACCGAGTGGA
* *
45298994 CCACATGGGCATGTGGGC
1 CCACATGAGCATGTGAGC
*
45299012 CCACATGAGCGTGTGAGC
1 CCACATGAGCATGTGAGC
45299030 CCA
1 CCA
45299033 TTTTCACTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.15
Consensus pattern (18 bp):
CCACATGAGCATGTGAGC
Found at i:45301075 original size:19 final size:19
Alignment explanation
Indices: 45301051--45301124 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
45301041 GTATTGACAT
45301051 AATAAACAAAATGAAAACA
1 AATAAACAAAATGAAAACA
*
45301070 AATAAACAAAATAAATAACA
1 AATAAACAAAATGAA-AACA
*
45301090 GAATAAACAAAATGAAAAGA
1 -AATAAACAAAATGAAAACA
*
45301110 AGTAAACAAAA-GAAA
1 AATAAACAAAATGAAA
45301125 TAACAAATGG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
18 4 0.08
19 24 0.49
20 7 0.14
21 14 0.29
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.11
Consensus pattern (19 bp):
AATAAACAAAATGAAAACA
Found at i:45301106 original size:40 final size:40
Alignment explanation
Indices: 45301051--45301129 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
45301041 GTATTGACAT
*
45301051 AATAAACAAAATGAAAACAAATAAACAAAATAAATAACAG
1 AATAAACAAAATGAAAACAAATAAACAAAAGAAATAACAG
* *
45301091 AATAAACAAAATGAAAAGAAGTAAACAAAAGAAATAACA
1 AATAAACAAAATGAAAACAAATAAACAAAAGAAATAACA
45301130 AATGGAGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.72, C:0.09, G:0.08, T:0.11
Consensus pattern (40 bp):
AATAAACAAAATGAAAACAAATAAACAAAAGAAATAACAG
Found at i:45306768 original size:31 final size:31
Alignment explanation
Indices: 45306732--45306791 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
45306722 ATGATCACTC
* *
45306732 AACTATTTGAAAGTTTTTATTTAAGTCACGT
1 AACTATTCGAAAGTATTTATTTAAGTCACGT
*
45306763 AACTATTCGGAAGTATTTATTTAAGTCAC
1 AACTATTCGAAAGTATTTATTTAAGTCAC
45306792 TTGGTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (31 bp):
AACTATTCGAAAGTATTTATTTAAGTCACGT
Found at i:45309245 original size:42 final size:42
Alignment explanation
Indices: 45309186--45309273 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
45309176 TTTTGGTGAG
45309186 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
1 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
45309228 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
1 CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
45309270 CTTG
1 CTTG
45309274 ATGAGCTCGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (42 bp):
CTTGCAATTTTATAAAGTTCATATATTTGATGAGTTCACAGT
Found at i:45313962 original size:4 final size:4
Alignment explanation
Indices: 45313953--45313980 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
45313943 AAAGATATCA
45313953 TCTT TCTT TCTT TCTT TCTT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT
45313981 CAATCGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TCTT
Found at i:45314488 original size:15 final size:15
Alignment explanation
Indices: 45314470--45314499 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45314460 TAATTGAATA
*
45314470 GAATTAAATTTGATT
1 GAATTAAAATTGATT
45314485 GAATTAAAATTGATT
1 GAATTAAAATTGATT
45314500 ATTTAGATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (15 bp):
GAATTAAAATTGATT
Found at i:45315307 original size:23 final size:23
Alignment explanation
Indices: 45315254--45315307 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
45315244 AAATTGCTTT
*
45315254 TAAGCTTATGTATATTGAAATGG
1 TAAGCTTTTGTATATTGAAATGG
45315277 TAAGCTTTTGTATATTGAAATGG
1 TAAGCTTTTGTATATTGAAATGG
45315300 TAAGCTTT
1 TAAGCTTT
45315308 GTTTATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (23 bp):
TAAGCTTTTGTATATTGAAATGG
Found at i:45317311 original size:98 final size:98
Alignment explanation
Indices: 45317142--45317341 Score: 357
Period size: 98 Copynumber: 2.0 Consensus size: 98
45317132 CATTCTGACC
* *
45317142 TTGTCTTACAAAATTTATTATATCTCATGATTTATAATTCCGTTACTTACTCGTTTCTTTTATAA
1 TTGTCTTACAAAATTTATTATATCTCATGATTTATAATTCCATTACTTACTCGTTTCTTCTATAA
45317207 GAAACTAGACTCAATAAGCTCTAATTCCATAAT
66 GAAACTAGACTCAATAAGCTCTAATTCCATAAT
45317240 TTGTCTTGA-AAAATTTATTATATCTCATGATTTATAATTCCATTACTTACTCGTTTCTTCTATA
1 TTGTCTT-ACAAAATTTATTATATCTCATGATTTATAATTCCATTACTTACTCGTTTCTTCTATA
*
45317304 AGAAACTAGACTCAATAAGCTTTAATTCCATAAT
65 AGAAACTAGACTCAATAAGCTCTAATTCCATAAT
45317338 TTGT
1 TTGT
45317342 TCATCCTCTA
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
98 97 0.99
99 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (98 bp):
TTGTCTTACAAAATTTATTATATCTCATGATTTATAATTCCATTACTTACTCGTTTCTTCTATAA
GAAACTAGACTCAATAAGCTCTAATTCCATAAT
Found at i:45324001 original size:27 final size:27
Alignment explanation
Indices: 45323971--45324100 Score: 131
Period size: 27 Copynumber: 4.9 Consensus size: 27
45323961 TATCCTACAA
*
45323971 GGGTATTTCAATAATTTCACAAACTAG
1 GGGTATTTCAGTAATTTCACAAACTAG
*
45323998 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTCAGTAATTTCACAAACTAG
* * * **
45324025 GGGTGTTT-TGATAATTTTACAAA-GGG
1 GGGTATTTCAG-TAATTTCACAAACTAG
**
45324051 GGGTATTTCAGTAATTTTGCAAACT-G
1 GGGTATTTCAGTAATTTCACAAACTAG
*
45324077 AGAGTATTTCAGTAATTTCACAAA
1 -GGGTATTTCAGTAATTTCACAAA
45324101 TTGGGGTTCT
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
26 21 0.25
27 64 0.75
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTCACAAACTAG
Found at i:45324107 original size:53 final size:53
Alignment explanation
Indices: 45323973--45324107 Score: 130
Period size: 53 Copynumber: 2.5 Consensus size: 53
45323963 TCCTACAAGG
* * *
45323973 GTATTTCAATAATTTCACAAACTAGGGGTATTTCAGTAATTTCACAAATTAGGG
1 GTATTTCAGTAATTTCACAAA-TAGGGGTATTTCAGTAATTTCACAAATGAGGA
* * * ** **
45324027 GTGTTT-TGATAATTTTACAAAGGGGGGTATTTCAGTAATTTTGCAAACTGA-GA
1 GTATTTCAG-TAATTTCACAAATAGGGGTATTTCAGTAATTTCACAAA-TGAGGA
*
45324080 GTATTTCAGTAATTTCACAAATTGGGGT
1 GTATTTCAGTAATTTCACAAATAGGGGT
45324108 TCTTGATGAC
Statistics
Matches: 63, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
53 44 0.70
54 19 0.30
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (53 bp):
GTATTTCAGTAATTTCACAAATAGGGGTATTTCAGTAATTTCACAAATGAGGA
Found at i:45331339 original size:43 final size:43
Alignment explanation
Indices: 45331292--45331441 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
45331282 TCCCAAACGT
* * *
45331292 GGTCTTACATGTAATCACATATCGATGCCACTATCCTAGACAG
1 GGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAG
* * * * *
45331335 GGTCTTACACG-AATCAAATA-CGATGCCAATGTCCCAAATAT
1 GGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAG
* * *
45331376 GGTCTTACATGTAAACACAAATCGATGCCAAC-GTCCCAGAC-G
1 GGTCTTACACGTAATCACATATCGATGCC-ACTGTCCCAGACAG
*
45331418 TGGTCTTACACGTAATCATATATC
1 -GGTCTTACACGTAATCACATATC
45331442 AAAAATCCTA
Statistics
Matches: 83, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
41 25 0.30
42 14 0.17
43 43 0.52
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAG
Found at i:45331423 original size:84 final size:85
Alignment explanation
Indices: 45331273--45331435 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 85
45331263 GGCTTGTACA
* * * *
45331273 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCACTATCCTAGACAGGGT
1 ATGCCAACGTCCCAAACATGGTCTTACATGTAAACACAAATCGATGCCACTATCCCAGACAGGGT
45331338 CTTACACG-AATCAAATACG
66 CTTACACGTAATCAAATACG
* * *
45331357 ATGCCAATGTCCCAAATATGGTCTTACATGTAAACACAAATCGATGCCAAC-GTCCCAGAC-GTG
1 ATGCCAACGTCCCAAACATGGTCTTACATGTAAACACAAATCGATGCC-ACTATCCCAGACAG-G
45331420 GTCTTACACGTAATCA
64 GTCTTACACGTAATCA
45331436 TATATCAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
83 1 0.01
84 61 0.88
85 7 0.10
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCCAAACATGGTCTTACATGTAAACACAAATCGATGCCACTATCCCAGACAGGGT
CTTACACGTAATCAAATACG
Found at i:45336899 original size:44 final size:44
Alignment explanation
Indices: 45336836--45336923 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
45336826 TAAACATGTC
* * *
45336836 CTTAGTCTAATTGGAAATGAGCAAACTGGTTAAAATACTAATAT
1 CTTAGTCTAATTGGAAATGAGAAAACTAGTTAAAAGACTAATAT
45336880 CTTAGTCTAATTGGAAATGAGAAAACTAGTTAAAAGACTAATAT
1 CTTAGTCTAATTGGAAATGAGAAAACTAGTTAAAAGACTAATAT
45336924 GCCATCTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (44 bp):
CTTAGTCTAATTGGAAATGAGAAAACTAGTTAAAAGACTAATAT
Found at i:45342237 original size:21 final size:21
Alignment explanation
Indices: 45342196--45342239 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
45342186 CCCCCTTATT
*
45342196 AACATAAAAATTTAAAATTTA
1 AACATAAAAATTGAAAATTTA
*
45342217 AACATAACAAA-TGAAATTTTA
1 AACATAA-AAATTGAAAATTTA
45342238 AA
1 AA
45342240 AAAAATTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (21 bp):
AACATAAAAATTGAAAATTTA
Found at i:45347879 original size:65 final size:65
Alignment explanation
Indices: 45347756--45347881 Score: 182
Period size: 65 Copynumber: 1.9 Consensus size: 65
45347746 ATGTTTTAAA
* * * *
45347756 ACCTTGATGAATTATGGTTGAATATAGAATAATTATTTGATGTAGATTATGAATTGTGGTTATGT
1 ACCTAGATGAAATATGGATGAATATAGAATAATTATTTGATGTAGATTACGAATTGTGGTTATGT
* *
45347821 ACCTAGATGAAATATGGATGATTATAGAATAATTATTTGATGTCGATTACGAGA-TGTGGTT
1 ACCTAGATGAAATATGGATGAATATAGAATAATTATTTGATGTAGATTACGA-ATTGTGGTT
45347882 GAATTTGGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 53 0.98
66 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (65 bp):
ACCTAGATGAAATATGGATGAATATAGAATAATTATTTGATGTAGATTACGAATTGTGGTTATGT
Found at i:45347997 original size:45 final size:44
Alignment explanation
Indices: 45347946--45348125 Score: 186
Period size: 44 Copynumber: 4.0 Consensus size: 44
45347936 TGGATTAGAT
*
45347946 CGGATATCCTCAAATATAAAGGTGGTTGCTAAGTGCTGATTCGAC
1 CGGATATCCTCAAATAT-AAGGTGGTTGCTAAGTGCTGATTCCAC
**
45347991 CGGATAT-C-CATGTGAGTAAGGTGGTTGCTAAGTGCTGATTCCAC
1 CGGATATCCTCAAAT-A-TAAGGTGGTTGCTAAGTGCTGATTCCAC
* * *
45348035 CAGATATCCTCGAATATAAAGGTGGTTGCTAAGTGTTGATTCCAC
1 CGGATATCCTCAAATAT-AAGGTGGTTGCTAAGTGCTGATTCCAC
** ** * *
45348080 CAAATATCCATGTAA-GTAAGGTGGTTGCTAAGTGCTGATTCTAC
1 CGGATATCC-TCAAATATAAGGTGGTTGCTAAGTGCTGATTCCAC
45348124 CG
1 CG
45348126 TGTAATTATT
Statistics
Matches: 114, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
43 3 0.03
44 61 0.54
45 45 0.39
46 5 0.04
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
CGGATATCCTCAAATATAAGGTGGTTGCTAAGTGCTGATTCCAC
Found at i:45348016 original size:44 final size:43
Alignment explanation
Indices: 45347964--45348120 Score: 210
Period size: 44 Copynumber: 3.6 Consensus size: 43
45347954 CTCAAATATA
* *
45347964 AAGGTGGTTGCTAAGTGCTGATTCGACCGGATATCCATGTGAGT
1 AAGGTGGTTGCTAAGTGCTGATTCCACCAGATATCCATGT-AGT
45348008 AAGGTGGTTGCTAAGTGCTGATTCCACCAGATATCC-TCGAATA-T
1 AAGGTGGTTGCTAAGTGCTGATTCCACCAGATATCCAT-G--TAGT
* *
45348052 AAAGGTGGTTGCTAAGTGTTGATTCCACCAAATATCCATGTAAGT
1 -AAGGTGGTTGCTAAGTGCTGATTCCACCAGATATCCATGT-AGT
45348097 AAGGTGGTTGCTAAGTGCTGATTC
1 AAGGTGGTTGCTAAGTGCTGATTC
45348121 TACCGTGTAA
Statistics
Matches: 101, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
43 2 0.02
44 60 0.59
45 37 0.37
46 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
AAGGTGGTTGCTAAGTGCTGATTCCACCAGATATCCATGTAGT
Found at i:45348051 original size:89 final size:89
Alignment explanation
Indices: 45347948--45348120 Score: 292
Period size: 89 Copynumber: 1.9 Consensus size: 89
45347938 GATTAGATCG
* ** *
45347948 GATATCCTCAAATATAAAGGTGGTTGCTAAGTGCTGATTCGACCGGATATCCATGTGAGTAAGGT
1 GATATCCTCAAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCAAATATCCATGTAAGTAAGGT
45348013 GGTTGCTAAGTGCTGATTCCACCA
66 GGTTGCTAAGTGCTGATTCCACCA
* *
45348037 GATATCCTCGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCAAATATCCATGTAAGTAAGGT
1 GATATCCTCAAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCAAATATCCATGTAAGTAAGGT
45348102 GGTTGCTAAGTGCTGATTC
66 GGTTGCTAAGTGCTGATTC
45348121 TACCGTGTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (89 bp):
GATATCCTCAAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCAAATATCCATGTAAGTAAGGT
GGTTGCTAAGTGCTGATTCCACCA
Found at i:45362933 original size:21 final size:21
Alignment explanation
Indices: 45362907--45362960 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
45362897 ATTGGCTTGG
* *
45362907 TTGTGTTGCGACCACATAAGT
1 TTGTGTTGCGACCACAGAAGC
* *
45362928 TTGTGTTGAGACCACGGAAGC
1 TTGTGTTGCGACCACAGAAGC
45362949 TTGTGTTGCGAC
1 TTGTGTTGCGAC
45362961 TTGACTATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (21 bp):
TTGTGTTGCGACCACAGAAGC
Found at i:45367480 original size:11 final size:11
Alignment explanation
Indices: 45367445--45367489 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
45367435 TTTTTGGAGG
*
45367445 TTTTTAAAAAA
1 TTTTAAAAAAA
*
45367456 TATTGAAAAGAAA
1 T-TTTAAAA-AAA
45367469 TTTTAAAAAAA
1 TTTTAAAAAAA
45367480 TTTTAAAAAA
1 TTTTAAAAAA
45367490 TTAAGTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 14 0.48
12 11 0.38
13 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (11 bp):
TTTTAAAAAAA
Found at i:45368601 original size:9 final size:10
Alignment explanation
Indices: 45368570--45368605 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
45368560 AGAAATAAAG
45368570 AAACTTGTAA
1 AAACTTGTAA
45368580 AAACTTGTAA
1 AAACTTGTAA
45368590 AAACTTGTAA
1 AAACTTGTAA
45368600 AAACTT
1 AAACTT
45368606 CAAAAGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (10 bp):
AAACTTGTAA
Found at i:45370018 original size:23 final size:23
Alignment explanation
Indices: 45369987--45370032 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
45369977 TTTGGAGGGT
*
45369987 TTTTAAAAAATAT-TGAAAAGAAA
1 TTTTAAAAAAAATGT-AAAAGAAA
*
45370010 TTTTGAAAAAAATGTAAAAGAAA
1 TTTTAAAAAAAATGTAAAAGAAA
45370033 AATTAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (23 bp):
TTTTAAAAAAAATGTAAAAGAAA
Found at i:45370198 original size:23 final size:24
Alignment explanation
Indices: 45370166--45370212 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
45370156 TTTTGGAGGG
*
45370166 TTTTTAAAAAATAT-TGAAAAGAAA
1 TTTTTAAAAAAAATGT-AAAAGAAA
45370190 TTTTT-AAAAAAATGTAAAAGAAA
1 TTTTTAAAAAAAATGTAAAAGAAA
45370213 AATTAACTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (24 bp):
TTTTTAAAAAAAATGTAAAAGAAA
Found at i:45370198 original size:24 final size:23
Alignment explanation
Indices: 45370166--45370212 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
45370156 TTTTGGAGGG
45370166 TTTTTAAAAAATAT-TGAAAAGAAA
1 TTTTTAAAAAA-ATGT-AAAAGAAA
45370190 TTTTTAAAAAAATGTAAAAGAAA
1 TTTTTAAAAAAATGTAAAAGAAA
45370213 AATTAACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (23 bp):
TTTTTAAAAAAATGTAAAAGAAA
Found at i:45370203 original size:180 final size:180
Alignment explanation
Indices: 45369975--45370334 Score: 693
Period size: 180 Copynumber: 2.0 Consensus size: 180
45369965 TTCGAATGTG
45369975 TTTTTGGAGGGTTTTTAAAAAATATTGAAAAGAAATTTTGAAAAAAATGTAAAAGAAAAATTAAC
1 TTTTTGGAGGGTTTTTAAAAAATATTGAAAAGAAATTTTGAAAAAAATGTAAAAGAAAAATTAAC
*
45370040 TTTTAATTCATATAATTGACCTTAAAAGGTAAATCATTCAAAAATGATTTTGAATAAATTTAAGA
66 TTGTAATTCATATAATTGACCTTAAAAGGTAAATCATTCAAAAATGATTTTGAATAAATTTAAGA
*
45370105 CTTTGAGTAATATAAATAATTGAAAAAAAAGAGTAAAAATACTATCACCA
131 CTTTGAGTAATAAAAATAATTGAAAAAAAAGAGTAAAAATACTATCACCA
*
45370155 TTTTTGGAGGGTTTTTAAAAAATATTGAAAAGAAATTTTTAAAAAAATGTAAAAGAAAAATTAAC
1 TTTTTGGAGGGTTTTTAAAAAATATTGAAAAGAAATTTTGAAAAAAATGTAAAAGAAAAATTAAC
45370220 TTGTAATTCATATAATTGACCTTAAAAGGTAAATCATTCAAAAATGATTTTGAATAAATTTAAGA
66 TTGTAATTCATATAATTGACCTTAAAAGGTAAATCATTCAAAAATGATTTTGAATAAATTTAAGA
45370285 CTTTGAGTAATAAAAATAATTGAAAAAAAAGAGTAAAAATACTATCACCA
131 CTTTGAGTAATAAAAATAATTGAAAAAAAAGAGTAAAAATACTATCACCA
45370335 CACCATCACA
Statistics
Matches: 177, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 177 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.33
Consensus pattern (180 bp):
TTTTTGGAGGGTTTTTAAAAAATATTGAAAAGAAATTTTGAAAAAAATGTAAAAGAAAAATTAAC
TTGTAATTCATATAATTGACCTTAAAAGGTAAATCATTCAAAAATGATTTTGAATAAATTTAAGA
CTTTGAGTAATAAAAATAATTGAAAAAAAAGAGTAAAAATACTATCACCA
Found at i:45371212 original size:30 final size:30
Alignment explanation
Indices: 45371150--45371326 Score: 155
Period size: 30 Copynumber: 5.9 Consensus size: 30
45371140 TTTATTTTTT
* *
45371150 AAATTATATTTTGACCCCATAACTTT-TTA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
*
45371179 AAATTACATTTTGACCTCTTAACTTTCTTA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
* * *
45371209 AAATTATATTTTGACCCCTTAGCTTTCTAA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
* * **
45371239 AAATTTCATTTTGACCCCTCAA-TGTTCAAA
1 AAATTACATTTTGACCCCTTAACT-TTCTTA
* * * *
45371269 AAATTATATTTTAACACCTAAAC-TT-TTA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
* *
45371297 GGAAATTAAATTTTGACCCATTAACTTTCT
1 --AAATTACATTTTGACCCCTTAACTTTCT
45371327 AGCAATTACA
Statistics
Matches: 117, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
28 1 0.01
29 26 0.22
30 87 0.74
31 2 0.02
32 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (30 bp):
AAATTACATTTTGACCCCTTAACTTTCTTA
Found at i:45371272 original size:60 final size:59
Alignment explanation
Indices: 45371150--45371325 Score: 176
Period size: 60 Copynumber: 2.9 Consensus size: 59
45371140 TTTATTTTTT
* * * **
45371150 AAATTATATTTTGACCCCATAACTTTTTAAAATTACATTTTGACCTCTTAACTTTCTTA
1 AAATTATATTTTGACCCCATAACTTTTAAAAATTACATTTTGACCCCTCAACTTTCAAA
* * *
45371209 AAATTATATTTTGACCCCTTAGCTTTCTAAAAATTTCATTTTGACCCCTCAA-TGTTCAAA
1 AAATTATATTTTGACCCCATAACTTT-TAAAAATTACATTTTGACCCCTCAACT-TTCAAA
* * * * * *
45371269 AAATTATATTTTAACACC-TAAACTTTTAGGAAATTAAATTTTGACCCATTAACTTTC
1 AAATTATATTTTGACCCCAT-AACTTTTA-AAAATTACATTTTGACCCCTCAACTTTC
45371326 TAGCAATTAC
Statistics
Matches: 96, Mismatches: 16, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
59 28 0.29
60 67 0.70
61 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (59 bp):
AAATTATATTTTGACCCCATAACTTTTAAAAATTACATTTTGACCCCTCAACTTTCAAA
Found at i:45371550 original size:24 final size:24
Alignment explanation
Indices: 45371523--45371569 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
45371513 CGAAACCCCC
*
45371523 CGAAATAAAAAAAAAGAGAAAAGA
1 CGAAAGAAAAAAAAAGAGAAAAGA
** *
45371547 CGAAAGAAATGAGAAGAGAAAAG
1 CGAAAGAAAAAAAAAGAGAAAAG
45371570 GAAGAAGAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.68, C:0.04, G:0.23, T:0.04
Consensus pattern (24 bp):
CGAAAGAAAAAAAAAGAGAAAAGA
Found at i:45371705 original size:20 final size:21
Alignment explanation
Indices: 45371680--45371728 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
45371670 AAGGAAGAAG
*
45371680 AAAAAGAAAGG-AAAAACCAA
1 AAAAAGAAAGGAAAAAAACAA
45371700 AAAAAG-AAGGAAAAAAACAA
1 AAAAAGAAAGGAAAAAAACAA
*
45371720 AAAAGGAAA
1 AAAAAGAAA
45371729 AATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 19 0.76
21 2 0.08
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAGGAAAAAAACAA
Found at i:45371727 original size:16 final size:17
Alignment explanation
Indices: 45371670--45371741 Score: 65
Period size: 17 Copynumber: 4.1 Consensus size: 17
45371660 CTAAGGTTTT
* * *
45371670 AAGGAAGAAGAAAAAGA
1 AAGGAAAAACAAAAAAA
45371687 AAGGAAAAACCAAAAAAA
1 AAGGAAAAA-CAAAAAAA
*
45371705 GAAGGAAAAA-AACAAAA
1 -AAGGAAAAACAAAAAAA
*
45371722 AAGGAAAAATAAAAATAA
1 AAGGAAAAACAAAAA-AA
45371740 AA
1 AA
45371742 ATAAAAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
16 9 0.20
17 18 0.39
18 10 0.22
19 9 0.20
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.03
Consensus pattern (17 bp):
AAGGAAAAACAAAAAAA
Found at i:45371741 original size:19 final size:17
Alignment explanation
Indices: 45371670--45371742 Score: 58
Period size: 19 Copynumber: 4.1 Consensus size: 17
45371660 CTAAGGTTTT
* * *
45371670 AAGGAAGAAGAAAAAGA
1 AAGGAAAAAAAAAAAAA
*
45371687 AAGGAAAAACCAAAAAAAG
1 AAGGAAAAA--AAAAAAAA
*
45371706 AAGG-AAAAAAACAAAA
1 AAGGAAAAAAAAAAAAA
45371722 AAGGAAAAATAAAAATAAA
1 AAGGAAAAA-AAAAA-AAA
45371741 AA
1 AA
45371743 TAAAAAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
16 10 0.23
17 12 0.27
18 8 0.18
19 14 0.32
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.03
Consensus pattern (17 bp):
AAGGAAAAAAAAAAAAA
Found at i:45371886 original size:10 final size:9
Alignment explanation
Indices: 45371865--45371894 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
45371855 AAAGAAGGAG
45371865 AAGAAAAAA
1 AAGAAAAAA
45371874 AAGAAACAAA
1 AAGAAA-AAA
45371884 AAGAAAAAA
1 AAGAAAAAA
45371893 AA
1 AA
45371895 CTAGCAGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:45372071 original size:13 final size:13
Alignment explanation
Indices: 45372053--45372086 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
45372043 CAGCAGGCCA
45372053 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
45372066 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
45372079 AAAAAAAA
1 AAAAAAAA
45372087 AAGAGCCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:45372078 original size:17 final size:15
Alignment explanation
Indices: 45372052--45372088 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 15
45372042 GCAGCAGGCC
45372052 AAAAAAAAAGAAAGAA
1 AAAAAAAAAGAAA-AA
45372068 AAAAAAGAAAGAAAAA
1 AAAAAA-AAAGAAAAA
45372084 AAAAA
1 AAAAA
45372089 GAGCCCTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:45372252 original size:13 final size:12
Alignment explanation
Indices: 45372233--45372266 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
45372223 ATTTTTTATT
45372233 TTTTATTTTGTA
1 TTTTATTTTGTA
45372245 TTTATATTTTGTA
1 TTT-TATTTTGTA
45372258 TTTTATTTT
1 TTTTATTTT
45372267 ATTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (12 bp):
TTTTATTTTGTA
Found at i:45372254 original size:20 final size:19
Alignment explanation
Indices: 45372223--45372275 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
45372213 ATTTTTAGGC
*
45372223 ATTTTTTATTTTTTATTTT
1 ATTTTATATTTTTTATTTT
* *
45372242 GTATTTATATTTTGTATTTT
1 AT-TTTATATTTTTTATTTT
45372262 ATTTTAT-TTTTTTA
1 ATTTTATATTTTTTA
45372276 AATTTAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 6 0.21
19 6 0.21
20 16 0.57
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (19 bp):
ATTTTATATTTTTTATTTT
Found at i:45372262 original size:14 final size:14
Alignment explanation
Indices: 45372223--45372263 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
45372213 ATTTTTAGGC
* *
45372223 ATTTTTTATTTTTT
1 ATTTTGTATTTTAT
45372237 ATTTTGTA-TTTAT
1 ATTTTGTATTTTAT
45372250 ATTTTGTATTTTAT
1 ATTTTGTATTTTAT
45372264 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (14 bp):
ATTTTGTATTTTAT
Found at i:45372405 original size:10 final size:9
Alignment explanation
Indices: 45372388--45372414 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
45372378 ATACGCCATT
45372388 TTAAAAAAA
1 TTAAAAAAA
45372397 TTAAAAAAA
1 TTAAAAAAA
45372406 TTAAAAAAA
1 TTAAAAAAA
45372415 GTTCTCGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:45374184 original size:4 final size:4
Alignment explanation
Indices: 45374175--45374210 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
45374165 GCATGATTGA
* *
45374175 CATT CATT CATT CAGT CATT CAAT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT
45374211 GCACCCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.44
Consensus pattern (4 bp):
CATT
Found at i:45376344 original size:32 final size:31
Alignment explanation
Indices: 45376299--45376394 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
45376289 CTTAGATAAT
45376299 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
*
45376330 TTTAAAGAGTTTTTATTAGGACTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
45376362 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
45376393 TT
1 TT
45376395 GTAATTTTCC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 32 0.52
32 29 0.48
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:45382511 original size:32 final size:31
Alignment explanation
Indices: 45382466--45382561 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
45382456 CTTAGATAAT
45382466 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
45382497 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
45382529 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
45382560 TT
1 TT
45382562 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:45384169 original size:6 final size:6
Alignment explanation
Indices: 45384158--45384190 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
45384148 TGAAATTGGA
45384158 TATATG TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TATATG TAT
45384191 TGCCAGGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:45384399 original size:19 final size:19
Alignment explanation
Indices: 45384375--45384412 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
45384365 CCCAAAAGTA
45384375 TAAGCAGCCCTCTCTTCCG
1 TAAGCAGCCCTCTCTTCCG
45384394 TAAGCAGCCCTCTCTTCCG
1 TAAGCAGCCCTCTCTTCCG
45384413 CCAGGCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.42, G:0.16, T:0.26
Consensus pattern (19 bp):
TAAGCAGCCCTCTCTTCCG
Found at i:45389945 original size:144 final size:144
Alignment explanation
Indices: 45389685--45389974 Score: 535
Period size: 144 Copynumber: 2.0 Consensus size: 144
45389675 TCGAGGTCGA
* * *
45389685 AGAAATCCCTGAACTCTTTCTATCCTATGGCATGCCATCTATATCTGACTTAGCCCGAAATAATT
1 AGAAATCCCTAAACTCTTTCCATCCTATGGCATGCCATCTATATCCGACTTAGCCCGAAATAATT
45389750 AATAGGGTTTCATCTCACTTTCAATACATCCAATGTCCCAATTTCATATATGTACATGATTACAT
66 AATAGGGTTTCATCTCACTTTCAATACATCCAATGTCCCAATTTCATATATGTACATGATTACAT
45389815 ATAAACATGTATTC
131 ATAAACATGTATTC
*
45389829 AGAAATCCCTAAACTCTTTCCATCCTATGGCATGCCATCTATATCCGACTTCGCCCGAAATAATT
1 AGAAATCCCTAAACTCTTTCCATCCTATGGCATGCCATCTATATCCGACTTAGCCCGAAATAATT
*
45389894 AATAGGGTTTCATCTCACTTTCAATACATCCAATGTCTCAATTTCATATATGTACATGATTACAT
66 AATAGGGTTTCATCTCACTTTCAATACATCCAATGTCCCAATTTCATATATGTACATGATTACAT
45389959 ATAAACATGTATTC
131 ATAAACATGTATTC
45389973 AG
1 AG
45389975 TTTGGTAGCA
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 141 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.34
Consensus pattern (144 bp):
AGAAATCCCTAAACTCTTTCCATCCTATGGCATGCCATCTATATCCGACTTAGCCCGAAATAATT
AATAGGGTTTCATCTCACTTTCAATACATCCAATGTCCCAATTTCATATATGTACATGATTACAT
ATAAACATGTATTC
Found at i:45390754 original size:9 final size:9
Alignment explanation
Indices: 45390725--45390754 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
45390715 TCCCTTGCTA
45390725 TTTCTTTCT
1 TTTCTTTCT
*
45390734 TTCCTTTCT
1 TTTCTTTCT
45390743 TTTCTTTCT
1 TTTCTTTCT
45390752 TTT
1 TTT
45390755 GAATGTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:45390843 original size:17 final size:16
Alignment explanation
Indices: 45390821--45390862 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
45390811 TCATTATTAT
*
45390821 TATAACTTATATATATA
1 TATAACATATATATA-A
45390838 TATAACATATATATAA
1 TATAACATATATATAA
45390854 TATACACAT
1 TATA-ACAT
45390863 GCATATTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
TATAACATATATATAA
Found at i:45418290 original size:19 final size:18
Alignment explanation
Indices: 45418262--45418298 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
45418252 AAAATTTAAG
45418262 TAAATTGAATATTAAAAT
1 TAAATTGAATATTAAAAT
*
45418280 TAAATTTGAATATTTAAAT
1 TAAA-TTGAATATTAAAAT
45418299 GAGACAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
TAAATTGAATATTAAAAT
Found at i:45424928 original size:22 final size:24
Alignment explanation
Indices: 45424903--45424948 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
45424893 TAGCCAATTT
*
45424903 TATTTTA-TTTA-TTTTATTTTTA
1 TATTTTATTTTAGTTTAATTTTTA
45424925 TATTTTATTTTAGTTTAATTTTTA
1 TATTTTATTTTAGTTTAATTTTTA
45424949 CGTTCTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 4 0.19
24 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
TATTTTATTTTAGTTTAATTTTTA
Found at i:45424930 original size:13 final size:14
Alignment explanation
Indices: 45424899--45424936 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
45424889 AATTTAGCCA
*
45424899 ATTTTATTTTATTT
1 ATTTTATTTTATAT
45424913 ATTTTATTTT-TAT
1 ATTTTATTTTATAT
45424926 ATTTTATTTTA
1 ATTTTATTTTA
45424937 GTTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
ATTTTATTTTATAT
Found at i:45437462 original size:11 final size:11
Alignment explanation
Indices: 45437446--45437473 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
45437436 GTAACATAGA
45437446 CATTTGGAATT
1 CATTTGGAATT
45437457 CATTTGGAATT
1 CATTTGGAATT
45437468 CATTTG
1 CATTTG
45437474 TATAATATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (11 bp):
CATTTGGAATT
Found at i:45442848 original size:25 final size:25
Alignment explanation
Indices: 45442820--45442869 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
45442810 TTATTTTATC
45442820 AAATAGTACAT-TAATTTGTTGAAAA
1 AAATAGTACATATAATTTGTT-AAAA
* *
45442845 AAATCGTACTTATAATTTGTTAAAA
1 AAATAGTACATATAATTTGTTAAAA
45442870 TATCATTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (25 bp):
AAATAGTACATATAATTTGTTAAAA
Found at i:45443624 original size:23 final size:23
Alignment explanation
Indices: 45443596--45443686 Score: 82
Period size: 23 Copynumber: 4.1 Consensus size: 23
45443586 TGTGTAACTT
45443596 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * *
45443619 TTCATA---ATGTGT-GTAACTT
1 TTCATATTCAAGTCTCTTCACTC
* * *
45443638 TTCTTCTTCAAGTCTATTCACTC
1 TTCATATTCAAGTCTCTTCACTC
45443661 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
45443684 TTC
1 TTC
45443687 TAACTTTTCA
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
19 8 0.16
20 4 0.08
22 4 0.08
23 33 0.67
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.46
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:45443636 original size:42 final size:42
Alignment explanation
Indices: 45443586--45443666 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
45443576 TTCATGCATA
*
45443586 TGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATAATG
1 TGTGTAACTTTTCATATTCAAGTCTATTCACTCTTCATAATG
* *
45443628 TGTGTAACTTTTCTTCTTCAAGTCTATTCACTCTTCATA
1 TGTGTAACTTTTCATATTCAAGTCTATTCACTCTTCATA
45443667 TTCAAGTCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.47
Consensus pattern (42 bp):
TGTGTAACTTTTCATATTCAAGTCTATTCACTCTTCATAATG
Found at i:45446333 original size:23 final size:23
Alignment explanation
Indices: 45446301--45446372 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
45446291 TGTGTAACTT
* *
45446301 TTCATCTTCAAGTCTATTCTCTC
1 TTCATATTCAAGTCTATTCACTC
*
45446324 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTATTCACTC
* *
45446347 TTCATATTCAAGTTTCTTCACTC
1 TTCATATTCAAGTCTATTCACTC
45446370 TTC
1 TTC
45446373 TAACTTTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.19, C:0.29, G:0.04, T:0.47
Consensus pattern (23 bp):
TTCATATTCAAGTCTATTCACTC
Found at i:45448850 original size:16 final size:16
Alignment explanation
Indices: 45448804--45448850 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
45448794 ATTTATAAGG
45448804 TAAGTTATAAAATTTAA
1 TAAGTTA-AAAATTTAA
**
45448821 -AAAATAAAATATTTAA
1 TAAGTTAAAA-ATTTAA
45448837 TAAGTTAAAAATTT
1 TAAGTTAAAAATTT
45448851 GGAAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.12
16 14 0.58
17 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (16 bp):
TAAGTTAAAAATTTAA
Found at i:45449188 original size:17 final size:17
Alignment explanation
Indices: 45449166--45449199 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45449156 TCTGTGTAAA
* *
45449166 ATATTTTTTGTTTTTTG
1 ATATTTTCTGATTTTTG
45449183 ATATTTTCTGATTTTTG
1 ATATTTTCTGATTTTTG
45449200 GCAGATTTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.71
Consensus pattern (17 bp):
ATATTTTCTGATTTTTG
Found at i:45449259 original size:20 final size:20
Alignment explanation
Indices: 45449234--45449303 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
45449224 GGAAAAGCTG
45449234 TTTTTACATATATTAATAAA
1 TTTTTACATATATTAATAAA
* * *
45449254 TTTTTATATTTTTTAATAAA
1 TTTTTACATATATTAATAAA
* *
45449274 --TTT--ATATTTTAA-ATA
1 TTTTTACATATATTAATAAA
45449289 TTTTTACATATATTA
1 TTTTTACATATATTA
45449304 CAATGATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
15 2 0.05
16 8 0.20
17 3 0.08
18 3 0.08
19 7 0.17
20 17 0.43
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTACATATATTAATAAA
Found at i:45449277 original size:18 final size:19
Alignment explanation
Indices: 45449246--45449283 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
45449236 TTTACATATA
45449246 TTAATAAATTTTTATATTTT
1 TTAATAAA-TTTTATATTTT
45449266 TTAATAAA-TTTATATTTT
1 TTAATAAATTTTATATTTT
45449284 AAATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTAATAAATTTTATATTTT
Found at i:45450587 original size:27 final size:30
Alignment explanation
Indices: 45450520--45450593 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
45450510 TGTCCACCAT
* *
45450520 TTCAATAACCAACAAGCTTAAAACATTATAAA
1 TTCAATATCTAACAAGCTTAAAAC--TATAAA
45450552 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACTATAAA
45450580 -TCAATATCTAACAA
1 TTCAATATCTAACAA
45450594 ATTCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACTATAAA
Found at i:45450604 original size:27 final size:27
Alignment explanation
Indices: 45450553--45450607 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
45450543 CATTATAAAT
*
45450553 TCAATATCTAACAAGCTTAAAACATAA
1 TCAATATCTAACAAGATTAAAACATAA
*
45450580 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
45450607 T
1 T
45450608 AATTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:45458192 original size:10 final size:11
Alignment explanation
Indices: 45458179--45458207 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
45458169 AGTTCAATCA
45458179 AGCTCAATT-T
1 AGCTCAATTCT
45458189 AGCTCAATTCT
1 AGCTCAATTCT
45458200 AGCTCAAT
1 AGCTCAAT
45458208 GAGCTCGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (11 bp):
AGCTCAATTCT
Found at i:45459880 original size:11 final size:12
Alignment explanation
Indices: 45459864--45459892 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45459854 GAAATTACAC
45459864 AAAAAATT-GAA
1 AAAAAATTCGAA
45459875 AAAAAATTCGAA
1 AAAAAATTCGAA
45459887 AAAAAA
1 AAAAAA
45459893 GAAATTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAATTCGAA
Found at i:45459910 original size:15 final size:16
Alignment explanation
Indices: 45459873--45459907 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45459863 CAAAAAATTG
45459873 AAAAA-AAATTCGAAA
1 AAAAAGAAATTCGAAA
*
45459888 AAAAAGAAATTTGAAA
1 AAAAAGAAATTCGAAA
45459904 AAAA
1 AAAA
45459908 GAAGTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (16 bp):
AAAAAGAAATTCGAAA
Found at i:45460985 original size:17 final size:17
Alignment explanation
Indices: 45460958--45460990 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45460948 AAAAAAAGTA
45460958 AAAAAGAAATTACAAAAG
1 AAAAAGAAATT-CAAAAG
45460976 AAAAAG-AATTCAAAA
1 AAAAAGAAATTCAAAA
45460991 AAGTAAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAGAAATTCAAAAG
Found at i:45461005 original size:30 final size:28
Alignment explanation
Indices: 45460937--45461035 Score: 78
Period size: 30 Copynumber: 3.5 Consensus size: 28
45460927 AAAAGAAATG
45460937 AGAGAAAAAGAAAAAAAAGTAAAAAAGA
1 AGAGAAAAAGAAAAAAAAGTAAAAAAGA
* * *
45460965 A-ATTACAAAAGAAAAAGAATTCAAAAAAGTA
1 AGA-GA-AAAAGAAAAAAAAGT-AAAAAAG-A
*
45460996 AGAGAAAAAGAAAAGAAAG-AAAAGAA-A
1 AGAGAAAAAGAAAAAAAAGTAAAA-AAGA
**
45461023 ATTGAAAAAGAAA
1 AGAGAAAAAGAAA
45461036 TTGAGATTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
27 13 0.23
28 6 0.11
29 15 0.27
30 18 0.32
31 3 0.05
32 1 0.02
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.08
Consensus pattern (28 bp):
AGAGAAAAAGAAAAAAAAGTAAAAAAGA
Found at i:45461044 original size:18 final size:18
Alignment explanation
Indices: 45461023--45461057 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45461013 AGAAAAGAAA
45461023 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
45461041 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
45461058 AAGAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:45464890 original size:23 final size:23
Alignment explanation
Indices: 45464864--45464930 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
45464854 ACAGAGCACA
45464864 CACACTCCATGATTTTATTAACC
1 CACACTCCATGATTTTATTAACC
* * *
45464887 CACAC-CC-T-A---GA-GAACA
1 CACACTCCATGATTTTATTAACC
45464903 CACACTCCATGATTTTATTAACC
1 CACACTCCATGATTTTATTAACC
45464926 CACAC
1 CACAC
45464931 CCTAGAGAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 14
0.61 0.12 0.27
Matches are distributed among these distances:
16 8 0.26
17 3 0.10
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 3 0.10
23 13 0.42
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.25
Consensus pattern (23 bp):
CACACTCCATGATTTTATTAACC
Found at i:45464904 original size:39 final size:39
Alignment explanation
Indices: 45464856--45464940 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
45464846 TATACCGAAC
*
45464856 AGAGCACACACACTCCATGATTTTATTAACCCACACCCT
1 AGAGAACACACACTCCATGATTTTATTAACCCACACCCT
45464895 AGAGAACACACACTCCATGATTTTATTAACCCACACCCT
1 AGAGAACACACACTCCATGATTTTATTAACCCACACCCT
45464934 AGAGAAC
1 AGAGAAC
45464941 CCCAATTTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.36, C:0.33, G:0.09, T:0.21
Consensus pattern (39 bp):
AGAGAACACACACTCCATGATTTTATTAACCCACACCCT
Found at i:45467298 original size:18 final size:18
Alignment explanation
Indices: 45467275--45467322 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
45467265 AGTTTTAATT
45467275 TTTATTTTCAATTTTA-A
1 TTTATTTTCAATTTTATA
*
45467292 GTTTATTTTCATTTTTATA
1 -TTTATTTTCAATTTTATA
*
45467311 TTTATGTTCAAT
1 TTTATTTTCAAT
45467323 AAGAGGGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTATTTTCAATTTTATA
Found at i:45477096 original size:13 final size:13
Alignment explanation
Indices: 45477078--45477104 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45477068 AAAATACAGT
45477078 ATGGTATCCAATG
1 ATGGTATCCAATG
45477091 ATGGTATCCAATG
1 ATGGTATCCAATG
45477104 A
1 A
45477105 AATTGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (13 bp):
ATGGTATCCAATG
Found at i:45477935 original size:91 final size:91
Alignment explanation
Indices: 45477826--45478006 Score: 281
Period size: 91 Copynumber: 2.0 Consensus size: 91
45477816 TCAAAGACTT
* *
45477826 TTGGGTCTGCAAACTAAGTTAATTAGGCCCAACATATGGATTGCACCTCAAATCCCCGAACCATA
1 TTGGGTCTGCAAACTAAGTTAACTAGGCCCAACATATGGATTGCACCTCAAATCCCCGAAACATA
*
45477891 ATCTGAACATGGCCTACTTCATCAAA
66 ATCTGAACATGGCCAACTTCATCAAA
** * * * *
45477917 TTGGGTCTGCAAACTAAGTTAACTAGGCCCAATGTCTGGATTGCACCTCAGATCCCTGAAATATA
1 TTGGGTCTGCAAACTAAGTTAACTAGGCCCAACATATGGATTGCACCTCAAATCCCCGAAACATA
45477982 ATCTGAACATGGCCAACTTCATCAA
66 ATCTGAACATGGCCAACTTCATCAA
45478007 TATTTATATT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 81 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (91 bp):
TTGGGTCTGCAAACTAAGTTAACTAGGCCCAACATATGGATTGCACCTCAAATCCCCGAAACATA
ATCTGAACATGGCCAACTTCATCAAA
Found at i:45484247 original size:24 final size:24
Alignment explanation
Indices: 45484132--45484256 Score: 80
Period size: 24 Copynumber: 5.3 Consensus size: 24
45484122 ACCAAAATTG
*
45484132 ATTGGGCAGCATATATATACC-AA
1 ATTGGACAGCATATATATACCAAA
* * * *
45484155 TTTGGATAGC-TCT-TGTACACAAA
1 ATTGGACAGCATATATATAC-CAAA
* * *
45484178 ATTTGACAGCATGTATATACAAAA
1 ATTGGACAGCATATATATACCAAA
* * *
45484202 ATTAGACAACATTTAT-TCACCAAA
1 ATTGGACAGCATATATAT-ACCAAA
*
45484226 ATTGGGCAGCATATATATACC-AA
1 ATTGGACAGCATATATATACCAAA
*
45484249 TTTGGACA
1 ATTGGACA
45484257 ACACTTATAC
Statistics
Matches: 75, Mismatches: 21, Indels: 12
0.69 0.19 0.11
Matches are distributed among these distances:
21 4 0.05
22 3 0.04
23 25 0.33
24 38 0.51
25 5 0.07
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (24 bp):
ATTGGACAGCATATATATACCAAA
Found at i:45484274 original size:94 final size:93
Alignment explanation
Indices: 45484095--45484600 Score: 699
Period size: 94 Copynumber: 5.3 Consensus size: 93
45484085 TATATATATA
45484095 TATATAC-AAATTGGACAACATTTATTCACCAAAATTGATTGGGCAGCATATATATACCAATTTG
1 TATATACAAAATTGGACAACATTTATTCACC-AAA---ATTGGGCAGCATATATATACCAATTTG
* * *
45484159 GATAGCTCTTGTACACAAAATTTGACAGCATG
62 GACAGCACTTATACACAAAATTTGACAGCATG
*
45484191 TATATACAAAAATTAGACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGAC
1 TATATAC-AAAATTGGACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGAC
* * *
45484256 AACACTTATACACAAAATTTGATAAAATTTGAAAAGCTGG
65 AGCACTTATACACAAAATTTG---ACA---G--CA--T-G
* *
45484296 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGATA
1 TATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACA
* *
45484361 GCTCTTGTACACAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
*
45484389 TATATACAAAAATTAGACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGAC
1 TATATAC-AAAATTGGACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGAC
* *
45484454 AACACTTATACACAAAATTTGATAGCATG
65 AGCACTTATACACAAAATTTGACAGCATG
* *
45484483 TATATACAAAATTGAACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACA
1 TATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACA
45484548 GCACTTATACACAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
*
45484576 TATATACAAAATTGGACAGCATTTA
1 TATATACAAAATTGGACAACATTTA
45484601 AGCATAAAAA
Statistics
Matches: 368, Mismatches: 28, Indels: 31
0.86 0.07 0.07
Matches are distributed among these distances:
93 113 0.31
94 134 0.36
96 8 0.02
97 5 0.01
98 23 0.06
100 1 0.00
101 2 0.01
102 1 0.00
104 73 0.20
105 8 0.02
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (93 bp):
TATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACA
GCACTTATACACAAAATTTGACAGCATG
Found at i:45484275 original size:24 final size:24
Alignment explanation
Indices: 45484170--45484276 Score: 69
Period size: 24 Copynumber: 4.5 Consensus size: 24
45484160 ATAGCTCTTG
* *
45484170 TACACAAAATTT-GACAGCATGTA
1 TACACAAAATTTGGACAACATATA
* * * *
45484193 TATACAAAAATTAGACAACATTTA
1 TACACAAAATTTGGACAACATATA
* * *
45484217 TTCACCAAAA-TTGGGCAGCATATA
1 TACA-CAAAATTTGGACAACATATA
* *
45484241 TATAC-CAATTTGGACAACACT-TA
1 TACACAAAATTTGGACAACA-TATA
45484264 TACACAAAATTTG
1 TACACAAAATTTG
45484277 ATAAAATTTG
Statistics
Matches: 62, Mismatches: 17, Indels: 9
0.70 0.19 0.10
Matches are distributed among these distances:
22 2 0.03
23 25 0.40
24 30 0.48
25 5 0.08
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (24 bp):
TACACAAAATTTGGACAACATATA
Found at i:45484386 original size:46 final size:46
Alignment explanation
Indices: 45484296--45484595 Score: 273
Period size: 46 Copynumber: 6.4 Consensus size: 46
45484286 GAAAAGCTGG
* *
45484296 TATATACAAAATTGGACAGCAT-TTATTCACCAAAATTGGGCAGCATA
1 TATATACAAAATTGGACAGC-TCTTATACA-CAAAATTGGACAGCATA
* * * * * *
45484343 TATATACCAATTTGGATAGCTCTTGTACACAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCTCTTATACACAAAATTGGACAGCATA
* * * *
45484389 TATATACAAAAATTAGACAACAT-TTATTCACCAAAATTGGGCAGCATA
1 TATATAC-AAAATTGGACAGC-TCTTATACA-CAAAATTGGACAGCATA
* * * * * * *
45484437 TATATACCAATTTGGACAACACTTATACACAAAATTTGATAGCATG
1 TATATACAAAATTGGACAGCTCTTATACACAAAATTGGACAGCATA
* * *
45484483 TATATACAAAATTGAACAGCAT-TTATTCACCAAAATTGGGCAGCATA
1 TATATACAAAATTGGACAGC-TCTTATACA-CAAAATTGGACAGCATA
* * * * *
45484530 TATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCTCTTATACACAAAATTGGACAGCATA
45484576 TATATACAAAATTGGACAGC
1 TATATACAAAATTGGACAGC
45484596 ATTTAAGCAT
Statistics
Matches: 198, Mismatches: 47, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
46 89 0.45
47 87 0.44
48 22 0.11
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (46 bp):
TATATACAAAATTGGACAGCTCTTATACACAAAATTGGACAGCATA
Found at i:45484612 original size:93 final size:93
Alignment explanation
Indices: 45484295--45484600 Score: 531
Period size: 93 Copynumber: 3.3 Consensus size: 93
45484285 TGAAAAGCTG
*
45484295 GTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGAT
1 GTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGAC
* *
45484360 AGCTCTTGTACACAAAATTTGACAGCAT
66 AGCACTTATACACAAAATTTGACAGCAT
* *
45484388 GTATATACAAAAATTAGACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGA
1 GTATATAC-AAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGA
* *
45484453 CAACACTTATACACAAAATTTGATAGCAT
65 CAGCACTTATACACAAAATTTGACAGCAT
*
45484482 GTATATACAAAATTGAACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGAC
1 GTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGAC
45484547 AGCACTTATACACAAAATTTGACAGCAT
66 AGCACTTATACACAAAATTTGACAGCAT
45484575 GTATATACAAAATTGGACAGCATTTA
1 GTATATACAAAATTGGACAGCATTTA
45484601 AGCATAAAAA
Statistics
Matches: 199, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
93 113 0.57
94 86 0.43
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (93 bp):
GTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGAC
AGCACTTATACACAAAATTTGACAGCAT
Found at i:45485355 original size:28 final size:28
Alignment explanation
Indices: 45485323--45485448 Score: 157
Period size: 28 Copynumber: 4.5 Consensus size: 28
45485313 TTTAATAAGT
* *
45485323 TCGCACACTTAGTGCTCAATAATCT-AAC
1 TCGCACACTTAGTGCTCTACAAT-TAAAC
* *
45485351 TCGCACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTCTACAATTAAAC
45485379 TCGCACACTTAGTGCT-TCACAATTAAAC
1 TCGCACACTTAGTGCTCT-ACAATTAAAC
* * *
45485407 TCGCACGCTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTCTACAATTAAAC
45485435 TCGCACACTTAGTG
1 TCGCACACTTAGTG
45485449 TCGAAAGTCA
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.02
28 84 0.97
29 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCTACAATTAAAC
Found at i:45485388 original size:56 final size:56
Alignment explanation
Indices: 45485323--45485448 Score: 184
Period size: 56 Copynumber: 2.2 Consensus size: 56
45485313 TTTAATAAGT
* *
45485323 TCGCACACTTAGTGC-TCAATAATCT-AACTCGCACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTC-ACAAT-TAAACTCGCACACTTAGTGCTTTACAATTAAAC
* *
45485379 TCGCACACTTAGTGCTTCACAATTAAACTCGCACGCTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTCACAATTAAACTCGCACACTTAGTGCTTTACAATTAAAC
45485435 TCGCACACTTAGTG
1 TCGCACACTTAGTG
45485449 TCGAAAGTCA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
55 1 0.02
56 61 0.95
57 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (56 bp):
TCGCACACTTAGTGCTTCACAATTAAACTCGCACACTTAGTGCTTTACAATTAAAC
Found at i:45488223 original size:50 final size:50
Alignment explanation
Indices: 45488164--45488302 Score: 179
Period size: 50 Copynumber: 2.8 Consensus size: 50
45488154 ACATGGGAAA
** ** * *
45488164 GCCATGTCCCAGACATGGTCTTACTTGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACGAGGGACCTCTCATATCGGTGCCAAC
* * *
45488214 GCCATGTCCCAAACATGGTCTTACGAGGGACCTCTTATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACGAGGGACCTCTCATATCGGTGCCAAC
* *
45488264 GCCATGTCCAAGACATGGTCTTACAAGGGACCTCTCATA
1 GCCATGTCCCAGACATGGTCTTACGAGGGACCTCTCATA
45488303 ACCGCAATAA
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACGAGGGACCTCTCATATCGGTGCCAAC
Found at i:45488724 original size:30 final size:30
Alignment explanation
Indices: 45488690--45488748 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
45488680 TTATTGACTC
45488690 AAACTTTGGCAAAATTACAATTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTTCCCCT
* * * *
45488720 AAACTTTTGCATATTTACACTTTTTCCCC
1 AAACTTTGGCAAAATTACAATTTTTCCCC
45488749 AAAGCTCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTTCCCCT
Found at i:45491000 original size:24 final size:22
Alignment explanation
Indices: 45490973--45491023 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
45490963 ATTTAGCCTA
* *
45490973 TTTTATTTTATTTTATTTTTATAT
1 TTTTATTTTAGTTTA-GTTTA-AT
*
45490997 TTTTGTTTTAGTTTAGTTTAAT
1 TTTTATTTTAGTTTAGTTTAAT
45491019 TTTTA
1 TTTTA
45491024 CATTCTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 6 0.26
23 4 0.17
24 13 0.57
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.75
Consensus pattern (22 bp):
TTTTATTTTAGTTTAGTTTAAT
Found at i:45494928 original size:14 final size:14
Alignment explanation
Indices: 45494909--45494943 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
45494899 CTTATATTGG
45494909 TAGTTTTTTATCAT
1 TAGTTTTTTATCAT
*
45494923 TAGTTTTTTATTAT
1 TAGTTTTTTATCAT
*
45494937 TTGTTTT
1 TAGTTTT
45494944 AATACTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.03, G:0.09, T:0.71
Consensus pattern (14 bp):
TAGTTTTTTATCAT
Found at i:45496522 original size:21 final size:21
Alignment explanation
Indices: 45496492--45496544 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
45496482 ATACCACTGA
*
45496492 TTTTATTTTTTTATTTTAGTTG
1 TTTTATTTTTGT-TTTTAGTTG
*
45496514 TTTTGTTTTTGTTTTTAGTTG
1 TTTTATTTTTGTTTTTAGTTG
45496535 TTTTATTTTT
1 TTTTATTTTT
45496545 ATTGTCTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.79
Consensus pattern (21 bp):
TTTTATTTTTGTTTTTAGTTG
Done.