Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 7 of 230
Found at i:2171870 original size:86 final size:86
Alignment explanation
Indices: 2171716--2171875 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 86
2171706 AAGGTGTTGG
*
2171716 TCTATAGCGGCGCTTCAACCACAAACGCCACTAAAGAACCTAATCTTTAGCTGCGCTTTCCCCTC
1 TCTATAGCGGCGCTTCAACCACAAACGCCACTAAAGAACCTAATCTTTAGCTGCGCTTTCCCCAC
*
2171781 AAACGCCACAATAGACCCTGA
66 AAACACCACAATAGACCCTGA
* * * * **
2171802 TCTATAGCGGCGTTTTC-CCCACAAACGCCGCTAAAG-ACCATGATCTTTAG-TGCCGCTTTTTC
1 TCTATAGCGGCG-CTTCAACCACAAACGCCACTAAAGAACC-TAATCTTTAGCTG-CGCTTTCCC
2171864 CACAAACACCAC
63 CACAAACACCAC
2171876 TAAAGGCCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
85 5 0.08
86 55 0.87
87 3 0.05
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.23
Consensus pattern (86 bp):
TCTATAGCGGCGCTTCAACCACAAACGCCACTAAAGAACCTAATCTTTAGCTGCGCTTTCCCCAC
AAACACCACAATAGACCCTGA
Found at i:2172296 original size:21 final size:21
Alignment explanation
Indices: 2172230--2172298 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
2172220 TTGACGCTGT
2172230 TCTGCTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
* **
2172251 TCTACTTCCCTCGCTATAGCC
1 TCTGCTTCCCTCGCTGCAGCC
*
2172272 TCTGCTTCCCTCGCTGCAGCA
1 TCTGCTTCCCTCGCTGCAGCC
2172293 TCTGCT
1 TCTGCT
2172299 CTAAGCTGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCC
Found at i:2172351 original size:66 final size:66
Alignment explanation
Indices: 2172270--2172416 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
2172260 CTCGCTATAG
* *
2172270 CCTCTGCTTCCCTCGCTGCAGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCAGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
2172333 GAA
64 GAA
* ** * *
2172336 CTTCAGCTTCTCTCGCTGTTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCAGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
2172401 A
66 A
2172402 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
2172417 ATGTTGCCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCAGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:2172422 original size:66 final size:66
Alignment explanation
Indices: 2172290--2172435 Score: 206
Period size: 66 Copynumber: 2.2 Consensus size: 66
2172280 CCTCGCTGCA
* * *
2172290 GCATCTGCTCTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACTTCAGCTTCTCTCGCTGT
1 GCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGT
2172355 T
66 T
*
2172356 GCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGAT
1 GCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGAT
2172419 GTT
64 GTT
* *
2172422 GCCTCCGCTTTAAG
1 GCATCTGCTTTAAG
2172436 TTGTGTAATT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (66 bp):
GCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGT
T
Found at i:2177096 original size:20 final size:20
Alignment explanation
Indices: 2177051--2177103 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
2177041 TTAAATTAAA
*
2177051 AATTTTAGAGTTTTTATATTT
1 AATTTT-GATTTTTTATATTT
*
2177072 CATTTTGATTTTTGTAT-TTT
1 AATTTTGATTTTT-TATATTT
*
2177092 AATTTTAATTTT
1 AATTTTGATTTT
2177104 AATTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (20 bp):
AATTTTGATTTTTTATATTT
Found at i:2177564 original size:14 final size:15
Alignment explanation
Indices: 2177545--2177575 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
2177535 GACCAACCCT
2177545 TAATCCCT-AATCCA
1 TAATCCCTAAATCCA
2177559 TAATCCCTAAATCCA
1 TAATCCCTAAATCCA
2177574 TA
1 TA
2177576 TATATATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATCCCTAAATCCA
Found at i:2177845 original size:21 final size:21
Alignment explanation
Indices: 2177821--2177861 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2177811 CCCCCTACCC
2177821 CCTT-AACCCCTAACCCTTAAA
1 CCTTAAACCCC-AACCCTTAAA
*
2177842 CCTTAAATCCCAACCCTTAA
1 CCTTAAACCCCAACCCTTAA
2177862 TTAAACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.24
Consensus pattern (21 bp):
CCTTAAACCCCAACCCTTAAA
Found at i:2178534 original size:114 final size:114
Alignment explanation
Indices: 2178334--2179029 Score: 1003
Period size: 114 Copynumber: 6.2 Consensus size: 114
2178324 GCTTTAACAA
* * * * * * * *
2178334 AAACGCCGTTAAAAC-CTATATTATTCGCGGCGTTAATCTAAAAACGCCACTAAAGTCATCGAAG
1 AAACGCCGCTAATACTC-ATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAG
* *
2178398 TGTCTCCAAACTACGTCGTCTGGGGTTTAGTTTTTGTGGCATTTTTATAG
65 TGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
2178448 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* *
2178513 GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGC---GTTA-A-
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
* ** * *
2178557 AAACGCCGCTAATACTCATATTATTAGCGGCGCTACTCGGAAAACGCTACTAATGTCACTGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* * * * * *
2178622 GTCTCCAAACGAAGTCGTTTGGGTTTTAGTTTTTCCGGCGTTTTTGTAG
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
* * *
2178671 AAACGCTGCTAATACTCATATTATTAGCAGCGCTATT-AGAAAAACGCCACTAAAGTCACCGAAG
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCA-AAAAACGCCACTAATGTCACCGAAG
*
2178735 TGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAA
65 TGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
*
2178785 AAATGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* * *
2178850 GTCTCTAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTACAG
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
* *
2178899 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCGAAAAATGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* *
2178964 TTCTCCAAACGACGTCGTCT-GGGTTTAGTTTTTGCGGCGTTTTTATAG
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
2179012 AAACGCCGCTAATACTCA
1 AAACGCCGCTAATACTCA
2179030 ATCGGTTGCG
Statistics
Matches: 521, Mismatches: 53, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
109 96 0.18
110 1 0.00
111 3 0.01
112 2 0.00
113 44 0.08
114 373 0.72
115 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (114 bp):
AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
Found at i:2178915 original size:228 final size:227
Alignment explanation
Indices: 2178332--2179029 Score: 1014
Period size: 223 Copynumber: 3.1 Consensus size: 227
2178322 GTGCTTTAAC
* * * * * * *
2178332 AAAAACGCCGTTAAAAC-CTATATTATTCGCGGCGTTAATCTAAAAACGCCACTAAAGTCATCGA
1 AAAAACGCCGCTAATACTC-ATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGA
* * *
2178396 AGTGTCTCCAAACTACGTCGTCTGGGGTTTAGTTTTTGTGGCATTTTTATAGAAACGCCGCTAAT
65 AGTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAAT
2178461 ACTCATATTATTAGCGGCGCTATTCA-AAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGA
130 ACTCATATTATTAGCGGCGCTATT-AGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGA
* *
2178525 CGTCGTCTGGGTTTTAGTTTTTGCGGC---GT-T
194 CGTCGTCTGGGGTTTAGTTTTTGCGGCTTTTTAT
* ** * *
2178555 AAAAACGCCGCTAATACTCATATTATTAGCGGCGCTACTCGGAAAACGCTACTAATGTCACTGAA
1 AAAAACGCCGCTAATACTCATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAA
* * * * * *
2178620 GTGTCTCCAAACGAAGTCGTTTGGGTTTTAGTTTTTCCGGCGTTTTTGTAGAAACGCTGCTAATA
66 GTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATA
* *
2178685 CTCATATTATTAGCAGCGCTATTAGAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAACGACG
131 CTCATATTATTAGCGGCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACG
2178750 TCGTCTGGGGTTTAGTTTTTGCGGCATTTTTAT
196 TCGTCTGGGGTTTAGTTTTTGCGGC-TTTTTAT
* *
2178783 AAAAATGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAA
1 AAAAACGCCGCTAATACTCATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAA
* *
2178848 GTGTCTCTAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTACAGAAACGCCGCTAATA
66 GTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATA
* * *
2178913 CTCATATTATTAGCGGCGCTATTCGAAAAATGCCACTAATGTCACCGAAGTTTCTCCAAACGACG
131 CTCATATTATTAGCGGCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACG
2178978 TCGTCT-GGGTTTAGTTTTTGCGGCGTTTTTAT
196 TCGTCTGGGGTTTAGTTTTTGCGGC-TTTTTAT
*
2179010 AGAAACGCCGCTAATACTCA
1 AAAAACGCCGCTAATACTCA
2179030 ATCGGTTGCG
Statistics
Matches: 422, Mismatches: 46, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
222 1 0.00
223 193 0.46
224 1 0.00
227 44 0.10
228 183 0.43
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (227 bp):
AAAAACGCCGCTAATACTCATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAA
GTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATA
CTCATATTATTAGCGGCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACG
TCGTCTGGGGTTTAGTTTTTGCGGCTTTTTAT
Found at i:2180016 original size:18 final size:18
Alignment explanation
Indices: 2179993--2180037 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
2179983 CTCCCCTTTC
2179993 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTCTCCTT
2180011 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTCTCCTT
2180029 CCCTTTCCC
1 CCCTTTCCC
2180038 GTTTCGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (18 bp):
CCCTTTCCCCTTCTCCTT
Found at i:2181215 original size:35 final size:34
Alignment explanation
Indices: 2181176--2181241 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
2181166 CAAACGCCAG
* *
2181176 AAAACATTTTCCAGTAAGTCATTTTACAGAAATGT
1 AAAACATTTTCCA-AAAATCATTTTACAGAAATGT
*
2181211 AAAACATTTTCCAAAAATCATTTTACGGAAA
1 AAAACATTTTCCAAAAATCATTTTACAGAAA
2181242 ACATTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAAAAATCATTTTACAGAAATGT
Found at i:2182003 original size:29 final size:29
Alignment explanation
Indices: 2181937--2182009 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
2181927 GTCACAAATT
* * *
2181937 AGACTTATTTGATTCTTTTTAATAATATAA
1 AGACTAATTTGA-TCTATTTAATAATAGAA
*
2181967 AGACTAATTTGATCTATTTAATAATAGAG
1 AGACTAATTTGATCTATTTAATAATAGAA
* *
2181996 CGATTAATTTGATC
1 AGACTAATTTGATC
2182010 CAATCCTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 26 0.70
30 11 0.30
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (29 bp):
AGACTAATTTGATCTATTTAATAATAGAA
Found at i:2183096 original size:60 final size:63
Alignment explanation
Indices: 2182964--2183105 Score: 184
Period size: 60 Copynumber: 2.3 Consensus size: 63
2182954 TTTGGACAAA
* * *
2182964 AAAGCCAAGTTTAGGTACCTAATTGGACCAAGAAAAAAATCTTTAGGTACTAAATTGAACCTT
1 AAAGCCAAGTTCAGGTACCTAATTAGACCAAGAAAAAAATCTTTAGGTACCAAATTGAACCTT
* * *
2183027 AAAGTCAAGTTCAAGTACCTAATTAGACCAA-AAAAGAA-C-TT-GGATACCAAATTGAACCTT
1 AAAGCCAAGTTCAGGTACCTAATTAGACCAAGAAAAAAATCTTTAGG-TACCAAATTGAACCTT
*
2183087 CAAGCCAAGTTCAGGTACC
1 AAAGCCAAGTTCAGGTACC
2183106 AAAATGTATA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 2 0.03
60 33 0.48
61 1 0.01
62 6 0.09
63 27 0.39
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (63 bp):
AAAGCCAAGTTCAGGTACCTAATTAGACCAAGAAAAAAATCTTTAGGTACCAAATTGAACCTT
Found at i:2183575 original size:12 final size:12
Alignment explanation
Indices: 2183560--2183584 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2183550 AAAAAAAGAG
2183560 TTAAAAGTATCA
1 TTAAAAGTATCA
2183572 TTAAAAGTATCA
1 TTAAAAGTATCA
2183584 T
1 T
2183585 GGAGGTCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TTAAAAGTATCA
Found at i:2197990 original size:20 final size:19
Alignment explanation
Indices: 2197965--2198012 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
2197955 TCAAAACACG
*
2197965 TTTATAATAATATAACTAAT
1 TTTATAATAAAATAA-TAAT
2197985 TTTATATATAAAATAATAAT
1 TTTATA-ATAAAATAATAAT
*
2198005 TTAATAAT
1 TTTATAAT
2198013 TTTTCAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 15 0.60
21 8 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTATAATAAAATAATAAT
Found at i:2199287 original size:6 final size:6
Alignment explanation
Indices: 2199246--2199284 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
2199236 AGGCCACGGT
* *
2199246 CACAGC CACAGC CACAGC CACAGC CACAAC CACGGC CAC
1 CACAGC CACAGC CACAGC CACAGC CACAGC CACAGC CAC
2199285 GGCAACGGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
CACAGC
Found at i:2205918 original size:34 final size:35
Alignment explanation
Indices: 2205846--2205924 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 35
2205836 ATTTAACATT
* * *
2205846 TTGTTAGTAAAATTATTAATTGTTAATTGTATTAA
1 TTGTTACTAAAATTATAAATTATTAATTGTATTAA
2205881 TTGTTACTAAAATTATCAAATTATTAA-T-TATTAA
1 TTGTTACTAAAATTAT-AAATTATTAATTGTATTAA
2205915 TTGTTACTAA
1 TTGTTACTAA
2205925 CATTTTGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
34 16 0.40
35 16 0.40
36 8 0.20
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (35 bp):
TTGTTACTAAAATTATAAATTATTAATTGTATTAA
Found at i:2205930 original size:83 final size:85
Alignment explanation
Indices: 2205839--2206002 Score: 278
Period size: 83 Copynumber: 1.9 Consensus size: 85
2205829 TTGTAAAATT
*
2205839 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATTA
1 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATGAATTGTTACTAAAATTATCAAATTA
2205904 T-T-AATTATTAATTGTTAC
66 TATAAATTATTAATTGTTAC
* *
2205922 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATGAATTGTTAGTAAAATTATTAAATTA
1 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATGAATTGTTACTAAAATTATCAAATTA
2205987 TATCAAATTATTAATT
66 TAT-AAATTATTAATT
2206003 ATTAATTGTA
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
83 63 0.84
84 1 0.01
86 11 0.15
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (85 bp):
TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATGAATTGTTACTAAAATTATCAAATTA
TATAAATTATTAATTGTTAC
Found at i:2205955 original size:40 final size:35
Alignment explanation
Indices: 2205898--2205987 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 35
2205888 TAAAATTATC
2205898 AAATTATTAATTATTAATTGTTACTAACATTTTGTTAGTA
1 AAATTATTAATTATTAATTG-TA-TAA-A--TTGTTAGTA
* *
2205938 AAATTATTAATTGTTAATTGTATGAATTGTTAGTA
1 AAATTATTAATTATTAATTGTATAAATTGTTAGTA
2205973 AAATTATTAAATTAT
1 AAATTATT-AATTAT
2205988 ATCAAATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
35 17 0.37
36 5 0.11
37 1 0.02
38 2 0.04
39 2 0.04
40 19 0.41
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (35 bp):
AAATTATTAATTATTAATTGTATAAATTGTTAGTA
Found at i:2209487 original size:22 final size:23
Alignment explanation
Indices: 2209451--2209494 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2209441 ATATATATAT
* *
2209451 TAAAAAATAGATAATTTTTTTTA
1 TAAAAAAAAGATAATTATTTTTA
2209474 TAAAAAAAAG-TAATTATTTTT
1 TAAAAAAAAGATAATTATTTTT
2209495 CTTAAACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (23 bp):
TAAAAAAAAGATAATTATTTTTA
Found at i:2209500 original size:23 final size:22
Alignment explanation
Indices: 2209450--2209509 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
2209440 TATATATATA
*
2209450 TTAAAAAATAGATAATTTTTTT
1 TTAAAAAAAAGATAATTTTTTT
2209472 TATAAAAAAAAG-TAATTATTTTT
1 T-TAAAAAAAAGATAATT-TTTTT
*
2209495 CTTAAACAAAGAGAT
1 -TTAAA-AAAAAGAT
2209510 TCAAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 6 0.19
23 18 0.58
24 6 0.19
25 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (22 bp):
TTAAAAAAAAGATAATTTTTTT
Found at i:2211457 original size:31 final size:31
Alignment explanation
Indices: 2211417--2211477 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
2211407 TTGGACAAAA
*
2211417 AAGCTAAGTTCAAGTA-ATAATTTGAATCAAG
1 AAGCGAAGTTCAAGTACATAATTTG-ATCAAG
* *
2211448 AAGCGAAGTTCAGGTACTTAATTTGATCAA
1 AAGCGAAGTTCAAGTACATAATTTGATCAA
2211478 AATAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (31 bp):
AAGCGAAGTTCAAGTACATAATTTGATCAAG
Found at i:2234974 original size:86 final size:87
Alignment explanation
Indices: 2234871--2235044 Score: 341
Period size: 87 Copynumber: 2.0 Consensus size: 87
2234861 GCTCTTCCCA
2234871 ACTATATTTTATTTTCAAAATTATTTCTTTCC-TTTTTTTTCTTATTTTAAAAATCAAAAGATAT
1 ACTATATTTTATTTTCAAAATTATTTCTTTCCTTTTTTTTTCTTATTTTAAAAATCAAAAGATAT
2234935 ATTAAAAAAAGAAAAAAAAATC
66 ATTAAAAAAAGAAAAAAAAATC
2234957 ACTATATTTTATTTTCAAAATTATTTCTTTCCTTTTTTTTTCTTATTTTAAAAATCAAAAGATAT
1 ACTATATTTTATTTTCAAAATTATTTCTTTCCTTTTTTTTTCTTATTTTAAAAATCAAAAGATAT
2235022 ATTAAAAAAAGAAAAAAAAATC
66 ATTAAAAAAAGAAAAAAAAATC
2235044 A
1 A
2235045 TTTTAGTCAG
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 32 0.37
87 55 0.63
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (87 bp):
ACTATATTTTATTTTCAAAATTATTTCTTTCCTTTTTTTTTCTTATTTTAAAAATCAAAAGATAT
ATTAAAAAAAGAAAAAAAAATC
Found at i:2240837 original size:17 final size:16
Alignment explanation
Indices: 2240815--2240851 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
2240805 ATATATATAT
*
2240815 ATAAAAAAATACAAGAA
1 ATAAAAAAATA-AAAAA
2240832 ATAAAAAAATAAAAAA
1 ATAAAAAAATAAAAAA
2240848 ATAA
1 ATAA
2240852 TAATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (16 bp):
ATAAAAAAATAAAAAA
Found at i:2240843 original size:8 final size:8
Alignment explanation
Indices: 2240815--2240851 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
2240805 ATATATATAT
2240815 ATAAAAAA
1 ATAAAAAA
*
2240823 ATACAAGAA
1 ATA-AAAAA
2240832 ATAAAAAA
1 ATAAAAAA
2240840 ATAAAAAA
1 ATAAAAAA
2240848 ATAA
1 ATAA
2240852 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (8 bp):
ATAAAAAA
Found at i:2240976 original size:23 final size:22
Alignment explanation
Indices: 2240950--2241000 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
2240940 TGGCCGGATT
2240950 TCCCTTCTCCCCTCCCTTCTCTC
1 TCCCTTCTCCCCTCCC-TCTCTC
* *
2240973 TCCCTTCTCTCTTCCCTCTCTC
1 TCCCTTCTCCCCTCCCTCTCTC
*
2240995 TTCCTT
1 TCCCTT
2241001 TTTTTCTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (22 bp):
TCCCTTCTCCCCTCCCTCTCTC
Found at i:2240977 original size:11 final size:11
Alignment explanation
Indices: 2240950--2241000 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
2240940 TGGCCGGATT
*
2240950 TCCCTTCTCCCC
1 TCCCTTCT-CTC
2240962 TCCCTTCTCTC
1 TCCCTTCTCTC
2240973 TCCCTTCTCTC
1 TCCCTTCTCTC
2240984 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
2240995 TTCCTT
1 TCCCTT
2241001 TTTTTCTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 3 0.09
11 20 0.57
12 12 0.34
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:2241488 original size:3 final size:3
Alignment explanation
Indices: 2241473--2241534 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
2241463 GTCATTTTTA
* * * *
2241473 TAT TAT TAG TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT GTAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
*
2241519 TAT ATAT TTT TAT TAT
1 TAT -TAT TAT TAT TAT
2241535 GTACGCGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:2241531 original size:23 final size:22
Alignment explanation
Indices: 2241476--2241537 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
2241466 ATTTTTATAT
*
2241476 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
2241497 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
2241519 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
2241538 CGCGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:2241544 original size:23 final size:23
Alignment explanation
Indices: 2241500--2241545 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2241490 GTATTACTAT
**
2241500 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTACGAGTATA
* *
2241523 TATTTTTATTATGTACGCGTATA
1 TATTATTATTATGTACGAGTATA
2241546 CATATATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (23 bp):
TATTATTATTATGTACGAGTATA
Found at i:2241609 original size:25 final size:24
Alignment explanation
Indices: 2241562--2241609 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2241552 TATTTTTTCA
*
2241562 TATTTAATATTTTTATTTCATTTT
1 TATTTAATATTTTTATTTAATTTT
2241586 TATTCTAATA-TTTTATTATAATTT
1 TATT-TAATATTTTTATT-TAATTT
2241610 ATATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTAATATTTTTATTTAATTTT
Found at i:2244180 original size:62 final size:62
Alignment explanation
Indices: 2244114--2244297 Score: 314
Period size: 62 Copynumber: 3.0 Consensus size: 62
2244104 CACGTATCTC
*
2244114 TTCATTCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
* *
2244176 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCAAAAAATACGCG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
* * *
2244238 TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAGTACG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACG
2244298 TCGAGTTTAG
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 114 1.00
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (62 bp):
TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
Found at i:2245536 original size:10 final size:10
Alignment explanation
Indices: 2245521--2245571 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
2245511 CAGTGGAGAC
2245521 AAAAAAAAGA
1 AAAAAAAAGA
2245531 AAAAAAAAGTA
1 AAAAAAAAG-A
2245542 AAAAAAACGAGA
1 AAAAAAA--AGA
*
2245554 AAATAAAAATA
1 AAA-AAAAAGA
2245565 AAAAAAA
1 AAAAAAA
2245572 CCAAATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 13 0.36
11 13 0.36
12 4 0.11
13 6 0.17
ACGTcount: A:0.84, C:0.02, G:0.08, T:0.06
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:2245554 original size:23 final size:22
Alignment explanation
Indices: 2245521--2245572 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
2245511 CAGTGGAGAC
2245521 AAAAAAA-AGAAAA-AAAAAGTA
1 AAAAAAACAGAAAATAAAAA-TA
2245542 AAAAAAACGAGAAAATAAAAATA
1 AAAAAAAC-AGAAAATAAAAATA
2245565 AAAAAAAC
1 AAAAAAAC
2245573 CAAATAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.25
23 16 0.57
24 5 0.18
ACGTcount: A:0.83, C:0.04, G:0.08, T:0.06
Consensus pattern (22 bp):
AAAAAAACAGAAAATAAAAATA
Found at i:2246015 original size:12 final size:12
Alignment explanation
Indices: 2245998--2246058 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
2245988 ACTTCACTTG
2245998 AAAAAAAAATGA
1 AAAAAAAAATGA
2246010 AAAAAAAAAT--
1 AAAAAAAAATGA
2246020 --AAAAAAATGA
1 AAAAAAAAATGA
2246030 AAAAAGAAAA-GA
1 AAAAA-AAAATGA
2246042 AGAAAGAAAAA-GA
1 A-AAA-AAAAATGA
2246055 AAAA
1 AAAA
2246059 GGAGAGGCCA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
8 8 0.19
12 19 0.45
13 14 0.33
14 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (12 bp):
AAAAAAAAATGA
Found at i:2246023 original size:20 final size:21
Alignment explanation
Indices: 2246000--2246039 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2245990 TTCACTTGAA
2246000 AAAAAAATGAAAAAA-AAAAT
1 AAAAAAATGAAAAAAGAAAAT
2246020 AAAAAAATGAAAAAAGAAAA
1 AAAAAAATGAAAAAAGAAAA
2246040 GAAGAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAAAAATGAAAAAAGAAAAT
Found at i:2246580 original size:108 final size:108
Alignment explanation
Indices: 2246381--2246587 Score: 281
Period size: 108 Copynumber: 1.9 Consensus size: 108
2246371 TAATTTATTC
* * *
2246381 TCATTTTGTATTCTAGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGTTTTGTTCTCAA
1 TCATCTTGTATTCTAGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGCTTTGCTCTCAA
*
2246446 CAAATTTTCATCTTATCCATTGTGATAATATTTTCCATCTTAT
66 CAAAATTTCATCTTATCCATTGTGATAATATTTTCCATCTTAT
* * * **
2246489 TCATCTTGTA-TCTCAGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCA
1 TCATCTTGTATTCT-AGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGCTTTGCTCTCA
* * * *
2246553 ACAAAATTTCATTTTGTCCATTTTGATAATCTTTT
65 ACAAAATTTCATCTTATCCATTGTGATAATATTTT
2246588 TCAAGCATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 3 0.04
108 82 0.96
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (108 bp):
TCATCTTGTATTCTAGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGCTTTGCTCTCAA
CAAAATTTCATCTTATCCATTGTGATAATATTTTCCATCTTAT
Found at i:2247202 original size:42 final size:42
Alignment explanation
Indices: 2247069--2247202 Score: 105
Period size: 42 Copynumber: 3.1 Consensus size: 42
2247059 GTTATCAGAT
2247069 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * * * *
2247111 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGCAGATCGAAG--A-CAAAC
2247155 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
2247197 CTTGCC
1 CTTGCC
2247203 ACTCTTTTTT
Statistics
Matches: 64, Mismatches: 18, Indels: 20
0.63 0.18 0.20
Matches are distributed among these distances:
40 1 0.02
41 13 0.20
42 20 0.31
43 2 0.03
44 14 0.22
45 13 0.20
46 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
Found at i:2247270 original size:85 final size:86
Alignment explanation
Indices: 2247015--2247448 Score: 676
Period size: 85 Copynumber: 5.1 Consensus size: 86
2247005 AGTAAAAATT
* * * * * *
2247015 GAAGATAAACCTTGCCTCTCTCAG-TCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCC
1 GAAGACAAACCTTGCCACTCTC-GTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
2247079 TGCATTGACAGCGAAGCAGATC
65 TGCATTGACAGCGAAGCAGATC
2247101 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
2247166 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* *
2247187 GAAGACAAACCTTGCCACTCT-TTTTTTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
2247251 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* *
2247272 GAAGACAAACCTTGCCACTCT-TTTTTTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
2247336 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * * *
2247357 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTTCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* *
2247422 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
2247444 GAAGA
1 GAAGA
2247449 TGGCAGATTT
Statistics
Matches: 328, Mismatches: 17, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
85 168 0.51
86 138 0.42
87 22 0.07
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (86 bp):
GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:2247636 original size:134 final size:134
Alignment explanation
Indices: 2247396--2247805 Score: 680
Period size: 134 Copynumber: 3.1 Consensus size: 134
2247386 GCAGAGCTGG
* * * *
2247396 TTGAAGATAT-CAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
1 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCAAAGATGGCAGATTTT
* *
2247460 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCAGTATTTGGCAGTGGC
65 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGA
2247525 ATAGA
130 ATAGA
2247530 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCAAAGATGGCAGATTTTA
* *
2247595 CCTCCTTGACCACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
2247660 TAGA
131 TAGA
*
2247664 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAA-CAGATCAAAGATGGCATATTTT
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC-AAAGCAGATCAAAGATGGCAGATTTT
* * *
2247728 ACCTCCCTGACTACAGTGGAGTACATTGAAGCCAATAACTCTATCTCCCTGTATTTGGCAGTGGA
65 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGA
2247793 ATAGA
130 ATAGA
2247798 TTGAAGAT
1 TTGAAGAT
2247806 CAAAGATGGC
Statistics
Matches: 261, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
133 1 0.00
134 257 0.98
135 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:2247805 original size:88 final size:90
Alignment explanation
Indices: 2247687--2247854 Score: 223
Period size: 95 Copynumber: 1.8 Consensus size: 90
2247677 ATCTTGCCTT
*
2247687 CCTGTATTTGGCAGCGAAACAGATC--AAAGATGGCATATTTTACCTCCCTGACTACAGTGGAGT
1 CCTGTATTTGGCAGCGAAACAGATCAAAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGT
2247750 ACATTGAAGCCAATAACTCTATCTC
66 ACATTGAAGCCAATAACTCTATCTC
* * * * *
2247775 CCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGATTACAGT
1 CCTGTATTTGGCAGCGAAACAGA-T-CA-A--AAAGATGGCAGATTTTACCTCCCTGACTACAGT
2247840 GGAGTACATTGAAGC
61 GGAGTACATTGAAGC
2247855 TGATAGTTCT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
88 20 0.30
89 1 0.01
95 46 0.69
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (90 bp):
CCTGTATTTGGCAGCGAAACAGATCAAAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGT
ACATTGAAGCCAATAACTCTATCTC
Found at i:2248116 original size:132 final size:132
Alignment explanation
Indices: 2247879--2249265 Score: 1192
Period size: 132 Copynumber: 10.5 Consensus size: 132
2247869 CCCGGAGCAA
* * *
2247879 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGA
2247944 TCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
2248009 GT
131 GT
* * *
2248011 GAAGTAGATCGAAGGTAGCATATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGA
* * *
2248076 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATTTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
2248141 GT
131 GT
* * *
2248143 GAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGA
*
2248208 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
2248273 GT
131 GT
* *
2248275 GAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGA
*
2248340 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
2248405 GT
131 GT
* * * *
2248407 GAAGTAGATCAAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCAAAGAAGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGA
* * * * * ** * * * * *
2248472 TCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGTAGATCCTATCTTCCTATATTGGT
66 TCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-
*
2248536 AG-
130 CGT
* * * * * * *
2248538 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-AAGCA
* * * * * * ** * ** * *
2248602 GATTTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTG
64 GATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTG
*
2248666 GTAG-
129 G-CGT
* * * * * * *
2248670 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-AAGCA
* * * * * ** * * * *
2248734 GATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTG
64 GATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTG
*
2248798 GTAG-
129 G-CGT
* * * * * * *
2248802 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-AAGCA
* * * * * ** * ** * *
2248866 GATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTG
64 GATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTG
*
2248930 GTAG-
129 G-CGT
* * * * * * * * *
2248934 GAAGTGGATCAAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAATTAGATCGCAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-AAGCA
* * * * ** * ** *
2248998 GATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG-AGGGTAGCAGATCCTACCTTCATATATT
64 GATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCA-GAAAGCAGATCTTGTCTTCATGTATT
*
2249061 GGTAG-
128 GG-CGT
* * * * * * * * *
2249066 GAAGTGGATCAAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAATTAGATCGCAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-AAGCA
* * * * * ** * * * *
2249130 GATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTG
64 GATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTG
**
2249194 ATAG-
129 -GCGT
* * * * * * *
2249198 GAAGTGGATCCAAGATA-CAGATCCTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-AAGCA
2249262 GATC
64 GATC
2249266 GACGATGGCG
Statistics
Matches: 1189, Mismatches: 59, Indels: 14
0.94 0.05 0.01
Matches are distributed among these distances:
130 22 0.02
131 59 0.05
132 1107 0.93
133 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGA
TCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:2248888 original size:483 final size:483
Alignment explanation
Indices: 2247950--2248964 Score: 1931
Period size: 483 Copynumber: 2.1 Consensus size: 483
2247940 CAGATCTTGT
* * **
2247950 CTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
1 CTTCCTATATTGGTAG-GAAGTGGATCAAAG-AAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
*
2248015 TAGATCGAAGGTAGCATATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
64 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
*
2248080 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATTTTGTCTTCATGTATTGGCGTGA
129 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATTTTGTCTTCATGTATTGGCGTGA
2248145 AGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
194 AGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
2248210 TTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
259 TTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
2248275 GAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
324 GAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
2248340 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
389 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
2248405 GTGAAGTAGATCAAAGGTAGCAGATCCTAC
454 GTGAAGTAGATCAAAGGTAGCAGATCCTAC
2248435 CTTCCTATATTGGTAGGAAGTGGATCAAAGAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
1 CTTCCTATATTGGTAGGAAGTGGATCAAAGAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
*
2248500 GATCGAAGGTAGTAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
66 GATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
2248565 CTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATTTTGTCTTCATGTATTGGCGTGAAG
131 CTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATTTTGTCTTCATGTATTGGCGTGAAG
2248630 TAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
196 TAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
2248695 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
261 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
2248760 AGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
326 AGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
2248825 TTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
391 TTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
*
2248890 GAAGTAGATCGAAGGTAGCAGATCCTAC
456 GAAGTAGATCAAAGGTAGCAGATCCTAC
*
2248918 CTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTC
1 CTTCCTATATTGGTAGGAAGTGGATCAAAGAAGCAGATCTTGTCTTC
2248965 CCATATTGGT
Statistics
Matches: 521, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
483 495 0.95
484 11 0.02
485 15 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (483 bp):
CTTCCTATATTGGTAGGAAGTGGATCAAAGAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
GATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
CTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATTTTGTCTTCATGTATTGGCGTGAAG
TAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
AGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
TTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
GAAGTAGATCAAAGGTAGCAGATCCTAC
Found at i:2249049 original size:615 final size:615
Alignment explanation
Indices: 2247879--2249096 Score: 2276
Period size: 615 Copynumber: 2.0 Consensus size: 615
2247869 CCCGGAGCAA
2247879 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
*
2247944 TCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
* *
2248009 GTGAAGTAGATCGAAGGTAGCATATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCA
131 GTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCA
* *
2248074 GATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATTTTGTCTTCATGTATTG
196 GATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTG
2248139 GCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATG
261 GCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATG
2248204 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
326 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
* *
2248269 TGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGA
391 TGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCAAAGA
2248334 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGT
456 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGT
*
2248399 ATTGGCGTGAAGTAGATCAAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCAAA
521 ATTGGCGTGAAGTAGATCAAAGGTAGCAGATCCTACCTTCATATATTGGTAGGAAGTGGATCAAA
2248464 GAAGCAGATCTTGTCTTCATGTATTGGCGT
586 GAAGCAGATCTTGTCTTCATGTATTGGCGT
* *
2248494 GAAGTAGATCGAAGGTAG-TAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAG
1 GAAGTAGATCGAAGATAGCT-GATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAG
*
2248558 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATTTTGTCTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG
2248623 CGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
130 CGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
2248688 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATT
195 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATT
*
2248753 GGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
260 GGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
2248818 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTA
325 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTA
2248883 TTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCAAAG
390 TTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCAAAG
*
2248948 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAATTAGATCGCAGAAAGCAGATCTTGTCTTCATG
455 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATG
* *
2249013 TATTGGCGTGAAGTAGATCGAGGGTAGCAGATCCTACCTTCATATATTGGTAGGAAGTGGATCAA
520 TATTGGCGTGAAGTAGATCAAAGGTAGCAGATCCTACCTTCATATATTGGTAGGAAGTGGATCAA
*
2249078 AGATGCAGATCTTGTCTTC
585 AGAAGCAGATCTTGTCTTC
2249097 CCATATTGGT
Statistics
Matches: 586, Mismatches: 16, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
614 1 0.00
615 585 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (615 bp):
GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
GTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCA
GATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTG
GCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATG
CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
TGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCAAAGA
TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGT
ATTGGCGTGAAGTAGATCAAAGGTAGCAGATCCTACCTTCATATATTGGTAGGAAGTGGATCAAA
GAAGCAGATCTTGTCTTCATGTATTGGCGT
Found at i:2249067 original size:396 final size:395
Alignment explanation
Indices: 2247879--2249265 Score: 1502
Period size: 396 Copynumber: 3.5 Consensus size: 395
2247869 CCCGGAGCAA
* * * * * * * * * *
2247879 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-GAAATGGATCGAAG-ATGCA
1 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA
* * * * * ** * * * *
2247942 GATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTG
65 GATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTG
* * * * * * * * *
2248007 G-CGTGAAGTAGATCGAAGGTAGCATATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG-A
129 GTAG-GAAGTGGATCAAAGAT-GCAGATCCTGTCTTCCCATATTGGTGGGAAGTAGATCGAAGAA
* *** * * * ** * ** ** * *
2248070 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATTTTGTCTTCATGT
192 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTAT
* * * * * ** * * *
2248135 ATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAG-GAAGTGGATCG
256 ATTGGTAG-GAAGTGGATCAAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * *** * * * ** * **
2248198 AAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
319 CAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTACCTT
* *
2248262 CATGTATTGG-CG
383 CATATATTGGTAG
* * * * * * * * *
2248274 TGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGC
1 -GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
*** * * * ** * * * *
2248337 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATT
64 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATT
* * * ** * * * *
2248402 GG-CGTGAAGTAGATCAAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCAAAG-
128 GGTAG-GAAGTGGATCAAAGAT-GCAGATCCTGTCTTCCCATATTGGTGGGAAGTAGATCGAAGA
* *
2248465 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGTAGATCCTATCTTCCTAT
191 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTAT
*
2248530 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA
256 ATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA
* *
2248595 GAAAGCAGATTTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCT
321 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCAT
2248660 ATATTGGTAG
386 ATATTGGTAG
2248670 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
2248735 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGT
* * *
2248800 AGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
131 AGGAAGTGGATCAAAGATGCAGATCCTGTCTTCCCATATTGGTGG-GAAGTAGATCGAAGAAAGC
2248865 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTG
195 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTG
*
2248930 GTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAATTAGATCGCAGAAA
260 GTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
*
2248995 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAGGGTAGCAGATCCTACCTTCATATAT
325 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCATATAT
2249060 TGGTAG
390 TGGTAG
* *
2249066 GAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAATTAGATCGCAGAAAGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
*
2249131 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGAT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGT
* * *
2249196 AGGAAGTGGATCCAAGATACAGATCCTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
131 AGGAAGTGGATCAAAGATGCAGATCCTGTCTTCCCATATTGGTGG-GAAGTAGATCGAAGAAAGC
2249261 AGATC
195 AGATC
2249266 GACGATGGCG
Statistics
Matches: 885, Mismatches: 97, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
394 67 0.08
395 179 0.20
396 639 0.72
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (395 bp):
GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGT
AGGAAGTGGATCAAAGATGCAGATCCTGTCTTCCCATATTGGTGGGAAGTAGATCGAAGAAAGCA
GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGG
TAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAG
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTACCTTCATATATT
GGTAG
Found at i:2249095 original size:483 final size:483
Alignment explanation
Indices: 2247950--2249096 Score: 1769
Period size: 483 Copynumber: 2.4 Consensus size: 483
2247940 CAGATCTTGT
* * ** ** *
2247950 CTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
1 CTTCCTATATTGGTAG-GAAGTGGATCAAAG-AAGCAGATCTTGTCTTCACATATTGGCGCGAAG
** * * * *
2248015 TAGATCGAAGGTAGCATATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
64 TAGATCGAAGAAAGCAGATCCTATCTTCATATATTGGTAGGAAGTAGATCGAAGATGCAGATCCT
** * * ** *
2248080 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATTTTGTCTTCATGTATTGGCGTGA
129 ACCTTCACATATTGGTAGCGAAGTAGATCAAAGAAAGCAGATTTTGTCTTCATGTATTGGCGTGA
2248145 AGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
194 AGTAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
2248210 TTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
259 TTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
2248275 GAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
324 GAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
2248340 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
389 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
2248405 GTGAAGTAGATCAAAGGTAGCAGATCCTAC
454 GTGAAGTAGATCAAAGGTAGCAGATCCTAC
** *
2248435 CTTCCTATATTGGTAGGAAGTGGATCAAAGAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
1 CTTCCTATATTGGTAGGAAGTGGATCAAAGAAGCAGATCTTGTCTTCACATATTGGCGCGAAGTA
** * * * * **
2248500 GATCGAAGGTAGTAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
66 GATCGAAGAAAGCAGATCCTATCTTCATATATTGGTAGGAAGTAGATCGAAGATGCAGATCCTAC
* * **
2248565 CTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATTTTGTCTTCATGTATTGGCGTGAAG
131 CTTCACATATTGGTAGCGAAGTAGATCAAAGAAAGCAGATTTTGTCTTCATGTATTGGCGTGAAG
2248630 TAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
196 TAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
2248695 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
261 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
2248760 AGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
326 AGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
2248825 TTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
391 TTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
*
2248890 GAAGTAGATCGAAGGTAGCAGATCCTAC
456 GAAGTAGATCAAAGGTAGCAGATCCTAC
* * * *
2248918 CTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAATT
1 CTTCCTATATTGGTAGGAAGTGGATCAAAGAAGCAGATCTTGTCTTCACATATTGG-CGCGAAGT
* * * * * * *
2248983 AGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAGGGTAGCAGATCC
65 AGATCGAAGAAAGCAGATCCTATCTTCATATATTGGTAG-GAAGTAGATCGAAGAT-GCAGATCC
* * * *
2249047 TACCTTCATATATTGGTAG-GAAGTGGATCAAAG-ATGCAGATCTTGTCTTC
128 TACCTTCACATATTGGTAGCGAAGTAGATCAAAGAAAGCAGATTTTGTCTTC
2249097 CCATATTGGT
Statistics
Matches: 621, Mismatches: 38, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
483 517 0.83
484 68 0.11
485 36 0.06
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (483 bp):
CTTCCTATATTGGTAGGAAGTGGATCAAAGAAGCAGATCTTGTCTTCACATATTGGCGCGAAGTA
GATCGAAGAAAGCAGATCCTATCTTCATATATTGGTAGGAAGTAGATCGAAGATGCAGATCCTAC
CTTCACATATTGGTAGCGAAGTAGATCAAAGAAAGCAGATTTTGTCTTCATGTATTGGCGTGAAG
TAGATCGAAGGTAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
AGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
TTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
GAAGTAGATCAAAGGTAGCAGATCCTAC
Found at i:2249417 original size:40 final size:40
Alignment explanation
Indices: 2249363--2249510 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
2249353 AAGATTACAA
* *
2249363 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATTAAG
* ** *
2249403 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAACCACGG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATTA-AG
* * *
2249444 ATCTTATTTCCCTAAGCAATAGTGGAGCAGATCACATTCAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATTAAG
2249485 TCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTTATCTCCCTAAGCAGTAGTGGAG
2249511 TAGACGAAGA
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 55 0.62
41 2 0.02
42 30 0.34
43 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATTAAG
Found at i:2249456 original size:82 final size:82
Alignment explanation
Indices: 2249362--2249515 Score: 254
Period size: 82 Copynumber: 1.9 Consensus size: 82
2249352 GAAGATTACA
* * *
2249362 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGTAGTGG
1 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACATTAAGTCTTATCTCCCTAAGCAGTAGTGG
2249427 AGCAGACAAAACCACGG
66 AGCAGACAAAACCACGG
* *
2249444 ATCTTATTTCCCTAAGCAATAGTGGAGCAGATCACATTCAGTCTTATCTCCCTAAGCAGTAGTGG
1 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACATTAAGTCTTATCTCCCTAAGCAGTAGTGG
*
2249509 AGTAGAC
66 AGCAGAC
2249516 GAAGAAAACA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (82 bp):
ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACATTAAGTCTTATCTCCCTAAGCAGTAGTGG
AGCAGACAAAACCACGG
Found at i:2250413 original size:8 final size:8
Alignment explanation
Indices: 2250385--2250420 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
2250375 TAATATATAT
2250385 ATAAAAAA
1 ATAAAAAA
*
2250393 ATACAAGAA
1 ATA-AAAAA
2250402 ATAAAAAA
1 ATAAAAAA
2250410 ATAAAAAA
1 ATAAAAAA
2250418 ATA
1 ATA
2250421 GTAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (8 bp):
ATAAAAAA
Found at i:2250545 original size:23 final size:22
Alignment explanation
Indices: 2250519--2250569 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
2250509 TGGCCGGATT
2250519 TCCCTTCTCCCCTCCCTTCTCTC
1 TCCCTTCTCCCCTCCC-TCTCTC
* *
2250542 TCCCTTCTCTCTTCCCTCTCTC
1 TCCCTTCTCCCCTCCCTCTCTC
*
2250564 TTCCTT
1 TCCCTT
2250570 TTTTTCTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (22 bp):
TCCCTTCTCCCCTCCCTCTCTC
Found at i:2250546 original size:11 final size:11
Alignment explanation
Indices: 2250519--2250569 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
2250509 TGGCCGGATT
*
2250519 TCCCTTCTCCCC
1 TCCCTTCT-CTC
2250531 TCCCTTCTCTC
1 TCCCTTCTCTC
2250542 TCCCTTCTCTC
1 TCCCTTCTCTC
2250553 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
2250564 TTCCTT
1 TCCCTT
2250570 TTTTTCTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 3 0.09
11 20 0.57
12 12 0.34
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:2251059 original size:3 final size:3
Alignment explanation
Indices: 2251044--2251105 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
2251034 GTCATTTTTA
* * * *
2251044 TAT TAT TAG TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT GTAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
*
2251090 TAT ATAT TTT TAT TAT
1 TAT -TAT TAT TAT TAT
2251106 GTACGCGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:2251102 original size:23 final size:22
Alignment explanation
Indices: 2251047--2251108 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
2251037 ATTTTTATAT
*
2251047 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
2251068 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
2251090 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
2251109 CGCGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:2251115 original size:23 final size:23
Alignment explanation
Indices: 2251071--2251116 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2251061 GTATTACTAT
**
2251071 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTACGAGTATA
* *
2251094 TATTTTTATTATGTACGCGTATA
1 TATTATTATTATGTACGAGTATA
2251117 CATATATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (23 bp):
TATTATTATTATGTACGAGTATA
Found at i:2251180 original size:25 final size:24
Alignment explanation
Indices: 2251133--2251180 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2251123 TATTTTTTCA
*
2251133 TATTTAATATTTTTATTTCATTTT
1 TATTTAATATTTTTATTTAATTTT
2251157 TATTCTAATA-TTTTATTATAATTT
1 TATT-TAATATTTTTATT-TAATTT
2251181 ATATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTAATATTTTTATTTAATTTT
Found at i:2257759 original size:10 final size:11
Alignment explanation
Indices: 2257744--2257775 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
2257734 ATACTGTACC
2257744 ATATCATAT-T
1 ATATCATATAT
2257754 ATATCATATAT
1 ATATCATATAT
2257765 ATAT-ATATAT
1 ATATCATATAT
2257775 A
1 A
2257776 GTTGCTGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 16 0.76
11 5 0.24
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATCATATAT
Found at i:2261409 original size:17 final size:17
Alignment explanation
Indices: 2261389--2261422 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2261379 CCAAATGCCT
2261389 TTAA-AATAATAACAAAA
1 TTAACAATAA-AACAAAA
2261406 TTAACAATAAAACAAAA
1 TTAACAATAAAACAAAA
2261423 GTTGGTCCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (17 bp):
TTAACAATAAAACAAAA
Found at i:2261981 original size:30 final size:29
Alignment explanation
Indices: 2261924--2262005 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 29
2261914 AAATTGTGGA
* *
2261924 TTTAATTTTTATACTTTT-AATTGATCAAT
1 TTTAATCTTTATATTTTTGAA-TGATCAAT
2261953 TTTAATCTTTATATTTTTTGAATGATCAAT
1 TTTAATCTTTATA-TTTTTGAATGATCAAT
*
2261983 TTTAGTCTTTATACTTTTTGAAT
1 TTTAATCTTTATA-TTTTTGAAT
2262006 TATGAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
29 12 0.26
30 33 0.70
31 2 0.04
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.59
Consensus pattern (29 bp):
TTTAATCTTTATATTTTTGAATGATCAAT
Found at i:2269044 original size:21 final size:20
Alignment explanation
Indices: 2269019--2269066 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
2269009 ACATGTCATT
2269019 AAATAAATATTAAAAATTTAA
1 AAAT-AATATTAAAAATTTAA
* *
2269040 AAATATTATTACAAATTTAA
1 AAATAATATTAAAAATTTAA
2269060 AAA-AATA
1 AAATAATA
2269067 GTTCGATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 17 0.71
21 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAATATTAAAAATTTAA
Found at i:2275025 original size:19 final size:20
Alignment explanation
Indices: 2274985--2275028 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
2274975 GTCTCTTTAG
* *
2274985 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
2275004 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
2275023 GCATTA
1 GCATTA
2275029 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:2279903 original size:44 final size:44
Alignment explanation
Indices: 2279854--2280080 Score: 140
Period size: 44 Copynumber: 5.2 Consensus size: 44
2279844 AGTTACAGAT
2279854 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** * * * * *
2279898 CTTGCC-TCTTTCGGTTGTGATG-G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACA-GCGAAGCAGATCGAAGACACAA-AC
* *
2279942 CTTGCTTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** ** * * * * *
2279986 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
* *
2280030 CTTGCCTTCCTACATTGACAACGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
2280074 CTTGCCT
1 CTTGCCT
2280081 CTTTCGGTTG
Statistics
Matches: 125, Mismatches: 48, Indels: 20
0.65 0.25 0.10
Matches are distributed among these distances:
43 36 0.29
44 53 0.42
45 36 0.29
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:2280122 original size:44 final size:44
Alignment explanation
Indices: 2279898--2280124 Score: 171
Period size: 44 Copynumber: 5.2 Consensus size: 44
2279888 AGACACAAAC
*
2279898 CTTGCCTCTTTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
** * * * * * *
2279942 CTTG-CT-TTTCTGCAT-TGACAGCGAAGCAGATCGAAGACACAA-AC
1 CTTGCCTCTTTC-GGTTGTGATA--G-AGCTGGTTGAAGACAAAAGAT
2279986 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
* * * ** * * * * *
2280030 CTTGCCTTCCTAC-ATTGACA-ACGAAGCAGATCGAAGACACAA-AC
1 CTTGCC-TCTTTCGGTTGTGATA-G-AGCTGGTTGAAGACAAAAGAT
2280074 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
2280118 CTTGCCT
1 CTTGCCT
2280125 TCCTACATTA
Statistics
Matches: 132, Mismatches: 37, Indels: 28
0.67 0.19 0.14
Matches are distributed among these distances:
42 7 0.05
43 37 0.28
44 43 0.33
45 37 0.28
46 8 0.06
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
Found at i:2280281 original size:86 final size:88
Alignment explanation
Indices: 2279850--2280277 Score: 546
Period size: 88 Copynumber: 4.9 Consensus size: 88
2279840 ATGAAGTTAC
2279850 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
2279915 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
2279938 AGATCTTGCTTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
2280003 TGATAGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
2280026 AGATCTTGCCTTCCTACATTGACAACGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
2280091 TGATAGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * * ** *
2280114 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATTGAA-A-ACAAAGCCTTGCGTCCATCGATT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGGTT
* * * **
2280177 G-CAGTGGAGCTAGTTAAAGA-AGC
65 GTGA-TGGAGCTGGTTGAAGACAAA
* * * * **
2280200 AGATCTTGCCTTCTTGCATTAACAGCAAAGCAGATC-AA-AAACAAAGCCTTGCCTCCATCGGTT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGGTT
*
2280263 G-CATTGGAGCTGGTT
65 GTGA-TGGAGCTGGTT
2280278 AAAGGTTACA
Statistics
Matches: 309, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
85 3 0.01
86 73 0.24
87 28 0.09
88 205 0.66
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:2280525 original size:43 final size:44
Alignment explanation
Indices: 2280426--2280531 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
2280416 GATCTTGTCC
* * *
2280426 CCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCT
1 CCCTGAAGTTACAGTGGAGCAGATCGAAGACAGAGATCCTATCT
* * **
2280470 CCCTG-AGATTACAGCGGAGCAGATCGAATACA-CTATCCTATCT
1 CCCTGAAG-TTACAGTGGAGCAGATCGAAGACAGAGATCCTATCT
2280513 CCCTGAAGTTACAGTGGAG
1 CCCTGAAGTTACAGTGGAG
2280532 TGGATTAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
43 25 0.48
44 27 0.52
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (44 bp):
CCCTGAAGTTACAGTGGAGCAGATCGAAGACAGAGATCCTATCT
Found at i:2280618 original size:41 final size:43
Alignment explanation
Indices: 2280426--2280664 Score: 114
Period size: 44 Copynumber: 5.5 Consensus size: 43
2280416 GATCTTGTCC
* * * ** *
2280426 CCCTGAAGTTACAGTGGAGCAGATTGA-AGCCAGAGATCTTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATCGAGATACA-AG-TCTTATTT
* * * * *
2280470 CCCTG-AGATTACAGCGGAGCAGATCGA-ATACACTA-TCCTATCT
1 CCCTGAAG-TTGCAGTGGAGTAGATCGAGATACA--AGTCTTATTT
* * ** * *
2280513 CCCTGAAGTTACAGTGGAGTGGATTAAAATA-AAGGATCTTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATCGAGATACAA-G-TCTTATTT
* ** * *
2280557 CTCTGAAGTTATAGTAGAGTAGATCG-TAT-CAAGTCTTATTT
1 CCCTGAAGTTGCAGTGGAGTAGATCGAGATACAAGTCTTATTT
* *
2280598 CCCTGAAGTTGCAGTGGAGTAGTTTGAAGATACAAGTCTTATTT
1 CCCTGAAGTTGCAGTGGAGTAGATCG-AGATACAAGTCTTATTT
* * *
2280642 CCCTCAAGATGCAGTGGAATAGA
1 CCCTGAAGTTGCAGTGGAGTAGA
2280665 CTGAAAACAA
Statistics
Matches: 153, Mismatches: 31, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
41 28 0.18
42 1 0.01
43 35 0.23
44 88 0.58
45 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
CCCTGAAGTTGCAGTGGAGTAGATCGAGATACAAGTCTTATTT
Found at i:2287054 original size:3 final size:3
Alignment explanation
Indices: 2287046--2287101 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
2287036 AATAAATAGG
*
2287046 TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2287094 TAA TAA TA
1 TAA TAA TA
2287102 GGACTAATTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2290055 original size:13 final size:13
Alignment explanation
Indices: 2290033--2290067 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
2290023 AAGAAAAGAA
*
2290033 ATCCACCTACCTT
1 ATCCAACTACCTT
2290046 ATCCAACTACCTT
1 ATCCAACTACCTT
2290059 ATCCAACTA
1 ATCCAACTA
2290068 AGAAGACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.40, G:0.00, T:0.29
Consensus pattern (13 bp):
ATCCAACTACCTT
Found at i:2296348 original size:21 final size:24
Alignment explanation
Indices: 2296298--2296353 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 24
2296288 GGATAATTAA
2296298 CTTAATTAA-TTTAAACTAATCATG
1 CTTAATTAACTTTAAACTAA-CATG
2296322 CTTTAATTAACTTTAAACT-A-AT-
1 C-TTAATTAACTTTAAACTAACATG
2296344 CTTAATTAAC
1 CTTAATTAAC
2296354 ATAAGTGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 9 0.30
22 1 0.03
23 2 0.07
24 1 0.03
25 9 0.30
26 8 0.27
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
CTTAATTAACTTTAAACTAACATG
Found at i:2296352 original size:25 final size:25
Alignment explanation
Indices: 2296293--2296352 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
2296283 ATTAGGGATA
2296293 ATTAACTTAATTAATTTAAACTAATC
1 ATTAA-TTAATTAATTTAAACTAATC
***
2296319 ATGCTTTAATTAACTTTAAACTAATC
1 ATTAATTAATTAA-TTTAAACTAATC
2296345 -TTAATTAA
1 ATTAATTAA
2296353 CATAAGTGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTAATTAATTAATTTAAACTAATC
Found at i:2298238 original size:42 final size:42
Alignment explanation
Indices: 2298162--2298299 Score: 152
Period size: 42 Copynumber: 3.3 Consensus size: 42
2298152 ACCTCATGAG
* *
2298162 AGCTAAACAGAAACCCATAAGGGTTGAACGGAAGCTCGTAAA
1 AGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAA
* * * * * *
2298204 AGCTGAACGGAAACCCATAAGGGTTAAACAGAAGCACATTAG
1 AGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAA
* * * * *
2298246 AGCTGAAC-GAAACTCATATGAGTTAAACAGAAGCTCGTGAA
1 AGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAA
2298287 AGCTAAACAGAAA
1 AGCTAAACAGAAA
2298300 GAAACACAAA
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
41 33 0.42
42 46 0.58
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.15
Consensus pattern (42 bp):
AGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAA
Found at i:2308511 original size:17 final size:19
Alignment explanation
Indices: 2308489--2308523 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2308479 CTAAAATAGT
2308489 AACAATA-TTA-ACAATAA
1 AACAATAGTTATACAATAA
2308506 AACAATAGTTATACAATA
1 AACAATAGTTATACAATA
2308524 TTCAAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.26
Consensus pattern (19 bp):
AACAATAGTTATACAATAA
Found at i:2311553 original size:20 final size:21
Alignment explanation
Indices: 2311511--2311553 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
2311501 TATGCGAGTA
2311511 AAAATGAAAATAATATATTTT
1 AAAATGAAAATAATATATTTT
*
2311532 AAAA-GAAACTAATA-ATTATT
1 AAAATGAAAATAATATATT-TT
2311552 AA
1 AA
2311554 TAAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 13 0.65
21 4 0.20
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (21 bp):
AAAATGAAAATAATATATTTT
Found at i:2320382 original size:17 final size:17
Alignment explanation
Indices: 2320335--2320384 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
2320325 TTTCTATCAC
*
2320335 ATTAAATTTAAATATATA
1 ATTAAATATAAATAT-TA
2320353 ATTAAATAT-AATATT-
1 ATTAAATATAAATATTA
2320368 ATTATAATATAAATATT
1 ATTA-AATATAAATATT
2320385 TAAAATATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.14
16 6 0.21
17 11 0.38
18 8 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAAATATAAATATTA
Found at i:2322513 original size:29 final size:28
Alignment explanation
Indices: 2322450--2322537 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
2322440 GATGTTAAAA
*
2322450 ATAATTTTTAGTTATTTTTAGTCA-TTTAT
1 ATAATTTTTAGTTATTTTTA-T-ATTTTTT
*
2322479 AAAATTTTTAGTTATTTTTATATTTTTT
1 ATAATTTTTAGTTATTTTTATATTTTTT
* * * *
2322507 GGTAATTTTATAATTGTTTTTCTATTTTTT
1 -ATAATTTT-TAGTTATTTTTATATTTTTT
2322537 A
1 A
2322538 AATAATGTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.02
28 5 0.10
29 25 0.52
30 17 0.35
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (28 bp):
ATAATTTTTAGTTATTTTTATATTTTTT
Found at i:2327767 original size:17 final size:19
Alignment explanation
Indices: 2327733--2327767 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2327723 GATTTGACCA
2327733 GATAATATTAATATTTTGG
1 GATAATATTAATATTTTGG
2327752 GATAATA-TAA-ATTTTG
1 GATAATATTAATATTTTG
2327768 TCTATTCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (19 bp):
GATAATATTAATATTTTGG
Found at i:2330286 original size:17 final size:17
Alignment explanation
Indices: 2330261--2330294 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2330251 TCTTTAAAAT
2330261 TCTCATAATTTAATATC
1 TCTCATAATTTAATATC
* *
2330278 TCTCGTAATTTATTATC
1 TCTCATAATTTAATATC
2330295 ATGTGTTTTT
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:0.29, C:0.18, G:0.03, T:0.50
Consensus pattern (17 bp):
TCTCATAATTTAATATC
Found at i:2330508 original size:15 final size:15
Alignment explanation
Indices: 2330489--2330530 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
2330479 TTCTCATGTT
*
2330489 ATTTTTT-ATTCATA
1 ATTTTTTAATTAATA
2330503 ATTTTTTAATTAATA
1 ATTTTTTAATTAATA
*
2330518 ATTACTTTAATTA
1 ATT-TTTTAATTA
2330531 TATTCATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.29
15 9 0.38
16 8 0.33
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTTTAATTAATA
Found at i:2333009 original size:74 final size:74
Alignment explanation
Indices: 2332878--2333015 Score: 174
Period size: 74 Copynumber: 1.9 Consensus size: 74
2332868 GGGGGCATGG
* **
2332878 CCCCCAAGGTTTAAATTTTTTGTAATTTATCCCTTTTTAGATAAACTATGATTCTCTCAAAAATA
1 CCCCCAAGGTTTAAATTTTTTGTAATTTATCCCTTTGTAGATAAACTATGACCCTCTCAAAAATA
2332943 TAAGTAGGT
66 TAAGTAGGT
* * *
2332952 CCCCCAAGGTTTAAGA-TTTTTGTAATTT-CCTCCTTTGTATATATACTAT-AGCCCTCTCAAAA
1 CCCCCAAGGTTTAA-ATTTTTTGTAATTTATC-CCTTTGTAGATAAACTATGA-CCCTCTCAAAA
2333014 AT
63 AT
2333016 TGATTGTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
73 2 0.04
74 52 0.95
75 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (74 bp):
CCCCCAAGGTTTAAATTTTTTGTAATTTATCCCTTTGTAGATAAACTATGACCCTCTCAAAAATA
TAAGTAGGT
Found at i:2333215 original size:45 final size:45
Alignment explanation
Indices: 2333151--2333239 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
2333141 ATAATTATCA
*
2333151 AGTTAATCAGATTGAAAGTATTAATAATATTATACAAGTCCAAAT
1 AGTTAATCAGATTGAAAGTATTAATAATATAATACAAGTCCAAAT
2333196 AGTTAATCAGATTGAAAGTATTAATAATATAATACAAGTCCAAA
1 AGTTAATCAGATTGAAAGTATTAATAATATAATACAAGTCCAAA
2333240 ATACACTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.31
Consensus pattern (45 bp):
AGTTAATCAGATTGAAAGTATTAATAATATAATACAAGTCCAAAT
Found at i:2338448 original size:184 final size:184
Alignment explanation
Indices: 2338046--2338566 Score: 698
Period size: 184 Copynumber: 2.8 Consensus size: 184
2338036 AGACAAGACC
* * *
2338046 TGATTGTACATAAAAAATATACATTAGATACCATACGACAATCGAACCGGAACTAGAGACATAAC
1 TGATTGCACATGAAAAATATACATTAGATACCATACGACAATCGAACCGGAACTAGAGCCATAAC
*
2338111 GACCATAAACACAAATTATATGCACTTTTGTATCCCACAACAAACCAGCAGATACCGCATTAAGT
66 GACCATAAACACAATTTATATGCACTTTTGTATCCCACAACAAACCAGCAGATACCG-ATTAAGT
2338176 GCATCATCACTAAGATATTTAGGAAATATTTAACAGAACCGGAATCTAAGGTTCT
130 GCATCATCACTAAGATATTTAGGAAATATTTAACAGAACCGGAATCTAAGGTTCT
* * * *
2338231 TAATTGCACATGAAAAATATACATTCGATACCATATGACAATCGAACCAGAACTCA-AGCCATAA
1 TGATTGCACATGAAAAATATACATTAGATACCATACGACAATCGAACCGGAACT-AGAGCCATAA
* * *
2338295 CGACCATAAACACAATTTATATGCACTTTTGTATCCCACAACGATCCAGCAGATACTG-TGTAAG
65 CGACCATAAACACAATTTATATGCACTTTTGTATCCCACAACAAACCAGCAGATACCGAT-TAAG
* *
2338359 TGCAT-AGTCACTAAGA-ACTTTAGGAAATATTTAA-AGGAACTGGCATCTAAGGTTCT
129 TGCATCA-TCACTAAGATA-TTTAGGAAATATTTAACA-GAACCGGAATCTAAGGTTCT
*
2338415 TGATTGCACATGAAAAATATACATTAGATACCATAGGGA-AATCGAACCGGAACTAGAGCCATAA
1 TGATTGCACATGAAAAATATACATTAGATACCATA-CGACAATCGAACCGGAACTAGAGCCATAA
* * * * * * *
2338479 CGACCATTAGCACAATTTATGTGCAGTTTTGTATCCCACAATAAACCAGCAAATACC-ACATAAG
65 CGACCATAAACACAATTTATATGCACTTTTGTATCCCACAACAAACCAGCAGATACCGA-TTAAG
* *
2338543 TGCAT-AGTCATTAACATATTTAGG
129 TGCATCA-TCACTAAGATATTTAGG
2338567 CCACTTATAC
Statistics
Matches: 297, Mismatches: 29, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
183 5 0.02
184 179 0.60
185 112 0.38
186 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (184 bp):
TGATTGCACATGAAAAATATACATTAGATACCATACGACAATCGAACCGGAACTAGAGCCATAAC
GACCATAAACACAATTTATATGCACTTTTGTATCCCACAACAAACCAGCAGATACCGATTAAGTG
CATCATCACTAAGATATTTAGGAAATATTTAACAGAACCGGAATCTAAGGTTCT
Found at i:2345610 original size:40 final size:40
Alignment explanation
Indices: 2345512--2345681 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
2345502 TCCTCGTTCA
* ** *
2345512 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
*
2345551 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
* *
2345591 AATGCCTTCGGGACTTAACCTGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
* ** * *
2345631 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
*
2345671 AAGGCCTTCGG
1 AATGCCTTCGG
2345682 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 34 0.29
40 82 0.71
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
Found at i:2345616 original size:79 final size:80
Alignment explanation
Indices: 2345512--2345658 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 80
2345502 TCCTCGTTCA
* **
2345512 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACGAATGCCTTCGGGACATAACCCGGAT
2345576 TTAACAATTCGCACG
66 TTAACAATTCGCACG
* * * *
2345591 AATGCCTTCGGGACTTAACCTGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACGAATGCCTTCGGGACATAACCCGGAT
2345656 TTA
66 TTA
2345659 GTATCTCGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 33 0.55
80 27 0.45
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAATTCGCACG
Found at i:2345743 original size:41 final size:41
Alignment explanation
Indices: 2345666--2345743 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
2345656 TTAGTATCTC
* * *
2345666 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
2345707 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
2345744 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:2361352 original size:40 final size:40
Alignment explanation
Indices: 2361262--2361484 Score: 220
Period size: 40 Copynumber: 5.6 Consensus size: 40
2361252 TCCTCGTTCA
* * * * *
2361262 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
2361301 AATGCCTTCGGGA-TGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACT-TAACCCGGATTTAATAACTCGCACG
*
2361341 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
2361381 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
2361421 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
2361461 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
2361485 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 35 0.22
40 112 0.72
41 9 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:2361493 original size:41 final size:41
Alignment explanation
Indices: 2361416--2361493 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
2361406 TTAGTATCTC
* * *
2361416 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
2361457 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
2361494 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:2369273 original size:40 final size:40
Alignment explanation
Indices: 2369168--2369388 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
2369158 TCCTCGTTCA
* * * *
2369168 AATGCCTTCGGGACATAGCCCGG-TTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
2369206 AATGCCTTCGGGA-GTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
2369245 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
2369285 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
2369325 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
2369365 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
2369389 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
37 7 0.05
38 25 0.16
39 16 0.10
40 99 0.64
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:2369397 original size:41 final size:41
Alignment explanation
Indices: 2369320--2369397 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
2369310 TTAGTATCTC
* * *
2369320 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
2369361 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
2369398 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:2374109 original size:19 final size:19
Alignment explanation
Indices: 2374087--2374131 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
2374077 AAAGTTACAA
2374087 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
* *
2374106 AAAATTTTAAAATATTTAT
1 AAAAATTCAAAATATTTAT
2374125 AAAAATT
1 AAAAATT
2374132 TTAAAAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:2374111 original size:8 final size:9
Alignment explanation
Indices: 2374100--2374147 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
2374090 AATTCAAAAT
2374100 AATTTT-AA
1 AATTTTAAA
2374108 AATTTTAAA
1 AATTTTAAA
2374117 ATATTTATAAA
1 A-ATTT-TAAA
2374128 AATTTTAAA
1 AATTTTAAA
*
2374137 AATTCTAAA
1 AATTTTAAA
2374146 AA
1 AA
2374148 ATATATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
8 6 0.17
9 17 0.47
10 8 0.22
11 5 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTTTAAA
Found at i:2374131 original size:20 final size:19
Alignment explanation
Indices: 2374106--2374149 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2374096 AAATAATTTT
2374106 AAAATTTTAAAATATT-TATA
1 AAAATTTTAAAA-ATTCTA-A
2374126 AAAATTTTAAAAATTCTAA
1 AAAATTTTAAAAATTCTAA
2374145 AAAAT
1 AAAAT
2374150 ATATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTTAAAAATTCTAA
Found at i:2374131 original size:28 final size:28
Alignment explanation
Indices: 2374100--2374178 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 28
2374090 AATTCAAAAT
2374100 AATTTTAAAATTTTAAAATATTTATAAA
1 AATTTTAAAATTTTAAAATATTTATAAA
* * *
2374128 AATTTTAAAAATTCTAAAAAATATATAAA
1 AATTTT-AAAATTTTAAAATATTTATAAA
** *
2374157 AAAGTTAAGATTTTAAAATATT
1 AATTTTAAAATTTTAAAATATT
2374179 CTAAAATAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 18 0.44
29 23 0.56
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
AATTTTAAAATTTTAAAATATTTATAAA
Found at i:2374147 original size:10 final size:9
Alignment explanation
Indices: 2374086--2374164 Score: 59
Period size: 9 Copynumber: 8.2 Consensus size: 9
2374076 AAAAGTTACA
*
2374086 AAAAAATTC
1 AAAAAATTT
2374095 AAAATAATTT
1 AAAA-AATTT
* *
2374105 TAAAATTTT
1 AAAAAATTT
*
2374114 AAAATATTT
1 AAAAAATTT
2374123 ATAAAAATTT
1 A-AAAAATTT
*
2374133 TAAAAATTCT
1 AAAAAATT-T
2374143 AAAAAATATAT
1 AAAAAAT-T-T
*
2374154 AAAAAAGTT
1 AAAAAATTT
2374163 AA
1 AA
2374165 GATTTTAAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
9 25 0.45
10 22 0.40
11 8 0.15
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAAAATTT
Found at i:2380089 original size:13 final size:14
Alignment explanation
Indices: 2380064--2380095 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
2380054 CTTTTCCTTA
2380064 ATAATTAAAAAAAC
1 ATAATTAAAAAAAC
2380078 ATAATT-AAAAAAC
1 ATAATTAAAAAAAC
2380091 ATAAT
1 ATAAT
2380096 AACTTATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (14 bp):
ATAATTAAAAAAAC
Found at i:2380692 original size:38 final size:38
Alignment explanation
Indices: 2380641--2380716 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
2380631 ATGATGATTA
*
2380641 GTGTTCACCTTCTATACTATGTCGTGGATTCGAGTTAT
1 GTGTTCACCTTCTAGACTATGTCGTGGATTCGAGTTAT
*
2380679 GTGTTCACCTTCTAGACTATGTTGTGGATTCGAGTTAT
1 GTGTTCACCTTCTAGACTATGTCGTGGATTCGAGTTAT
2380717 AGTACCAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.42
Consensus pattern (38 bp):
GTGTTCACCTTCTAGACTATGTCGTGGATTCGAGTTAT
Found at i:2385655 original size:12 final size:12
Alignment explanation
Indices: 2385638--2385664 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2385628 GAAGGACTTG
2385638 TTTGCTCTTTGA
1 TTTGCTCTTTGA
2385650 TTTGCTCTTTGA
1 TTTGCTCTTTGA
2385662 TTT
1 TTT
2385665 AATGTATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.15, T:0.63
Consensus pattern (12 bp):
TTTGCTCTTTGA
Found at i:2389937 original size:16 final size:17
Alignment explanation
Indices: 2389902--2389940 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
2389892 AATGCAGGTG
2389902 AAAAATAAAATTATATA
1 AAAAATAAAATTATATA
* *
2389919 AAAAATATATTTATA-A
1 AAAAATAAAATTATATA
2389935 AAAAAT
1 AAAAAT
2389941 TGGTATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATAAAATTATATA
Found at i:2392225 original size:14 final size:15
Alignment explanation
Indices: 2392202--2392244 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
2392192 ATTTTAGAAG
*
2392202 TTTTTATATATTCTA
1 TTTTTATATATTATA
2392217 TTTTT-TATATTATA
1 TTTTTATATATTATA
2392231 TTTTATGATATATT
1 TTTT-T-ATATATT
2392245 TCAATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 12 0.50
15 6 0.25
17 6 0.25
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTTATATATTATA
Found at i:2395422 original size:28 final size:28
Alignment explanation
Indices: 2395372--2395437 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
2395362 AATTTTTAAA
* * *
2395372 TTTAAAATTTCAAAATATATAAAAATGT
1 TTTAAAAATTAAAAATATATAAAAATAT
**
2395400 TTTAAAAATTAAAAAT-TATTAAATTTAT
1 TTTAAAAATTAAAAATATA-TAAAAATAT
2395428 TTTAAAAATT
1 TTTAAAAATT
2395438 TTAATATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 2 0.06
28 30 0.94
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (28 bp):
TTTAAAAATTAAAAATATATAAAAATAT
Found at i:2395434 original size:21 final size:21
Alignment explanation
Indices: 2395408--2395461 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2395398 GTTTTAAAAA
*
2395408 TTAAAAATTATTAA-ATTTATT
1 TTAAAAATT-TTAATATATATT
2395429 TTAAAAATTTTAATATATATT
1 TTAAAAATTTTAATATATATT
* *
2395450 TTTAATATTTTA
1 TTAAAAATTTTA
2395462 TGATTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAAAAATTTTAATATATATT
Found at i:2400703 original size:28 final size:27
Alignment explanation
Indices: 2400630--2400703 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 27
2400620 CAAGGTCTAT
2400630 GAAGGGTCGTCTGCGGACCATTCCATAC
1 GAAGGGTC-TCTGCGGACCATTCCATAC
* ** *
2400658 GAAAGGT-TGCTTATGGACCATTCCATGC
1 GAAGGGTCT-C-TGCGGACCATTCCATAC
2400686 GAAGGGTCATCTGCGGAC
1 GAAGGGTC-TCTGCGGAC
2400704 TGTTCAATAG
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 31 0.89
29 1 0.03
30 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (27 bp):
GAAGGGTCTCTGCGGACCATTCCATAC
Found at i:2401217 original size:26 final size:26
Alignment explanation
Indices: 2401161--2401216 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
2401151 TTATTTTTTA
2401161 TTTTTATTTTTAAATTTTAAAAATAT
1 TTTTTATTTTTAAATTTTAAAAATAT
* *
2401187 TTTTTATTTTT-TATTTTTAAAATAT
1 TTTTTATTTTTAAATTTTAAAAATAT
2401212 TTTTT
1 TTTTT
2401217 TGTGTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTTATTTTTAAATTTTAAAAATAT
Found at i:2401224 original size:25 final size:25
Alignment explanation
Indices: 2401161--2401226 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
2401151 TTATTTTTTA
2401161 TTTTTATT-TTTAAATTTTAAAAATAT
1 TTTTTATTGTTT--ATTTTAAAAATAT
* *
2401187 TTTTTATTTTTTATTTTTAAAATAT
1 TTTTTATTGTTTATTTTAAAAATAT
2401212 TTTTT-TGTGTTTATT
1 TTTTTAT-TGTTTATT
2401227 AAAAATCGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
24 1 0.03
25 24 0.67
26 8 0.22
27 3 0.08
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (25 bp):
TTTTTATTGTTTATTTTAAAAATAT
Found at i:2401805 original size:7 final size:7
Alignment explanation
Indices: 2401793--2401817 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2401783 TATATATATT
2401793 TTTATAA
1 TTTATAA
2401800 TTTATAA
1 TTTATAA
2401807 TTTATAA
1 TTTATAA
2401814 TTTA
1 TTTA
2401818 ACAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTATAA
Found at i:2422284 original size:18 final size:18
Alignment explanation
Indices: 2422263--2422297 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2422253 ATATTAACTT
2422263 TTTTTAAAAAATAATTTA
1 TTTTTAAAAAATAATTTA
* *
2422281 TTTTTAAGAAATCATTT
1 TTTTTAAAAAATAATTT
2422298 TTAGTAAAAT
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:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTTTAAAAAATAATTTA
Found at i:2427104 original size:30 final size:31
Alignment explanation
Indices: 2427068--2427130 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
2427058 CTTTGGGGCT
2427068 ATATAATTAAAAAAT-ACGTAATTAATTTGA
1 ATATAATTAAAAAATGACGTAATTAATTTGA
2427098 ATATAATTAAAAAATGACGTAATTAATTTGA
1 ATATAATTAAAAAATGACGTAATTAATTTGA
2427129 AT
1 AT
2427131 TTAGTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 15 0.47
31 17 0.53
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (31 bp):
ATATAATTAAAAAATGACGTAATTAATTTGA
Found at i:2427139 original size:30 final size:30
Alignment explanation
Indices: 2427068--2427139 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
2427058 CTTTGGGGCT
*
2427068 ATATAATTAAAAAATACGTAATTAATTTGA
1 ATATAAGTAAAAAATACGTAATTAATTTGA
*
2427098 ATATAATTAAAAAATGACGTAATTAATTTGA
1 ATATAAGTAAAAAAT-ACGTAATTAATTTGA
*
2427129 AT-TTAGTAAAA
1 ATATAAGTAAAA
2427140 TAATTTTAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 22 0.56
31 17 0.44
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (30 bp):
ATATAAGTAAAAAATACGTAATTAATTTGA
Found at i:2432418 original size:20 final size:20
Alignment explanation
Indices: 2432381--2432421 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2432371 TATCTTACCA
* **
2432381 TGTTTAAATAATTTTTTTTT
1 TGTTGAAATAATAATTTTTT
2432401 TGTTGAAATAATAATTTTTT
1 TGTTGAAATAATAATTTTTT
2432421 T
1 T
2432422 AGTGAATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (20 bp):
TGTTGAAATAATAATTTTTT
Found at i:2441262 original size:15 final size:14
Alignment explanation
Indices: 2441242--2441271 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
2441232 CCGTTCTCTT
2441242 TCCTTCTCCTTTCTC
1 TCCTTCTCC-TTCTC
2441257 TCCTTCTCCTTCTC
1 TCCTTCTCCTTCTC
2441271 T
1 T
2441272 TTCCGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (14 bp):
TCCTTCTCCTTCTC
Found at i:2449352 original size:127 final size:127
Alignment explanation
Indices: 2449126--2449380 Score: 456
Period size: 127 Copynumber: 2.0 Consensus size: 127
2449116 TGATCAGCAT
* * * *
2449126 AACAAATCAACACTGAAGAGAGTATATAACATTTGAATTAAACAACGAAAATTAGACATGGCATG
1 AACAAATAAACACTGAAGAGAGTATATAACATTTGAATTAAACAACGAAAAATAGACAAGGCATA
*
2449191 ACCTCGTTATATTTCTGTTTAGCATACTATTTTATATCCTAGGAATGAGGACTTACTGTATC
66 ACCTCGTTATATTTCTGTTTAGCATACTATTTTATATCCCAGGAATGAGGACTTACTGTATC
2449253 AACAAATAAACACTGAAGAGAGTATATAACATTTGAATTAAACAACGAAAAATAGACAAGGCATA
1 AACAAATAAACACTGAAGAGAGTATATAACATTTGAATTAAACAACGAAAAATAGACAAGGCATA
*
2449318 ACCTCGTTATATTTCTGTTTAGCATACTATTTTATATCCCAGGGATGAGGACTTACTGTATC
66 ACCTCGTTATATTTCTGTTTAGCATACTATTTTATATCCCAGGAATGAGGACTTACTGTATC
2449380 A
1 A
2449381 GCAGAAGAAG
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 122 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (127 bp):
AACAAATAAACACTGAAGAGAGTATATAACATTTGAATTAAACAACGAAAAATAGACAAGGCATA
ACCTCGTTATATTTCTGTTTAGCATACTATTTTATATCCCAGGAATGAGGACTTACTGTATC
Found at i:2451106 original size:30 final size:31
Alignment explanation
Indices: 2451070--2451129 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
2451060 ATTTTTTAAA
2451070 TTTTTTAT-TTTAATTTAGTTTAG-TTTTTAT
1 TTTTTTATATTT-ATTTAGTTTAGCTTTTTAT
* *
2451100 TTTTTTATATTTTTTTATTTTAGCTTTTTA
1 TTTTTTATATTTATTTAGTTTAGCTTTTTA
2451130 GACTTGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (31 bp):
TTTTTTATATTTATTTAGTTTAGCTTTTTAT
Found at i:2452953 original size:100 final size:99
Alignment explanation
Indices: 2452781--2452979 Score: 326
Period size: 100 Copynumber: 2.0 Consensus size: 99
2452771 TCTAATGACC
*
2452781 TTCATCGAGATTTACTTAGTGCTTACTCGTCATGCTTAAAACATATGAATCATTTAAACGAGTAC
1 TTCATCGAGATTTACTTAGTGCTTACTCATCATGCTTAAAACATATGAATCATTTAAACGAGTAC
2452846 ATAACATGACATACACAATAAACCCAACAACAAA
66 ATAACATGACATACACAATAAACCCAACAACAAA
* *
2452880 TTCATCGAGATTTACTTAAGTGCTTAGTCATCATGCTTAAAACATATGAATTATTTAAACGAGTA
1 TTCATCGAGATTTACTT-AGTGCTTACTCATCATGCTTAAAACATATGAATCATTTAAACGAGTA
* * * *
2452945 CATAACATGGCTTACATAATAAACCCAATAACAAA
65 CATAACATGACATACACAATAAACCCAACAACAAA
2452980 ACCATATGGA
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 17 0.18
100 75 0.82
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (99 bp):
TTCATCGAGATTTACTTAGTGCTTACTCATCATGCTTAAAACATATGAATCATTTAAACGAGTAC
ATAACATGACATACACAATAAACCCAACAACAAA
Found at i:2454717 original size:14 final size:14
Alignment explanation
Indices: 2454663--2454718 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
2454653 ACAAATAAAG
*
2454663 TAATTAAATTTTTA
1 TAATTAAAATTTTA
**
2454677 TAATTAAAATTAGA
1 TAATTAAAATTTTA
* *
2454691 AAATATTAAATTTTA
1 TAAT-TAAAATTTTA
2454706 TAATTAAAATTTT
1 TAATTAAAATTTT
2454719 CCCATTTTGA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
TAATTAAAATTTTA
Found at i:2456161 original size:31 final size:32
Alignment explanation
Indices: 2456118--2456183 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
2456108 AATATAAAAT
* *
2456118 AGTCACTGAACTATTCGAAAATTTTTA-TTTA
1 AGTCACTAAACTATTCGAAAACTTTTATTTTA
* *
2456149 AGTCACTAAACTATTTGAAAGCTTTTATTTTA
1 AGTCACTAAACTATTCGAAAACTTTTATTTTA
2456181 AGT
1 AGT
2456184 TATTGGGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 23 0.77
32 7 0.23
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (32 bp):
AGTCACTAAACTATTCGAAAACTTTTATTTTA
Found at i:2456327 original size:78 final size:78
Alignment explanation
Indices: 2456198--2456354 Score: 287
Period size: 78 Copynumber: 2.0 Consensus size: 78
2456188 GGGTTGTTAA
2456198 GTTTTTATTCTTTCCAAAGTTTAGTTAACGAGCTCCAAGTGATAATTTGACGATTGGTGCGATGA
1 GTTTTTATTCTTTCCAAAGTTTAGTTAACGAGCTCCAAGTGATAATTTGACGATTGGTGCGATGA
2456263 ATCAATATCTATC
66 ATCAATATCTATC
** *
2456276 GTTTTTATTCTTTTTAAAGTTTGGTTAACGAGCTCCAAGTGATAATTTGACGATTGGTGCGATGA
1 GTTTTTATTCTTTCCAAAGTTTAGTTAACGAGCTCCAAGTGATAATTTGACGATTGGTGCGATGA
2456341 ATCAATATCTATC
66 ATCAATATCTATC
2456354 G
1 G
2456355 ATGAGTAAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.39
Consensus pattern (78 bp):
GTTTTTATTCTTTCCAAAGTTTAGTTAACGAGCTCCAAGTGATAATTTGACGATTGGTGCGATGA
ATCAATATCTATC
Found at i:2456936 original size:13 final size:12
Alignment explanation
Indices: 2456914--2456953 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
2456904 CAAACATGTT
*
2456914 TTTTAGTTTTTTA
1 TTTTA-TTTTTAA
2456927 TTTTATTTTTAA
1 TTTTATTTTTAA
2456939 TTTATATTTTTAA
1 TTT-TATTTTTAA
2456952 TT
1 TT
2456954 AATAACTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (12 bp):
TTTTATTTTTAA
Found at i:2457116 original size:22 final size:24
Alignment explanation
Indices: 2457091--2457140 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2457081 ACTTTTCTTT
2457091 ATATATAATTTTT-A-TATGTTAA
1 ATATATAATTTTTCATTATGTTAA
* *
2457113 ATATTTATTTTTTCATTATGTTAA
1 ATATATAATTTTTCATTATGTTAA
2457137 ATAT
1 ATAT
2457141 CATATATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 11 0.46
23 1 0.04
24 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
ATATATAATTTTTCATTATGTTAA
Found at i:2460533 original size:7 final size:7
Alignment explanation
Indices: 2460513--2460548 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
2460503 TAACAATTGG
*
2460513 ATCTTAA
1 ATCTGAA
*
2460520 ATTTGAA
1 ATCTGAA
2460527 ATCTGAA
1 ATCTGAA
2460534 ATCTGAA
1 ATCTGAA
2460541 ATCTGAA
1 ATCTGAA
2460548 A
1 A
2460549 AGTATAGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (7 bp):
ATCTGAA
Found at i:2467355 original size:139 final size:139
Alignment explanation
Indices: 2467096--2467369 Score: 401
Period size: 139 Copynumber: 2.0 Consensus size: 139
2467086 GTCCTATAAA
* * * *
2467096 GGAAATGGCTCCTATGACTAAGAAGGGAAAGAAAGCTAAATCTGTGAAGAAGGCTCGGAAAGTGA
1 GGAAATGCCTCCTATGACTAAGAAGGGAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGTGA
* * * *
2467161 TAAAGAGTATGTATCCTCTAGTCAAACGCACAAAGAAATTGAAATCTACTTCCTCTTAGCAGAGT
66 TAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACTCCCTCTTAGCAGAGT
2467226 CTGCTCAAG
131 CTGCTCAAG
*
2467235 GGAAATGCCTCCTATGTA-TAAGATGGTG-AAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGT
1 GGAAATGCCTCCTATG-ACTAAGAAGG-GAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGT
* *
2467298 GATAAAGAATGTGTATCCTCTAGTCAAACGAACGAAGAAATTGAAATCCA-TGCCCTCTTAGCAG
64 GATAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACT-CCCTCTTAGCAG
2467362 AGTCTGCT
128 AGTCTGCT
2467370 TTGTGAGTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
138 1 0.01
139 118 0.98
140 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (139 bp):
GGAAATGCCTCCTATGACTAAGAAGGGAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGTGA
TAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACTCCCTCTTAGCAGAGT
CTGCTCAAG
Found at i:2477909 original size:2 final size:2
Alignment explanation
Indices: 2477896--2477929 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2477886 AACATTCCTT
*
2477896 CA CA CC CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2477930 TGTATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.53, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2480173 original size:30 final size:30
Alignment explanation
Indices: 2480130--2480199 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
2480120 TTATGGGATC
* *
2480130 TGGATCAAATTAGTCGTTTTTATTATT-AAA
1 TGGATGAAATTAGTC-TTTATATTATTAAAA
*
2480160 TGGATGAATTTAGTCTTTATATTATTAAAA
1 TGGATGAAATTAGTCTTTATATTATTAAAA
*
2480190 AGGATGAAAT
1 TGGATGAAAT
2480200 AAGTTCAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (30 bp):
TGGATGAAATTAGTCTTTATATTATTAAAA
Done.