Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 30 of 345
Found at i:9295896 original size:33 final size:33
Alignment explanation
Indices: 9295836--9295906 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
9295826 GGACCGCGAA
* * * * *
9295836 CTCCCTTCGACTCTTGCAAGCTAATATCCCGAG
1 CTCCCTTCAACTCTCGCAAGCCAATATCACAAG
* *
9295869 CTCCCTTCAACTCTCGCGAGCCGATATCACAAG
1 CTCCCTTCAACTCTCGCAAGCCAATATCACAAG
9295902 CTCCC
1 CTCCC
9295907 CTAACTGTCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.41, G:0.14, T:0.24
Consensus pattern (33 bp):
CTCCCTTCAACTCTCGCAAGCCAATATCACAAG
Found at i:9300157 original size:38 final size:38
Alignment explanation
Indices: 9300062--9300227 Score: 170
Period size: 38 Copynumber: 4.3 Consensus size: 38
9300052 CGAGGTATAA
* * * * *
9300062 AACCCGAACATAACACCAGCAGGAAGCCTACGGGACTTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTT
* * * *
9300101 AAACTCAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
9300140 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
* ** * *
9300178 AACCCGGATATAATTCCAGCATAAAGCCTGAGGGTCTTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTT
9300217 AAGCCCGGATA
1 AA-CCCGGATA
9300228 CACATCAAAT
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
38 64 0.60
39 8 0.08
40 34 0.32
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:9300224 original size:78 final size:78
Alignment explanation
Indices: 9300062--9300227 Score: 185
Period size: 78 Copynumber: 2.1 Consensus size: 78
9300052 CGAGGTATAA
* * * * *
9300062 AACCCGAACATAACACCAGCAGGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTAG
1 AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAA
*
9300127 GCCTGCGGGATTT
66 GCCTGAGGGATTT
* * * *
9300140 AACCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATTCCAGCA-TAA
1 AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACT-A
*
9300202 AGCCTGAGGGTCTTT
65 AGCCTGAGGG-ATTT
9300217 AAGCCCGGATA
1 AA-CCCGGATA
9300228 CACATCAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
75 1 0.01
76 27 0.36
77 8 0.11
78 38 0.51
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (78 bp):
AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAA
GCCTGAGGGATTT
Found at i:9301437 original size:2 final size:2
Alignment explanation
Indices: 9301420--9301457 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
9301410 AGTATCACTT
*
9301420 TA TA AA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9301458 TCGACTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9302970 original size:37 final size:37
Alignment explanation
Indices: 9302911--9303019 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
9302901 AGCTCAGACG
* *
9302911 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
9302948 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
9302985 TAATCTCCACATGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
9303020 ATACATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:9303122 original size:48 final size:48
Alignment explanation
Indices: 9303064--9303355 Score: 548
Period size: 48 Copynumber: 6.0 Consensus size: 48
9303054 TGTTACAACA
9303064 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
9303112 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
9303160 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATA--TCACACATATAT
9303210 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
9303258 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
9303306 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
9303354 TT
1 TT
9303356 ATCTTGTACA
Statistics
Matches: 238, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
48 192 0.81
50 46 0.19
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:9303246 original size:146 final size:146
Alignment explanation
Indices: 9303064--9303353 Score: 562
Period size: 146 Copynumber: 2.0 Consensus size: 146
9303054 TGTTACAACA
9303064 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
9303129 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
* *
9303194 TATCTCATATATATAT
131 TATCACACATATATAT
9303210 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
9303275 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
9303340 TATCACACATATAT
131 TATCACACATATAT
9303354 TTATCTTGTA
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 142 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (146 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
TATCACACATATATAT
Found at i:9309883 original size:48 final size:48
Alignment explanation
Indices: 9309812--9309949 Score: 222
Period size: 48 Copynumber: 2.9 Consensus size: 48
9309802 TACAGATAAT
9309812 GTGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGATAC
1 GTGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGATAC
* *
9309860 GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATAC
1 GTGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGATAC
* * * *
9309908 GTGTGCCAGTGTAAGACCATATCTGGGATCTGACATCGGCAT
1 GTGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCAT
9309950 CGGTATGTGA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (48 bp):
GTGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGATAC
Found at i:9309969 original size:48 final size:49
Alignment explanation
Indices: 9309812--9309977 Score: 198
Period size: 48 Copynumber: 3.5 Consensus size: 49
9309802 TACAGATAAT
* *
9309812 GTGA-GCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGATAC
1 GTGATGCCAGTGTAAGACCATATCTGGGATCTGGCATCGGCATTGATAC
* *
9309860 GTGA-GCCAGTGTAAGACCATGTCTGGGA-CATGGCATCGACATTGATAC
1 GTGATGCCAGTGTAAGACCATATCTGGGATC-TGGCATCGGCATTGATAC
* * * *
9309908 GTG-TGCCAGTGTAAGACCATATCTGGGATCTGACATCGGCATCGGTAT
1 GTGATGCCAGTGTAAGACCATATCTGGGATCTGGCATCGGCATTGATAC
**
9309956 GTGATTTCA-TGTAAGACCATAT
1 GTGATGCCAGTGTAAGACCATAT
9309978 TTAGGATATG
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
48 100 0.96
49 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (49 bp):
GTGATGCCAGTGTAAGACCATATCTGGGATCTGGCATCGGCATTGATAC
Found at i:9309989 original size:96 final size:96
Alignment explanation
Indices: 9309816--9309989 Score: 224
Period size: 96 Copynumber: 1.8 Consensus size: 96
9309806 GATAATGTGA
* * * *
9309816 GCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGATACGTGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATATCTGGGATATGACATCGGCATCGATACGTGAGCCAGTGTAAGACCATA
*
9309881 TCTGGGACATGGCATCGACATTGATACGTGT
66 TCTAGGACATGGCATCGACATTGATACGTGT
* * * **
9309912 GCCAGTGTAAGACCATATCTGGGATCTGACATCGGCATCGGTATGTGATTTCA-TGTAAGACCAT
1 GCCAGTGTAAGACCATATCTGGGATATGACATCGGCATCGATACGTGA-GCCAGTGTAAGACCAT
* *
9309976 ATTTAGGATATGGC
65 ATCTAGGACATGGC
9309990 GTTGATATGA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
96 63 0.97
97 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (96 bp):
GCCAGTGTAAGACCATATCTGGGATATGACATCGGCATCGATACGTGAGCCAGTGTAAGACCATA
TCTAGGACATGGCATCGACATTGATACGTGT
Found at i:9310090 original size:90 final size:89
Alignment explanation
Indices: 9309996--9310170 Score: 217
Period size: 90 Copynumber: 1.9 Consensus size: 89
9309986 TGGCGTTGAT
* * * * *
9309996 ATGAGATTTCGTGTAAGATCATGTCTGGGACATGACATC-TATGTGAGACCCCGTATAAGACTAT
1 ATGAGATTTCGTATAAGACCATATCTGGGACATGACATCGTATGTG-GA-CCCATATAAGACCAT
*
9310060 GTCTGGGACATGGCATTGGCACCAAC
64 GTCGGGGACATGGCATTGGCACCAAC
* * * *
9310086 ATGAGATTTCGTATAAGACCATATCTGGGATATGGCATCGGTATGTGTACCCATGTAAGACCATG
1 ATGAGATTTCGTATAAGACCATATCTGGGACATGACATC-GTATGTGGACCCATATAAGACCATG
*
9310151 TCGGGGACATGGCTTTGGCA
65 TCGGGGACATGGCATTGGCA
9310171 TTTTATGTGG
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
90 65 0.90
91 1 0.01
92 6 0.08
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (89 bp):
ATGAGATTTCGTATAAGACCATATCTGGGACATGACATCGTATGTGGACCCATATAAGACCATGT
CGGGGACATGGCATTGGCACCAAC
Found at i:9311789 original size:17 final size:17
Alignment explanation
Indices: 9311767--9311800 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9311757 ATTTTTGTTT
9311767 AAAAAATATAAATATAC
1 AAAAAATATAAATATAC
*
9311784 AAAAAATATATATATAC
1 AAAAAATATAAATATAC
9311801 TATACTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAAATATAAATATAC
Found at i:9313444 original size:15 final size:15
Alignment explanation
Indices: 9313424--9313454 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9313414 GATAAGCATG
9313424 TAATTCACTGTTTCT
1 TAATTCACTGTTTCT
9313439 TAATTCACTGTTTCT
1 TAATTCACTGTTTCT
9313454 T
1 T
9313455 CCTGTCAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (15 bp):
TAATTCACTGTTTCT
Found at i:9313778 original size:39 final size:39
Alignment explanation
Indices: 9313735--9313890 Score: 267
Period size: 39 Copynumber: 4.0 Consensus size: 39
9313725 CGAAATGTAG
9313735 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
*
9313774 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
* * *
9313813 CTGAAGCACATAAGTACTAAATGGAAGCCCGGAGGCCAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
*
9313852 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
9313891 ACGGAAGCCC
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (39 bp):
CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
Found at i:9313897 original size:58 final size:58
Alignment explanation
Indices: 9313735--9313948 Score: 204
Period size: 58 Copynumber: 3.7 Consensus size: 58
9313725 CGAAATGTAG
* * **
9313735 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCT-AACTGAAGCACATAAGTG-CTAAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAAACGGAAGC-CCGAAG-GAC--AA
* * * * ** * * * *
9313795 CGGAAGCCCA-GAG-GCT-AACTGAAGCACATAAGTACTAAATGGAAGCCCGGAGGCCAA
1 CTGAAGCACATAAGTGCTAAACGGAAGC-CCGAAG-GCTAAACGGAAGCCCGAAGGACAA
*
9313852 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAAACGGAAGCCCGAAGGATAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAAACGGAAGCCCGAAGGACAA
9313910 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
9313949 CTGAGCTCAT
Statistics
Matches: 123, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
57 18 0.15
58 67 0.54
59 15 0.12
60 23 0.19
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (58 bp):
CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAAACGGAAGCCCGAAGGACAA
Found at i:9316487 original size:4 final size:4
Alignment explanation
Indices: 9316478--9316539 Score: 51
Period size: 4 Copynumber: 16.0 Consensus size: 4
9316468 GAGACTTATC
*
9316478 TCTT TCTT TCTT CTCTT T-TT T-TT CTCTT TC-T TC-T TCTT TTTT TCTT
1 TCTT TCTT TCTT -TCTT TCTT TCTT -TCTT TCTT TCTT TCTT TCTT TCTT
* *
9316524 TCTT CCTT TCCT TCTT
1 TCTT TCTT TCTT TCTT
9316540 GGCCTTCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
3 11 0.23
4 31 0.65
5 6 0.12
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:9316507 original size:20 final size:19
Alignment explanation
Indices: 9316480--9316532 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 19
9316470 GACTTATCTC
9316480 TTTCTTTCTTCTCTTTTTT
1 TTTCTTTCTTCTCTTTTTT
*
9316499 TTCTCTTTCTTCT-TCTTTT
1 TT-TCTTTCTTCTCTTTTTT
9316518 TTTCTTTCTTC-CTTT
1 TTTCTTTCTTCTCTTT
9316533 CCTTCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTCTTTCTTCTCTTTTTT
Found at i:9316508 original size:24 final size:24
Alignment explanation
Indices: 9316476--9316539 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
9316466 CCGAGACTTA
9316476 TCTCTTTCTTTCTTCTCTTTTTT-T
1 TCTCTTTCTTTCTTCT-TTTTTTCT
9316500 TCTCTTTC-TTCTTCTTTTTTTCT
1 TCTCTTTCTTTCTTCTTTTTTTCT
*
9316523 T-TCTTCCTTTCCTTCTT
1 TCTCTTTCTTT-CTTCTT
9316540 GGCCTTCTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 11 0.31
23 11 0.31
24 14 0.39
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (24 bp):
TCTCTTTCTTTCTTCTTTTTTTCT
Found at i:9316512 original size:18 final size:18
Alignment explanation
Indices: 9316480--9316528 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 18
9316470 GACTTATCTC
*
9316480 TTTCTTTCTTCTCTTTTTT
1 TTTCTTTCTTCT-TCTTTT
9316499 TTCTCTTTCTTCTTCTTTT
1 TT-TCTTTCTTCTTCTTTT
9316518 TTTCTTTCTTC
1 TTTCTTTCTTC
9316529 CTTTCCTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 9 0.32
20 10 0.36
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTCTTCTTCTTTT
Found at i:9317226 original size:12 final size:13
Alignment explanation
Indices: 9317199--9317227 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9317189 CGATCCGCTT
9317199 TTATTTAAATAAA
1 TTATTTAAATAAA
9317212 TTATTTAAA-AAA
1 TTATTTAAATAAA
9317224 TTAT
1 TTAT
9317228 AAAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTATTTAAATAAA
Found at i:9347276 original size:10 final size:10
Alignment explanation
Indices: 9347261--9347286 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9347251 TAAGCTGAAT
9347261 AGAAATAGAA
1 AGAAATAGAA
9347271 AGAAATAGAA
1 AGAAATAGAA
9347281 AGAAAT
1 AGAAAT
9347287 GTGCTTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (10 bp):
AGAAATAGAA
Found at i:9350354 original size:34 final size:34
Alignment explanation
Indices: 9350311--9350378 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
9350301 CCTGTAAAAA
9350311 TGGTTGATTTTAAATAGGGAAAAAACTTAAATTG
1 TGGTTGATTTTAAATAGGGAAAAAACTTAAATTG
9350345 TGGTTGATTTTAAATAGGGAAAAAACTTAAATTG
1 TGGTTGATTTTAAATAGGGAAAAAACTTAAATTG
9350379 AACACCAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (34 bp):
TGGTTGATTTTAAATAGGGAAAAAACTTAAATTG
Found at i:9356311 original size:3 final size:3
Alignment explanation
Indices: 9356303--9356334 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9356293 TCTCATTTCT
9356303 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
9356335 AGGTTGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:9363765 original size:38 final size:41
Alignment explanation
Indices: 9363715--9363880 Score: 167
Period size: 46 Copynumber: 3.9 Consensus size: 41
9363705 CTGATATGAA
9363715 ATGTGTAAGACCATGGTTGAAAGATACCATGACAACC-T-G
1 ATGTGTAAGACCATGGTTGAAAGATACCATGACAACCATAG
*
9363754 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGACAACC----AT-AG
*
9363799 ATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGACAAC----CAT-AG
* ** *
9363845 AAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
9363881 ATGACAGAAA
Statistics
Matches: 108, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
38 35 0.32
43 1 0.01
45 1 0.01
46 70 0.65
50 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (41 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGACAACCATAG
Found at i:9363821 original size:46 final size:46
Alignment explanation
Indices: 9363757--9363924 Score: 221
Period size: 46 Copynumber: 3.7 Consensus size: 46
9363747 CAACCTGTGT
* * * *
9363757 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* * *
9363803 GTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
*
9363849 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
* * *
9363895 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
9363925 TCACGTCAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 106 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:9364230 original size:23 final size:25
Alignment explanation
Indices: 9364185--9364231 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9364175 AATAAATATA
*
9364185 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
9364210 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
9364232 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:9375028 original size:46 final size:46
Alignment explanation
Indices: 9374976--9375113 Score: 231
Period size: 46 Copynumber: 3.0 Consensus size: 46
9374966 AGTGTGCTCT
*
9374976 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
9375022 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
9375068 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
9375114 ATGACAGAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:9375119 original size:46 final size:46
Alignment explanation
Indices: 9374991--9375166 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
9374981 ATGAAATGTG
* * * *
9374991 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
*
9375037 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
9375083 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-G-A--A
* * * *
9375132 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -TAAGACCATGGTTGAAAGATACCATGGCAACATG
9375167 TCAAAGTTAA
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
45 5 0.04
46 79 0.68
47 1 0.01
49 1 0.01
50 30 0.26
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
Found at i:9376959 original size:13 final size:14
Alignment explanation
Indices: 9376913--9376959 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
9376903 TTATAAAAAC
9376913 ACAATTTTACTCTT
1 ACAATTTTACTCTT
* *
9376927 A-AATTATACCCTT
1 ACAATTTTACTCTT
*
9376940 CCAATTTTACTC-T
1 ACAATTTTACTCTT
9376953 ACAATTT
1 ACAATTT
9376960 CTAATAAAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (14 bp):
ACAATTTTACTCTT
Found at i:9377204 original size:29 final size:30
Alignment explanation
Indices: 9377172--9377230 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
9377162 ATTTTAATGA
9377172 ATAATTATTTAA-TTTTTTTATATTTTTAT
1 ATAATTATTTAATTTTTTTTATATTTTTAT
9377201 ATAATTATTTAATTTTTTTTATATTTTTAT
1 ATAATTATTTAATTTTTTTTATATTTTTAT
9377231 TCCTAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (30 bp):
ATAATTATTTAATTTTTTTTATATTTTTAT
Found at i:9382961 original size:13 final size:14
Alignment explanation
Indices: 9382935--9382963 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9382925 ACTAACGACA
9382935 AATTAAACCATTAT
1 AATTAAACCATTAT
9382949 AATTAAA-CATTAT
1 AATTAAACCATTAT
9382962 AA
1 AA
9382964 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:9383949 original size:3 final size:3
Alignment explanation
Indices: 9383941--9383992 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
9383931 AAATATTTAC
9383941 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
9383990 TTA
1 TTA
9383993 ATTGAGATAG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9384206 original size:5 final size:5
Alignment explanation
Indices: 9384196--9384222 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
9384186 AGAAAGAAAG
9384196 AAGAA AAGAA AAGAA AAGAA AAGAA AA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AA
9384223 AGGAGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:9385619 original size:13 final size:13
Alignment explanation
Indices: 9385597--9385632 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
9385587 TGATAGTTTG
9385597 GTATGAATTTATAT
1 GTATG-ATTTATAT
*
9385611 GTATGATTTGTAT
1 GTATGATTTATAT
9385624 GTATGATTT
1 GTATGATTT
9385633 TCTAATTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (13 bp):
GTATGATTTATAT
Found at i:9386195 original size:20 final size:20
Alignment explanation
Indices: 9386167--9386205 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9386157 GCCTAGCCCC
*
9386167 ACGGCCATGTTCCAGGCCAT
1 ACGGCCATGTCCCAGGCCAT
*
9386187 ACGGGCATGTCCCAGGCCA
1 ACGGCCATGTCCCAGGCCA
9386206 CATGGGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.15
Consensus pattern (20 bp):
ACGGCCATGTCCCAGGCCAT
Found at i:9390426 original size:38 final size:36
Alignment explanation
Indices: 9390352--9390431 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 36
9390342 CCCGGCCCAT
*
9390352 ACCATAAACTTAACATACTATACCATTGAACCCTAA
1 ACCATAAACTTAAAATACTATACCATTGAACCCTAA
*
9390388 ACCATAAACTTAAAATA-TATTCTACGATTGAACCCTAA
1 ACCATAAACTTAAAATACTA---TACCATTGAACCCTAA
9390426 ACCATA
1 ACCATA
9390432 TGCCTTAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 2 0.05
36 16 0.41
38 21 0.54
ACGTcount: A:0.45, C:0.25, G:0.04, T:0.26
Consensus pattern (36 bp):
ACCATAAACTTAAAATACTATACCATTGAACCCTAA
Found at i:9390586 original size:7 final size:7
Alignment explanation
Indices: 9390574--9390667 Score: 62
Period size: 7 Copynumber: 13.1 Consensus size: 7
9390564 GATTTTTGGG
9390574 GGGTTTA
1 GGGTTTA
9390581 GGGTTTTA
1 GGG-TTTA
*
9390589 GAGTTTA
1 GGGTTTA
* *
9390596 TGGATTA
1 GGGTTTA
*
9390603 GTGTTTA
1 GGGTTTA
*
9390610 GTGTTTA
1 GGGTTTA
* *
9390617 TGTTTTA
1 GGGTTTA
**
9390624 GAATTTA
1 GGGTTTA
9390631 GGGTTTA
1 GGGTTTA
9390638 GGGTTTA
1 GGGTTTA
**
9390645 ATGTTTA
1 GGGTTTA
*
9390652 GGATTTAA
1 GGGTTT-A
9390660 GGGTTTA
1 GGGTTTA
9390667 G
1 G
9390668 AGAAAGCCAT
Statistics
Matches: 64, Mismatches: 21, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
7 52 0.81
8 12 0.19
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (7 bp):
GGGTTTA
Found at i:9391181 original size:41 final size:41
Alignment explanation
Indices: 9390951--9391192 Score: 193
Period size: 41 Copynumber: 5.9 Consensus size: 41
9390941 AACTTTTTGA
* * * * * * *
9390951 GGCGTTTGGACCAAAAA-GCCGCTGTAGATAAACTTTTTTGC
1 GGCGTTTGAACCAAAAACGCCGCTATTGAT-CAGTTTTTAGT
* *
9390992 GGTGTTTGGACCAAAAACGCCGCTATTGATCAG-TTTTAGT
1 GGCGTTTGAACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * *
9391032 GGCTTTTGAACCAAAAACACCGCTATTGCTTAGTTTTTGGT
1 GGCGTTTGAACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * ** *
9391073 GGTGTTT-TACATAAAAACGTCGCTATACATTAGTTTTTAGT
1 GGCGTTTGAAC-CAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
9391114 GGCGTTTTAGCTAAAAACGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGAACCAAAAACGCCGCTATTGATCAGTTTTTAGT
** * *
9391155 GGCGTTTGGGCCAAAAACGCCACTATTGTTCAGTTTTT
1 GGCGTTTGAACCAAAAACGCCGCTATTGATCAGTTTTT
9391193 TGCAAACACC
Statistics
Matches: 161, Mismatches: 36, Indels: 8
0.79 0.18 0.04
Matches are distributed among these distances:
40 34 0.21
41 116 0.72
42 11 0.07
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (41 bp):
GGCGTTTGAACCAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:9393267 original size:26 final size:26
Alignment explanation
Indices: 9393231--9393280 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
9393221 GGAATTAAAA
*
9393231 GTATGCCCATATTGTGGCTTTTCTCT
1 GTATACCCATATTGTGGCTTTTCTCT
9393257 GTATACCCATATTGTGGCTTTTCT
1 GTATACCCATATTGTGGCTTTTCT
9393281 TTGTTGAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (26 bp):
GTATACCCATATTGTGGCTTTTCTCT
Found at i:9396789 original size:43 final size:43
Alignment explanation
Indices: 9396734--9396827 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
9396724 AAGATCATGA
* *
9396734 CTTTTAGAGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCACGG
1 CTTTTAGCGGCGTTTGTGGGAGAAACGCCGCTAAAAGTCACGG
* * *
9396777 CTTTTAGCGGCGTTTTTGGGTGAAACTCCGCTAAAAGTCACGG
1 CTTTTAGCGGCGTTTGTGGGAGAAACGCCGCTAAAAGTCACGG
9396820 CTTTTAGC
1 CTTTTAGC
9396828 TGCGCTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (43 bp):
CTTTTAGCGGCGTTTGTGGGAGAAACGCCGCTAAAAGTCACGG
Found at i:9397231 original size:21 final size:21
Alignment explanation
Indices: 9397207--9397252 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9397197 CTGCCATCGT
* *
9397207 TGCTACCTCTGCCTTCCTCGC
1 TGCTACCACTGCCTCCCTCGC
*
9397228 TGCTGCCACTGCCTCCCTCGC
1 TGCTACCACTGCCTCCCTCGC
9397249 TGCT
1 TGCT
9397253 GCATCCGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.48, G:0.17, T:0.30
Consensus pattern (21 bp):
TGCTACCACTGCCTCCCTCGC
Found at i:9397253 original size:21 final size:21
Alignment explanation
Indices: 9397215--9397254 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9397205 GTTGCTACCT
*
9397215 CTGCCTTCCTCGCTGCTGCCA
1 CTGCCTCCCTCGCTGCTGCCA
9397236 CTGCCTCCCTCGCTGCTGC
1 CTGCCTCCCTCGCTGCTGC
9397255 ATCCGCTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.03, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCA
Found at i:9397693 original size:13 final size:14
Alignment explanation
Indices: 9397667--9397695 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9397657 ACTAACGACG
9397667 AATTAAACCATTAT
1 AATTAAACCATTAT
9397681 AATTAAA-CATTAT
1 AATTAAACCATTAT
9397694 AA
1 AA
9397696 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:9400397 original size:14 final size:14
Alignment explanation
Indices: 9400380--9400452 Score: 65
Period size: 14 Copynumber: 4.9 Consensus size: 14
9400370 TTTTTAAGAT
*
9400380 TTTAGGGTTTATGG
1 TTTAGGGTTTATAG
* * *
9400394 TTTAAGAGTTTAAAT
1 TTT-AGGGTTTATAG
9400409 TTTAGGGTTTATAG
1 TTTAGGGTTTATAG
9400423 TTTAGGGTTTGGGATAG
1 TTTAGGGTTT---ATAG
9400440 TTTATGGGTTTAT
1 TTTA-GGGTTTAT
9400453 GGGTTAGGAG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
14 21 0.45
15 12 0.26
17 8 0.17
18 6 0.13
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATAG
Found at i:9400470 original size:21 final size:22
Alignment explanation
Indices: 9400441--9400493 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
9400431 TTGGGATAGT
*
9400441 TTATGGGTTTATGGGTTAGGAG
1 TTATGGGTTAATGGGTTAGGAG
*
9400463 TTA-GGGTTAATGGGTTAGGAT
1 TTATGGGTTAATGGGTTAGGAG
9400484 TTATGGGTTA
1 TTATGGGTTA
9400494 GGGTATAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.42
Consensus pattern (22 bp):
TTATGGGTTAATGGGTTAGGAG
Found at i:9400481 original size:14 final size:14
Alignment explanation
Indices: 9400462--9400503 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
9400452 TGGGTTAGGA
9400462 GTTAGGGTTAATGG
1 GTTAGGGTTAATGG
* *
9400476 GTTAGGATTTATGG
1 GTTAGGGTTAATGG
9400490 GTTAGGGTATAATG
1 GTTAGGGT-TAATG
9400504 TTTCGAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
GTTAGGGTTAATGG
Found at i:9400540 original size:22 final size:22
Alignment explanation
Indices: 9400503--9400544 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9400493 AGGGTATAAT
*
9400503 GTTTCGAGTTTTAAGGGTTTATG
1 GTTTCGAGATTTAA-GGTTTATG
9400526 GTTT-GAGATTTAAGGTTTA
1 GTTTCGAGATTTAAGGTTTA
9400545 AAGGTTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (22 bp):
GTTTCGAGATTTAAGGTTTATG
Found at i:9400577 original size:24 final size:23
Alignment explanation
Indices: 9400533--9400577 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
9400523 ATGGTTTGAG
*
9400533 ATTTAAGGTTTAAAGGTTTAGTA
1 ATTTAAGGTTTAAAGGGTTAGTA
**
9400556 ATTTAAAGGTTTAGTGGGTTAG
1 ATTT-AAGGTTTAAAGGGTTAG
9400578 GGTTTAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 4 0.22
24 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (23 bp):
ATTTAAGGTTTAAAGGGTTAGTA
Found at i:9400900 original size:15 final size:15
Alignment explanation
Indices: 9400876--9400905 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9400866 TAGTTTGTTA
9400876 TAATTGTAATATATT
1 TAATTGTAATATATT
*
9400891 TAATTTTAATATATT
1 TAATTGTAATATATT
9400906 AAAACTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TAATTGTAATATATT
Found at i:9401409 original size:141 final size:140
Alignment explanation
Indices: 9401164--9401435 Score: 431
Period size: 141 Copynumber: 1.9 Consensus size: 140
9401154 TCGTTCCGCT
* *
9401164 ACCTATAGTGGTGCTCTCTTAAAAACGCCGCTAATGCTTGATCTATTGCGGCATTTTTAGAAAGC
1 ACCTATAGTGGTGCTCTCTTAAAAACGCCGCTAATGCTCGATCTATTGCAGCATTTTTAGAAAGC
*
9401229 GCCGCTAATACCACTGAAGCTCAAAATAAACGACGTCGTTC-GGCTTAATCTTTTAGCGGTGTTT
66 GCCGCTAATACCACTGAAGCTCAAAATAAACGACGTCGTTCAGG-TTAATCTTTTAGCGGCGTTT
9401293 TTTATAAGTCA
130 TTTATAAGTCA
* * * *
9401304 ACCTATAGTGGTGCTTTCTTAAAAATGCCGCTAATGCTCGATCTATTGCAGCGTTCTTGT-GAAG
1 ACCTATAGTGGTGCTCTCTTAAAAACGCCGCTAATGCTCGATCTATTGCAGCATT-TT-TAGAAA
*
9401368 GCGCCGCTAATGCCACTGAAGCTCAAAATAAACGACGTCGTTCAGGTTAATCTTTTAGCGGCGTT
64 GCGCCGCTAATACCACTGAAGCTCAAAATAAACGACGTCGTTCAGGTTAATCTTTTAGCGGCGTT
9401433 TTT
129 TTT
9401436 AAACTCGATG
Statistics
Matches: 121, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
140 50 0.41
141 68 0.56
142 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (140 bp):
ACCTATAGTGGTGCTCTCTTAAAAACGCCGCTAATGCTCGATCTATTGCAGCATTTTTAGAAAGC
GCCGCTAATACCACTGAAGCTCAAAATAAACGACGTCGTTCAGGTTAATCTTTTAGCGGCGTTTT
TTATAAGTCA
Found at i:9409444 original size:47 final size:41
Alignment explanation
Indices: 9409367--9409459 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 41
9409357 CAAAACTATT
9409367 AAATTTAAATTTTATTATTTATTTGTAAAAAATATTTTTTA
1 AAATTTAAATTTTATTATTTATTTGTAAAAAATATTTTTTA
* *
9409408 AAATTTAAATTTTGTATTATTTATTTGTACCAAAAAAATATTTTA
1 AAATTTAAA-TTT-TATTATTTATTTGTA--AAAAATATTTTTTA
*
9409453 AATTTTA
1 AAATTTA
9409460 TCATTTATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
41 9 0.20
42 3 0.07
43 15 0.33
45 18 0.40
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (41 bp):
AAATTTAAATTTTATTATTTATTTGTAAAAAATATTTTTTA
Found at i:9411504 original size:13 final size:13
Alignment explanation
Indices: 9411486--9411511 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9411476 TGAAATACCA
9411486 ATTAAATAGCTTT
1 ATTAAATAGCTTT
9411499 ATTAAATAGCTTT
1 ATTAAATAGCTTT
9411512 TGGAGGGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTAAATAGCTTT
Found at i:9414171 original size:13 final size:13
Alignment explanation
Indices: 9414155--9414180 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9414145 ATGATTGGTT
9414155 TAATTAAGATGTA
1 TAATTAAGATGTA
9414168 TAATTAAGATGTA
1 TAATTAAGATGTA
9414181 AACTAGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
TAATTAAGATGTA
Found at i:9416361 original size:34 final size:33
Alignment explanation
Indices: 9416313--9416385 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 33
9416303 TCAGTGGCAA
9416313 TATCAGTGTAGGCCTTAACCCAATACAGTAACAG
1 TATCAGTGTAGGCCTTAACCCAATACAGT-ACAG
* * * *
9416347 TATCAGTGTGGGCCTTAGCCCAATTCAGTATAG
1 TATCAGTGTAGGCCTTAACCCAATACAGTACAG
9416380 TATCAG
1 TATCAG
9416386 AGATGCATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
33 9 0.26
34 26 0.74
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (33 bp):
TATCAGTGTAGGCCTTAACCCAATACAGTACAG
Found at i:9417843 original size:46 final size:46
Alignment explanation
Indices: 9417783--9418048 Score: 325
Period size: 46 Copynumber: 6.0 Consensus size: 46
9417773 TTTGACGTGA
* * * * * *
9417783 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
9417829 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
9417875 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCACATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9417921 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
9417967 TGTCATGGTATCTTTCAACTATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9418005 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
9418049 AGAGCACACT
Statistics
Matches: 192, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
38 31 0.16
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 147 0.77
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:9418013 original size:38 final size:38
Alignment explanation
Indices: 9417962--9418037 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
9417952 CATTTCATAT
* *
9417962 CAGGTTGTCATGGTATCTTTCAACTATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
9418000 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
9418038 TTTCATATCA
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:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:9421938 original size:14 final size:13
Alignment explanation
Indices: 9421909--9421953 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
9421899 AGTGGGTGGA
9421909 AATAATATT-A-T
1 AATAATATTAAGT
9421920 AATAATATTAAAGT
1 AATAATATT-AAGT
*
9421934 TATAATA-TAAGT
1 AATAATATTAAGT
9421946 AATAATAT
1 AATAATAT
9421954 GTATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 9 0.32
12 10 0.36
13 2 0.07
14 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAATATTAAGT
Found at i:9423290 original size:50 final size:51
Alignment explanation
Indices: 9423097--9423289 Score: 162
Period size: 50 Copynumber: 3.8 Consensus size: 51
9423087 ATCTTGTATT
* * *
9423097 TATTCGGCCACATAGGTATGTACATATGTGATGTTATA-TTGAATCTTGAA
1 TATTCGGCCATATAGGTATGCACATATGTGATATTATATTTGAATCTTGAA
* * * * *
9423147 TATTTGACCATGA-AGGTATGCACAAAAGTGATATTATATTTGAAT-TTGTA
1 TATTCGGCCAT-ATAGGTATGCACATATGTGATATTATATTTGAATCTTGAA
* * * * * * * *
9423197 TATTCAGCCATAT-GAGTAAGTACTTAGGTGATGTTAAATTTG-ATCTTGCA
1 TATTCGGCCATATAG-GTATGCACATATGTGATATTATATTTGAATCTTGAA
* * *
9423247 TATTTGGCCATATAGGTATGCACATTTGTGATATTATCTTTGA
1 TATTCGGCCATATAGGTATGCACATATGTGATATTATATTTGA
9423290 TTCTCTATAA
Statistics
Matches: 107, Mismatches: 29, Indels: 13
0.72 0.19 0.09
Matches are distributed among these distances:
49 4 0.04
50 95 0.89
51 8 0.07
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (51 bp):
TATTCGGCCATATAGGTATGCACATATGTGATATTATATTTGAATCTTGAA
Found at i:9423356 original size:2 final size:2
Alignment explanation
Indices: 9423349--9423373 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9423339 GATTCACGAG
9423349 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9423374 TTTGAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9430673 original size:3 final size:3
Alignment explanation
Indices: 9430665--9430708 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
9430655 GGGGTTTAAA
* * * *
9430665 AAT AAT AAT ATT AAT AAT AAT GAT AGT AAT ATT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9430709 CAACAAAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:9430683 original size:15 final size:15
Alignment explanation
Indices: 9430660--9430704 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
9430650 AAAGAGGGGT
*
9430660 TTAAAAATAATAATA
1 TTAATAATAATAATA
*
9430675 TTAATAATAATGATA
1 TTAATAATAATAATA
* *
9430690 GTAATATTAATAATA
1 TTAATAATAATAATA
9430705 ATAACAACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (15 bp):
TTAATAATAATAATA
Found at i:9430793 original size:22 final size:24
Alignment explanation
Indices: 9430748--9430817 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 24
9430738 AATAAAGGGT
* *
9430748 ATAAATA-AACAATAAAATGATAAA
1 ATAAATAGAA-AATAAAAAGGTAAA
*
9430772 ATAAA-A-TAAATAAAAAGGT-AA
1 ATAAATAGAAAATAAAAAGGTAAA
*
9430793 ATAAATAGAAAACAAAAAGGTAAA
1 ATAAATAGAAAATAAAAAGGTAAA
9430817 A
1 A
9430818 GGGTGAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 7 0.18
22 10 0.26
23 13 0.34
24 8 0.21
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.17
Consensus pattern (24 bp):
ATAAATAGAAAATAAAAAGGTAAA
Found at i:9430901 original size:24 final size:23
Alignment explanation
Indices: 9430874--9430930 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
9430864 ATAGAAGTTG
9430874 AAAATAAATAAAG-ATGTAAAATAT
1 AAAATAAATAAAGTAT-TAAAA-AT
*
9430898 AAAATGAA-AAAGTATTAAAAAT
1 AAAATAAATAAAGTATTAAAAAT
9430920 -AAATAAATAAA
1 AAAATAAATAAA
9430931 TAAATATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 6 0.21
22 5 0.17
23 9 0.31
24 9 0.31
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAATAAATAAAGTATTAAAAAT
Found at i:9431098 original size:3 final size:3
Alignment explanation
Indices: 9431090--9431185 Score: 83
Period size: 3 Copynumber: 32.3 Consensus size: 3
9431080 ATGATTTAAA
* * *
9431090 AAT AAT AAT GAT AAT AAA AAT AAT AGT AAT AAT AAT AAT AAT GAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * *
9431136 -AT AAAT AAT AAT AA- AAG AA- AAT AAT AAT AAA AAT AACT AAT -TT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
9431179 AAT AAT A
1 AAT AAT A
9431186 GAGTAGCTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
2 7 0.09
3 61 0.80
4 8 0.11
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9434331 original size:17 final size:17
Alignment explanation
Indices: 9434287--9434333 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 17
9434277 ATCAAAAAAT
9434287 AATTTAAAATTTATTAAA
1 AATTTAAAA-TTATTAAA
*
9434305 AAATTAAAATTA-TAAA
1 AATTTAAAATTATTAAA
9434321 AATTTATAAATTA
1 AATTTA-AAATTA
9434334 ACATAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 9 0.35
17 9 0.35
18 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTTAAAATTATTAAA
Found at i:9434738 original size:20 final size:20
Alignment explanation
Indices: 9434701--9434740 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9434691 TTGGGTAGTT
*
9434701 TCAATTTGGTATTTGTGTTC
1 TCAATTTGATATTTGTGTTC
9434721 TCAATTTGAT-TTTGGTGTTC
1 TCAATTTGATATTT-GTGTTC
9434741 AATATTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.15, C:0.10, G:0.20, T:0.55
Consensus pattern (20 bp):
TCAATTTGATATTTGTGTTC
Found at i:9435777 original size:19 final size:19
Alignment explanation
Indices: 9435740--9435777 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9435730 CCGCAATCCG
*
9435740 AAAATTTTCAATAAGAAAT
1 AAAATTTTCAAGAAGAAAT
9435759 AAAATTTTCCAAGAA-AAAT
1 AAAATTTT-CAAGAAGAAAT
9435778 GCTAAGGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAATTTTCAAGAAGAAAT
Found at i:9436141 original size:16 final size:16
Alignment explanation
Indices: 9436122--9436157 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
9436112 AACCTAACCC
*
9436122 AAAAAAAAA-ACAAAG
1 AAAAAAAAAGAAAAAG
9436137 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
9436153 AAAAA
1 AAAAA
9436158 CCTACCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:9436172 original size:16 final size:16
Alignment explanation
Indices: 9436153--9436189 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
9436143 AAAGAAAAAG
*
9436153 AAAAACCTACCCCAAA
1 AAAAACCTAACCCAAA
9436169 AAAAACCTAACCCAAA
1 AAAAACCTAACCCAAA
9436185 AAAAA
1 AAAAA
9436190 AAAAGAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.65, C:0.30, G:0.00, T:0.05
Consensus pattern (16 bp):
AAAAACCTAACCCAAA
Found at i:9436777 original size:2 final size:2
Alignment explanation
Indices: 9436772--9436802 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9436762 TAAATACTAT
*
9436772 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9436803 TTAAATACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9438762 original size:12 final size:12
Alignment explanation
Indices: 9438745--9438780 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
9438735 TCATGACTGA
9438745 CATTCATGCATT
1 CATTCATGCATT
*
9438757 CATTCATGCATC
1 CATTCATGCATT
*
9438769 CATTCATTCATT
1 CATTCATGCATT
9438781 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:9438774 original size:16 final size:17
Alignment explanation
Indices: 9438753--9438784 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9438743 GACATTCATG
9438753 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
9438769 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
9438785 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:9447341 original size:70 final size:69
Alignment explanation
Indices: 9447222--9447644 Score: 403
Period size: 71 Copynumber: 6.2 Consensus size: 69
9447212 GAGTTAAGCC
*
9447222 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
9447286 TGAGGTA
63 TGAGGTA
* * ** * *
9447293 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
9447358 AGGTA
65 AGGTA
* *
9447363 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
9447428 GAGGTA
64 GAGGTA
* * * ** * * *
9447434 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
9447490 ---A
66 GGTA
*** ** *
9447491 TTTTTGTTTTTCA----AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
9447552 GGTA
66 GGTA
* * *
9447556 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
9447621 TGAGGTA
63 TGAGGTA
*
9447628 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
9447645 CAATTTACGT
Statistics
Matches: 285, Mismatches: 44, Indels: 47
0.76 0.12 0.12
Matches are distributed among these distances:
53 31 0.11
57 9 0.03
60 2 0.01
62 2 0.01
65 5 0.02
66 4 0.01
69 34 0.12
70 64 0.22
71 70 0.25
72 64 0.22
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (69 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
GGTA
Found at i:9447530 original size:122 final size:124
Alignment explanation
Indices: 9447364--9447610 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 124
9447354 GTTGAGGTAT
9447364 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
9447429 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
9447485 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
9447550 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
9447610 T
1 T
9447611 CAGGTCACGC
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
121 12 0.11
122 60 0.53
123 1 0.01
124 13 0.11
125 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:9447575 original size:263 final size:257
Alignment explanation
Indices: 9447055--9447647 Score: 1042
Period size: 263 Copynumber: 2.3 Consensus size: 257
9447045 TTTCAAGGAA
*
9447055 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
9447120 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
9447185 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
9447250 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
9447312 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
9447377 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--T
9447442 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
9447507 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
9447572 TTT
255 TTT
* * * * * *
9447575 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
9447640 GTTTTCAA
64 GTTTTCAA
9447648 TTTACGTTGT
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
257 120 0.38
260 2 0.01
262 4 0.01
263 131 0.41
265 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:9447606 original size:72 final size:71
Alignment explanation
Indices: 9447485--9447650 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
9447475 GAGTTAAGCC
** * *
9447485 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
9447549 TGAGGTA
65 TGAGGTA
*
9447556 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
9447621 TGAGGTA
65 TGAGGTA
* *
9447628 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
9447651 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:9447980 original size:74 final size:75
Alignment explanation
Indices: 9447875--9448018 Score: 222
Period size: 74 Copynumber: 1.9 Consensus size: 75
9447865 TTTTTGCCTT
*
9447875 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTTC
1 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTTC
9447937 AATTTCTATTG
65 AATTTCTATTG
* *
9447948 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
9448013 AATTTC
65 AATTTC
9448019 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
73 8 0.12
74 34 0.53
76 21 0.33
77 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (75 bp):
TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTCA
ATTTCTATTG
Found at i:9447986 original size:164 final size:165
Alignment explanation
Indices: 9447715--9448193 Score: 680
Period size: 164 Copynumber: 2.9 Consensus size: 165
9447705 CTACTTTTTC
9447715 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
9447780 GTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
* *
9447845 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC-AA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAA
9447879 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
9447944 ATTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
9448009 TTTCAATTTCCATTTTTCAATTTCTGCATTTCAAAAAAAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTC--------AAA
*
9448052 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * ** * *
9448117 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
9448178 TTTCAATTTCTGTTTT
131 TTTCAATTTCCGTTTT
9448194 CAAAAAATCA
Statistics
Matches: 284, Mismatches: 22, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
164 153 0.54
169 27 0.10
171 34 0.12
173 70 0.25
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (165 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAA
Found at i:9448134 original size:72 final size:73
Alignment explanation
Indices: 9448050--9448554 Score: 404
Period size: 79 Copynumber: 6.5 Consensus size: 73
9448040 CAAAAAAAAA
*
9448050 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
9448115 CTGTTTTC
66 CTGTTTTC
* * ** ** *
9448123 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
9448187 CTGTTTTC
66 CTGTTTTC
* * * ** *
9448195 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
9448260 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
9448271 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
9448336 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
9448350 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
9448414 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
9448427 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
*
9448492 GCTA-TTTCAATTTCTGTTTTTTTTC
52 GGTATTTTCAATTTCTG----TTTTC
9448517 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
9448555 TTTTTAATTT
Statistics
Matches: 347, Mismatches: 53, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
72 64 0.18
73 33 0.10
75 21 0.06
76 4 0.01
77 57 0.16
78 5 0.01
79 69 0.20
80 30 0.09
86 2 0.01
87 10 0.03
88 43 0.12
89 3 0.01
90 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:9448291 original size:77 final size:75
Alignment explanation
Indices: 9448049--9448554 Score: 375
Period size: 72 Copynumber: 6.5 Consensus size: 75
9448039 TCAAAAAAAA
* ** *
9448049 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA-CGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAGCGCTGAGGTATTTTCAAT
*
9448113 TTCTGTTTTC
66 TTCTATTTTC
* * ** ** * *
9448123 --AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG-ACA-CGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCAGCGCTGAGGTATTTTCAA
*
9448184 TTTCTGTTTTC
65 TTTCTATTTTC
* * *
9448195 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA-GCGCTGAGGTATTTTCAA
9448259 TTTCTATCTTTC
65 TTTCTAT-TTTC
* * * *
9448271 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCA-GCGCTGAGGTA--TTTT
*
9448335 CAATTTATATTTTTC
62 CAATTTCTA-TTTTC
* * * * *
9448350 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACA-TG-TCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT-CAGCGCT-GAGGTATTTTC
** *
9448413 AAAATCTGTTTTTC
63 AATTTCT-ATTTTC
* *
9448427 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA-GCGCTGA
* *
9448492 GCTA-TTTCAATTTCTGTTTTTTTTC
54 GGTATTTTCAATTTC----TATTTTC
9448517 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
9448555 TTTTTAATTT
Statistics
Matches: 349, Mismatches: 48, Indels: 64
0.76 0.10 0.14
Matches are distributed among these distances:
72 63 0.18
73 34 0.10
75 21 0.06
76 7 0.02
77 59 0.17
78 3 0.01
79 61 0.17
80 34 0.10
81 2 0.01
86 2 0.01
87 11 0.03
88 42 0.12
89 3 0.01
90 6 0.02
91 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAGCGCTGAGGTATTTTCAAT
TTCTATTTTC
Found at i:9448373 original size:79 final size:76
Alignment explanation
Indices: 9448049--9448764 Score: 425
Period size: 88 Copynumber: 9.0 Consensus size: 76
9448039 TCAAAAAAAA
** *
9448049 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
9448112 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * *
9448123 --AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
9448184 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
9448195 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
9448259 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
9448271 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
9448336 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
9448350 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
9448414 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * **
9448427 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
9448492 GCTA-TTTCAATTTCTGTTTTTTTTC
55 GGTATTTTCAATTTCTG----TTTTC
* * * * * *
9448517 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
9448581 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
9448604 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
9448665 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
9448679 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
9448744 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
9448765 TAATGTCTGT
Statistics
Matches: 501, Mismatches: 84, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 64 0.13
73 31 0.06
75 36 0.07
76 5 0.01
77 63 0.13
78 7 0.01
79 69 0.14
80 31 0.06
81 2 0.00
82 3 0.01
83 3 0.01
84 30 0.06
85 5 0.01
86 6 0.01
87 22 0.04
88 103 0.21
89 4 0.01
90 17 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:9448427 original size:14 final size:13
Alignment explanation
Indices: 9448408--9448443 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
9448398 TGTCGAGGTA
9448408 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
9448421 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
9448435 TTTTCAAAA
1 TTTTCAAAA
9448444 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:9448427 original size:400 final size:398
Alignment explanation
Indices: 9447710--9448444 Score: 926
Period size: 400 Copynumber: 1.8 Consensus size: 398
9447700 AATTTCTACT
** *
9447710 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
* * *
9447775 TTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGA
66 TTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGACCCTCAGGTCACACGCCGA
*
9447840 GGTATTTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAAAAATCAACTCATATTGCGAGAGGTG
131 GCTATTTTCAATTTCC----TT-AA---TT-CCTTTCAAAAAATCAACTCATATTGCGAGAGGTG
* * * * **
9447905 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTGTCAAAAAAGTCAACTCGTATTG
187 AGTTGAGCCTCAGCACACACTGAGGTAATTTCAATTTATATTGTCAAAAAAATCAACTCACATTG
** *
9447970 CGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCCATTTTTCAATTTCTG
252 CGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTCTG
9448035 CATTTCAAAAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
317 -ATTTCAAAAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
9448100 AGGTAATTTCAATTTCTG
381 AGGTAATTTCAATTTCTG
* * *
9448118 TTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * * * ** *
9448183 ATTTCTGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCATGCGCT
65 ATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGACCCTCAGG-TCACACGCC
9448246 GAGCTATTTTCAATTT-C-T-A-T-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
129 GAGCTATTTTCAATTTCCTTAATTCCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * *
9448306 GCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGC
193 GCCTCAG--CACACACTGAGGTA--ATTTCAATTTATA-TTGTCAAAAAAATCAACTCACATTGC
* * * * * ** *
9448371 GAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGT
253 GAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTCTGA
9448436 TTTCAAAAA
318 TTTCAAAAA
9448445 TCAACTCATA
Statistics
Matches: 282, Mismatches: 37, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
394 5 0.02
395 40 0.14
396 1 0.00
397 12 0.04
399 20 0.07
400 77 0.27
402 1 0.00
407 3 0.01
408 63 0.22
409 60 0.21
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (398 bp):
TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
TTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGACCCTCAGGTCACACGCCGA
GCTATTTTCAATTTCCTTAATTCCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAGCACACACTGAGGTAATTTCAATTTATATTGTCAAAAAAATCAACTCACATTGCGAGAGGTG
AGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTCTGATTTCAAAA
AAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTC
AATTTCTG
Found at i:9448572 original size:30 final size:30
Alignment explanation
Indices: 9448536--9448597 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
9448526 CAACTCATAT
9448536 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
9448566 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
9448596 TG
1 TG
9448598 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:9448680 original size:252 final size:247
Alignment explanation
Indices: 9448177--9448765 Score: 773
Period size: 252 Copynumber: 2.4 Consensus size: 247
9448167 CGTTGAGGTA
* * * *
9448177 TTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
9448242 CGCTGAGCTATTTTCAATTTC---TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
66 CGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
9448304 GAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATT
131 GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATT
* * ** * * *
9448369 GCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGT
195 GCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
*
9448422 TTTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
*
9448486 TGCTGAGCTA-TTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGT
66 CGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGT
* * * * * * *
9448550 TGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCA
130 TGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCA
*
9448612 ACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
186 ACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* **
9448674 TTTTCAAGTTAAG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
9448738 CGCTGAGCTATTTTCAATTTCTGTTTTT
66 CGCTGAGCTATTTTCAATTTCTGTTTTT
9448766 AATGTCTGTT
Statistics
Matches: 300, Mismatches: 29, Indels: 22
0.85 0.08 0.06
Matches are distributed among these distances:
243 10 0.03
244 51 0.17
245 17 0.06
246 13 0.04
247 30 0.10
248 1 0.00
249 3 0.01
250 2 0.01
251 5 0.02
252 128 0.43
253 22 0.07
254 13 0.04
255 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (247 bp):
TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
CGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTG
CGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
Found at i:9450294 original size:47 final size:42
Alignment explanation
Indices: 9450192--9450294 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 42
9450182 ACGTTTCCTA
* *
9450192 ATATTTTCTTTTAT-TGTATATATTATTATTATTATTATTAC
1 ATATTTTATTTTATATGCATATATTATTATTATTATTATTAC
*
9450233 ATACTTTTA--TTATATGCATATATATATATATGTATTTTTATGTAC
1 ATA-TTTTATTTTATATGCATATAT-TAT-TAT-TATTATTAT-TAC
9450278 ATATTATTATTTTATAT
1 ATATT-TTATTTTATAT
9450295 TATTATTACC
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
40 4 0.08
41 11 0.22
42 7 0.14
43 3 0.06
44 10 0.20
45 9 0.18
47 6 0.12
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (42 bp):
ATATTTTATTTTATATGCATATATTATTATTATTATTATTAC
Found at i:9450366 original size:21 final size:24
Alignment explanation
Indices: 9450324--9450366 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
9450314 ATTTTTCCTA
*
9450324 TTTTATTATTAGTACATGATTTGT
1 TTTTATTATTAGTAAATGATTTGT
9450348 TTTTATT-TT-GTAAAT-ATTT
1 TTTTATTATTAGTAAATGATTT
9450367 ATTATTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 5 0.28
23 2 0.11
24 7 0.39
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (24 bp):
TTTTATTATTAGTAAATGATTTGT
Found at i:9464529 original size:80 final size:77
Alignment explanation
Indices: 9464396--9464547 Score: 241
Period size: 80 Copynumber: 1.9 Consensus size: 77
9464386 TTGGTTAGTA
*
9464396 TGACATTTTGAAATAAAAAAAATTCACTCGGTAACAATATAACTAAAAAATGATGTTGTAATGAA
1 TGACATTTTGAAATAAAAAAAATTCACTCGGTAACAATATAACTAAAAAATGA---TATAATGAA
9464461 CCTAAATTTATGATT
63 CCTAAATTTATGATT
* * *
9464476 TGACATTTTGAAATAAAAAAAATTCACTTGGTAACAATTTAACTAAGAAATGATATAATGAACCT
1 TGACATTTTGAAATAAAAAAAATTCACTCGGTAACAATATAACTAAAAAATGATATAATGAACCT
9464541 AAATTTA
66 AAATTTA
9464548 ACAAAATAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
77 18 0.26
80 50 0.74
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (77 bp):
TGACATTTTGAAATAAAAAAAATTCACTCGGTAACAATATAACTAAAAAATGATATAATGAACCT
AAATTTATGATT
Found at i:9465894 original size:15 final size:14
Alignment explanation
Indices: 9465860--9465895 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9465850 TTAAAAAATT
*
9465860 AAATTAAATTTAAA
1 AAATAAAATTTAAA
9465874 AAATAAAATTTAAA
1 AAATAAAATTTAAA
9465888 AACATAAA
1 AA-ATAAA
9465896 TAAATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAAAATTTAAA
Found at i:9467865 original size:3 final size:3
Alignment explanation
Indices: 9467857--9467882 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9467847 TGGGGATTTT
9467857 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
9467883 AAAAGGATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:9470240 original size:14 final size:14
Alignment explanation
Indices: 9470218--9470247 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9470208 TTTTATTGTA
*
9470218 AATGCAAGAAAAAG
1 AATGAAAGAAAAAG
9470232 AATGAAAGAAAAAG
1 AATGAAAGAAAAAG
9470246 AA
1 AA
9470248 AAATAGTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.20, T:0.07
Consensus pattern (14 bp):
AATGAAAGAAAAAG
Found at i:9474531 original size:16 final size:17
Alignment explanation
Indices: 9474500--9474534 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9474490 TGATATAAAT
*
9474500 ATAAATTTAATAATTAA
1 ATAAATTAAATAATTAA
9474517 ATAAATTAAAT-ATTAA
1 ATAAATTAAATAATTAA
9474533 AT
1 AT
9474535 TTTTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAATTAAATAATTAA
Found at i:9474632 original size:32 final size:34
Alignment explanation
Indices: 9474591--9474658 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 34
9474581 ATATTTTAAA
9474591 TTATTATTTAATATAAA-ATAA-TTTAAATATTT
1 TTATTATTTAATATAAATATAATTTTAAATATTT
*
9474623 TTATTATTTAATATAAATATAATTTTAATTATTT
1 TTATTATTTAATATAAATATAATTTTAAATATTT
9474657 TT
1 TT
9474659 TTTGAAAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 17 0.52
33 4 0.12
34 12 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (34 bp):
TTATTATTTAATATAAATATAATTTTAAATATTT
Found at i:9474639 original size:22 final size:24
Alignment explanation
Indices: 9474609--9474656 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
9474599 TAATATAAAA
*
9474609 TAATTTAAATAT-TTTT-ATTATT
1 TAATATAAATATATTTTAATTATT
9474631 TAATATAAATATAATTTTAATTATT
1 TAATATAAATAT-ATTTTAATTATT
9474656 T
1 T
9474657 TTTTTGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
24 4 0.18
25 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TAATATAAATATATTTTAATTATT
Found at i:9474647 original size:16 final size:16
Alignment explanation
Indices: 9474596--9474647 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
9474586 TTAAATTATT
9474596 ATTTAATATAAA-ATA
1 ATTTAATATAAATATA
*** *
9474611 ATTTAAATATTTTTATT
1 ATTT-AATATAAATATA
9474628 ATTTAATATAAATATA
1 ATTTAATATAAATATA
9474644 ATTT
1 ATTT
9474648 TAATTATTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
15 4 0.15
16 17 0.63
17 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTAATATAAATATA
Found at i:9474976 original size:12 final size:12
Alignment explanation
Indices: 9474954--9474989 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
9474944 AACAAAAAAT
9474954 TGAAGTAAATAAG
1 TGAA-TAAATAAG
9474967 TGAATAAATAAG
1 TGAATAAATAAG
*
9474979 TGAGTAAATAA
1 TGAATAAATAA
9474990 CTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (12 bp):
TGAATAAATAAG
Found at i:9475255 original size:9 final size:10
Alignment explanation
Indices: 9475235--9475259 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9475225 GTAAAAGCCT
9475235 AAAATTTAAA
1 AAAATTTAAA
9475245 AAAATTTAAA
1 AAAATTTAAA
9475255 AAAAT
1 AAAAT
9475260 ATAGTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:9475369 original size:9 final size:9
Alignment explanation
Indices: 9475357--9475391 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
9475347 AATTAAGTTG
9475357 ATTCGATTA
1 ATTCGATTA
9475366 ATTCGATTA
1 ATTCGATTA
9475375 ATTCGATTA
1 ATTCGATTA
*
9475384 ACTCGATT
1 ATTCGATT
9475392 CGAATAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (9 bp):
ATTCGATTA
Found at i:9477111 original size:32 final size:33
Alignment explanation
Indices: 9476967--9477112 Score: 107
Period size: 33 Copynumber: 4.5 Consensus size: 33
9476957 TTTTCGATGG
* * * *
9476967 ACATAACCTTTTC-CATTCGTACACTCGAGGTGT
1 ACATAACCTTTTCAAATT-GTACACACAAAGTGT
** * * *
9477000 ACATTCCCTTTTCAAGTGGTACACTCAAAGTGT
1 ACATAACCTTTTCAAATTGTACACACAAAGTGT
** ** * * *
9477033 ATGTATTCTTTGCAAGTTGTACACGCAAAGTGT
1 ACATAACCTTTTCAAATTGTACACACAAAGTGT
*
9477066 ACATAGCCTTTTCAAATTGTACACACAAA-TGT
1 ACATAACCTTTTCAAATTGTACACACAAAGTGT
*
9477098 TCATAACCTTTTCAA
1 ACATAACCTTTTCAA
9477113 GTGTACCATT
Statistics
Matches: 88, Mismatches: 24, Indels: 3
0.77 0.21 0.03
Matches are distributed among these distances:
32 16 0.18
33 71 0.81
34 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (33 bp):
ACATAACCTTTTCAAATTGTACACACAAAGTGT
Found at i:9485958 original size:17 final size:17
Alignment explanation
Indices: 9485936--9485975 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
9485926 TTAATTTTTA
*
9485936 TAATTTTTTATATTATG
1 TAATTTTATATATTATG
*
9485953 TCATTTTATATATTATG
1 TAATTTTATATATTATG
9485970 TAATTT
1 TAATTT
9485976 ATAACACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (17 bp):
TAATTTTATATATTATG
Found at i:9486916 original size:17 final size:17
Alignment explanation
Indices: 9486896--9486928 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9486886 ATATTTTATT
*
9486896 AATTTAAATATATAAAA
1 AATTAAAATATATAAAA
9486913 AATTAAAATATATAAA
1 AATTAAAATATATAAA
9486929 CACGATTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTAAAATATATAAAA
Found at i:9489406 original size:22 final size:24
Alignment explanation
Indices: 9489371--9489416 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
9489361 GATATTAATA
9489371 TTAATATATTTTTC-TT-TTAAAT
1 TTAATATATTTTTCATTGTTAAAT
9489393 TTAATA-ATATTTTCATTGTTAAAT
1 TTAATATAT-TTTTCATTGTTAAAT
9489417 AATAATTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.10
22 11 0.52
23 2 0.10
24 6 0.29
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (24 bp):
TTAATATATTTTTCATTGTTAAAT
Found at i:9490258 original size:2 final size:2
Alignment explanation
Indices: 9490251--9490275 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9490241 CTTTCTTCTT
9490251 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9490276 CATGGGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9495270 original size:11 final size:11
Alignment explanation
Indices: 9495254--9495291 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9495244 TTTATATTTT
9495254 TAAAAAAATTC
1 TAAAAAAATTC
*
9495265 T-AAAAATTTC
1 TAAAAAAATTC
*
9495275 AAAAAAAATTC
1 TAAAAAAATTC
9495286 TAAAAA
1 TAAAAA
9495292 TATATAAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAAAAATTC
Found at i:9495834 original size:8 final size:8
Alignment explanation
Indices: 9495823--9495873 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
9495813 ATTTTTTTGA
9495823 AATTTTTT
1 AATTTTTT
9495831 AA-TTTTT
1 AATTTTTT
9495838 AATTTTTT
1 AATTTTTT
9495846 ACTATTTTTAT
1 A--ATTTTT-T
*
9495857 AATTTTTA
1 AATTTTTT
*
9495865 AATTATTT
1 AATTTTTT
9495873 A
1 A
9495874 TTGATATAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
7 7 0.19
8 15 0.42
9 6 0.17
10 6 0.17
11 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (8 bp):
AATTTTTT
Found at i:9497670 original size:17 final size:17
Alignment explanation
Indices: 9497650--9497683 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9497640 GTAAAAAAAT
9497650 TATTTTT-TAATTGTTTA
1 TATTTTTATAATT-TTTA
9497667 TATTTTTATAATTTTTA
1 TATTTTTATAATTTTTA
9497684 AATAATTAAA
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:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TATTTTTATAATTTTTA
Found at i:9497741 original size:15 final size:15
Alignment explanation
Indices: 9497721--9497760 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
9497711 GTCTAAAGTA
9497721 TAATTTTAATTTTAT
1 TAATTTTAATTTTAT
*
9497736 TAATTTAAAATTTTAT
1 TAATTT-TAATTTTAT
*
9497752 AAATTTTAA
1 TAATTTTAA
9497761 AATTATCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATTTTAATTTTAT
Found at i:9497749 original size:16 final size:17
Alignment explanation
Indices: 9497728--9497764 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
9497718 GTATAATTTT
*
9497728 AATTTTATTAA-TTTAA
1 AATTTTATAAATTTTAA
9497744 AATTTTATAAATTTTAA
1 AATTTTATAAATTTTAA
9497761 AATT
1 AATT
9497765 ATCTAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTTTATAAATTTTAA
Found at i:9497771 original size:17 final size:17
Alignment explanation
Indices: 9497739--9497772 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9497729 ATTTTATTAA
*
9497739 TTTAAAATTTTATAAAT
1 TTTAAAATTATATAAAT
*
9497756 TTTAAAATTATCTAAAT
1 TTTAAAATTATATAAAT
9497773 GAAAATTTTT
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:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAATTATATAAAT
Found at i:9500032 original size:35 final size:35
Alignment explanation
Indices: 9499980--9500109 Score: 129
Period size: 35 Copynumber: 3.7 Consensus size: 35
9499970 TCCATGGAAA
* * *
9499980 AGTT-TGAAACCTAAGGTATGGTATTAACCATACTG
1 AGTTGTGAAACGT-AGGTATGATATTATCCATACTG
*
9500015 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
1 AGTTGTGAAACGTAGGTATGATATTATCCATACTG
** * * *
9500050 AGTTAAGAAACGTAAGTATGACATT-TCCTATACCG
1 AGTTGTGAAACGTAGGTATGATATTATCC-ATACTG
* *
9500085 AGCTGTGAAATGTAGGTATGATATT
1 AGTTGTGAAACGTAGGTATGATATT
9500110 TCAATGAGGA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
34 3 0.04
35 69 0.87
36 7 0.09
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGATATTATCCATACTG
Found at i:9503193 original size:384 final size:383
Alignment explanation
Indices: 9502469--9503242 Score: 1368
Period size: 384 Copynumber: 2.0 Consensus size: 383
9502459 GAAACTGATC
* *
9502469 ATTTTATTTGAGACTGTCCTCAATTGTTAAAAGAAGATAGAGAACAAGGTGAGAAGCAAGAAAAT
1 ATTTAATTTGAGACTATCCTCAATTGTTAAAAGAAGATAGAGAACAAGGTGAGAAGCAAGAAAAT
* * * *
9502534 ACTTCTTAGAAAATTAAACGTTCGGGTCAAAGCAGTGCTGCTAGAACTGCTGGTTCAGGAATGAG
66 ACTCCTCAAAAAAGTAAACGTTCGGGTCAAAGCAGTGCTGCTAGAACTGCTGGTTCAGGAATGAG
9502599 AGATACTGCAGCCCGATCAGAAACAGGGCACCTGCAAGTATATATGCTATCCGGGCAAGGGAAGA
131 AGATACTGCAGCCCGATCAGAAACAGGGCACCTGCAAGTATATATGCTATCCGGGCAAGGGAAGA
* * *
9502664 AACTTCTGCTTCAGATGTGATAGCTAGTATTTTCTATTTTTTTAATGATTCTGAGTATGTTTTAA
196 AACTTCTGCTCCAGATGTGATAGCTAATATTTTCTATTTTTTTAATGATTCAGAGTATGTTTTAA
*
9502729 TTAATCCTGGATCTACGCATTCATATATTTGCACTGCATTAGTGTCAGAAAAGAAAATGACTGTT
261 TTAATCCTGGATCTACGCATTCATATATTTGCACTGCATTAGTGTCAGAAAAGAAAATGACTATT
*
9502794 GAGTCCACTGACCTTGATGTGCAAGTCACTAATCCGCTAGGGCAAAGTGTGTTACTTA
326 GAGTCCACTGACCTTGATGTGCAAGTCACTAATCCGCTAAGGCAAAGTGTGTTACTTA
*
9502852 ATTTAATTTGGGACTATCCTCAATTGTTAAAAGAAGATAGAGAACAAGGTGAGAAGCAAGAAAAT
1 ATTTAATTTGAGACTATCCTCAATTGTTAAAAGAAGATAGAGAACAAGGTGAGAAGCAAGAAAAT
*
9502917 ACTCCTCAAAAAAGTAAACGTTCGGGTCAAAGCAGTGCTGCTGGAACTGCTGGTTCAGGAATGAG
66 ACTCCTCAAAAAAGTAAACGTTCGGGTCAAAGCAGTGCTGCTAGAACTGCTGGTTCAGGAATGAG
*
9502982 AGATACTGTAGCCCGATCAGAAACAAGGGCACCTGCAAGTATATATGCTATCCGGGCAAGGGAAG
131 AGATACTGCAGCCCGATCAGAAAC-AGGGCACCTGCAAGTATATATGCTATCCGGGCAAGGGAAG
* *
9503047 AAGCTTCTGCTCCAGATGTGATAGCTAATATTTTCTATTTTTTTAATGATTCAGTGTATGTTTTA
195 AAACTTCTGCTCCAGATGTGATAGCTAATATTTTCTATTTTTTTAATGATTCAGAGTATGTTTTA
*
9503112 ATTGATCCTGGATCTACGCATTCATATATTTGCACTGCATTAGTGTCAGAAAAGAAAATGACTAT
260 ATTAATCCTGGATCTACGCATTCATATATTTGCACTGCATTAGTGTCAGAAAAGAAAATGACTAT
* *
9503177 TGAGTCCACTGACCTTGATGTGCAAGTTACTAATCCGCTAAGGCAAAGTGTGTTAGTTA
325 TGAGTCCACTGACCTTGATGTGCAAGTCACTAATCCGCTAAGGCAAAGTGTGTTACTTA
9503236 ATTTAAT
1 ATTTAAT
9503243 ATGTCGAAAT
Statistics
Matches: 371, Mismatches: 19, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
383 145 0.39
384 226 0.61
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (383 bp):
ATTTAATTTGAGACTATCCTCAATTGTTAAAAGAAGATAGAGAACAAGGTGAGAAGCAAGAAAAT
ACTCCTCAAAAAAGTAAACGTTCGGGTCAAAGCAGTGCTGCTAGAACTGCTGGTTCAGGAATGAG
AGATACTGCAGCCCGATCAGAAACAGGGCACCTGCAAGTATATATGCTATCCGGGCAAGGGAAGA
AACTTCTGCTCCAGATGTGATAGCTAATATTTTCTATTTTTTTAATGATTCAGAGTATGTTTTAA
TTAATCCTGGATCTACGCATTCATATATTTGCACTGCATTAGTGTCAGAAAAGAAAATGACTATT
GAGTCCACTGACCTTGATGTGCAAGTCACTAATCCGCTAAGGCAAAGTGTGTTACTTA
Found at i:9506150 original size:35 final size:35
Alignment explanation
Indices: 9506062--9506191 Score: 120
Period size: 35 Copynumber: 3.7 Consensus size: 35
9506052 TCCTCATTGA
* * * *
9506062 AATATCATACCTACATTTCACAGCTCGGTATAGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-GGAT
** * **
9506097 AATGTCATACTTACGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
9506132 AATACCATACCTATGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
9506167 AATACCATACCTTAGGTTTCA-AACT
1 AATACCATACC-TACGTTTCACAACT
9506192 TTTCCATGGA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
34 3 0.04
35 67 0.86
36 8 0.10
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:9512428 original size:131 final size:131
Alignment explanation
Indices: 9511922--9512405 Score: 509
Period size: 131 Copynumber: 3.7 Consensus size: 131
9511912 TAGAAAATGC
** * ** *
9511922 GAGTGAAATTCTGAAGTTATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACGATA
1 GAGTGAAATT-TGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATA
* * ** *
9511987 GGGCACTATTCACCGAATTGCCAAACATCGAACATT-TCTTTCGTTTTAAAGGGTTTTTAGAAAA
65 GGGCACTATTC-CCGAATTACCAAACACCGAGTATTGTCTTTCGTTTTAAAGGATTTTTAGAAAA
*
9512051 CGT
129 CAT
* * * *
9512054 GAGTGAAATTTCGAAGGAATCTTCGATTGTTTTGAAAAAACGAGAAATCACAACCTAACAC-ATT
1 GAGTGAAATTT-GAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGA-T
* * *
9512118 AGGGCACGATTCCCGAATTATCAAACACCGAGTATTGTC-TTCGTTTTGGAAGG-TTTTTA-ATA
64 AGGGCACTATTCCCGAATTACCAAACACCGAGTATTGTCTTTCGTTTT-AAAGGATTTTTAGA-A
*
9512180 AACAC
127 AACAT
** * *
9512185 GAGTGAAAACCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATA
1 GAGTG-AAATTTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATA
* *
9512250 GGGCA-TGATTCTCGAATTATCAAACACCGAGTATTG-CTTTCGTTTTAAAGGATTTTTAGAAGA
65 GGGCACT-ATTCCCGAATTACCAAACACCGAGTATTGTCTTTCGTTTTAAAGGATTTTTAGAA-A
9512313 A-AT
128 ACAT
* * * ** *
9512316 GAGTGAAATCTTGAAGGGATATTTGATTATTTT-AAGCAAACGGGAAATTGCAACCCAACACGTT
1 GAGTGAAAT-TTGAAGGAATATTCGATTATTTTGAA-CAAACGAGAAATCACAACCCAACACGAT
9512380 AGGGCACTATTCCGCGAATTACCAAA
64 AGGGCACTATTCC-CGAATTACCAAA
9512406 TATCGCATAT
Statistics
Matches: 293, Mismatches: 43, Indels: 32
0.80 0.12 0.09
Matches are distributed among these distances:
130 11 0.04
131 195 0.67
132 87 0.30
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (131 bp):
GAGTGAAATTTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATAG
GGCACTATTCCCGAATTACCAAACACCGAGTATTGTCTTTCGTTTTAAAGGATTTTTAGAAAACA
T
Found at i:9512786 original size:21 final size:23
Alignment explanation
Indices: 9512736--9512786 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
9512726 ACAATAATGT
* *
9512736 ACATAGCATGATATAGAATAACC
1 ACATAGCAAGATATAGAATAACA
9512759 A-AT-GCAAGATATA-AA-AACA
1 ACATAGCAAGATATAGAATAACA
9512778 ACATAGCAA
1 ACATAGCAA
9512787 TTAGAAGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 13 0.54
22 2 0.08
23 1 0.04
ACGTcount: A:0.55, C:0.16, G:0.12, T:0.18
Consensus pattern (23 bp):
ACATAGCAAGATATAGAATAACA
Found at i:9513179 original size:2 final size:2
Alignment explanation
Indices: 9513172--9513206 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9513162 ACGTAAAGGA
9513172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9513207 GAAAATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9515053 original size:17 final size:17
Alignment explanation
Indices: 9515033--9515068 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
9515023 ATTTTGGCTT
9515033 ATTTT-TTTTGTATTTTC
1 ATTTTGTTTT-TATTTTC
9515050 ATTTTGTTTTTATTTTC
1 ATTTTGTTTTTATTTTC
9515067 AT
1 AT
9515069 ACGGGCCCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.75
Consensus pattern (17 bp):
ATTTTGTTTTTATTTTC
Found at i:9515330 original size:44 final size:44
Alignment explanation
Indices: 9515280--9516076 Score: 966
Period size: 44 Copynumber: 18.1 Consensus size: 44
9515270 CGGGAACACC
* * ** *
9515280 AATCTGTTATTTTCGATCTGCTATTTGCCAATACAGAGATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * * * * *
9515324 AATCTGTCATCTTCGATCTACTCTCTGTCAACACAGAGATGCAA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * * * *
9515368 AACCTGCTATCTTTGATCTGCCCTCCGACAATACAGAGACACCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * *
9515412 AATCTGCTATCTTCGATTTGCCCTCCGCCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
*
9515456 AATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* ** * *
9515500 AATCTGTTATCTTCGATCTGCCCTATGACAATACAGAGATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* **
9515544 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACATCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * *
9515588 AATCTGCTATCTTCGATCTGCCCACCACCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
9515632 AATCTATTATCTTCGATCTGCTCTTCGCCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
9515676 AATCTGTTATCTTCGATCTGCCCT-CGACAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
**
9515719 AATCTACTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * *
9515763 AATCTGTTATCTTCAATCTACTCTCCGCCAATATAGAGACACCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * *
9515807 AATCTTTTATCTTCGATCTGCTCTCTGCCAATACAAAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * *
9515851 AATCTGTTATCTTCGATCTGCCCTCTGACAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
** * *** **
9515895 AATCTACTATCTTCGATCTACTCTCCGCTGCTACAGAGACATCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
** *
9515939 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
**
9515983 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *** * *
9516027 AATCTGTTATCTTCGATCTGCCCTCTAACAATACAAAGACGTCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
9516071 AATCTG
1 AATCTG
9516077 CTTGGATCTG
Statistics
Matches: 649, Mismatches: 103, Indels: 2
0.86 0.14 0.00
Matches are distributed among these distances:
43 39 0.06
44 610 0.94
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.28
Consensus pattern (44 bp):
AATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
Found at i:9517470 original size:3 final size:3
Alignment explanation
Indices: 9517462--9517550 Score: 171
Period size: 3 Copynumber: 30.0 Consensus size: 3
9517452 CTTCGATCTC
9517462 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9517510 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -TT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9517551 TTTTTTTCTT
Statistics
Matches: 85, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 83 0.98
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:9519403 original size:25 final size:24
Alignment explanation
Indices: 9519374--9519421 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
9519364 TGGTTCATGT
9519374 TTTCAATCTC-ATATCTCAATTTCAA
1 TTTCAAT-TCAATATCTC-ATTTCAA
*
9519399 TTTCAATTCAATTTCTCATTTCA
1 TTTCAATTCAATATCTCATTTCA
9519422 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTCAATTCAATATCTCATTTCAA
Found at i:9519424 original size:17 final size:17
Alignment explanation
Indices: 9519374--9519413 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
9519364 TGGTTCATGT
*
9519374 TTTCAATCTCATATCTCAA
1 TTTCAATTTCA-AT-TCAA
9519393 TTTCAATTTCAATTCAA
1 TTTCAATTTCAATTCAA
9519410 TTTC
1 TTTC
9519414 TCATTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 2 0.10
19 10 0.50
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTCAATTTCAATTCAA
Done.