Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 24 of 318
Found at i:6327848 original size:15 final size:14
Alignment explanation
Indices: 6327830--6327876 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
6327820 TATCTCGTTA
6327830 TTTTTTAGTTTTAAG
1 TTTTTTAGTTTT-AG
*
6327845 TTTTTATGGTTTTAG
1 TTTTT-TAGTTTTAG
6327860 -TTTTTAG-TTTAG
1 TTTTTTAGTTTTAG
6327872 TTTTT
1 TTTTT
6327877 AAATAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 4 0.14
15 7 0.25
16 6 0.21
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (14 bp):
TTTTTTAGTTTTAG
Found at i:6327864 original size:7 final size:7
Alignment explanation
Indices: 6327831--6327877 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
6327821 ATCTCGTTAT
6327831 TTTTTAG
1 TTTTTAG
*
6327838 TTTTAAG
1 TTTTTAG
6327845 TTTTTATG
1 TTTTTA-G
*
6327853 GTTTTAG
1 TTTTTAG
6327860 TTTTTAG
1 TTTTTAG
6327867 --TTTAG
1 TTTTTAG
6327872 TTTTTA
1 TTTTTA
6327878 AATAAAATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.15
7 22 0.67
8 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (7 bp):
TTTTTAG
Found at i:6339040 original size:14 final size:14
Alignment explanation
Indices: 6339021--6339050 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6339011 TACTGAGATA
*
6339021 TTTTCAATTTCTGT
1 TTTTCAATTTATGT
6339035 TTTTCAATTTATGT
1 TTTTCAATTTATGT
6339049 TT
1 TT
6339051 CAAAAAAATA
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:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:6339112 original size:89 final size:88
Alignment explanation
Indices: 6338886--6339582 Score: 523
Period size: 89 Copynumber: 8.4 Consensus size: 88
6338876 CTAATGTTTT
** * *
6338886 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG--ACACGTTGAGGTATTTTCAATATTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAT-TTC
* *
6338949 T-TAATTTC--TGT-T-TTTC-AAA
65 TGT-TTTTCAATTTATGTTTCAAAA
* * * * * *
6338968 AATCAACTCATATTGAGAAAGGTGAGTTGACCCTCGGGCCACAT-ACTGAGATATTTTCAATTTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTC-GAGGTATTTTCAATTTC
6339032 TGTTTTTCAATTTATGTTTCAAAAA
65 TGTTTTTCAATTTATGTTTC-AAAA
* * * *
6339057 AATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAACTTAT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAATTTCT
*
6339122 GTTCTTCAATTTATGTTTCAAAAA
66 GTTTTTCAATTTATGTTTC-AAAA
* * *
6339146 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAATTTCT
*
6339211 GTTCTTCAATTTATGTTTCAAAA
66 GTTTTTCAATTTATGTTTCAAAA
* * * * *
6339234 AATCAGCTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGTGGAGGTATTTTTAA-TTC-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAATTTCT
*
6339297 --TTGT---TTT-T-TTT--AAA
66 GTTTTTCAATTTATGTTTCAAAA
* * * * * **
6339311 AGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGCTCACGCG-CTGAGGTATTTTCAA-TTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTC-GAGGTATTTTCAATTTC
* *
6339374 -CTATTTC-A---A------AAAA
65 TGTTTTTCAATTTATGTTTCAAAA
* * * * *
6339387 AATCAACTCATATTGCGATAGGTGAATTGAGCCTCAGGTCACACG-CTAAGGTATTTTCAA-TTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTC-GAGGTATTTTCAATTTC
*
6339450 -------CTATTT-T-TTT--AAA
65 TGTTTTTCAATTTATGTTTCAAAA
* * * * * * ** * * *
6339463 AGTCAATTCGTATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACATTGAGGTATTCTCAATTTTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAATTTCT
6339528 GTTTTTCAATTTATGTTTCAAAA
66 GTTTTTCAATTTATGTTTCAAAA
*
6339551 AATCAACTCATATTGCGAGAGATGAGTTGAGC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGC
6339583 TTCAGGTTAT
Statistics
Matches: 503, Mismatches: 73, Indels: 72
0.78 0.11 0.11
Matches are distributed among these distances:
70 1 0.00
71 1 0.00
76 109 0.22
77 57 0.11
79 5 0.01
80 1 0.00
81 3 0.01
82 33 0.07
83 8 0.02
84 24 0.05
85 3 0.01
86 4 0.01
87 7 0.01
88 90 0.18
89 156 0.31
90 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAATTTCT
GTTTTTCAATTTATGTTTCAAAA
Found at i:6339373 original size:77 final size:76
Alignment explanation
Indices: 6339244--6339524 Score: 312
Period size: 76 Copynumber: 3.7 Consensus size: 76
6339234 AATCAGCTCA
* * * * * * *
6339244 TATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATG-TGGAGGTATTTTTAATTCTTGTTTTTTTT
1 TATTGCGAGAGGCGAGTTGAGCCTCAGCTCACACGCT-GAGGTATTTTCAATTCCT-ATTTTTTT
6339308 AAAAGTCAACTCG
64 AAAAGTCAACTCG
* ****
6339321 TATTGCGAGAGGCGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTCCTATTTCAAAAA
1 TATTGCGAGAGGCGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTCCTATTTTTTTAA
* *
6339386 AAATCAACTCA
66 AAGTCAACTCG
* * * * *
6339397 TATTGCGATAGGTGAATTGAGCCTCAGGTCACACGCTAAGGTATTTTCAATTCCTATTTTTTTAA
1 TATTGCGAGAGGCGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTCCTATTTTTTTAA
*
6339462 AAGTCAATTCG
66 AAGTCAACTCG
* * ** *
6339473 TATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACATTGAGGTATTCTCAATT
1 TATTGCGAGAGGCGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATT
6339525 TTTGTTTTTC
Statistics
Matches: 168, Mismatches: 35, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
76 121 0.72
77 46 0.27
78 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (76 bp):
TATTGCGAGAGGCGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTCCTATTTTTTTAA
AAGTCAACTCG
Found at i:6339515 original size:152 final size:153
Alignment explanation
Indices: 6339230--6339524 Score: 407
Period size: 152 Copynumber: 1.9 Consensus size: 153
6339220 TTTATGTTTC
* * * * * *
6339230 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGTGGAGGTATTTTTAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGCTCACACGTGAAGGTATTTTCAAT
* * * * *
6339295 TCTTGTTTTTTTTAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGCTCACGCGCTGA
66 TCCTGATTTTTTTAAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCCTCAGCTCACACACTGA
*
6339360 GGTATTTTCAATTCCTATTTCAA
131 GGTATTCTCAATTCCTATTTCAA
*
6339383 AAAAAATCAACTCATATTGCGATAGGTGAATTGAGCCTCAGG-TCACACGCT-AAGGTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTC-GGCTCACACG-TGAAGGTATTTTCA
* * *
6339446 ATTCCT-ATTTTTTTAAAAGTCAATTCGTATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACATT
64 ATTCCTGATTTTTTTAAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCCTCAGCTCACACACT
6339510 GAGGTATTCTCAATT
129 GAGGTATTCTCAATT
6339525 TTTGTTTTTC
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
152 65 0.52
153 56 0.45
154 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (153 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGCTCACACGTGAAGGTATTTTCAAT
TCCTGATTTTTTTAAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCCTCAGCTCACACACTGA
GGTATTCTCAATTCCTATTTCAA
Found at i:6339628 original size:29 final size:29
Alignment explanation
Indices: 6339573--6339630 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
6339563 TTGCGAGAGA
* * *
6339573 TGAGTTGAGCTTCAGGTTATACACTGAGG
1 TGAGTTGAGCCTCAGGTCACACACTGAGG
* *
6339602 TGAGTTGAGCCTCGGGTCACACGCTGAGG
1 TGAGTTGAGCCTCAGGTCACACACTGAGG
6339631 ATAAAGATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (29 bp):
TGAGTTGAGCCTCAGGTCACACACTGAGG
Found at i:6340623 original size:10 final size:10
Alignment explanation
Indices: 6340608--6340637 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6340598 TATTAAACTA
6340608 AAAAAAATAC
1 AAAAAAATAC
6340618 AAAAAAATA-
1 AAAAAAATAC
6340627 AAAAAAATAC
1 AAAAAAATAC
6340637 A
1 A
6340638 TTTTTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:6341225 original size:9 final size:9
Alignment explanation
Indices: 6341203--6341271 Score: 75
Period size: 9 Copynumber: 7.3 Consensus size: 9
6341193 TTTTATTTCT
6341203 TTATTAAATA
1 TTATT-AATA
*
6341213 TTATTAGTA
1 TTATTAATA
6341222 TTATCTAATA
1 TTAT-TAATA
6341232 TTATTAATA
1 TTATTAATA
*
6341241 TTATCAATA
1 TTATTAATA
*
6341250 TTATTAATT
1 TTATTAATA
*
6341259 TTTTTATATA
1 TTATTA-ATA
6341269 TTA
1 TTA
6341272 GTGTATGTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
9 32 0.65
10 17 0.35
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (9 bp):
TTATTAATA
Found at i:6341231 original size:19 final size:18
Alignment explanation
Indices: 6341209--6341257 Score: 80
Period size: 19 Copynumber: 2.7 Consensus size: 18
6341199 TTCTTTATTA
*
6341209 AATATTATTAGTATTATC
1 AATATTATTAATATTATC
6341227 TAATATTATTAATATTATC
1 -AATATTATTAATATTATC
6341246 AATATTATTAAT
1 AATATTATTAAT
6341258 TTTTTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (18 bp):
AATATTATTAATATTATC
Found at i:6341387 original size:26 final size:24
Alignment explanation
Indices: 6341342--6341404 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 24
6341332 CTTTAATTTC
*
6341342 ATATTGTTATTATTAGTATTA-TAAT
1 ATATT-TTATTATTAATATTAGT-AT
6341367 ATTATATTTATTATTAATATTAGTAT
1 A-TAT-TTTATTATTAATATTAGTAT
6341393 ATATTTTATTAT
1 ATATTTTATTAT
6341405 ATATGTACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 8 0.24
25 4 0.12
26 20 0.59
27 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (24 bp):
ATATTTTATTATTAATATTAGTAT
Found at i:6341461 original size:24 final size:23
Alignment explanation
Indices: 6341432--6341485 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
6341422 TTTTATATAG
6341432 TATTATCGTTT-CTATTATTATATT
1 TATTATC-TTTACTATTATTAT-TT
6341456 TATTAT-TTTCACTATTATTATTT
1 TATTATCTTT-ACTATTATTATTT
*
6341479 TTTTATC
1 TATTATC
6341486 ATTATTATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.12
23 7 0.27
24 16 0.62
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (23 bp):
TATTATCTTTACTATTATTATTT
Found at i:6341659 original size:29 final size:32
Alignment explanation
Indices: 6341591--6341665 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 32
6341581 TCTTCATAAT
*
6341591 TTTTTTAT-TTATTATTTTAAATACTCTTATA
1 TTTTTTATATTATTATTTTAAATACTATTATA
* *
6341622 TTATGTATATTATT-TTTTAAA-A-TATTATA
1 TTTTTTATATTATTATTTTAAATACTATTATA
6341651 TTTTTTATA-TATTAT
1 TTTTTTATATTATTAT
6341666 ATATATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 4 0.11
29 14 0.38
30 1 0.03
31 13 0.35
32 5 0.14
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (32 bp):
TTTTTTATATTATTATTTTAAATACTATTATA
Found at i:6341662 original size:16 final size:16
Alignment explanation
Indices: 6341627--6341667 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6341617 TTATATTATG
6341627 TATATTAT-TTTTTAA
1 TATATTATATTTTTAA
* *
6341642 AATATTATATTTTTTA
1 TATATTATATTTTTAA
6341658 TATATTATAT
1 TATATTATAT
6341668 ATATTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATTATATTTTTAA
Found at i:6341989 original size:2 final size:2
Alignment explanation
Indices: 6341977--6342022 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
6341967 TATTAACATG
* * *
6341977 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T- TT TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6342018 TA TA T
1 TA TA T
6342023 CGTTATTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6342045 original size:26 final size:27
Alignment explanation
Indices: 6342007--6342067 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
6341997 TATATATATA
* *
6342007 TATT-TTATGTATATAT-CGTTATTTT
1 TATTATTATGTATAAATACATTATTTT
6342032 CTATTATTAT-TATAAATACATTATTTT
1 -TATTATTATGTATAAATACATTATTTT
*
6342059 TCTTATTAT
1 TATTATTAT
6342068 ATTAGTAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (27 bp):
TATTATTATGTATAAATACATTATTTT
Found at i:6345293 original size:131 final size:129
Alignment explanation
Indices: 6344875--6345445 Score: 498
Period size: 131 Copynumber: 4.3 Consensus size: 129
6344865 TATGAAAAAG
* * * * * * * *
6344875 TGCAACCCAGCACGATAGGGTACGATTCTCAAATCGCCAAACATCGAACATTGCCTTCATTTTGA
1 TGCAACCCAGCACGATAGGGCACGATTCCCGAATTGTCAAACACCGAATATTG-CTTCGTTTT-A
* * * * *** * * *
6344940 GAGGTTTTTA-ATAAACATGAGCGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAA
64 AAGATTTTTAGA-AGACATGAGTGAAATTTTGAAGGAATATTCGATTATTTTGAACAAACAAGAA
6345004 AT
128 AT
** * * * * *
6345006 CACAACCCAGCACGATAGGGCATGACTCCCGAATTGTCAAACACCGAGTATTGTTTTCATTTTAA
1 TGCAACCCAGCACGATAGGGCACGATTCCCGAATTGTCAAACACCGAATATTG-CTTCGTTTTAA
** *
6345071 AGGATTTTTAGAAGACATGAGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACAAACAAGAAA
65 A-GATTTTTAGAAGACATGAGTGAAATTTTGAAGGAATATTCGATTATTTTGAACAAACAAGAAA
6345136 T
129 T
* *
6345137 TGCAACCCAGCACGATAGGGCACGATTCCCGAATTGTCAAGCGCCGAATATTGCCTTCGTTTTAA
1 TGCAACCCAGCACGATAGGGCACGATTCCCGAATTGTCAAACACCGAATATTG-CTTCGTTTTAA
* * * *
6345202 ATGATTTTTAGAAGACGTGAATGAAATTTTGAAGGGATATTTGATTATTTT-AAGCAAACAAGAA
65 A-GATTTTTAGAAGACATGAGTGAAATTTTGAAGGAATATTCGATTATTTTGAA-CAAACAAGAA
6345266 AT
128 AT
* * * * * * * *
6345268 TGCAACCCAGCACGTTAGGGCACGATTTCGCGAATTGCCAAATATCGCACATCAGCTTCGTTTTA
1 TGCAACCCAGCACGATAGGGCACGA-TTCCCGAATTGTCAAACACCGAATAT-TGCTTCGTTTTA
* * * * * **
6345333 AAGAATTTTTTTTCAAAAGGCATGGGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATG
64 AAG-A---TTTTT-AGAAGACATGAGTGAAATTTTGAAGGAATATTCGATTATTTTGAACAAACA
*
6345398 CGAAAT
124 AGAAAT
* * * *
6345404 TGCAACCCAACACGTTAGGGCACTATTCCGCGAATTGCCAAA
1 TGCAACCCAGCACGATAGGGCACGATTCC-CGAATTGTCAAA
6345446 TATCGAATCT
Statistics
Matches: 364, Mismatches: 64, Indels: 19
0.81 0.14 0.04
Matches are distributed among these distances:
130 4 0.01
131 238 0.65
132 32 0.09
133 1 0.00
135 8 0.02
136 80 0.22
137 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (129 bp):
TGCAACCCAGCACGATAGGGCACGATTCCCGAATTGTCAAACACCGAATATTGCTTCGTTTTAAA
GATTTTTAGAAGACATGAGTGAAATTTTGAAGGAATATTCGATTATTTTGAACAAACAAGAAAT
Found at i:6345474 original size:136 final size:136
Alignment explanation
Indices: 6345086--6345478 Score: 383
Period size: 136 Copynumber: 2.9 Consensus size: 136
6345076 TTTTAGAAGA
* ** * * *
6345086 CATGAGTGAAATTTCAAAGGAATATTCGATTGTTTTGAA-CAAACAAGAAATTGCAACCCAGCAC
1 CATGGGTGAAATTTTGAAGGGATATTCGATTATTTT-AAGCAAACAAGAAATTGCAACCCAACAC
* * **** * * * *
6345150 GATAGGGCACGATTCC-CGAATTGTCAAGCGCCGAATAT-TGCCTTCGTTTTAAATG-A---TTT
65 GTTAGGGCACGATTCCGCGAATTGCCAAATATCGCACATCAG-CTTCGCTTTAAA-GAATTTTTT
* *
6345209 TT-AGAAGA
128 TTCAAAAGG
* ** * *
6345217 CGTGAATGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACAAGAAATTGCAACCCAGCACG
1 CATGGGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACAAGAAATTGCAACCCAACACG
* *
6345282 TTAGGGCACGATTTCGCGAATTGCCAAATATCGCACATCAGCTTCGTTTTAAAGAATTTTTTTTC
66 TTAGGGCACGATTCCGCGAATTGCCAAATATCGCACATCAGCTTCGCTTTAAAGAATTTTTTTTC
6345347 AAAAGG
131 AAAAGG
* ***
6345353 CATGGGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACG
1 CATGGGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACAAGAAATTGCAACCCAACACG
* * *
6345418 TTAGGGCACTATTCCGCGAATTGCCAAATATCG-A-ATCTCGTCTTCGCTTTAGAGAATTTTT
66 TTAGGGCACGATTCCGCGAATTGCCAAATATCGCACATC-AG-CTTCGCTTTAAAGAATTTTT
6345479 AAATGAATAC
Statistics
Matches: 219, Mismatches: 33, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
130 2 0.01
131 69 0.32
132 28 0.13
133 1 0.00
134 3 0.01
135 7 0.03
136 109 0.50
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (136 bp):
CATGGGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACAAGAAATTGCAACCCAACACG
TTAGGGCACGATTCCGCGAATTGCCAAATATCGCACATCAGCTTCGCTTTAAAGAATTTTTTTTC
AAAAGG
Found at i:6346579 original size:2 final size:2
Alignment explanation
Indices: 6346537--6346567 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6346527 TTTATGCAAA
6346537 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 A
6346568 AACAAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6348833 original size:265 final size:265
Alignment explanation
Indices: 6348520--6349438 Score: 1671
Period size: 265 Copynumber: 3.5 Consensus size: 265
6348510 GCAATCTTCG
* * * *
6348520 GCCTACTCCACTACAACTTTAGGGAGCTAGGATAGTGGCTTGAATCTGCTTCACTGCGACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
**
6348585 GAAGACC-AGATTCACCGTCTTTGATCTGCTCTACTGCAACTTCAGGGAGATAGGATCTACAGAA
66 GAAG-CCAAGATTCGTCGTCTTTGATCTGCTCTACTGCAACTTCAGGGAGATAGGATCTACAGAA
*
6348649 TTTAGCCTATTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACT
130 TTTAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACT
*
6348714 TCAGGAAGCCAAGGTTCGTCGTCTTTGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTAAA
195 TCAGGAAGCCAAGGTTCGTCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTAAA
6348779 ATTTCA
260 ATTTCA
6348785 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
*
6348850 GAAGCCAAGATTCGTCGTCTTTGATCTGCTCTACTGCAACTTCAGGGAGATAGGATCTACAAAAT
66 GAAGCCAAGATTCGTCGTCTTTGATCTGCTCTACTGCAACTTCAGGGAGATAGGATCTACAGAAT
6348915 TTAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTT
131 TTAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTT
*
6348980 CAGGAAGCCAAGGTTCGTCGTCTTCGATCTGCTTCACTGTAACTTCAGGGAAACAAGATCTAAAA
196 CAGGAAGCCAAGGTTCGTCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTAAAA
6349045 TTTCA
261 TTTCA
*
6349050 GCCTACTCCACTACAACTTTAGGGAACTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
*
6349115 GAAGCCAAGATTCGTCGTCTTTGATCTGCTTTACTGCAACTTCAGGGAGATAGGATCTACAGAAT
66 GAAGCCAAGATTCGTCGTCTTTGATCTGCTCTACTGCAACTTCAGGGAGATAGGATCTACAGAAT
6349180 TTAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTT
131 TTAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTT
6349245 CAGGAAGCCAAGGTTCGTCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTAAAA
196 CAGGAAGCCAAGGTTCGTCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTAAAA
6349310 TTTCA
261 TTTCA
6349315 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* * *
6349380 GAAGCCAAGATTCGTCGTCTTTGATCTGCT-TCACTGCAACTTCAAGGAAACAGGATCTA
66 GAAGCCAAGATTCGTCGTCTTTGATCTGCTCT-ACTGCAACTTCAGGGAGATAGGATCTA
6349439 TAGGATTCAC
Statistics
Matches: 634, Mismatches: 18, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
264 3 0.00
265 631 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (265 bp):
GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
GAAGCCAAGATTCGTCGTCTTTGATCTGCTCTACTGCAACTTCAGGGAGATAGGATCTACAGAAT
TTAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTT
CAGGAAGCCAAGGTTCGTCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTAAAA
TTTCA
Found at i:6348842 original size:132 final size:131
Alignment explanation
Indices: 6348520--6349438 Score: 1466
Period size: 132 Copynumber: 6.9 Consensus size: 131
6348510 GCAATCTTCG
* * *
6348520 GCCTACTCCACTACAACTTTAGGGAGCTAGGATAGTGGCTTGAATCTGCTTCACTGCGACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
** * *
6348585 GAAGACC-AGATTCACCGTCTTTGATCTGC-TCTACTGCAACTTCAGGGAGATAGGATCTACAGA
66 GAAG-CCAAGATTCGTCGTCTTTGATCTGCTTC-ACTGCAACTTCAGGGAAACAGGATCTA-A-A
6348648 ATTTA
127 ATTTA
*
6348653 GCCTATTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* *
6348718 GAAGCCAAGGTTCGTCGTCTTTGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTAAAATTT
66 GAAGCCAAGATTCGTCGTCTTTGATCTGCTTCACTGCAACTTCAGGGAAACAGGATCTAAAATTT
6348783 CA
131 -A
*
6348785 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* *
6348850 GAAGCCAAGATTCGTCGTCTTTGATCTGC-TCTACTGCAACTTCAGGGAGATAGGATCTACAAAA
66 GAAGCCAAGATTCGTCGTCTTTGATCTGCTTC-ACTGCAACTTCAGGGAAACAGGATCT--AAAA
6348914 TTTA
128 TTTA
6348918 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* * * *
6348983 GAAGCCAAGGTTCGTCGTCTTCGATCTGCTTCACTGTAACTTCAGGGAAACAAGATCTAAAATTT
66 GAAGCCAAGATTCGTCGTCTTTGATCTGCTTCACTGCAACTTCAGGGAAACAGGATCTAAAATTT
6349048 CA
131 -A
* *
6349050 GCCTACTCCACTACAACTTTAGGGAACTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* * *
6349115 GAAGCCAAGATTCGTCGTCTTTGATCTGCTTTACTGCAACTTCAGGGAGATAGGATCTACAGAAT
66 GAAGCCAAGATTCGTCGTCTTTGATCTGCTTCACTGCAACTTCAGGGAAACAGGATCTA-A-AAT
6349180 TTA
129 TTA
6349183 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* * *
6349248 GAAGCCAAGGTTCGTCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTAAAATTT
66 GAAGCCAAGATTCGTCGTCTTTGATCTGCTTCACTGCAACTTCAGGGAAACAGGATCTAAAATTT
6349313 CA
131 -A
*
6349315 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
*
6349380 GAAGCCAAGATTCGTCGTCTTTGATCTGCTTCACTGCAACTTCAAGGAAACAGGATCTA
66 GAAGCCAAGATTCGTCGTCTTTGATCTGCTTCACTGCAACTTCAGGGAAACAGGATCTA
6349439 TAGGATTCAC
Statistics
Matches: 730, Mismatches: 45, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
131 19 0.03
132 355 0.49
133 340 0.47
134 16 0.02
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (131 bp):
GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
GAAGCCAAGATTCGTCGTCTTTGATCTGCTTCACTGCAACTTCAGGGAAACAGGATCTAAAATTT
A
Found at i:6352808 original size:24 final size:24
Alignment explanation
Indices: 6352776--6352860 Score: 109
Period size: 24 Copynumber: 3.5 Consensus size: 24
6352766 ACCAAACGTT
* **
6352776 GCACACATAGTGCT-TATTATGTTC
1 GCACACATAGTGCTATAGTA-AATC
6352800 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCTATAGTAAATC
*
6352824 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATAGTAAATC
*
6352848 ACACACATAGTGC
1 GCACACATAGTGC
6352861 ATTTGAGATT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 51 0.93
25 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (24 bp):
GCACACATAGTGCTATAGTAAATC
Found at i:6361283 original size:74 final size:74
Alignment explanation
Indices: 6361199--6361347 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
6361189 CCCAAACCCG
6361199 CAGTCCTCATAGATAGTCGCAGCTTCTTGTAGTCTGTCTTCAAGCTGTCTAGGTCTTCTTCGGCC
1 CAGTCCTCATAGATAGTCGCAGCTTCTTGTAGTCTGTCTTCAAGCTGTCTAGGTCTTCTTCGGCC
6361264 TTAGTTTTT
66 TTAGTTTTT
6361273 CAGTCCTCATAGATAGTCGCAGCTTCTTGTAGTCTGTCTTCAAGCTGTCTAGGTCTTCTTCGGCC
1 CAGTCCTCATAGATAGTCGCAGCTTCTTGTAGTCTGTCTTCAAGCTGTCTAGGTCTTCTTCGGCC
6361338 TTAGTTTTT
66 TTAGTTTTT
6361347 C
1 C
6361348 CTTTTCTCCA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (74 bp):
CAGTCCTCATAGATAGTCGCAGCTTCTTGTAGTCTGTCTTCAAGCTGTCTAGGTCTTCTTCGGCC
TTAGTTTTT
Found at i:6364195 original size:131 final size:132
Alignment explanation
Indices: 6363953--6364448 Score: 446
Period size: 131 Copynumber: 3.8 Consensus size: 132
6363943 CGAAGGGATC
* * * * * ***
6363953 TTCGATTGTTTTGAATAATATGAAAAAGCGCAACCCAGCACGATAGGGCACGATTCTCAAATCAC
1 TTCGATTGTTTTGAATAA-ACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGT
* * * *
6364018 CAAACATCGAACATCGCCTTCGTTTTGAGAGG-TTTTTA-ATAAACATGAGTGAAAACCT-AAAG
65 CAAACATCGAATATTGCCTTCGTTTT-AAAGGATTTTTAGA-AGACATGAGTGAAAACCTCAAAG
6364080 GAATA
128 GAATA
* * * *
6364085 TTCGATTGTTTTGAATAAACGAGAAATCACAACCCAGCACGATAGGACATGACTCCCGAATTGTC
1 TTCGATTGTTTTGAATAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGTC
* * ** *
6364150 AAACATCGAGTATTGCCTTCATTTTAAAGGATTTTTAGAAGACATGAGTG-AAATTTCAAAGGAT
66 AAACATCGAATATTGCCTTCGTTTTAAAGGATTTTTAGAAGACATGAGTGAAAACCTCAAAGGAA
6364214 TA
131 TA
* * * * *
6364216 TTCGATTGTTTTGAACAAACAAGAAATTGTAACCCAGTACGATAGGGCACGATTCCCGAATTGTC
1 TTCGATTGTTTTGAATAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGTC
* ** * * * ** ** *
6364281 AAGCGCCGAATATTGCCTTCGTTTTAAATGATTTTTAGAAGACGTGAATG-AAATTTTGAAGGGA
66 AAACATCGAATATTGCCTTCGTTTTAAAGGATTTTTAGAAGACATGAGTGAAAACCTCAAAGGAA
6364345 TA
131 TA
* * * * * * *
6364347 TTTGATTATTTT-AAGCAAACAAGAAATTGCAACCCAGCACGTTAGGGCACGATTTCGCGAATTG
1 TTCGATTGTTTTGAA-TAAACGAGAAATCGCAACCCAGCACGATAGGGCACGA-TTCCCGAATTG
* * * * ** *
6364411 CCAAATATCGCACATCACCTTCGTTTTAAAGAATTTTT
64 TCAAACATCGAATATTGCCTTCGTTTTAAAGGATTTTT
6364449 TTTTAAAAGG
Statistics
Matches: 300, Mismatches: 59, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
130 10 0.03
131 234 0.78
132 56 0.19
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (132 bp):
TTCGATTGTTTTGAATAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGTC
AAACATCGAATATTGCCTTCGTTTTAAAGGATTTTTAGAAGACATGAGTGAAAACCTCAAAGGAA
TA
Found at i:6365159 original size:14 final size:14
Alignment explanation
Indices: 6365140--6365170 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6365130 TTAACAATAT
6365140 ATATGATAAAAAAA
1 ATATGATAAAAAAA
*
6365154 ATATGATACAAAAA
1 ATATGATAAAAAAA
6365168 ATA
1 ATA
6365171 CATGGCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (14 bp):
ATATGATAAAAAAA
Found at i:6365507 original size:2 final size:2
Alignment explanation
Indices: 6365500--6365535 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6365490 TATTAATGTG
6365500 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6365536 AATTTTAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6365695 original size:2 final size:2
Alignment explanation
Indices: 6365653--6365683 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6365643 TTTATGCAAA
6365653 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 A
6365684 AACAAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6369280 original size:29 final size:29
Alignment explanation
Indices: 6369248--6369320 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
6369238 TGAAAAGTAT
* * *
6369248 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
6369277 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
6369306 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
6369321 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:6377180 original size:29 final size:29
Alignment explanation
Indices: 6377138--6377210 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
6377128 GTGACAAGAT
6377138 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
6377167 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
6377196 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
6377211 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:6377229 original size:29 final size:29
Alignment explanation
Indices: 6377197--6377269 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
6377187 TGAAAAGTAT
* * *
6377197 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
6377226 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
6377255 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
6377270 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:6391454 original size:26 final size:26
Alignment explanation
Indices: 6391424--6391499 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
6391414 TCTCATCCCT
*
6391424 ATTTTACCCCTAGTAAAATTTTGACA
1 ATTTTACTCCTAGTAAAATTTTGACA
*
6391450 ATTTTACTCTTAGTAAAATTTTGACA
1 ATTTTACTCCTAGTAAAATTTTGACA
* * *
6391476 ATTTTGCTCCTTGCAAAATTTTGA
1 ATTTTACTCCTAGTAAAATTTTGA
6391500 GAAAATATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (26 bp):
ATTTTACTCCTAGTAAAATTTTGACA
Found at i:6391768 original size:9 final size:10
Alignment explanation
Indices: 6391750--6391778 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
6391740 CATTTCTTTT
6391750 TTTCTATTCA
1 TTTCTATTCA
6391760 TTT-TATTCA
1 TTTCTATTCA
6391769 TTTCTATTCA
1 TTTCTATTCA
6391779 AATACACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:6394540 original size:30 final size:30
Alignment explanation
Indices: 6394506--6394563 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
6394496 TACGGCCATG
* *
6394506 ACACACGGGCGTGTAG-TCTACCCGTGTGTC
1 ACACACAGGCATGTAGAT-TACCCGTGTGTC
*
6394536 ACACACAGGCATGTGGATTACCCGTGTG
1 ACACACAGGCATGTAGATTACCCGTGTG
6394564 AAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.22
Consensus pattern (30 bp):
ACACACAGGCATGTAGATTACCCGTGTGTC
Found at i:6406202 original size:30 final size:30
Alignment explanation
Indices: 6406168--6406225 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
6406158 CACGGCCACT
6406168 ACACAAGGGCATGTAG-TCTACCCGTGTGTC
1 ACACAAGGGCATGTAGAT-TACCCGTGTGTC
* * *
6406198 ACACACGGGCGTGTGGATTACCCGTGTG
1 ACACAAGGGCATGTAGATTACCCGTGTG
6406226 AAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.22
Consensus pattern (30 bp):
ACACAAGGGCATGTAGATTACCCGTGTGTC
Found at i:6417135 original size:163 final size:163
Alignment explanation
Indices: 6416858--6417183 Score: 544
Period size: 163 Copynumber: 2.0 Consensus size: 163
6416848 TTGTATATTA
*
6416858 ATATCACTCAATTCGGGTCAAATGGTGGTGGCACTGATTTGTATATACCCATGTCTGTTGGTACT
1 ATATCACTCAATTCGGGTCAAATGGTGGTGGCACTGATTCGTATATACCCATGTCTGTTGGTACT
* * * * *
6416923 GTATCGTGGTATCCAAACTCGAGTGCTAGCAATCATGTCTGTTGTGATGCGTCTGTACTGCATGA
66 GCATCGTGGTATCCAAACTCGAGTGCTAACAATCATGTCTATCGTGATGCGTCGGTACTGCATGA
* *
6416988 CTCCACTCCGTATTTAGGTACGTCTTTTTTTTT
131 CTCCACTCCATATTTAGGTACGTCTTTTCTTTT
* *
6417021 ATATCACTCAATTCGGGTCGAATGGTGGTGGCACTGATTCGTATATACCCATGTCTTTTGGTACT
1 ATATCACTCAATTCGGGTCAAATGGTGGTGGCACTGATTCGTATATACCCATGTCTGTTGGTACT
* *
6417086 GCATCGTGGTATCCAGACTCGGGTGCTAACAATCATGTCTATCGTGATGCGTCGGTACTGCATGA
66 GCATCGTGGTATCCAAACTCGAGTGCTAACAATCATGTCTATCGTGATGCGTCGGTACTGCATGA
6417151 CTCCACTCCATATTTAGGTACGTCTTTTCTTTT
131 CTCCACTCCATATTTAGGTACGTCTTTTCTTTT
6417184 GATGGGTGAT
Statistics
Matches: 151, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
163 151 1.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (163 bp):
ATATCACTCAATTCGGGTCAAATGGTGGTGGCACTGATTCGTATATACCCATGTCTGTTGGTACT
GCATCGTGGTATCCAAACTCGAGTGCTAACAATCATGTCTATCGTGATGCGTCGGTACTGCATGA
CTCCACTCCATATTTAGGTACGTCTTTTCTTTT
Found at i:6422625 original size:29 final size:30
Alignment explanation
Indices: 6422575--6422642 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
6422565 TGGCTCAAGA
* * *
6422575 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTAAAGGACTAATAGT
*
6422605 GTAAATATGAAAAGTTAAAGGACTAATAGT
1 GTAAATATCAAAAGTTAAAGGACTAATAGT
*
6422635 GCAAATAT
1 GTAAATAT
6422643 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTAAAGGACTAATAGT
Found at i:6425126 original size:46 final size:46
Alignment explanation
Indices: 6425075--6425535 Score: 671
Period size: 46 Copynumber: 10.0 Consensus size: 46
6425065 GTGTGCTCTC
* *
6425075 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
6425121 TGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
6425167 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA-CA
* *
6425213 TGATATGAAATGTGTAAGACCATGG-TGAAAGATGCCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
6425258 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
6425304 TGACA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
6425350 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
6425396 TGACA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
6425442 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
6425488 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
6425534 TG
1 TG
6425536 TCAAAGATAA
Statistics
Matches: 389, Mismatches: 18, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
44 1 0.00
45 44 0.11
46 341 0.88
47 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:6425551 original size:229 final size:229
Alignment explanation
Indices: 6425089--6425553 Score: 695
Period size: 229 Copynumber: 2.0 Consensus size: 229
6425079 ATGAAATGTG
* **
6425089 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTAAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTAAAAGA
* * **
6425154 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATCTGATAT
66 TACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAATCTGATAT
** * * *
6425219 GAAATGTGTAAGACCATGGTGAAAGATGCCATGGCAACATGATATGAAATGAGTAAGACCATGGT
131 GAAATGAATAAGACCATGGTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGT
* *
6425284 TGAAAGATACCATGGCAACATGACAGAAAATGAA
196 TGAAAGACACCATGGCAACATGACAGAAAATAAA
*
6425318 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTAAAAGA
6425383 TACCATGGCAACATGACA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CGTGAT
66 TACCATGGCAACATGACATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAATC-TGAT
6425446 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCA
129 ATGAAATGAATAAGACCATGG-TGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCA
* * * *
6425510 TAGTTGAAAGACACTATGGCATCATGTCA-AAGATAAA
192 TAGTTGAAAGACACCATGGCAACATGACAGAAAATAAA
6425547 TAAGACC
1 TAAGACC
6425554 GTGGATGGAA
Statistics
Matches: 213, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
228 2 0.01
229 149 0.70
230 62 0.29
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (229 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTAAAAGA
TACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAATCTGATAT
GAAATGAATAAGACCATGGTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGT
TGAAAGACACCATGGCAACATGACAGAAAATAAA
Found at i:6435407 original size:17 final size:17
Alignment explanation
Indices: 6435385--6435418 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6435375 TATGTGCTAG
* *
6435385 ATATATGTACTAGAATA
1 ATATATATACAAGAATA
6435402 ATATATATACAAGAATA
1 ATATATATACAAGAATA
6435419 CACATACATC
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:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (17 bp):
ATATATATACAAGAATA
Found at i:6452577 original size:2 final size:2
Alignment explanation
Indices: 6452570--6452608 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6452560 ACCTTAATAA
6452570 AT AT 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 AT AT A
6452609 AAACCACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6455770 original size:30 final size:30
Alignment explanation
Indices: 6455702--6455770 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
6455692 GATTTTGGGA
*
6455702 TTGAGAAGACCTGATATCTCATTCAGGAGC
1 TTGAGAAGACCTGATATCGCATTCAGGAGC
* * *
6455732 TT-AGGAAGACTTGGTATCGCGTTCAGGAGC
1 TTGA-GAAGACCTGATATCGCATTCAGGAGC
6455762 TTGAGAAGA
1 TTGAGAAGA
6455771 TCCAATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 31 0.94
31 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (30 bp):
TTGAGAAGACCTGATATCGCATTCAGGAGC
Found at i:6463210 original size:10 final size:10
Alignment explanation
Indices: 6463195--6463233 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
6463185 ACGTTCTTCC
6463195 TTCTTTT-TCT
1 TTCTTTTAT-T
6463205 TTCTTTTATT
1 TTCTTTTATT
6463215 TTCTTTTATT
1 TTCTTTTATT
6463225 TTCTATTTA
1 TTCT-TTTA
6463234 ATTTGCATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 22 0.81
11 5 0.19
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (10 bp):
TTCTTTTATT
Found at i:6463367 original size:29 final size:29
Alignment explanation
Indices: 6463300--6463371 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 29
6463290 TATATATTAT
* * **
6463300 ATATTATATAATACATATACATACTTTTA
1 ATATAATATAATATATATACATAAGTTTA
* *
6463329 ATTTATTATAATATATATA-ATAAGTTTA
1 ATATAATATAATATATATACATAAGTTTA
6463357 CATATAATAT-ATATA
1 -ATATAATATAATATA
6463372 CTTCATTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
28 12 0.35
29 22 0.65
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (29 bp):
ATATAATATAATATATATACATAAGTTTA
Found at i:6477253 original size:46 final size:46
Alignment explanation
Indices: 6477103--6477361 Score: 165
Period size: 46 Copynumber: 5.5 Consensus size: 46
6477093 TTTGTGTGCT
* * *
6477103 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-TGAAGTAGAGCC
* * * * *
6477149 TGTGTAAGACCATGTCTGGGACATGGTATCGGCAT-TGAAATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCTGAAGT-AGAGCC
* * *
6477197 AGTGTGAGACATGTTTGGGACATGCATCGGCCTCGTGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-TGAAGTAGAGCC
* * * *
6477243 AGTGTAAGACATGTTTAGGACATGCATCGG-CTAC-G-AG-ATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CTGAAGTA-GAGCC
* * * * *
6477287 AGCGTAAGACCCTGTCTGGGACATAGCATCGG-CACGGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCTGA-A-GT-AGAGCC
6477337 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
6477362 GAATCGGTAT
Statistics
Matches: 165, Mismatches: 31, Indels: 31
0.73 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 11 0.07
45 14 0.08
46 59 0.36
47 28 0.17
48 24 0.15
49 2 0.01
50 24 0.15
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCTGAAGTAGAGCC
Found at i:6483908 original size:42 final size:43
Alignment explanation
Indices: 6483810--6483941 Score: 144
Period size: 42 Copynumber: 3.1 Consensus size: 43
6483800 ATGGCCTAGC
* *
6483810 CACACG-CCCATGTCCTTACCCATGTGGCTCACACAGCCTGGG
1 CACACGTCCTATGTCCTTACCCATGTGGCTCACACGGCCTGGG
* * * * *
6483852 CAGACATCCT-TGTCCTTACCCGTGAGGCTCACACGGCCTGGT
1 CACACGTCCTATGTCCTTACCCATGTGGCTCACACGGCCTGGG
* * * *
6483894 CACACGT-TTATGTCCTTGCTCATGTGGCTCACATGGCCTGGG
1 CACACGTCCTATGTCCTTACCCATGTGGCTCACACGGCCTGGG
6483936 CACACG
1 CACACG
6483942 CCCATGCCCT
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
41 1 0.01
42 69 0.96
43 2 0.03
ACGTcount: A:0.17, C:0.36, G:0.23, T:0.23
Consensus pattern (43 bp):
CACACGTCCTATGTCCTTACCCATGTGGCTCACACGGCCTGGG
Found at i:6485672 original size:28 final size:28
Alignment explanation
Indices: 6485602--6485674 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
6485592 GCTTGGCCCG
*
6485602 AATATTATATTTTAAA-AACAATTATATT
1 AATATT-TATATTAAATAACAATTATATT
* * *
6485630 AATTATATATGTTAAATAATAATTATATT
1 AA-TATTTATATTAAATAACAATTATATT
*
6485659 TATATTTATATTAAAT
1 AATATTTATATTAAAT
6485675 CACTAACCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
28 22 0.59
29 15 0.41
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
AATATTTATATTAAATAACAATTATATT
Found at i:6485826 original size:34 final size:34
Alignment explanation
Indices: 6485764--6485828 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
6485754 AAATATTATA
* *
6485764 TTTAATACAATAAAACATCTATTTTATTTATTTT
1 TTTAATACAATAAAACATCTAATATATTTATTTT
* * *
6485798 TTTAATATAATAAAATATTTAATATATTTAT
1 TTTAATACAATAAAACATCTAATATATTTAT
6485829 AGTAGTGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (34 bp):
TTTAATACAATAAAACATCTAATATATTTATTTT
Found at i:6488893 original size:17 final size:17
Alignment explanation
Indices: 6488871--6488921 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
6488861 TGATATGTAG
*
6488871 TAAAAAATTATAAACTA
1 TAAAAAATTATAAAATA
*
6488888 T-AAAAATCAATAAAATA
1 TAAAAAAT-TATAAAATA
*
6488905 TATAAAAATTATTAAAT
1 TA-AAAAATTATAAAAT
6488922 TTTAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 6 0.22
17 9 0.33
18 6 0.22
19 6 0.22
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAAATTATAAAATA
Found at i:6488957 original size:26 final size:26
Alignment explanation
Indices: 6488888--6488966 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 26
6488878 TTATAAACTA
*
6488888 TAAAAATCAATAAAATATATAAAAATTAT
1 TAAAAATTAAT-AAA-A-ATAAAAATTAT
** *
6488917 TAAATTTTAATAAAAATAAAATTTAT
1 TAAAAATTAATAAAAATAAAAATTAT
*
6488943 TAAAAATTAGAAAAAAATATAAAA
1 TAAAAATTA-ATAAAAATA-AAAA
6488967 ATTGTAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
26 17 0.43
27 9 0.22
28 6 0.15
29 8 0.20
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (26 bp):
TAAAAATTAATAAAAATAAAAATTAT
Found at i:6489065 original size:30 final size:30
Alignment explanation
Indices: 6489029--6489094 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
6489019 TCCTTTAATT
6489029 GTTAACTTTAACGAACTGTTGACCGTTAAA
1 GTTAACTTTAACGAACTGTTGACCGTTAAA
6489059 GTTAACTTTAACGAACTGTTGACCGTTAAA
1 GTTAACTTTAACGAACTGTTGACCGTTAAA
6489089 GTTAAC
1 GTTAAC
6489095 GACCCCAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (30 bp):
GTTAACTTTAACGAACTGTTGACCGTTAAA
Found at i:6489340 original size:28 final size:30
Alignment explanation
Indices: 6489261--6489349 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 30
6489251 TTCTTTACAT
* *
6489261 TTTTTATAATTTTATTACGACTTC-ATAAA
1 TTTTTATAATTTTTTTACGATTTCTATAAA
* *
6489290 TTTTTATAATTTTTTCTA-TATTTCTATATA
1 TTTTTATAATTTTTT-TACGATTTCTATAAA
*
6489320 -TTTTAT-ATTTTTTTACGATTTTTATAAA
1 TTTTTATAATTTTTTTACGATTTCTATAAA
6489348 TT
1 TT
6489350 CATTTCTAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
27 2 0.04
28 16 0.33
29 25 0.51
30 6 0.12
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTATAATTTTTTTACGATTTCTATAAA
Found at i:6489738 original size:89 final size:86
Alignment explanation
Indices: 6489604--6489805 Score: 228
Period size: 89 Copynumber: 2.3 Consensus size: 86
6489594 AAGGGGCTTA
* * *
6489604 AATT-ATTATTTTTTAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTTG
1 AATTAATTTTTTTTTAAATTTGAGGGTCTTTTTGATGCAATTTGAAAATTTAAGTACCCAATTT-
* *
6489668 AGTAAAAAAAAGAGTAAGGACTT
65 AGTAAAAAAAA-AGCAAGAACTT
* * * *
6489691 AATTACCTTTTTTTTTAAGTTTTGAGGGT-TTTTTGATGCAATTTGAAAATTTAATTACCTAATT
1 AATTA-ATTTTTTTTTAA-ATTTGAGGGTCTTTTTGATGCAATTTGAAAATTTAAGTACCCAATT
* *
6489755 TAGTGAAAAAAATGCAAGAACTT
64 TAGTAAAAAAAAAGCAAGAACTT
6489778 AATTAATTTTTTTTATAGAAGTTTGAGG
1 AATTAATTTTTTTT-TA-AA-TTTGAGG
6489806 ATTTTTTACA
Statistics
Matches: 96, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
86 8 0.08
87 19 0.20
88 18 0.19
89 42 0.44
90 9 0.09
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (86 bp):
AATTAATTTTTTTTTAAATTTGAGGGTCTTTTTGATGCAATTTGAAAATTTAAGTACCCAATTTA
GTAAAAAAAAAGCAAGAACTT
Found at i:6494850 original size:20 final size:21
Alignment explanation
Indices: 6494816--6494869 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
6494806 TGATGATAAT
*
6494816 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
6494837 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
6494857 TTTTATTATTTTA
1 TTATATTATTTTA
6494870 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:6494873 original size:3 final size:3
Alignment explanation
Indices: 6494855--6494903 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
6494845 TTTAATGAGA
*
6494855 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
6494900 TAT T
1 TAT T
6494904 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:6494875 original size:11 final size:11
Alignment explanation
Indices: 6494859--6494897 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
6494849 ATGAGATATT
6494859 TTATTATTTTA
1 TTATTATTTTA
*
6494870 TTATTATTTCA
1 TTATTATTTTA
6494881 TTATTATTTTA
1 TTATTATTTTA
6494892 TTATTA
1 TTATTA
6494898 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:6494883 original size:19 final size:19
Alignment explanation
Indices: 6494855--6494896 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
6494845 TTTAATGAGA
*
6494855 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
6494874 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
6494893 TATT
1 TATT
6494897 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:6497030 original size:46 final size:46
Alignment explanation
Indices: 6496978--6497159 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
6496968 ATTGTGCTCT
* *
6496978 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
6497024 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
6497070 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
6497116 ATGACA-GAAAATAAGTAAGACCATAGTTGAAAGATACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
6497160 TCATGTCAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 122 0.99
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:6497960 original size:3 final size:3
Alignment explanation
Indices: 6497952--6498000 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
6497942 AGATATTTAC
6497952 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6498000 T
1 T
6498001 AATTTACAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6499610 original size:2 final size:2
Alignment explanation
Indices: 6499603--6499628 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6499593 TTTGGTATGA
6499603 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6499629 GATTTGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6512997 original size:30 final size:29
Alignment explanation
Indices: 6512935--6512998 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
6512925 GGTTTATATC
*
6512935 TTTATAATTTATAAATAATTAAATTAAAT
1 TTTATAATTTATAAATAATTAAAGTAAAT
6512964 TTTATAATTT-TAAGGA-AATTAAAGTATAAT
1 TTTATAATTTATAA--ATAATTAAAGTA-AAT
6512994 TTTAT
1 TTTAT
6512999 CTTTCCTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 3 0.10
29 19 0.61
30 9 0.29
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (29 bp):
TTTATAATTTATAAATAATTAAAGTAAAT
Found at i:6515034 original size:32 final size:32
Alignment explanation
Indices: 6514993--6515058 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
6514983 TAAGAGAGCC
6514993 CACCTCAATCTATTTTCGTTCCCAAATCAATG
1 CACCTCAATCTATTTTCGTTCCCAAATCAATG
6515025 CACCTCAATCTATTTTCGTTCCCAAATCAATG
1 CACCTCAATCTATTTTCGTTCCCAAATCAATG
6515057 CA
1 CA
6515059 AACTTGGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.33
Consensus pattern (32 bp):
CACCTCAATCTATTTTCGTTCCCAAATCAATG
Found at i:6526900 original size:21 final size:23
Alignment explanation
Indices: 6526874--6526917 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
6526864 ACCACACGGG
*
6526874 TGTGTGATA-AC-TGGGCCAAGC
1 TGTGTGATATACATGGGCAAAGC
6526895 TGTGTGATATACATGGGCAAAGC
1 TGTGTGATATACATGGGCAAAGC
6526918 CAGTTTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (23 bp):
TGTGTGATATACATGGGCAAAGC
Found at i:6530812 original size:13 final size:13
Alignment explanation
Indices: 6530794--6530818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6530784 AATTGATATC
6530794 TGTGAAAATTTTG
1 TGTGAAAATTTTG
6530807 TGTGAAAATTTT
1 TGTGAAAATTTT
6530819 ATCGTTTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:6531971 original size:44 final size:42
Alignment explanation
Indices: 6531904--6532026 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
6531894 TTTCGATATG
* * * ** *
6531904 TGATTTTGTGTAAGACTACGTCTGGGATGTTGGCATCG-ATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
6531945 TGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
* *
6531990 TGATTTCGTGTAAGACCCTGTCTGAGACAGT-GGCATC
1 TGATTTCGTGTAAGACCATGTCTGGGACA-TCGGCATC
6532027 AATATTGGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.39
43 11 0.16
44 26 0.38
45 4 0.06
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
Found at i:6541892 original size:21 final size:21
Alignment explanation
Indices: 6541846--6541892 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6541836 CATAGGCTGC
*
6541846 TCACACGGGTGTGTGTCCCCT
1 TCACACGGGCGTGTGTCCCCT
* **
6541867 CCACACGGGCGTGTGTGGCCT
1 TCACACGGGCGTGTGTCCCCT
6541888 TCACA
1 TCACA
6541893 TAGACGTGTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.34, G:0.30, T:0.23
Consensus pattern (21 bp):
TCACACGGGCGTGTGTCCCCT
Found at i:6547324 original size:63 final size:63
Alignment explanation
Indices: 6547209--6547328 Score: 145
Period size: 63 Copynumber: 1.9 Consensus size: 63
6547199 GGCCCATGTC
* * * * * *
6547209 ACCCTAAATCCAAAACAGTAAGTTACATGACCTGGCCATACGCTCTTGTCCCTAGCCTGTGTG
1 ACCCTAAATCCAAAACAATAAGTTACAAGACCTGGACACACGATCTTATCCCTAGCCTGTGTG
*
6547272 ACCCTAAATCCAAAACAATGAGTTACACAG-CCTGGACACAC-ATCTGTATCCCTAGCC
1 ACCCTAAATCCAAAACAATAAGTTACA-AGACCTGGACACACGATCT-TATCCCTAGCC
6547329 CATGTGCCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
62 3 0.06
63 44 0.92
64 1 0.02
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.23
Consensus pattern (63 bp):
ACCCTAAATCCAAAACAATAAGTTACAAGACCTGGACACACGATCTTATCCCTAGCCTGTGTG
Found at i:6549894 original size:21 final size:20
Alignment explanation
Indices: 6549866--6549905 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6549856 CAAAACTTGT
6549866 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
6549886 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
6549906 AAAATACGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:6550924 original size:29 final size:31
Alignment explanation
Indices: 6550866--6550922 Score: 84
Period size: 28 Copynumber: 1.9 Consensus size: 31
6550856 GTAACAGCTT
*
6550866 ACAAAAGCAAGCAAAAAGAAAATAGAAAACA
1 ACAAAAGCAAGCAAAAAGAAAAGAGAAAACA
6550897 ACAAAAG-AAG-AAAAAG-AAAGAGAAAA
1 ACAAAAGCAAGCAAAAAGAAAAGAGAAAA
6550923 ACGTTAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 6 0.24
30 3 0.12
31 7 0.28
ACGTcount: A:0.74, C:0.09, G:0.16, T:0.02
Consensus pattern (31 bp):
ACAAAAGCAAGCAAAAAGAAAAGAGAAAACA
Found at i:6566658 original size:24 final size:26
Alignment explanation
Indices: 6566615--6566662 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
6566605 GGTTGAGGGC
6566615 CAAAATGACATAAAAAAAATAAGGAT
1 CAAAATGACATAAAAAAAATAAGGAT
*
6566641 CAAAATGA-A-AAAATAAATAAGG
1 CAAAATGACATAAAAAAAATAAGG
6566663 TTAAAGCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
25 1 0.05
26 8 0.38
ACGTcount: A:0.67, C:0.06, G:0.12, T:0.15
Consensus pattern (26 bp):
CAAAATGACATAAAAAAAATAAGGAT
Found at i:6576483 original size:10 final size:9
Alignment explanation
Indices: 6576468--6576492 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6576458 CCAACTACAT
6576468 AAAAAAATA
1 AAAAAAATA
6576477 AAAAAAATA
1 AAAAAAATA
6576486 AAAAAAA
1 AAAAAAA
6576493 CATTTTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:6577120 original size:68 final size:69
Alignment explanation
Indices: 6577039--6577177 Score: 167
Period size: 71 Copynumber: 2.0 Consensus size: 69
6577029 CCCTGGAAAC
* *
6577039 CTCAAACATACCAT-TTCGATATTTAATTAG-TTTTTTATACTAATTAAGT-AAGAAGCATACAA
1 CTCAAACATACCATCTTAG-TATTTAATTAGTTTTTTTATACTAATTAAGTGAA-AAACATACAA
6577101 ATAAAT
64 ATAAAT
* * * *
6577107 CTCAAATATACCATCTTAGTATTTATTTAGTTTTTTTTTATAGTACTTAAGTGAAAAACATACAA
1 CTCAAACATACCATCTTAGTATTTAATTAG--TTTTTTTATACTAATTAAGTGAAAAACATACAA
6577172 ATAAAT
64 ATAAAT
6577178 AATACTCCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
68 23 0.38
69 3 0.05
71 32 0.53
72 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (69 bp):
CTCAAACATACCATCTTAGTATTTAATTAGTTTTTTTATACTAATTAAGTGAAAAACATACAAAT
AAAT
Found at i:6580516 original size:7 final size:7
Alignment explanation
Indices: 6580504--6580542 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
6580494 TTATCTGATC
6580504 AGTGACA
1 AGTGACA
6580511 AGTGACA
1 AGTGACA
6580518 AGTGACA
1 AGTGACA
6580525 AGTGACA
1 AGTGACA
*
6580532 AGTGATA
1 AGTGACA
6580539 AGTG
1 AGTG
6580543 GTAGCTTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.41, C:0.10, G:0.31, T:0.18
Consensus pattern (7 bp):
AGTGACA
Found at i:6585511 original size:53 final size:53
Alignment explanation
Indices: 6585431--6585564 Score: 162
Period size: 53 Copynumber: 2.5 Consensus size: 53
6585421 AAGTAATTCA
* * *
6585431 TAAAACATAAAAGTGTTCTAAGAAATTAAT-TTTCGACAGATGAAAGAATTACT
1 TAAAACATAAAAGAGTTCTAAGAAATTAATCTAT-GACAGAAGAAAGAATTACT
* ***
6585484 TAAAACATGAAAGAGTTCTAAGAAATTAATCTATGATTTAAGAAAGAATTACT
1 TAAAACATAAAAGAGTTCTAAGAAATTAATCTATGACAGAAGAAAGAATTACT
* *
6585537 TAAAACATAAAAAGATTTCAAAGAAATT
1 TAAAACAT-AAAAGAGTTCTAAGAAATT
6585565 TTGTAATTCA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 51 0.74
54 18 0.26
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (53 bp):
TAAAACATAAAAGAGTTCTAAGAAATTAATCTATGACAGAAGAAAGAATTACT
Found at i:6585716 original size:20 final size:20
Alignment explanation
Indices: 6585687--6585741 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
6585677 TTAAATATTT
*
6585687 CATAATACATGAAAAAATTA
1 CATAAAACATGAAAAAATTA
*
6585707 CATAAAACATAAAAAAATTA
1 CATAAAACATGAAAAAATTA
*
6585727 C-TTAAACTATGAAAA
1 CATAAAAC-ATGAAAA
6585742 TATTCCTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.24
Consensus pattern (20 bp):
CATAAAACATGAAAAAATTA
Found at i:6590886 original size:47 final size:47
Alignment explanation
Indices: 6590822--6590932 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
6590812 GACATTGAGT
*
6590822 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
6590869 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
6590916 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
6590933 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:6598138 original size:47 final size:47
Alignment explanation
Indices: 6598074--6598184 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
6598064 GACATTGAGT
*
6598074 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
6598121 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
6598168 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
6598185 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:6604520 original size:60 final size:59
Alignment explanation
Indices: 6604400--6604536 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
6604390 CAGTGTTAAC
* * *
6604400 TGGGCCTTAGCCCATATCAATATTAATTTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATTAATCTAGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
6604461 TGGGCCTAGCCCATATCAGTATTAATCTAGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
* *
6604521 TGGGTCTTGCCCATAT
1 TGGGCCTAGCCCATAT
6604537 TAACACAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 51 0.77
61 11 0.17
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:6606950 original size:15 final size:15
Alignment explanation
Indices: 6606913--6606941 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6606903 TTTCCCTATC
6606913 TAATAATAATAATTA
1 TAATAATAATAATTA
6606928 TAATAATAATAATT
1 TAATAATAATAATT
6606942 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:6607063 original size:19 final size:18
Alignment explanation
Indices: 6607030--6607073 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
6607020 ATATATGCAG
6607030 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
6607047 TAATAATTTTATCTAATAA
1 TAATAATTTT-TCTAATAA
*
6607066 TACTAATT
1 TAATAATT
6607074 AAAATTTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.21
19 15 0.62
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:6609625 original size:6 final size:6
Alignment explanation
Indices: 6609607--6609727 Score: 70
Period size: 6 Copynumber: 19.7 Consensus size: 6
6609597 AAGAAACATT
* *
6609607 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGG ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
6609656 ATCAAA ATCAAA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAAA ATTAGT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
*
6609705 ATCAGGTA A-CAGA ATCAAA ATCA
1 ATCA-G-A ATCAGA ATCAGA ATCA
6609728 AAATGTGAAT
Statistics
Matches: 90, Mismatches: 14, Indels: 22
0.71 0.11 0.17
Matches are distributed among these distances:
5 6 0.07
6 71 0.79
7 10 0.11
8 3 0.03
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:6609628 original size:18 final size:18
Alignment explanation
Indices: 6609607--6609727 Score: 70
Period size: 19 Copynumber: 6.6 Consensus size: 18
6609597 AAGAAACATT
6609607 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
*
6609625 ATCAGAATCAGAATCAGG
1 ATCAGAATCAGAATCAGA
* *
6609643 ATCAG-GTGACAGAATCAAA
1 ATCAGAAT--CAGAATCAGA
* *
6609662 ATCAAAATCAGTATCAGGTA
1 ATCAGAATCAGAATCA-G-A
*
6609682 A-CAGAATCAGAATCAAA
1 ATCAGAATCAGAATCAGA
* *
6609699 ATTAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
6609718 ATCAAAATCA
1 ATCAGAATCA
6609728 AAATGTGAAT
Statistics
Matches: 77, Mismatches: 17, Indels: 17
0.69 0.15 0.15
Matches are distributed among these distances:
17 3 0.04
18 33 0.43
19 36 0.47
20 5 0.06
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:6609656 original size:31 final size:31
Alignment explanation
Indices: 6609621--6609731 Score: 168
Period size: 31 Copynumber: 3.6 Consensus size: 31
6609611 GAACTAGAAT
* * * *
6609621 CAGAATCAGAATCAGAATCAGGATCAGGTGA
1 CAGAATCAAAATCAAAATCAGTATCAGGTAA
6609652 CAGAATCAAAATCAAAATCAGTATCAGGTAA
1 CAGAATCAAAATCAAAATCAGTATCAGGTAA
* *
6609683 CAGAATCAGAATCAAAATTAGTATCAGGTAA
1 CAGAATCAAAATCAAAATCAGTATCAGGTAA
6609714 CAGAATCAAAATCAAAAT
1 CAGAATCAAAATCAAAAT
6609732 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (31 bp):
CAGAATCAAAATCAAAATCAGTATCAGGTAA
Found at i:6609901 original size:28 final size:27
Alignment explanation
Indices: 6609852--6609927 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
6609842 GCTGCCAGAA
* * * *
6609852 CAGATATTGTGACAGAGTCACCAGATAT
1 CAGATATTGTGGCAAAGCCACCA-AAAT
*
6609880 -AGATATTTGTGGCATAGCCACCAAAAT
1 CAGATA-TTGTGGCAAAGCCACCAAAAT
*
6609907 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
6609928 TTAACAGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAAAAT
Found at i:6610191 original size:20 final size:20
Alignment explanation
Indices: 6610168--6610220 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
6610158 TAATCGGTAC
6610168 GAAGCCCACAATATCGATAA
1 GAAGCCCACAATATCGATAA
6610188 GAAGCCCACAATATCGATAA
1 GAAGCCCACAATATCGATAA
*
6610208 GAAGCCTACAATA
1 GAAGCCCACAATA
6610221 ATGGCACACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.25, G:0.15, T:0.15
Consensus pattern (20 bp):
GAAGCCCACAATATCGATAA
Found at i:6610639 original size:27 final size:27
Alignment explanation
Indices: 6610609--6610749 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
6610599 AGGTATCTCG
* *
6610609 GTAATTCCACCATACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
**
6610636 GTAATTCTACCCTACAGGGGTATTGCA
1 GTAATTCTACCCTACAGGGGTATTTTA
* **
6610663 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
6610690 GTAATTCTACCTTACAGGGATATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* * *
6610717 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTTA
6610744 GTAATT
1 GTAATT
6610750 TTGTAAATCG
Statistics
Matches: 96, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:6610800 original size:27 final size:27
Alignment explanation
Indices: 6610731--6610803 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
6610721 TTCTACCCTA
* *
6610731 CAAGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTAATTTGGTAATTCTGTAAAT
* ***
6610758 CGAGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGTAATTTGGTAATTCTGTAAAT
*
6610785 CAAGGGTACTTTGGTAATT
1 CAAGGGTAATTTGGTAATT
6610804 TTACAAGTCG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.36
Consensus pattern (27 bp):
CAAGGGTAATTTGGTAATTCTGTAAAT
Found at i:6610817 original size:27 final size:26
Alignment explanation
Indices: 6610787--6611232 Score: 401
Period size: 27 Copynumber: 16.7 Consensus size: 26
6610777 CTGTAAATCA
* * *
6610787 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAA-ACC
** ** *
6610814 AGGGTATTTTAATAATTTTACAGGTCG
1 AGGGTATTTTGGTAATTTTACA-AACC
** * *
6610841 AGGGT-TTTCAGTAATTTCACAAATC
1 AGGGTATTTTGGTAATTTTACAAACC
* *
6610866 AGGGGTATTTTGGTAATTTTATAAACT
1 A-GGGTATTTTGGTAATTTTACAAACC
*
6610893 AGGGGTATTTTGATAATTTTACAAACC
1 A-GGGTATTTTGGTAATTTTACAAACC
*
6610920 AGGGGTACTTTGGTAATTTTACAAACC
1 A-GGGTATTTTGGTAATTTTACAAACC
* *
6610947 AGGGGTATTTTGGTAATTTTATAAACAA
1 A-GGGTATTTTGGTAATTTTACAAAC-C
*
6610975 AGGGTATTTTAGTAATTTTACAAACC
1 AGGGTATTTTGGTAATTTTACAAACC
**
6611001 A-GGTATTTTGGTAATTTTGTAAACC
1 AGGGTATTTTGGTAATTTTACAAACC
6611026 AAGGGTATTTTGGTAATTTTACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACC
* * *
6611053 AGGGGTATTTTGGTGATTTCATAAACC
1 A-GGGTATTTTGGTAATTTTACAAACC
* **
6611080 AAGGGTGTTTAAGTAATTTTACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACC
*** *
6611107 AGGGGTATTTTGGTAATTTGGTAAACT
1 A-GGGTATTTTGGTAATTTTACAAACC
**
6611134 AAAGTATTTTGGTAATTTTACAAACC
1 AGGGTATTTTGGTAATTTTACAAACC
* * *
6611160 AGGGGTATTTTGGTGATTTCATAAACC
1 A-GGGTATTTTGGTAATTTTACAAACC
* * *
6611187 AATGGTGTTTTAGTAATTTTACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACC
6611214 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTTGGTAATTT
6611233 GGTAAACTAA
Statistics
Matches: 338, Mismatches: 69, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
25 22 0.07
26 42 0.12
27 271 0.80
28 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACC
Found at i:6611172 original size:107 final size:107
Alignment explanation
Indices: 6610854--6611248 Score: 542
Period size: 107 Copynumber: 3.7 Consensus size: 107
6610844 GTTTTCAGTA
* * * * * * * * ***
6610854 ATTTCACAAATCAGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGATAATTTTACAAAC
1 ATTTCATAAACCAAGGGTGTTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
** * *
6610919 CAGGGGTACTTTGGTAATTTTACAAACCAGGGGTATTTTGGTA
66 CA-AAGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTG
* * * *
6610962 ATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCA--GGTATTTTGGTAATTTTGTAAAC
1 ATTTCATAAACCAAGGGTGTTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
*
6611025 CAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTG
66 CAA-AGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTG
*
6611068 ATTTCATAAACCAAGGGTGTTTAAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
1 ATTTCATAAACCAAGGGTGTTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
*
6611133 TAAAGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTG
66 CAAAGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTG
*
6611175 ATTTCATAAACCAATGGTGTTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
1 ATTTCATAAACCAAGGGTGTTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
*
6611240 TAAAGTATT
66 CAAAGTATT
6611249 CTAAACAGGG
Statistics
Matches: 261, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
106 95 0.36
107 110 0.42
108 56 0.21
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (107 bp):
ATTTCATAAACCAAGGGTGTTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
CAAAGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTG
Found at i:6611239 original size:27 final size:27
Alignment explanation
Indices: 6610851--6611232 Score: 446
Period size: 27 Copynumber: 14.3 Consensus size: 27
6610841 AGGGTTTTCA
* *
6610851 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
6610878 GTAATTTTATAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
6610905 ATAATTTTACAAACCAGGGGTACTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
6610932 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * * *
6610959 GTAATTTTATAAACAAAGGGTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
6610986 GTAATTTTACAAACCA--GGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
** *
6611011 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
6611038 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * * * * **
6611065 GTGATTTCATAAACCAAGGGTGTTTAA
1 GTAATTTTACAAACCAGGGGTATTTTG
6611092 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
*** * **
6611119 GTAATTTGGTAAACTA-AAGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
6611145 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * * ** * *
6611172 GTGATTTCATAAACCAATGGTGTTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
6611199 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
6611226 GTAATTT
1 GTAATTT
6611233 GGTAAACTAA
Statistics
Matches: 290, Mismatches: 62, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
25 22 0.08
26 20 0.07
27 248 0.86
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACCAGGGGTATTTTG
Found at i:6611239 original size:54 final size:54
Alignment explanation
Indices: 6610868--6611232 Score: 502
Period size: 54 Copynumber: 6.8 Consensus size: 54
6610858 CACAAATCAG
* * * * *
6610868 GGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* *
6610922 GGGTACTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* *
6610976 GGGTATTTTAGTAATTTTACAAACCA--GGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* *
6611028 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTCATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* ** ** *
6611082 GGGTGTTTAAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* * *
6611136 -AGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTCATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* * *
6611189 TGGTGTTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
6611233 GGTAAACTAA
Statistics
Matches: 274, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
52 49 0.18
53 45 0.16
54 180 0.66
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:6616002 original size:59 final size:59
Alignment explanation
Indices: 6615907--6616026 Score: 195
Period size: 59 Copynumber: 2.0 Consensus size: 59
6615897 TTGATACGTA
* *
6615907 ATACATGTTAGGGTTCAGGTGCTTTTGAGTAACCCCGTTGAGAGGCATGTGATTATGTG
1 ATACATGCTAGGGTTCAGGTGCTTTTGAGTAACCCCGTTGAGAGCCATGTGATTATGTG
* * *
6615966 ATACATGCTAGGGTTCGGGTGCTTTTGAGTAGCCCCGTTGAGAGCCATGTGATTCTGTG
1 ATACATGCTAGGGTTCAGGTGCTTTTGAGTAACCCCGTTGAGAGCCATGTGATTATGTG
6616025 AT
1 AT
6616027 CTGTGGCACT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (59 bp):
ATACATGCTAGGGTTCAGGTGCTTTTGAGTAACCCCGTTGAGAGCCATGTGATTATGTG
Found at i:6622576 original size:22 final size:22
Alignment explanation
Indices: 6622551--6622592 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6622541 CATAAAATTA
6622551 AAAAAGAA-AAATGAATCAATCC
1 AAAAAGAATAAA-GAATCAATCC
*
6622573 AAAAATAATAAAGAATCAAT
1 AAAAAGAATAAAGAATCAAT
6622593 TCATTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAAGAATAAAGAATCAATCC
Found at i:6632765 original size:42 final size:42
Alignment explanation
Indices: 6632706--6632790 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
6632696 ATGTCCTACT
**
6632706 GATGATTGAGGTCATGTATTTGTTATGAACTCTCCACAGCTC
1 GATGATTGAGGTCATGTATTTGTTACAAACTCTCCACAGCTC
*
6632748 GATGATTGAGGTCATGTATTTGTTACAAATTCTCCACAGCTC
1 GATGATTGAGGTCATGTATTTGTTACAAACTCTCCACAGCTC
6632790 G
1 G
6632791 TGTGAGTAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (42 bp):
GATGATTGAGGTCATGTATTTGTTACAAACTCTCCACAGCTC
Found at i:6638203 original size:31 final size:31
Alignment explanation
Indices: 6638165--6638227 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 31
6638155 CCTAACCCAA
6638165 ACCCATTTTAGGCCCG-CCAGTATTGGTTTTT
1 ACCCATTTTAGGCCCGTCC-GTATTGGTTTTT
6638196 ACCCATTTTAGGCCCGTCCGTATTGGTTTTT
1 ACCCATTTTAGGCCCGTCCGTATTGGTTTTT
6638227 A
1 A
6638228 AATTTTTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (31 bp):
ACCCATTTTAGGCCCGTCCGTATTGGTTTTT
Found at i:6638687 original size:60 final size:60
Alignment explanation
Indices: 6638557--6638687 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 60
6638547 TACAAAATTG
* * **
6638557 AATAGTTGGGTGACCATTTAGTAACTTTTCACAGTTAGGTGACCAAAAAAGAATTTTACT
1 AATAGTTGGGTAACCATTTAGTAACTTTTCACAATTAGGTGACCAAAAAAGAATAGTACT
** * *
6638617 AATAACTGGGTAACCATTTTGTAACTTTTCATAATT-GTGTGACCAAAAAAGAAATAGT-CT
1 AATAGTTGGGTAACCATTTAGTAACTTTTCACAATTAG-GTGACCAAAAAAG-AATAGTACT
6638677 AATAGTTGGGT
1 AATAGTTGGGT
6638688 GACTATTAGT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 1 0.02
60 54 0.92
61 4 0.07
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (60 bp):
AATAGTTGGGTAACCATTTAGTAACTTTTCACAATTAGGTGACCAAAAAAGAATAGTACT
Found at i:6639586 original size:18 final size:17
Alignment explanation
Indices: 6639551--6639591 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
6639541 TATTATTTTT
6639551 TTAAAAAATATAATACA
1 TTAAAAAATATAATACA
6639568 -TAAAAAATACTAATAACA
1 TTAAAAAATA-TAAT-ACA
6639586 TTAAAA
1 TTAAAA
6639592 TAAATGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 3 0.14
19 5 0.24
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAAAATATAATACA
Found at i:6640402 original size:21 final size:22
Alignment explanation
Indices: 6640378--6640431 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
6640368 ATAATTTAAA
6640378 AAATAATAATTTGTT-AAT-ACT
1 AAATAATAATTTGTTAAATCA-T
*
6640399 AAATAAT-ATTTTTTAAATCAT
1 AAATAATAATTTGTTAAATCAT
*
6640420 AAATATTAATTT
1 AAATAATAATTT
6640432 TCTTTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 6 0.21
21 17 0.61
22 5 0.18
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (22 bp):
AAATAATAATTTGTTAAATCAT
Found at i:6640849 original size:21 final size:20
Alignment explanation
Indices: 6640820--6640858 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6640810 TACACTTGCT
*
6640820 AAAATTTTATAATATTTTATA
1 AAAAATTTATAAT-TTTTATA
6640841 AAAAATTTATAATTTTTA
1 AAAAATTTATAATTTTTA
6640859 GGCTTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAAATTTATAATTTTTATA
Found at i:6641188 original size:11 final size:11
Alignment explanation
Indices: 6641174--6641213 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
6641164 TGTTTTCTCC
*
6641174 CTATTTTGCTA
1 CTATTTTACTA
6641185 CTATTTTACTA
1 CTATTTTACTA
* *
6641196 TTATGTTACTA
1 CTATTTTACTA
6641207 CTATTTT
1 CTATTTT
6641214 GTTGTTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:6647425 original size:6 final size:6
Alignment explanation
Indices: 6647416--6647445 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
6647406 AAAAGTTGTT
*
6647416 ATCAAA ATCAAA ACCAAA ATCAAA ATCAAA
1 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA
6647446 TACACACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.67, C:0.20, G:0.00, T:0.13
Consensus pattern (6 bp):
ATCAAA
Found at i:6647463 original size:2 final size:2
Alignment explanation
Indices: 6647458--6647498 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6647448 CACACACAAA
6647458 AT AT AT 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 AT AT AT A
6647499 GGAGTTCACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6648957 original size:26 final size:24
Alignment explanation
Indices: 6648916--6648963 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
6648906 ATTTTTAGCC
*
6648916 TTTATTTTTAAGTTTTTTGTTTCT
1 TTTATTTTTAAGTTTTTGGTTTCT
*
6648940 TTTATCTTTTCAATTTTTTGGTTT
1 TTTAT-TTTT-AAGTTTTTGGTTT
6648964 TGTTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 4 0.20
26 11 0.55
ACGTcount: A:0.12, C:0.06, G:0.08, T:0.73
Consensus pattern (24 bp):
TTTATTTTTAAGTTTTTGGTTTCT
Found at i:6650131 original size:31 final size:31
Alignment explanation
Indices: 6650093--6650154 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
6650083 ACAAAAGTGT
* *
6650093 AAGAAAAATGAGGAATTTTTTACTCTAACAA
1 AAGAAAAATGAGGAATTTTTGACTCCAACAA
6650124 AAGAAAAATGAGGAATTTTTGACTCCAACAA
1 AAGAAAAATGAGGAATTTTTGACTCCAACAA
6650155 CCTAGGTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (31 bp):
AAGAAAAATGAGGAATTTTTGACTCCAACAA
Found at i:6651009 original size:11 final size:11
Alignment explanation
Indices: 6650990--6651025 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
6650980 TTGGGCCTAG
6650990 AACAAAAAATA
1 AACAAAAAATA
*
6651001 AACAGAAAAT-
1 AACAAAAAATA
6651011 AACAAAAAATA
1 AACAAAAAATA
6651022 AACA
1 AACA
6651026 GTCCAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.78, C:0.11, G:0.03, T:0.08
Consensus pattern (11 bp):
AACAAAAAATA
Found at i:6652073 original size:11 final size:11
Alignment explanation
Indices: 6652041--6652142 Score: 54
Period size: 11 Copynumber: 9.5 Consensus size: 11
6652031 TTTACAAATC
6652041 TATTTATTTAT
1 TATTTATTTAT
*
6652052 T-TGTTAATTAT
1 TAT-TTATTTAT
6652063 TATTTATTTAT
1 TATTTATTTAT
* *
6652074 TCTTTGTTTA-
1 TATTTATTTAT
*
6652084 T-TTTATTTTT
1 TATTTATTTAT
* *
6652094 TATTGA-GTAT
1 TATTTATTTAT
*
6652104 GTATTTTTTTAT
1 -TATTTATTTAT
*
6652116 CA-TTA-TTAT
1 TATTTATTTAT
*
6652125 TATTTATGTATT
1 TATTTATTTA-T
6652137 TATTTA
1 TATTTA
6652143 CAAATTGCTC
Statistics
Matches: 66, Mismatches: 16, Indels: 17
0.67 0.16 0.17
Matches are distributed among these distances:
9 11 0.17
10 10 0.15
11 34 0.52
12 11 0.17
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.69
Consensus pattern (11 bp):
TATTTATTTAT
Found at i:6662031 original size:21 final size:21
Alignment explanation
Indices: 6661982--6662032 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
6661972 GATACATGAT
*
6661982 ATACATAACATATATAAAAATA
1 ATACATAA-ATATATAAAAACA
6662004 ATA-ATAAATAATATAAAAACA
1 ATACATAAAT-ATATAAAAACA
6662025 A-ACATAAA
1 ATACATAAA
6662033 AAGATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.24
Consensus pattern (21 bp):
ATACATAAATATATAAAAACA
Found at i:6662088 original size:23 final size:22
Alignment explanation
Indices: 6661993--6662154 Score: 62
Period size: 23 Copynumber: 7.0 Consensus size: 22
6661983 TACATAACAT
6661993 ATATAA-AAATAATAATAA-ATA
1 ATATAAGAAA-AATAATAATATA
* * * *
6662014 ATATAAAAACAAACATAAAAAGATT
1 ATAT-AAGA-AAA-ATAATAATATA
* * *
6662039 ATATAATAAAATGTAAT-ATAAA
1 ATATAAGAAAA-ATAATAATATA
6662061 CATATAAGAAAAATAATAGATATA
1 -ATATAAGAAAAATAATA-ATATA
* * *
6662085 ATATAAGTAACAT-ATAAAATA
1 ATATAAGAAAAATAATAATATA
* * *
6662106 ATATATATATAATTAATAAATATA
1 ATATA-AGAAAAATAAT-AATATA
*
6662130 ATATATGTGAAAATATAATAATATA
1 ATATA--AGAAAA-ATAATAATATA
6662155 TAAAGAGATG
Statistics
Matches: 102, Mismatches: 26, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
21 13 0.13
22 14 0.14
23 31 0.30
24 25 0.25
25 15 0.15
26 4 0.04
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (22 bp):
ATATAAGAAAAATAATAATATA
Found at i:6662097 original size:34 final size:30
Alignment explanation
Indices: 6662059--6662130 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 30
6662049 ATGTAATATA
6662059 AACATATAAGAAAAATAATAGATATAATATAAGT
1 AACATATAA-AAAAAT-ATAGATATAAT-TAA-T
* *
6662093 AACATATAAAATAATATATATATAATTAAT
1 AACATATAAAAAAATATAGATATAATTAAT
6662123 AA-ATATAA
1 AACATATAA
6662131 TATATGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 6 0.17
30 3 0.08
31 3 0.08
32 10 0.28
33 5 0.14
34 9 0.25
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (30 bp):
AACATATAAAAAAATATAGATATAATTAAT
Found at i:6662132 original size:27 final size:27
Alignment explanation
Indices: 6662073--6662132 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
6662063 TATAAGAAAA
*
6662073 ATAATAGATATAATATAAGTAACATAT
1 ATAATAGATATAATATAAGTAACAAAT
* * *
6662100 AAAATA-ATATATATATAATTAATAAAT
1 ATAATAGATATA-ATATAAGTAACAAAT
6662127 ATAATA
1 ATAATA
6662133 TATGTGAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (27 bp):
ATAATAGATATAATATAAGTAACAAAT
Found at i:6662190 original size:3 final size:3
Alignment explanation
Indices: 6662184--6662242 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
6662174 ATTTAAGAAA
* *
6662184 AAT AAT ACAT AAT AAGT AAT AAT AAT ATAT AATT AA- AAT AAT ACT TAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT
6662232 AAT AA- AAT AAT
1 AAT AAT AAT AAT
6662243 TTTATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 30 0.65
4 12 0.26
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:6662197 original size:7 final size:6
Alignment explanation
Indices: 6662184--6662242 Score: 50
Period size: 7 Copynumber: 9.5 Consensus size: 6
6662174 ATTTAAGAAA
* *
6662184 AATAAT ACATAAT AAGTAAT AATAAT ATATAATT AA-AAT AATACT TATAAT
1 AATAAT A-ATAAT AA-TAAT AATAAT A-ATAA-T AATAAT AATAAT AATAAT
6662235 AA-AAT AAT
1 AATAAT AAT
6662243 TTTATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 8 0.19
6 16 0.37
7 17 0.40
8 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (6 bp):
AATAAT
Found at i:6662210 original size:36 final size:34
Alignment explanation
Indices: 6662164--6662246 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 34
6662154 ATAAAGAGAT
6662164 GTAAAATAATATTTAAGAAAAATAATACATAATAA
1 GTAAAATAATATTTAAGAAAAATAATAC-TAATAA
* ** *
6662199 GTAATAATAATATATAATTAAAATAATACTTATAA
1 GTAA-AATAATATTTAAGAAAAATAATACTAATAA
6662234 -TAAAATAAT-TTTA
1 GTAAAATAATATTTA
6662247 TAATATATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
32 3 0.07
33 6 0.14
34 3 0.07
35 9 0.21
36 21 0.50
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (34 bp):
GTAAAATAATATTTAAGAAAAATAATACTAATAA
Found at i:6662225 original size:16 final size:16
Alignment explanation
Indices: 6662164--6662242 Score: 70
Period size: 16 Copynumber: 4.6 Consensus size: 16
6662154 ATAAAGAGAT
*
6662164 GTAAAATAATATTTAA
1 GTAAAATAATATATAA
*
6662180 GAAAAATAATACATAATAA
1 GTAAAATAAT--AT-ATAA
6662199 GTAATAATAATATATAA
1 GTAA-AATAATATATAA
*
6662216 TTAAAATAATACTTATAA
1 GTAAAATAATA--TATAA
6662234 -TAAAATAAT
1 GTAAAATAAT
6662243 TTTATAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
16 16 0.30
17 16 0.30
18 9 0.17
19 6 0.11
20 6 0.11
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (16 bp):
GTAAAATAATATATAA
Found at i:6662249 original size:16 final size:17
Alignment explanation
Indices: 6662165--6662251 Score: 67
Period size: 16 Copynumber: 5.1 Consensus size: 17
6662155 TAAAGAGATG
6662165 TAAAATAATA-TT-TAA
1 TAAAATAATACTTATAA
*
6662180 GAAAAATAATAC--ATAA
1 -TAAAATAATACTTATAA
*
6662196 TAAGTAATAATAATATATAA
1 TAA--AATAATACT-TATAA
6662216 TTAAAATAATACTTATAA
1 -TAAAATAATACTTATAA
*
6662234 TAAAATAAT-TTTATAA
1 TAAAATAATACTTATAA
6662250 TA
1 TA
6662252 TATAATAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
15 2 0.03
16 20 0.34
17 16 0.28
18 5 0.09
19 8 0.14
20 4 0.07
21 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
TAAAATAATACTTATAA
Found at i:6664160 original size:119 final size:119
Alignment explanation
Indices: 6663819--6664408 Score: 1033
Period size: 119 Copynumber: 5.0 Consensus size: 119
6663809 TCTTGAGTTT
* * * * *
6663819 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAGACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
6663884 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
6663938 TTTGA-AACGTCTGAGAGTCAAATCTGCTATGTCC-CAATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
6664001 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTGTA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
6664055 TTTGAGAACGTCTGAGAGTCAAATCTGTTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
6664120 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
6664174 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
6664239 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
6664293 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAAAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* **
6664358 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCT
6664409 GTCTTCAATT
Statistics
Matches: 451, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
117 84 0.19
118 55 0.12
119 312 0.69
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:6672133 original size:12 final size:12
Alignment explanation
Indices: 6672116--6672160 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
6672106 GCATCTTAGC
6672116 CAACTGCTCTTG
1 CAACTGCTCTTG
6672128 CAACTGCTCTTG
1 CAACTGCTCTTG
* *
6672140 CATA-TCCTTTTG
1 CA-ACTGCTCTTG
6672152 CAACTGCTC
1 CAACTGCTC
6672161 AAACCTTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 1 0.04
12 25 0.93
13 1 0.04
ACGTcount: A:0.18, C:0.33, G:0.13, T:0.36
Consensus pattern (12 bp):
CAACTGCTCTTG
Found at i:6675926 original size:21 final size:21
Alignment explanation
Indices: 6675876--6675927 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
6675866 TACATGATAT
* *
6675876 ACATAACATATATAAAAATAAT
1 ACATAATA-ATATAAAAATAAA
6675898 A-ATAAATAATATAAAAATAAA
1 ACAT-AATAATATAAAAATAAA
6675919 ACATAATAA
1 ACATAATAA
6675928 AGATTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (21 bp):
ACATAATAATATAAAAATAAA
Found at i:6675928 original size:10 final size:9
Alignment explanation
Indices: 6675887--6675928 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
6675877 CATAACATAT
6675887 ATAAAAATA
1 ATAAAAATA
6675896 ATAATAAATA
1 ATAA-AAATA
*
6675906 ATATAAA-A
1 ATAAAAATA
6675914 ATAAAACATA
1 ATAAAA-ATA
6675924 ATAAA
1 ATAAA
6675929 GATTATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 6 0.21
9 8 0.29
10 14 0.50
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAAAAATA
Found at i:6675935 original size:25 final size:24
Alignment explanation
Indices: 6675896--6675943 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
6675886 TATAAAAATA
*
6675896 ATAATAAATAATATAAAAATAAAAC
1 ATAATAAAGAATAT-AAAATAAAAC
* *
6675921 ATAATAAAGATTATATAATAAAA
1 ATAATAAAGAATATAAAATAAAA
6675944 TGTAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (24 bp):
ATAATAAAGAATATAAAATAAAAC
Found at i:6676088 original size:3 final size:3
Alignment explanation
Indices: 6676082--6676140 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
6676072 ATTTAAGAAA
* *
6676082 AAT AAT ACAT AAT AAGT AAT AAT AAT ATAT AATT AA- AAT AAT ACT TAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT
6676130 AAT AA- AAT AAT
1 AAT AAT AAT AAT
6676141 TTTATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 30 0.65
4 12 0.26
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Done.