Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 120 of 127
Found at i:23178459 original size:8 final size:8
Alignment explanation
Indices: 23178390--23178463 Score: 51
Period size: 9 Copynumber: 8.6 Consensus size: 8
23178380 TTTTTTAATT
23178390 TTTTTGAA
1 TTTTTGAA
*
23178398 TCTTTGAAA
1 TTTTTG-AA
* *
23178407 TCTCTGCAA
1 TTTTTG-AA
*
23178416 TCTTTGAA
1 TTTTTGAA
23178424 CTTTTGTGAA
1 -TTTT-TGAA
23178434 TTTTT-AA
1 TTTTTGAA
23178441 TTTTTGAGAA
1 TTTTT--GAA
23178451 TTTTTGAA
1 TTTTTGAA
23178459 TTTTT
1 TTTTT
23178464 ATGAATCTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
7 7 0.13
8 16 0.29
9 21 0.38
10 11 0.20
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.55
Consensus pattern (8 bp):
TTTTTGAA
Found at i:23178469 original size:18 final size:18
Alignment explanation
Indices: 23178352--23178495 Score: 82
Period size: 18 Copynumber: 8.1 Consensus size: 18
23178342 ATTTTGAACT
*
23178352 TTTTTGTGAATCTTTGAA
1 TTTTTATGAATCTTTGAA
* ** * *
23178370 CTTTTACAAATTTTTTAA
1 TTTTTATGAATCTTTGAA
*
23178388 TTTTTTTGAATCTTTGAA
1 TTTTTATGAATCTTTGAA
* * *
23178406 -ATCTCTGCAATCTTTGAA
1 TTTTTATG-AATCTTTGAA
* * *
23178424 CTTTTGTGAAT-TTTTAA
1 TTTTTATGAATCTTTGAA
*
23178441 TTTTTGA-GAATTTTTGAA
1 TTTTT-ATGAATCTTTGAA
23178459 TTTTTATGAATC-TTGAA
1 TTTTTATGAATCTTTGAA
* *
23178476 TCTTTTGTAAATCTTT-AA
1 T-TTTTATGAATCTTTGAA
23178494 TT
1 TT
23178496 GAATATTAAA
Statistics
Matches: 94, Mismatches: 25, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
17 25 0.27
18 63 0.67
19 6 0.06
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.55
Consensus pattern (18 bp):
TTTTTATGAATCTTTGAA
Found at i:23178471 original size:53 final size:53
Alignment explanation
Indices: 23178336--23178495 Score: 153
Period size: 53 Copynumber: 3.0 Consensus size: 53
23178326 AACTTGCAAA
* * **
23178336 TGAGAAATTTTGAACTTTTTTGTGAATCTTTGAACTTTTACAAATTTTTTAATTTT
1 TGAGAATTTTTGAA--TTTTTATGAATCTTTGAACTTTTGTAAA-TTTTTAATTTT
** * * * * *
23178392 TTTGAATCTTTGAA-ATCTCTGCAATCTTTGAACTTTTGTGAATTTTTAATTTT
1 TGAGAATTTTTGAATTTTTATG-AATCTTTGAACTTTTGTAAATTTTTAATTTT
*
23178445 TGAGAATTTTTGAATTTTTATGAATC-TTGAATCTTTTGTAAATCTTTAATT
1 TGAGAATTTTTGAATTTTTATGAATCTTTGAA-CTTTTGTAAATTTTTAATT
23178496 GAATATTAAA
Statistics
Matches: 83, Mismatches: 18, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
52 5 0.06
53 47 0.57
54 21 0.25
56 10 0.12
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (53 bp):
TGAGAATTTTTGAATTTTTATGAATCTTTGAACTTTTGTAAATTTTTAATTTT
Found at i:23184547 original size:13 final size:13
Alignment explanation
Indices: 23184529--23184553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23184519 CCATAGCATG
23184529 ATATGGTACAAAA
1 ATATGGTACAAAA
23184542 ATATGGTACAAA
1 ATATGGTACAAA
23184554 GAAGGGATAC
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:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (13 bp):
ATATGGTACAAAA
Found at i:23196262 original size:29 final size:30
Alignment explanation
Indices: 23196189--23196277 Score: 85
Period size: 30 Copynumber: 2.9 Consensus size: 30
23196179 AAAATTGAAC
*
23196189 AATTTTATATTTTAAAATAAATTTTTATATTTT
1 AATTTTATA--TTAAAATAAACTTTTAT-TTTT
* *
23196222 --TATTATATTTAAATAAA-TTTTATTTGTT
1 AATTTTATATTAAAATAAACTTTTATTT-TT
*
23196250 AATTTTATATTAAAATAAACTCTTATTT
1 AATTTTATATTAAAATAAACTTTTATTT
23196278 CAAATAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
27 2 0.04
28 8 0.17
29 9 0.19
30 15 0.32
31 13 0.28
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (30 bp):
AATTTTATATTAAAATAAACTTTTATTTTT
Found at i:23196310 original size:30 final size:29
Alignment explanation
Indices: 23196276--23196365 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 29
23196266 AAACTCTTAT
*
23196276 TTCAAATAAAAAATAAAAAATTAATTTAAA
1 TTCAAATAAAATATAAAAAATT-ATTTAAA
* *
23196306 TTCAAACT-AAATATAAAAAGTTTATTTACA
1 TTCAAA-TAAAATATAAAAA-ATTATTTAAA
* *
23196336 TAC-AATATAAATATACAAAATTATTTAAA
1 TTCAAATA-AAATATAAAAAATTATTTAAA
23196365 T
1 T
23196366 AAAAAGTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
28 1 0.02
29 11 0.22
30 34 0.69
31 3 0.06
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (29 bp):
TTCAAATAAAATATAAAAAATTATTTAAA
Found at i:23198236 original size:22 final size:21
Alignment explanation
Indices: 23198200--23198241 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23198190 TAAGTTTTTA
* *
23198200 ATTTTTAATTTTTTATATAAG
1 ATTTTTAATTATTTAAATAAG
23198221 ATTTTTAATATATTTAAATAA
1 ATTTTTAAT-TATTTAAATAA
23198242 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTTAATTATTTAAATAAG
Found at i:23202222 original size:40 final size:40
Alignment explanation
Indices: 23202174--23202255 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
23202164 GTACAGAGAG
23202174 AAAATGGTGATAAGAGGAGAAAGCAAGGATGAACATTGAC
1 AAAATGGTGATAAGAGGAGAAAGCAAGGATGAACATTGAC
* **
23202214 AAAATGGTGATAAGTGGAGAAAGCAAGGATGAAGTTTGAC
1 AAAATGGTGATAAGAGGAGAAAGCAAGGATGAACATTGAC
23202254 AA
1 AA
23202256 GGATGGTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.46, C:0.06, G:0.30, T:0.17
Consensus pattern (40 bp):
AAAATGGTGATAAGAGGAGAAAGCAAGGATGAACATTGAC
Found at i:23209125 original size:13 final size:12
Alignment explanation
Indices: 23209103--23209154 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
23209093 TTTTCATATA
23209103 AATATAAATTAT
1 AATATAAATTAT
*
23209115 AATATATAATTTT
1 AATATA-AATTAT
**
23209128 AATATAAAAAAT
1 AATATAAATTAT
*
23209140 AATAAAAATATAT
1 AATATAAAT-TAT
23209153 AA
1 AA
23209155 ATTTAAATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
12 16 0.52
13 15 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATAAATTAT
Found at i:23210584 original size:30 final size:29
Alignment explanation
Indices: 23210544--23210602 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
23210534 TGTTAATGAC
*
23210544 GTTATTCTTCATGGTTACAACAAGAATTAT
1 GTTATACTTCATGG-TACAACAAGAATTAT
* **
23210574 GTTATACTTCATTGTACAGTAAGAATTAT
1 GTTATACTTCATGGTACAACAAGAATTAT
23210603 TTGGTTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (29 bp):
GTTATACTTCATGGTACAACAAGAATTAT
Found at i:23211995 original size:24 final size:25
Alignment explanation
Indices: 23211966--23212019 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
23211956 AAATAAGCTA
23211966 TAATTGTGCT-TAAATGACATTTTC
1 TAATTGTGCTATAAATGACATTTTC
* *
23211990 TAATTGTTCTATGAATGACATTTTC
1 TAATTGTGCTATAAATGACATTTTC
23212015 TAATT
1 TAATT
23212020 ATTCTGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (25 bp):
TAATTGTGCTATAAATGACATTTTC
Found at i:23212009 original size:25 final size:25
Alignment explanation
Indices: 23211978--23212032 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
23211968 ATTGTGCTTA
*
23211978 AATGACATTTTCTAATTGTTCTATG
1 AATGACATTTTCTAATTATTCTATG
*
23212003 AATGACATTTTCTAATTATTCTGTG
1 AATGACATTTTCTAATTATTCTATG
23212028 AATGA
1 AATGA
23212033 AATAGGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (25 bp):
AATGACATTTTCTAATTATTCTATG
Found at i:23215293 original size:18 final size:17
Alignment explanation
Indices: 23215272--23215332 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 17
23215262 AAATATTATT
23215272 TTAAATATAAATATAAAA
1 TTAAATATAAATA-AAAA
*
23215290 TTAAATATATATAAAAA
1 TTAAATATAAATAAAAA
*
23215307 TGTATAAAATTAAATAAATAA
1 T-TA-AATA-TAAATAAA-AA
23215328 TTAAA
1 TTAAA
23215333 AAAATAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.14
18 14 0.39
19 5 0.14
20 9 0.25
21 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAATATAAATAAAAA
Found at i:23215339 original size:26 final size:25
Alignment explanation
Indices: 23215284--23215339 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
23215274 AAATATAAAT
* *
23215284 ATAAAATTAAATATATATAAAAATGT
1 ATAAAATTAAATAAATATAAAAA-GA
23215310 ATAAAATTAAATAAATAATTAAAAA-A
1 ATAAAATTAAATAAAT-A-TAAAAAGA
23215336 ATAA
1 ATAA
23215340 TTTTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 19 0.73
27 1 0.04
28 6 0.23
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (25 bp):
ATAAAATTAAATAAATATAAAAAGA
Found at i:23222084 original size:48 final size:47
Alignment explanation
Indices: 23222009--23222104 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 47
23221999 CTCATAAGGT
* *
23222009 TTAGTTCTGGAGAAGGTTAAATGGAGTTATTGTAAATAATTACTACTA
1 TTAGTTCTCGAGAAGGTTAAATAGAGTTATTGTAAAT-ATTACTACTA
*
23222057 TTAGTTCTCGAGAAGGTTAGATAGAGTTATTGTAAATATTACTACTA
1 TTAGTTCTCGAGAAGGTTAAATAGAGTTATTGTAAATATTACTACTA
23222104 T
1 T
23222105 CTTGCAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 11 0.24
48 34 0.76
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (47 bp):
TTAGTTCTCGAGAAGGTTAAATAGAGTTATTGTAAATATTACTACTA
Found at i:23222888 original size:86 final size:86
Alignment explanation
Indices: 23222743--23222915 Score: 319
Period size: 86 Copynumber: 2.0 Consensus size: 86
23222733 TTAAAACTAC
23222743 TAGTAATTACAAATTAAAGCGCATACCAGACTTCTAAGAGTAAGCCTCTTATCAACCAAATCTAC
1 TAGTAATTACAAATTAAAGCGCATACCAGACTTCTAAGAGTAAGCCTCTTATCAACCAAATCTAC
*
23222808 ATTGACATAGCCAGTAAATGA
66 ATTGACATAGCCAGCAAATGA
* *
23222829 TAGTAATTACAAATTAAAGGGCATACCAGACTTCTAAGAGTAAGCCTCTTATCAGCCAAATCTAC
1 TAGTAATTACAAATTAAAGCGCATACCAGACTTCTAAGAGTAAGCCTCTTATCAACCAAATCTAC
23222894 ATTGACATAGCCAGCAAATGA
66 ATTGACATAGCCAGCAAATGA
23222915 T
1 T
23222916 GGTTTATACA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (86 bp):
TAGTAATTACAAATTAAAGCGCATACCAGACTTCTAAGAGTAAGCCTCTTATCAACCAAATCTAC
ATTGACATAGCCAGCAAATGA
Found at i:23225308 original size:17 final size:17
Alignment explanation
Indices: 23225288--23225320 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23225278 AATATAATTA
23225288 TAATTATTCTCTTTTCT
1 TAATTATTCTCTTTTCT
*
23225305 TAATTATTTTCTTTTC
1 TAATTATTCTCTTTTC
23225321 ATGTCATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTATTCTCTTTTCT
Found at i:23229254 original size:8 final size:8
Alignment explanation
Indices: 23229241--23229326 Score: 56
Period size: 8 Copynumber: 10.8 Consensus size: 8
23229231 AGTATAACAC
23229241 TATTATTA
1 TATTATTA
23229249 TATTATTA
1 TATTATTA
**
23229257 TCA-TGGTA
1 T-ATTATTA
*
23229265 T-CTATTA
1 TATTATTA
23229272 TATTATTA
1 TATTATTA
23229280 T-TGTATTA
1 TAT-TATTA
23229288 TAGTTATTA
1 TA-TTATTA
*
23229297 TAACTATTA
1 T-ATTATTA
23229306 TAATT-TTA
1 T-ATTATTA
23229314 -ATTATTA
1 TATTATTA
23229321 TATTAT
1 TATTAT
23229327 ATAATAATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
6 3 0.05
7 8 0.13
8 33 0.53
9 16 0.26
10 2 0.03
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (8 bp):
TATTATTA
Found at i:23229911 original size:31 final size:31
Alignment explanation
Indices: 23229863--23229935 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
23229853 GGTTTGGATG
*
23229863 AATTTTT-GATGAATTTTTCAGTGGGATATA
1 AATTTTTCGATGAATTTTTCAGTGGAATATA
* ** *
23229893 AATTTTTCGATGAGTTTTTTGGTGGAATATG
1 AATTTTTCGATGAATTTTTCAGTGGAATATA
23229924 AATTTTTCGATG
1 AATTTTTCGATG
23229936 GGATTTTCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 7 0.19
31 30 0.81
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (31 bp):
AATTTTTCGATGAATTTTTCAGTGGAATATA
Found at i:23230427 original size:24 final size:26
Alignment explanation
Indices: 23230400--23230455 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 26
23230390 TTTAAGTTTT
23230400 AAAAAAAAT-ATATTT-ATAAA-AACA
1 AAAAAAAATCAT-TTTAATAAATAACA
*
23230424 AAAAAAAATCCTTTTAATAAATAACA
1 AAAAAAAATCATTTTAATAAATAACA
23230450 AAAAAA
1 AAAAAA
23230456 TCTTTACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 12 0.43
25 6 0.21
26 10 0.36
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (26 bp):
AAAAAAAATCATTTTAATAAATAACA
Found at i:23230461 original size:22 final size:24
Alignment explanation
Indices: 23230425--23230469 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
23230415 ATAAAAACAA
23230425 AAAAAAATCCTTTTA-ATAAATAAC
1 AAAAAAATCCTTTTACA-AAATAAC
23230449 AAAAAAAT-C-TTTACAAAATAA
1 AAAAAAATCCTTTTACAAAATAA
23230470 ATTCATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAAAAATCCTTTTACAAAATAAC
Found at i:23230516 original size:45 final size:45
Alignment explanation
Indices: 23230467--23230552 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
23230457 CTTTACAAAA
* *
23230467 TAAA-TTCATGAATTCTACCAAACTATTGAAAAATTTTCATAGATT
1 TAAATTTCATGAAATCCACCAAACTATTGAAAAA-TTTCATAGATT
*
23230512 TAAATTTTATGAAATCCACCAAACTATTGAAAAATTTCATA
1 TAAATTTCATGAAATCCACCAAACTATTGAAAAATTTCATA
23230553 AATAAGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 11 0.30
46 26 0.70
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (45 bp):
TAAATTTCATGAAATCCACCAAACTATTGAAAAATTTCATAGATT
Found at i:23234162 original size:11 final size:10
Alignment explanation
Indices: 23234146--23234179 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
23234136 GTGCTCTACC
23234146 AAAAAAATAA
1 AAAAAAATAA
23234156 AAAAAAATGAA
1 AAAAAAAT-AA
*
23234167 AAAAAAAGAA
1 AAAAAAATAA
23234177 AAA
1 AAA
23234180 TTAATGGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.88, C:0.00, G:0.06, T:0.06
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:23234471 original size:10 final size:10
Alignment explanation
Indices: 23234458--23234515 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
23234448 GAAAAATGTG
23234458 TGAAAAAAAA
1 TGAAAAAAAA
*
23234468 TGAAAACAAA
1 TGAAAAAAAA
* *
23234478 GGTAAAAAAA
1 TGAAAAAAAA
*
23234488 T--AATAAAA
1 TGAAAAAAAA
23234496 T-AATAAAAAA
1 TGAA-AAAAAA
23234506 TGAAAAAAAA
1 TGAAAAAAAA
23234516 AAGAGACAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
8 7 0.18
9 1 0.03
10 28 0.74
11 2 0.05
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.14
Consensus pattern (10 bp):
TGAAAAAAAA
Found at i:23235456 original size:86 final size:86
Alignment explanation
Indices: 23235326--23235491 Score: 233
Period size: 86 Copynumber: 1.9 Consensus size: 86
23235316 AGAATCTTGC
* *** * * * *
23235326 GAATCTTTCTTTCTTGTGAATTTGAAAATCTTTACAAACCTTACATCTTTGTGAATCTAGAACTT
1 GAATCTTTCTTTCATACAAATTTGAAAATCCTTACAAACCTTACATCTTTGTAAATCTAAAACCT
23235391 TTACAAAACTTGAAATCGTGT
66 TTACAAAACTTGAAATCGTGT
* *
23235412 GAATCTTTCTTTCATACAAATTTGAAAATCCTTACGAACTTTACATCTTTGTAAATCTAAAACCT
1 GAATCTTTCTTTCATACAAATTTGAAAATCCTTACAAACCTTACATCTTTGTAAATCTAAAACCT
*
23235477 TTGCAAAACTTGAAA
66 TTACAAAACTTGAAA
23235492 ATTTTGCTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (86 bp):
GAATCTTTCTTTCATACAAATTTGAAAATCCTTACAAACCTTACATCTTTGTAAATCTAAAACCT
TTACAAAACTTGAAATCGTGT
Found at i:23235549 original size:87 final size:85
Alignment explanation
Indices: 23235348--23235550 Score: 214
Period size: 86 Copynumber: 2.3 Consensus size: 85
23235338 CTTGTGAATT
* * *
23235348 TGAAAATCTTTACAAACCTTACATCTTTGTGAATCTAGAACTTTTACAAAACTTGAAATCGTGTG
1 TGAAAATCTTTACAAA-CTTACATCTTTGTAAATCTAAAACCTTTACAAAACTTGAAATCGTGTG
* * *
23235413 AATCTTTCTTTCATACAAATT
65 AATATTTCATTCATACAAATC
* * * **
23235434 TGAAAATCCTTACGAACTTTACATCTTTGTAAATCTAAAACCTTTGCAAAACTTGAAAATTTTGC
1 TGAAAATCTTTACAAAC-TTACATCTTTGTAAATCTAAAACCTTTACAAAACTTG-AAATCGTG-
*
23235499 T-AATATTTCATTCTTACAAATC
63 TGAATATTTCATTCATACAAATC
23235521 TGAAAA-CTTTTACAAATCTTGA-ATCTTTGT
1 TGAAAATC-TTTACAAA-CTT-ACATCTTTGT
23235551 GATTTTGTTA
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
85 1 0.01
86 48 0.49
87 45 0.46
88 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.39
Consensus pattern (85 bp):
TGAAAATCTTTACAAACTTACATCTTTGTAAATCTAAAACCTTTACAAAACTTGAAATCGTGTGA
ATATTTCATTCATACAAATC
Found at i:23236399 original size:120 final size:120
Alignment explanation
Indices: 23235842--23236417 Score: 411
Period size: 120 Copynumber: 4.8 Consensus size: 120
23235832 TCTTGATCGT
* * * * * *
23235842 TTTATCTTTTTGACTCGTGAATTT-CATCTAGATCATTCAATTTTGATTTCGTCCAGATCATTTT
1 TTTATCTTTTTGACTCATGATTTTGC-CCTAG-TCATTCGATCTTGATTTCATCCAGATCATTTT
* * * * * * * *
23235906 TTGACTCAGA-TTTCTTTTTG-TCAGTCATTTTCAACCTCGAA-TCGATCTTAGTTGC
64 CTGACTCATAGTTTCATTTCGATCAATCATCTTCGACCTC-AACTCGATCTTAGTCGC
* *** * * * * *
23235961 TTTATCTTTTTGACTCACGATTTTGTTTTAATTATTCGATTTTGATTTTATCCAGATCATTTTTT
1 TTTATCTTTTTGACTCATGATTTTGCCCTAGTCATTCGATCTTGATTTCATCCAGATCATTTTCT
** * ** * * * * *
23236026 GACTCGCAGTTTCGTCCCTAT-TAGCTATCTTTC-ACCTCGACTCGATTTTAGTCGC
66 GACTCATAGTTTCATTTCGATCAATC-ATC-TTCGACCTCAACTCGATCTTAGTCGC
* * * * *
23236081 TTTATCTTTTCGACTCATGATTTTGCCTCTA-TCATTCGAT-TTTAGTTTCGTCCATATTATTTT
1 TTTATCTTTTTGACTCATGATTTTGCC-CTAGTCATTCGATCTTGA-TTTCATCCAGATCATTTT
* * * * * * *
23236144 CTGACTCGTGGTTCCATTTCGATTAGTAATCTTCGACCTCAACTCAGA-CCTAGTCGC
64 CTGACTCATAGTTTCATTTCGATCAATCATCTTCGACCTCAACTC-GATCTTAGTCGC
* * * ** * * *
23236201 TTTATTTTTTTCACTCACGATTTTATCCTGGTCATTCGATCTCGATTTCATCCAAATCA-TTTCT
1 TTTATCTTTTTGACTCATGATTTTGCCCTAGTCATTCGATCTTGATTTCATCCAGATCATTTTC-
* * * * *
23236265 TGGCT--TACGATTTCATCTCAATCAATCATCTTCGACCTCAACTCGGTCTTAGTCAC
65 TGACTCATA-G-TTTCATTTCGATCAATCATCTTCGACCTCAACTCGATCTTAGTCGC
* * *
23236321 TTTATCTTTTTGACTCGTGATTTCGCCCCAGTCATTCGATCTTGATTTCATCCAGATCATTTTCT
1 TTTATCTTTTTGACTCATGATTTTGCCCTAGTCATTCGATCTTGATTTCATCCAGATCATTTTCT
*
23236386 GACTCATAGTTTCATTTCGATCAATCAACTTC
66 GACTCATAGTTTCATTTCGATCAATCATCTTC
23236418 AATCGTGACT
Statistics
Matches: 349, Mismatches: 88, Indels: 39
0.73 0.18 0.08
Matches are distributed among these distances:
118 37 0.11
119 45 0.13
120 251 0.72
121 14 0.04
122 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (120 bp):
TTTATCTTTTTGACTCATGATTTTGCCCTAGTCATTCGATCTTGATTTCATCCAGATCATTTTCT
GACTCATAGTTTCATTTCGATCAATCATCTTCGACCTCAACTCGATCTTAGTCGC
Found at i:23236692 original size:3 final size:3
Alignment explanation
Indices: 23236684--23236839 Score: 77
Period size: 3 Copynumber: 55.3 Consensus size: 3
23236674 AGTATATCAC
* *
23236684 TAT TAT TA- TAT TAT TAT TAT TAT T-T TAC TA- TAT TA- TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
23236728 TA- TAT TA- TAGT TAT TA- TAGC TAT TAT AAT AAT AAT TAT T-G TAT
1 TAT TAT TAT TA-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
23236771 TA- TAT TA- AAT TA- TAT TAT TA- TAGT TA- TAA TAA TAA TAA TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
23236812 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23236840 TTCTTTTCTT
Statistics
Matches: 127, Mismatches: 10, Indels: 32
0.75 0.06 0.19
Matches are distributed among these distances:
2 24 0.19
3 97 0.76
4 6 0.05
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:23236705 original size:38 final size:37
Alignment explanation
Indices: 23236648--23236777 Score: 97
Period size: 38 Copynumber: 3.4 Consensus size: 37
23236638 TTATTTTTTC
*
23236648 TATTATTATTACTAGTATTATAGTA-TAGTA-TATCACTAT
1 TATTA-TATTA-TATTATTATAGTACTA-TATTAT-ACTAT
** *
23236687 TATTATATTATTATTATTATTTTACTATATTATAGTAT
1 TATTATATTA-TATTATTATAGTACTATATTATACTAT
* *
23236725 TATTATATTATAGTTATTATAG--CTATTATAATAATAAT
1 TATTATATTATA-TTATTATAGTACTA-TATTATACT-AT
*
23236763 TATTGTATTATATTA
1 TATTATATTATATTA
23236778 AATTATATTA
Statistics
Matches: 76, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
36 3 0.04
37 12 0.16
38 51 0.67
39 10 0.13
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (37 bp):
TATTATATTATATTATTATAGTACTATATTATACTAT
Found at i:23236773 original size:20 final size:20
Alignment explanation
Indices: 23236748--23236838 Score: 74
Period size: 20 Copynumber: 4.3 Consensus size: 20
23236738 TTATTATAGC
*
23236748 TATTATAATAATAATTATTG
1 TATTATAATAATAATTATTA
*
23236768 TATTATATTAAATTATATTATTA
1 TATTATAAT-AA-TA-ATTATTA
* *
23236791 TAGTTATAATAATAATAATAA
1 TA-TTATAATAATAATTATTA
* * *
23236812 TATTATTATTATTATTATTA
1 TATTATAATAATAATTATTA
23236832 TTATTAT
1 -TATTAT
23236839 TTTCTTTTCT
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
20 21 0.38
21 15 0.27
22 4 0.07
23 10 0.18
24 6 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTATAATAATAATTATTA
Found at i:23236828 original size:56 final size:58
Alignment explanation
Indices: 23236698--23236835 Score: 144
Period size: 56 Copynumber: 2.4 Consensus size: 58
23236688 ATTATATTAT
* * *
23236698 TATTATTATTTTACTATATTATAGTATTATTATATTATAGTTATTATAGCTATTATAATAA
1 TATTATTATTTTATTATATTATAG-ATTATTATATTATAGTTATAATA-C-ATAATAATAA
*
23236759 TA--ATTATTGTATTATATTA-A-ATTA-TATTATTATAGTTATAATA-ATAATAATAA
1 TATTATTATTTTATTATATTATAGATTATTA-TATTATAGTTATAATACATAATAATAA
23236812 TATTATTATTATTATTATTATTAT
1 TATTATTATT-TTATTA-TATTAT
23236836 TATTTTCTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
53 11 0.17
55 8 0.12
56 24 0.36
57 5 0.08
58 1 0.02
59 15 0.23
61 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (58 bp):
TATTATTATTTTATTATATTATAGATTATTATATTATAGTTATAATACATAATAATAA
Found at i:23237693 original size:25 final size:25
Alignment explanation
Indices: 23237643--23237703 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
23237633 TATTTATTTA
23237643 TTTATTTATTTTCATATTTTAAGTT
1 TTTATTTATTTTCATATTTTAAGTT
**
23237668 TTGT-TTTATTTTCAT-TTCTTTGGTT
1 TT-TATTTATTTTCATATT-TTAAGTT
23237693 TTTATTTATTT
1 TTTATTTATTT
23237704 ATTTAGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
24 3 0.10
25 27 0.87
26 1 0.03
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (25 bp):
TTTATTTATTTTCATATTTTAAGTT
Found at i:23240796 original size:16 final size:16
Alignment explanation
Indices: 23240775--23240806 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23240765 AAAGATATGG
*
23240775 TGAATACGGAATCACT
1 TGAATACGCAATCACT
23240791 TGAATACGCAATCACT
1 TGAATACGCAATCACT
23240807 CCGACAGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAATACGCAATCACT
Found at i:23242751 original size:20 final size:20
Alignment explanation
Indices: 23242726--23242794 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
23242716 ATAATATAAG
23242726 TAAAATTTGATAATTTTTGA
1 TAAAATTTGATAATTTTTGA
* *
23242746 TAAAATTTTAGTAACTTTTGA
1 TAAAATTTGA-TAATTTTTGA
* *
23242767 TACAATTTGATAATTATTGA
1 TAAAATTTGATAATTTTTGA
23242787 TAAAATTT
1 TAAAATTT
23242795 TAGCAACCTC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 24 0.59
21 17 0.41
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.48
Consensus pattern (20 bp):
TAAAATTTGATAATTTTTGA
Found at i:23243227 original size:25 final size:22
Alignment explanation
Indices: 23243112--23243224 Score: 111
Period size: 22 Copynumber: 5.1 Consensus size: 22
23243102 TCCAATAAGT
* * *
23243112 TTATCAATAATTTACTACTAAA
1 TTATGAATGATTTACTATTAAA
* *
23243134 TTAAT-ATTGATTTACTATTAAC
1 TT-ATGAATGATTTACTATTAAA
* *
23243156 TTATGAATGATTTATTACTAAA
1 TTATGAATGATTTACTATTAAA
*
23243178 TTATGAATGATTTATTATTAAA
1 TTATGAATGATTTACTATTAAA
* * *
23243200 CTGTTAATGATTTACTATTAAA
1 TTATGAATGATTTACTATTAAA
23243222 TTA
1 TTA
23243225 CTGATAATTT
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
21 2 0.03
22 70 0.95
23 2 0.03
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (22 bp):
TTATGAATGATTTACTATTAAA
Found at i:23243234 original size:22 final size:21
Alignment explanation
Indices: 23243121--23243281 Score: 96
Period size: 22 Copynumber: 7.4 Consensus size: 21
23243111 TTTATCAATA
*
23243121 ATTTACTACTAAATTAAT-ATTG
1 ATTTACTATTAAATT-ATGA-TG
*
23243143 ATTTACTATTAACTTATGAATG
1 ATTTACTATTAAATTATG-ATG
* *
23243165 ATTTATTACTAAATTATGAATG
1 ATTTACTATTAAATTATG-ATG
* *
23243187 ATTTATTATTAAACTGT-TAATG
1 ATTTACTATTAAA-T-TATGATG
*
23243209 ATTTACTATTAAATTACTGATA
1 ATTTACTATTAAATTA-TGATG
* * *
23243231 ATTTA-TAATAAAGTT-TAACTA
1 ATTTACTATTAAA-TTATGA-TG
* *
23243252 ATTTATTATTAATTTATTGATG
1 ATTTACTATTAAATTA-TGATG
23243274 ATTTACTA
1 ATTTACTA
23243282 CAAAGATATC
Statistics
Matches: 111, Mismatches: 17, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
20 3 0.03
21 18 0.16
22 84 0.76
23 5 0.05
24 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (21 bp):
ATTTACTATTAAATTATGATG
Found at i:23243352 original size:22 final size:21
Alignment explanation
Indices: 23243295--23243353 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
23243285 AGATATCAAT
23243295 AATTATC-TAATTTATGACTA
1 AATTATCATAATTTATGACTA
*
23243315 AATTATCACTACTTTACT-ACTA
1 AATTATCA-TAATTTA-TGACTA
23243337 AATTATCAATAATTTAT
1 AATTATC-ATAATTTAT
23243354 ATAATGAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 7 0.21
21 1 0.03
22 23 0.70
23 2 0.06
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTATCATAATTTATGACTA
Found at i:23243389 original size:22 final size:21
Alignment explanation
Indices: 23243364--23243418 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
23243354 ATAATGAATG
* *
23243364 ATTTACTATTATGTTATTATGC
1 ATTTACTATT-TGTTATCATGA
*
23243386 ATTTACTACTTTGTTATCATTA
1 ATTTACTA-TTTGTTATCATGA
23243408 ATTTACTATTT
1 ATTTACTATTT
23243419 AGTTTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.10
22 24 0.83
23 2 0.07
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTACTATTTGTTATCATGA
Found at i:23244078 original size:22 final size:22
Alignment explanation
Indices: 23244031--23244113 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
23244021 GATAATTAAT
** * *
23244031 TTATCAATTATTTACTACTCAG
1 TTATCAAAGATTTACTACTAAA
23244053 TTATCAAAGATTTACTACTAAA
1 TTATCAAAGATTTACTACTAAA
* * *
23244075 TTATCGATGATATTTACTTCTAAA
1 TTATC-A-AAGATTTACTACTAAA
* *
23244099 TTATGAATGATTTAC
1 TTATCAAAGATTTAC
23244114 CATTATGTTA
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
22 29 0.60
23 2 0.04
24 17 0.35
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.43
Consensus pattern (22 bp):
TTATCAAAGATTTACTACTAAA
Found at i:23244133 original size:22 final size:22
Alignment explanation
Indices: 23244108--23244155 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
23244098 ATTATGAATG
*
23244108 ATTTACCATTATGTTATAAAAT
1 ATTTACCATTAAGTTATAAAAT
* * *
23244130 ATTTATCATTAAGTTGTAAATT
1 ATTTACCATTAAGTTATAAAAT
23244152 ATTT
1 ATTT
23244156 TATTAAATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (22 bp):
ATTTACCATTAAGTTATAAAAT
Found at i:23244175 original size:20 final size:20
Alignment explanation
Indices: 23244137--23244175 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23244127 AATATTTATC
* *
23244137 ATTAAGTTGTAAATTATTTT
1 ATTAAATTGTAAATGATTTT
*
23244157 ATTAAATTGTTAATGATTT
1 ATTAAATTGTAAATGATTT
23244176 ACCACTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (20 bp):
ATTAAATTGTAAATGATTTT
Found at i:23244207 original size:22 final size:21
Alignment explanation
Indices: 23244159--23244210 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
23244149 ATTATTTTAT
* **
23244159 TAAATTGTTAATGATTTACCA
1 TAAATTATTAATGATTTATTA
23244180 CTAAATTATTAATGATTTATTA
1 -TAAATTATTAATGATTTATTA
23244202 TAAAATTAT
1 T-AAATTAT
23244211 AATTAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (21 bp):
TAAATTATTAATGATTTATTA
Found at i:23244295 original size:11 final size:11
Alignment explanation
Indices: 23244281--23244394 Score: 58
Period size: 11 Copynumber: 10.6 Consensus size: 11
23244271 AACTACTAAA
*
23244281 TTATTATTGAT
1 TTATTATTAAT
* *
23244292 TTATAATTAAA
1 TTATTATTAAT
*
23244303 TTATTAGTAAT
1 TTATTATTAAT
*
23244314 TTACTATT-AT
1 TTATTATTAAT
* *
23244324 ATTATTAGTGAT
1 -TTATTATTAAT
* *
23244336 TTACTGTTAA-
1 TTATTATTAAT
*
23244346 --GTTATTAAT
1 TTATTATTAAT
*
23244355 TTATTATTAAA
1 TTATTATTAAT
* *
23244366 TTATTAATGAT
1 TTATTATTAAT
23244377 TTATTATTACAT
1 TTATTATTA-AT
23244389 TT-TTAT
1 TTATTAT
23244395 ATTTACTATT
Statistics
Matches: 73, Mismatches: 24, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
8 5 0.07
10 2 0.03
11 60 0.82
12 6 0.08
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (11 bp):
TTATTATTAAT
Found at i:23244357 original size:63 final size:61
Alignment explanation
Indices: 23244284--23244401 Score: 155
Period size: 63 Copynumber: 1.9 Consensus size: 61
23244274 TACTAAATTA
* * *
23244284 TTATTGATTTATAATTAAATTATTAGTAATTTACTATTATATTATTAGTGATTTACTGTTAAG
1 TTATTAATTTATAATTAAATTATTAATAATTTACTATTACATTATTA-T-ATTTACTGTTAAG
* * * *
23244347 TTATTAATTTATTATTAAATTATTAATGATTTATTATTACATTTTTATATTTACT
1 TTATTAATTTATAATTAAATTATTAATAATTTACTATTACATTATTATATTTACT
23244402 ATTAGGTATC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
61 7 0.15
62 1 0.02
63 40 0.83
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (61 bp):
TTATTAATTTATAATTAAATTATTAATAATTTACTATTACATTATTATATTTACTGTTAAG
Found at i:23244581 original size:65 final size:67
Alignment explanation
Indices: 23244502--23244641 Score: 162
Period size: 65 Copynumber: 2.1 Consensus size: 67
23244492 AAGTTATTAT
* * **
23244502 TGATTTA-TTATTAAGTTATT-ACTAATTAACTATTATCTTATAAATTATTTACTACTAAATTAT
1 TGATTTACTTATTAAGTT-TTCAATAATTAACTACTAAATTATAAATTATTTACTACTAAATTAT
23244565 -AC
65 CAC
* * * *
23244567 TGATTTACTT-TTAAGTTTTCAATGATTAACTACTAAATTATCAATTATTTACTATTAATTTATC
1 TGATTTACTTATTAAGTTTTCAATAATTAACTACTAAATTATAAATTATTTACTACTAAATTATC
*
23244631 AT
66 AC
23244633 TGATTTACT
1 TGATTTACT
23244642 ATCAACTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
64 2 0.03
65 49 0.78
66 12 0.19
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (67 bp):
TGATTTACTTATTAAGTTTTCAATAATTAACTACTAAATTATAAATTATTTACTACTAAATTATC
AC
Found at i:23244643 original size:22 final size:22
Alignment explanation
Indices: 23244272--23244643 Score: 178
Period size: 22 Copynumber: 17.2 Consensus size: 22
23244262 TAACTAATAA
*
23244272 ACTACTAAATTATTATTGATTT
1 ACTATTAAATTATTATTGATTT
* *
23244294 A-TAATTAAATTATTAGTAATTT
1 ACT-ATTAAATTATTATTGATTT
* *
23244316 ACTATTATATTATTAGTGATTT
1 ACTATTAAATTATTATTGATTT
* *
23244338 ACTGTTAAGTTATTA---ATTT
1 ACTATTAAATTATTATTGATTT
* *
23244357 ATTATTAAATTATTAATGATTT
1 ACTATTAAATTATTATTGATTT
* * *
23244379 ATTATTACATTTTTA-T-ATTT
1 ACTATTAAATTATTATTGATTT
** * *
23244399 ACTATT-AGGTATCATTGACTT
1 ACTATTAAATTATTATTGATTT
* *
23244420 ACTACTTAATTTTTTATT-ATTT
1 ACTA-TTAAATTATTATTGATTT
** * **
23244442 ACTAAAAAATTATCACCGATTT
1 ACTATTAAATTATTATTGATTT
* *
23244464 ACCACTAAATTATCTA-TGATTT
1 ACTATTAAATTAT-TATTGATTT
* *
23244486 A-TAATCAAGTTATTATTGATTT
1 ACT-ATTAAATTATTATTGATTT
* * * * *
23244508 ATTATTAAGTTATTACTAATTA
1 ACTATTAAATTATTATTGATTT
** *
23244530 ACTATTATCTTATAAATT-ATTT
1 ACTATTAAATTAT-TATTGATTT
* *
23244552 ACTACTAAATTA-TACTGATTT
1 ACTATTAAATTATTATTGATTT
* * * *
23244573 ACTTTTAAGTT-TTCAATGATTA
1 ACTATTAAATTATT-ATTGATTT
* *
23244595 ACTACTAAATTATCAATT-ATTT
1 ACTATTAAATTAT-TATTGATTT
* *
23244617 ACTATTAATTTATCATTGATTT
1 ACTATTAAATTATTATTGATTT
23244639 ACTAT
1 ACTAT
23244644 CAACTAATTA
Statistics
Matches: 259, Mismatches: 70, Indels: 42
0.70 0.19 0.11
Matches are distributed among these distances:
19 19 0.07
20 12 0.05
21 33 0.13
22 181 0.70
23 14 0.05
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (22 bp):
ACTATTAAATTATTATTGATTT
Found at i:23244901 original size:22 final size:22
Alignment explanation
Indices: 23244847--23244949 Score: 91
Period size: 22 Copynumber: 4.7 Consensus size: 22
23244837 TATTATCATA
* * *
23244847 TATTATTATATTATTACTAATT
1 TATTATTAAATTATCATTAATT
* **
23244869 TACTAAAAAATTATCAATT-ATT
1 TATTATTAAATTATC-ATTAATT
* * *
23244891 TATTACTAAATTATCGTTCATT
1 TATTATTAAATTATCATTAATT
*
23244913 TATTATTAAGTTATCATTAATT
1 TATTATTAAATTATCATTAATT
*
23244935 TACTATTAAATTATC
1 TATTATTAAATTATC
23244950 GATGATTATT
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
21 2 0.03
22 59 0.94
23 2 0.03
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTATTAAATTATCATTAATT
Found at i:23247410 original size:15 final size:15
Alignment explanation
Indices: 23247392--23247444 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
23247382 TTATTTTAAA
23247392 AATTTTATTATACAT
1 AATTTTATTATACAT
* *
23247407 AATTTTTATTATATAA
1 AA-TTTTATTATACAT
* **
23247423 AATATTAAAATACAT
1 AATTTTATTATACAT
23247438 AATTTTA
1 AATTTTA
23247445 AAAAATAAAG
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 16 0.55
16 13 0.45
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTTTATTATACAT
Found at i:23247415 original size:30 final size:31
Alignment explanation
Indices: 23247379--23247443 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
23247369 AAGCTTAATT
* * **
23247379 TTTTTATTTTA-AAAATTTTATTATACATAA
1 TTTTTATTATATAAAATATTAAAATACATAA
23247409 TTTTTATTATATAAAATATTAAAATACATAA
1 TTTTTATTATATAAAATATTAAAATACATAA
23247440 TTTT
1 TTTT
23247444 AAAAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (31 bp):
TTTTTATTATATAAAATATTAAAATACATAA
Found at i:23247999 original size:2 final size:2
Alignment explanation
Indices: 23247986--23248035 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
23247976 ATAGACATAA
*
23247986 AT AT AG AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
*
23248028 AT AG AT AT
1 AT AT AT AT
23248036 GCTTATCCGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:23252346 original size:74 final size:74
Alignment explanation
Indices: 23252256--23252421 Score: 185
Period size: 74 Copynumber: 2.2 Consensus size: 74
23252246 TTTTATCTAG
* * * *
23252256 TATAATTAATCAATCAAAAT-TAAAAGTTACGTGAAATCTACCAAATCAAATTATTTTA-TTTTC
1 TATAATTAATCAATCAAAATCTAAAA-TTACATAAAATCTACCAAATCAAACTATTTTACTTAT-
*
23252319 AATAATTATAA
64 AATAACTATAA
* * * *
23252330 TATAATTAA-CAGATCAAAATCTAAAATTATATAAAATTTATCAAATCGAACTATTTTACTTATA
1 TATAATTAATCA-ATCAAAATCTAAAATTACATAAAATCTACCAAATCAAACTATTTTACTTATA
*
23252394 ATAGCTATAA
65 ATAACTATAA
*
23252404 TATAATTAATTAATCAAA
1 TATAATTAATCAATCAAA
23252422 TTAAATTTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
73 2 0.03
74 66 0.86
75 9 0.12
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (74 bp):
TATAATTAATCAATCAAAATCTAAAATTACATAAAATCTACCAAATCAAACTATTTTACTTATAA
TAACTATAA
Found at i:23254011 original size:52 final size:52
Alignment explanation
Indices: 23253925--23254081 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
23253915 TATAACCATA
* * *
23253925 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
23253977 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * **
23254029 CAAACTTACCTATTAAGAATCATCTTT-CTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-CCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
23254081 C
1 C
23254082 TTCTTGTCCA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 90 0.96
53 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:23254122 original size:11 final size:11
Alignment explanation
Indices: 23254106--23254147 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
23254096 GCAATATCTG
*
23254106 ACAAATCCCAA
1 ACAAATCTCAA
*
23254117 ACAAATCTCTA
1 ACAAATCTCAA
23254128 ACAAATCTCAA
1 ACAAATCTCAA
*
23254139 ACGAATCTC
1 ACAAATCTC
23254148 TTATGGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:23254131 original size:22 final size:22
Alignment explanation
Indices: 23254106--23254148 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23254096 GCAATATCTG
23254106 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
* *
23254128 ACAAATCTCAAACGAATCTCT
1 ACAAATCCCAAACAAATCTCT
23254149 TATGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:23255058 original size:52 final size:52
Alignment explanation
Indices: 23254972--23255128 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
23254962 TATAACCATA
* * *
23254972 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * *
23255024 CAAACTTGTCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * **
23255076 CAAACTTACCTATTAAGAATCATCTTT-CTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-CCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
23255128 C
1 C
23255129 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 88 0.96
53 4 0.04
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:23255169 original size:11 final size:11
Alignment explanation
Indices: 23255153--23255194 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
23255143 GCAATATCTG
*
23255153 ACAAATCCCAA
1 ACAAATCTCAA
*
23255164 ACAAATCTCTA
1 ACAAATCTCAA
23255175 ACAAATCTCAA
1 ACAAATCTCAA
*
23255186 ACGAATCTC
1 ACAAATCTC
23255195 TTATGGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:23255178 original size:22 final size:22
Alignment explanation
Indices: 23255153--23255195 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23255143 GCAATATCTG
23255153 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
* *
23255175 ACAAATCTCAAACGAATCTCT
1 ACAAATCCCAAACAAATCTCT
23255196 TATGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:23273018 original size:38 final size:39
Alignment explanation
Indices: 23272938--23273018 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
23272928 TATAAAAGTA
* * ***
23272938 AATAGAAGGTAAAAGGGTTAAAAAAAACTGTGTATTTTT
1 AATAGAAGGTAAAAGAGTTAAAAAAAACTGTCTATAAAT
23272977 AATAGAAGGTAAAAGAGTTAAAAAAAA-TG-CTATCAAAT
1 AATAGAAGGTAAAAGAGTTAAAAAAAACTGTCTAT-AAAT
23273015 AATA
1 AATA
23273019 ATAATAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
37 3 0.08
38 7 0.19
39 26 0.72
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.26
Consensus pattern (39 bp):
AATAGAAGGTAAAAGAGTTAAAAAAAACTGTCTATAAAT
Found at i:23273155 original size:31 final size:31
Alignment explanation
Indices: 23273085--23273159 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
23273075 TTATTTTAGG
*
23273085 TCAATTAAATCTTTAAATATTAGTTTTCATC
1 TCAATTAAATTTTTAAATATTAGTTTTCATC
*
23273116 T-AATTAAATTTTTAAATATTTA-TTTTTATC
1 TCAATTAAATTTTTAAATA-TTAGTTTTCATC
23273146 TCAATTAAATTTTT
1 TCAATTAAATTTTT
23273160 TATTAGATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 24 0.60
31 16 0.40
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.55
Consensus pattern (31 bp):
TCAATTAAATTTTTAAATATTAGTTTTCATC
Found at i:23273271 original size:30 final size:29
Alignment explanation
Indices: 23273212--23273279 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
23273202 TAACGCGAAT
* *
23273212 TTAATTGATAATAAATATTTAAAATTTTAA
1 TTAATT-ATAATAAATATATAAAAATTTAA
23273242 TTAATTATAATAAA-ATGATAAATAATTTAA
1 TTAATTATAATAAATAT-ATAAA-AATTTAA
*
23273272 ATAATTAT
1 TTAATTAT
23273280 TAAATTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.06
29 12 0.36
30 19 0.58
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (29 bp):
TTAATTATAATAAATATATAAAAATTTAA
Found at i:23274717 original size:20 final size:20
Alignment explanation
Indices: 23274679--23274719 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
23274669 TCGAACTAAA
*
23274679 TTATATATTTTTATTAATTT
1 TTATATATTTTTATAAATTT
23274699 TTATATATATTTTA-AAATTT
1 TTATATAT-TTTTATAAATTT
23274719 T
1 T
23274720 ATAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATATATTTTTATAAATTT
Found at i:23274777 original size:22 final size:23
Alignment explanation
Indices: 23274740--23274797 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
23274730 CTAATTATTT
* * *
23274740 TATATATAAATATATTTAAAT-A
1 TATATAAAAATTTATTAAAATAA
23274762 TATCA-AAAAATTTATTAAAATAA
1 TAT-ATAAAAATTTATTAAAATAA
23274785 TATATAAAAATTT
1 TATATAAAAATTT
23274798 TAAAAAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TATATAAAAATTTATTAAAATAA
Found at i:23274804 original size:23 final size:25
Alignment explanation
Indices: 23274758--23274805 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
23274748 AATATATTTA
*
23274758 AATATATCAAAAAATTTATTAAAAT
1 AATATATCAAAAAATTTATAAAAAT
*
23274783 AATATAT-AAAAATTTTA-AAAAAT
1 AATATATCAAAAAATTTATAAAAAT
23274806 CGATTAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
AATATATCAAAAAATTTATAAAAAT
Found at i:23277734 original size:21 final size:22
Alignment explanation
Indices: 23277709--23277753 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
23277699 TGTTTAGTTA
*
23277709 TATTTTAATTTTTA-AATTAAT
1 TATTTTAATTATTATAATTAAT
*
23277730 TA-TTTAATTATTATAATTTAT
1 TATTTTAATTATTATAATTAAT
23277751 TAT
1 TAT
23277754 GATAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTAATTATTATAATTAAT
Found at i:23277955 original size:22 final size:23
Alignment explanation
Indices: 23277920--23277962 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23277910 AAACGAAAAA
*
23277920 TAATAATTTTTAATAAAATTTTT
1 TAATAATTATTAATAAAATTTTT
*
23277943 TAAT-ATTATTAATAACATTT
1 TAATAATTATTAATAAAATTT
23277963 CATTTGAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATAATTATTAATAAAATTTTT
Found at i:23284451 original size:30 final size:28
Alignment explanation
Indices: 23284415--23284485 Score: 72
Period size: 31 Copynumber: 2.4 Consensus size: 28
23284405 GTTAATCATC
*
23284415 TTTAAATTATTAAATGATTATAAAAATAAA
1 TTTAAATTATTAAAT--TTAAAAAAATAAA
23284445 TTTAAATATATGATAAATTTAAAAAAATAAA
1 TTTAAAT-TAT--TAAATTTAAAAAAATAAA
*
23284476 -TTAGATTATT
1 TTTAAATTATT
23284486 TTGAGAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
27 1 0.03
29 3 0.08
30 12 0.33
31 15 0.42
33 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (28 bp):
TTTAAATTATTAAATTTAAAAAAATAAA
Found at i:23305820 original size:18 final size:18
Alignment explanation
Indices: 23305797--23305832 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23305787 TTAATTTATA
*
23305797 ATTTATTAATTAAATAAT
1 ATTTATTAATAAAATAAT
*
23305815 ATTTATTTATAAAATAAT
1 ATTTATTAATAAAATAAT
23305833 TGATTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTATTAATAAAATAAT
Found at i:23306876 original size:2 final size:2
Alignment explanation
Indices: 23306863--23306895 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23306853 ATAATTTTAA
*
23306863 AT AT AC 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 A
23306896 CACACAGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:23319775 original size:2 final size:2
Alignment explanation
Indices: 23319768--23319799 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23319758 CAAATATGGA
23319768 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23319800 CATACATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23347808 original size:2 final size:2
Alignment explanation
Indices: 23347795--23347829 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
23347785 AGGCAACAGG
*
23347795 TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23347830 TTATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23352078 original size:17 final size:17
Alignment explanation
Indices: 23352048--23352081 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23352038 TATAATATTC
*
23352048 ATAAAATATTTTTTAAT
1 ATAAAATATATTTTAAT
*
23352065 ATAAATTATATTTTAAT
1 ATAAAATATATTTTAAT
23352082 TATACATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAAAATATATTTTAAT
Found at i:23352093 original size:22 final size:25
Alignment explanation
Indices: 23352065--23352118 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 25
23352055 ATTTTTTAAT
23352065 ATAAATTATATT-TT-AATT-ATAC-
1 ATAAATTAT-TTATTAAATTAATACA
23352087 ATAAATT-TTTATTAAATTAATACA
1 ATAAATTATTTATTAAATTAATACA
23352111 ATAAATTA
1 ATAAATTA
23352119 AAGTATTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 2 0.07
21 3 0.11
22 11 0.41
23 4 0.15
24 7 0.26
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
ATAAATTATTTATTAAATTAATACA
Found at i:23352629 original size:21 final size:21
Alignment explanation
Indices: 23352605--23352647 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
23352595 ACCTTATTAA
23352605 GTACAAAACAAATGCATGGAT
1 GTACAAAACAAATGCATGGAT
*
23352626 GTACAAAACACATGCATGGAT
1 GTACAAAACAAATGCATGGAT
23352647 G
1 G
23352648 GGTCATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.19
Consensus pattern (21 bp):
GTACAAAACAAATGCATGGAT
Found at i:23358180 original size:14 final size:15
Alignment explanation
Indices: 23358131--23358181 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
23358121 ATAAAAATAA
*
23358131 ATAT-ATAATTATAT
1 ATATAATAATTATTT
*
23358145 ATATAATTAATTAATT
1 ATATAA-TAATTATTT
23358161 AT-TAATAATT-TTT
1 ATATAATAATTATTT
23358174 ATATAATA
1 ATATAATA
23358182 TCGGATCGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.13
14 14 0.45
15 4 0.13
16 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATAATAATTATTT
Found at i:23364031 original size:21 final size:21
Alignment explanation
Indices: 23363977--23364176 Score: 167
Period size: 21 Copynumber: 9.6 Consensus size: 21
23363967 TTTTATTTCC
23363977 ATAACCTTTGATATAATTTTG
1 ATAACCTTTGATATAATTTTG
*
23363998 -TAA-CTTTAGATACAATTTTG
1 ATAACCTTT-GATATAATTTTG
* *
23364018 ATAACCTTTAATACAATTTTG
1 ATAACCTTTGATATAATTTTG
* * * *
23364039 GTCACATTTGATAAAATTTTG
1 ATAACCTTTGATATAATTTTG
*
23364060 ATAATCTTTGATATAATTTTG
1 ATAACCTTTGATATAATTTTG
*
23364081 ATAACTCTTTG-TATAA-TTTA
1 ATAAC-CTTTGATATAATTTTG
* *
23364101 ATAACTTTTGATATAATTTTA
1 ATAACCTTTGATATAATTTTG
* * *
23364122 ATAA-CTCTTAATACAATTTTA
1 ATAACCT-TTGATATAATTTTG
** *
23364143 ATAATATTTTATATAATTTTG
1 ATAACCTTTGATATAATTTTG
**
23364164 ATAATGTTTGATA
1 ATAACCTTTGATA
23364177 ATTTTTTATT
Statistics
Matches: 147, Mismatches: 24, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
19 8 0.05
20 28 0.19
21 101 0.69
22 10 0.07
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.48
Consensus pattern (21 bp):
ATAACCTTTGATATAATTTTG
Found at i:23364119 original size:83 final size:82
Alignment explanation
Indices: 23363977--23364180 Score: 200
Period size: 83 Copynumber: 2.5 Consensus size: 82
23363967 TTTTATTTCC
* * * * **
23363977 ATAACCTTTGATATAATTTTG-TAACTTTAGATACAATTTTGATAACCTTTAATACAATTTTGGT
1 ATAATCTTTGATATAATTTTGATAACTTTTG-TATAA-TTTAATAACCTTTAATACAATTTTAAT
* * *
23364041 CACAT-TTGATAAAATTTTG
64 AAC-TCTTAATAAAATTTTA
* * *
23364060 ATAATCTTTGATATAATTTTGATAACTCTTTGTATAATTTAATAACTTTTGATATAATTTTAATA
1 ATAATCTTTGATATAATTTTGATAACT-TTTGTATAATTTAATAACCTTTAATACAATTTTAATA
*
23364125 ACTCTTAATACAATTTTA
65 ACTCTTAATAAAATTTTA
* *
23364143 ATAATATTTTATATAATTTTGATAA-TGTTTG-ATAATTT
1 ATAATCTTTGATATAATTTTGATAACT-TTTGTATAATTT
23364181 TTTATTTGAT
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
81 7 0.07
82 6 0.06
83 77 0.75
84 9 0.09
85 3 0.03
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (82 bp):
ATAATCTTTGATATAATTTTGATAACTTTTGTATAATTTAATAACCTTTAATACAATTTTAATAA
CTCTTAATAAAATTTTA
Found at i:23364133 original size:104 final size:104
Alignment explanation
Indices: 23363977--23364176 Score: 260
Period size: 104 Copynumber: 1.9 Consensus size: 104
23363967 TTTTATTTCC
** * ** *
23363977 ATAACCTTTGATATAATTTTGTAACTTTAGATACAATTTTGATAACCTTTAATACAATTTTGGTC
1 ATAACCTTTGATATAATTTAATAACTTTAGATACAATTTTAATAACCTTTAATACAATTTTAATA
23364042 ACATTTGATAAAATTTTGATAATCTTTGATATAATTTTG
66 ACATTTGATAAAATTTTGATAATCTTTGATATAATTTTG
* *
23364081 ATAACTCTTTG-TATAATTTAATAACTTTTGATATAATTTTAATAA-CTCTTAATACAATTTTAA
1 ATAAC-CTTTGATATAATTTAATAACTTTAGATACAATTTTAATAACCT-TTAATACAATTTTAA
* * * *
23364144 TAATATTTTATATAATTTTGATAATGTTTGATA
64 TAACATTTGATAAAATTTTGATAATCTTTGATA
23364177 ATTTTTTATT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 2 0.02
104 75 0.91
105 5 0.06
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.48
Consensus pattern (104 bp):
ATAACCTTTGATATAATTTAATAACTTTAGATACAATTTTAATAACCTTTAATACAATTTTAATA
ACATTTGATAAAATTTTGATAATCTTTGATATAATTTTG
Found at i:23365154 original size:3 final size:3
Alignment explanation
Indices: 23365146--23365184 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
23365136 CTCCAAGAGC
23365146 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCTT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TC
23365185 CATCTCTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:23373618 original size:13 final size:13
Alignment explanation
Indices: 23373599--23373638 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
23373589 ATTCGATTCG
*
23373599 AATTTAATATATA
1 AATTTAATATACA
* *
23373612 TATTTAATATCCA
1 AATTTAATATACA
23373625 AATTTAATATACA
1 AATTTAATATACA
23373638 A
1 A
23373639 CAAATTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (13 bp):
AATTTAATATACA
Found at i:23379541 original size:16 final size:16
Alignment explanation
Indices: 23379520--23379552 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23379510 GATCATTTTA
23379520 AATAT-AATATTAAAAT
1 AATATAAATA-TAAAAT
23379536 AATATAAATATAAAAT
1 AATATAAATATAAAAT
23379552 A
1 A
23379553 TAAAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATATAAATATAAAAT
Found at i:23379562 original size:24 final size:22
Alignment explanation
Indices: 23379521--23379566 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
23379511 ATCATTTTAA
*
23379521 ATATAATATTAAAATAATATAA
1 ATATAAAATTAAAATAATATAA
23379543 ATATAAAATATAAAATTAATATAA
1 ATATAAAAT-TAAAA-TAATATAA
23379567 TTTAGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.38
23 5 0.24
24 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATATAAAATTAAAATAATATAA
Found at i:23379563 original size:11 final size:12
Alignment explanation
Indices: 23379519--23379566 Score: 55
Period size: 11 Copynumber: 4.1 Consensus size: 12
23379509 TGATCATTTT
*
23379519 AAATATAATATT
1 AAATATAATATA
23379531 AAA-ATAATATA
1 AAATATAATATA
*
23379542 AATATAAAATATA
1 AA-ATATAATATA
23379555 AAAT-TAATATA
1 AAATATAATATA
23379566 A
1 A
23379567 TTTAGATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 16 0.52
12 6 0.19
13 9 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATATAATATA
Found at i:23379608 original size:21 final size:22
Alignment explanation
Indices: 23379575--23379615 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23379565 AATTTAGATT
*
23379575 TTTAATAAAAATTATAAATAAA
1 TTTAATAAAAATTAAAAATAAA
23379597 TTTAAT-AAAATTAAAAATA
1 TTTAATAAAAATTAAAAATA
23379616 TTTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAATAAAAATTAAAAATAAA
Found at i:23380837 original size:12 final size:11
Alignment explanation
Indices: 23380798--23380842 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
23380788 ATAATTTAAA
23380798 ATAAATAATTAT
1 ATAAATAATT-T
*
23380810 TTAAATAATTT
1 ATAAATAATTT
23380821 A-AAATAATTT
1 ATAAATAATTT
23380831 GATAAATAATTT
1 -ATAAATAATTT
23380843 TATTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.31
11 2 0.07
12 18 0.62
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
ATAAATAATTT
Found at i:23393572 original size:6 final size:6
Alignment explanation
Indices: 23393530--23393570 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
23393520 CTCCACCCCA
* *
23393530 AACCCT AACCCT AACCCT AACCCT AACCCA AACCCG AACCC
1 AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT AACCC
23393571 GATCGCGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.37, C:0.51, G:0.02, T:0.10
Consensus pattern (6 bp):
AACCCT
Found at i:23395632 original size:4 final size:4
Alignment explanation
Indices: 23395625--23395667 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
23395615 TATATATATA
23395625 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
23395668 ATATTTTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:23399122 original size:21 final size:22
Alignment explanation
Indices: 23399085--23399128 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
23399075 TTGGTTCGGA
*
23399085 AAAATTCAAATATTTTATTTTT
1 AAAATTCAAATATTTTAGTTTT
*
23399107 AAAATTTAAA-ATTTTAGTTTT
1 AAAATTCAAATATTTTAGTTTT
23399128 A
1 A
23399129 CTATTAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
AAAATTCAAATATTTTAGTTTT
Found at i:23407828 original size:2 final size:2
Alignment explanation
Indices: 23407821--23407858 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
23407811 TTGGTAATTC
*
23407821 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23407859 TTCTGATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:23434504 original size:29 final size:29
Alignment explanation
Indices: 23434471--23434528 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
23434461 TTGGTCTTCA
23434471 AATCCTGCAGGTGAAGGGTAGACCGTCGT
1 AATCCTGCAGGTGAAGGGTAGACCGTCGT
*
23434500 AATCCTGCAGGTGAAGGGTAGACCTTCGT
1 AATCCTGCAGGTGAAGGGTAGACCGTCGT
23434529 TTGTTAGGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (29 bp):
AATCCTGCAGGTGAAGGGTAGACCGTCGT
Found at i:23443492 original size:4 final size:4
Alignment explanation
Indices: 23443476--23443506 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
23443466 TGAATTCTAC
*
23443476 TTTA TTTA GTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
23443507 TTAGGATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:23443743 original size:11 final size:11
Alignment explanation
Indices: 23443727--23443752 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23443717 AACAGAGAGG
23443727 AAAAAAGAAAA
1 AAAAAAGAAAA
23443738 AAAAAAGAAAA
1 AAAAAAGAAAA
23443749 AAAA
1 AAAA
23443753 GGGCTCTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:23443800 original size:11 final size:11
Alignment explanation
Indices: 23443784--23443810 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23443774 AATCGTAGCA
23443784 TTTTTTGGAAT
1 TTTTTTGGAAT
23443795 TTTTTTGGAAT
1 TTTTTTGGAAT
23443806 TTTTT
1 TTTTT
23443811 GGTTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (11 bp):
TTTTTTGGAAT
Found at i:23443809 original size:21 final size:19
Alignment explanation
Indices: 23443783--23443829 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
23443773 CAATCGTAGC
23443783 ATTTTTTGGAATTTTTTTGGA
1 ATTTTTTGG--TTTTTTTGGA
**
23443804 ATTTTTTGGTTTTTTTTTA
1 ATTTTTTGGTTTTTTTGGA
23443823 ATTTTTT
1 ATTTTTT
23443830 AAAAATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.62
21 9 0.38
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (19 bp):
ATTTTTTGGTTTTTTTGGA
Found at i:23444706 original size:192 final size:192
Alignment explanation
Indices: 23444306--23444687 Score: 467
Period size: 192 Copynumber: 2.0 Consensus size: 192
23444296 AAAAAATTTA
* * * ** *
23444306 AAAAAATAATAAAAATA-AAATTTTAGGAA-TAAATATTAATTA-TCCAATGATGAAATTTATAG
1 AAAAAATAAAAAAAATATAAATTATGGGAATTAAATACAAATTACTTC-ATGATGAAATTTATAG
* * * *
23444368 AAATTTCAAATGATAAATTTCTATAAAATTCTTAGGTGAAAAATTTTGTCTAAATTTAGCCCAAA
65 AAATTTCAAATAATAAATTTCTATAAAAATCTTAGGTGAAAAATTTTCTCTAAATTTAGCCAAAA
*
23444433 TGGTGAAATAATATAGATAAAGTTTCAATAACAATAATTAATATTTATTTTCAAACAAAAAAT
130 TGGTGAAATAATATAAATAAAGTTTCAATAACAATAATTAATATTTATTTTCAAACAAAAAAT
*
23444496 AAAAAATAAAAAAAATATAAATTATGGGAATTAAATACAAATTACTTCATGATGAGATTCT-TAG
1 AAAAAATAAAAAAAATATAAATTATGGGAATTAAATACAAATTACTTCATGATGAAATT-TATAG
* *
23444560 AAATTTCAAATAATAAA-TTCT-TAAGAAATCTCTATGTGAGAAATTTTCTCTAAATTT-GTCCA
65 AAATTTCAAATAATAAATTTCTATAA-AAATCT-TAGGTGAAAAATTTTCTCTAAATTTAG-CCA
* * * *
23444622 AAATGGTGGAATAATTTAAATGAAAGTTTCAATAA-AAGTAATT-GTATTCTTTTTTCAAACAAA
127 AAATGGTGAAATAATATAAAT-AAAGTTTCAATAACAA-TAATTAATATT-TATTTTCAAACAAA
23444685 AAA
189 AAA
23444688 ATTTTTGGTT
Statistics
Matches: 164, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
190 19 0.12
191 20 0.12
192 88 0.54
193 37 0.23
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (192 bp):
AAAAAATAAAAAAAATATAAATTATGGGAATTAAATACAAATTACTTCATGATGAAATTTATAGA
AATTTCAAATAATAAATTTCTATAAAAATCTTAGGTGAAAAATTTTCTCTAAATTTAGCCAAAAT
GGTGAAATAATATAAATAAAGTTTCAATAACAATAATTAATATTTATTTTCAAACAAAAAAT
Found at i:23448995 original size:10 final size:9
Alignment explanation
Indices: 23448973--23449032 Score: 68
Period size: 9 Copynumber: 6.6 Consensus size: 9
23448963 TGAAAGAATG
23448973 AAAGAAAAA
1 AAAGAAAAA
23448982 AAAGAAAGAA
1 AAAGAAA-AA
23448992 AAAGATAAAA
1 AAAGA-AAAA
*
23449002 AAAG-ATAA
1 AAAGAAAAA
*
23449010 AAATAAAAA
1 AAAGAAAAA
*
23449019 TAAGAAAAA
1 AAAGAAAAA
23449028 AAAGA
1 AAAGA
23449033 CTCAAATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 6 0.14
9 21 0.50
10 13 0.31
11 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.07
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:23449015 original size:16 final size:15
Alignment explanation
Indices: 23448973--23449028 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
23448963 TGAAAGAATG
*
23448973 AAAG-AAAAA-AAAG
1 AAAGAAAAAATAAAA
23448986 AAAGAAAAAGATAAAA
1 AAAGAAAAA-ATAAAA
23449002 AAAGATAAAAATAAAA
1 AAAGA-AAAAATAAAA
23449018 ATAAGAAAAAA
1 A-AAGAAAAAA
23449029 AAGACTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
13 4 0.11
14 4 0.11
15 1 0.03
16 20 0.54
17 8 0.22
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (15 bp):
AAAGAAAAAATAAAA
Found at i:23449039 original size:26 final size:28
Alignment explanation
Indices: 23448993--23449046 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 28
23448983 AAGAAAGAAA
23448993 AAGATAAAAAAAGATAAAAA-TAAAAAT
1 AAGATAAAAAAAGATAAAAATTAAAAAT
*
23449020 AAGA-AAAAAAAGACT-CAAATTAAAAAT
1 AAGATAAAAAAAGA-TAAAAATTAAAAAT
23449047 CCGAAAAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.15
Consensus pattern (28 bp):
AAGATAAAAAAAGATAAAAATTAAAAAT
Found at i:23449043 original size:27 final size:27
Alignment explanation
Indices: 23448993--23449046 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
23448983 AAGAAAGAAA
23448993 AAGATAAAAAAAGATAAAAATAAAAAT
1 AAGATAAAAAAAGATAAAAATAAAAAT
* *
23449020 AAGA-AAAAAAAGACTCAAATTAAAAAT
1 AAGATAAAAAAAGA-TAAAAATAAAAAT
23449047 CCGAAAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.15
Consensus pattern (27 bp):
AAGATAAAAAAAGATAAAAATAAAAAT
Found at i:23449239 original size:15 final size:16
Alignment explanation
Indices: 23449216--23449249 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
23449206 AATATTTAGA
23449216 ATTGCTTGAATAT-TC
1 ATTGCTTGAATATCTC
*
23449231 ATTGTTTGAATATCTC
1 ATTGCTTGAATATCTC
23449247 ATT
1 ATT
23449250 CATCCCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (16 bp):
ATTGCTTGAATATCTC
Found at i:23450110 original size:21 final size:21
Alignment explanation
Indices: 23450086--23450163 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
23450076 GAACTTTTTG
23450086 ATGAAAATCTTTGAATTTCAA
1 ATGAAAATCTTTGAATTTCAA
* * *
23450107 ATGAGAGTCTTTAAATTTCAA
1 ATGAAAATCTTTGAATTTCAA
* * *
23450128 AAGAAAATCTTCGAGTTTCAA
1 ATGAAAATCTTTGAATTTCAA
*
23450149 ATTGAGAATCTTTGA
1 A-TGAAAATCTTTGA
23450164 GGTGTGAAAT
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
21 34 0.77
22 10 0.23
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (21 bp):
ATGAAAATCTTTGAATTTCAA
Found at i:23450694 original size:42 final size:42
Alignment explanation
Indices: 23450635--23450999 Score: 428
Period size: 42 Copynumber: 8.6 Consensus size: 42
23450625 CATGATTGTC
*
23450635 AATGAGCCATTTA-TTTTTCTAAAGTTCTGTTACCTCTATTCA
1 AATGAGCCATTTATTTTTTC-AAAGTTCTGTTGCCTCTATTCA
* *
23450677 AATGAGCCATTTATTTTTTCAAAGTTCTATTGCCTCTATTGA
1 AATGAGCCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCA
* *
23450719 CAGGAGCCATTTATTTTTTTCAAAGTTCTGTTGCCTCTATTCA
1 AATGAGCCATTTA-TTTTTTCAAAGTTCTGTTGCCTCTATTCA
** * *
23450762 AAAAAGCCATTTATTTTTTCAAAGTTTTGTTGCCTCTATTTA
1 AATGAGCCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCA
* * * * *
23450804 GATAAGCCATTTTATTTTTCCAAAGTACTGTTACCTCTATTCA
1 AATGAGCCA-TTTATTTTTTCAAAGTTCTGTTGCCTCTATTCA
* **
23450847 TATGAGCCATTTATTTTTTCAAAGTTCTGTTATCTCTATTCA
1 AATGAGCCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCA
* * *
23450889 TATGAGCCATTTA-TCTTTCTAAAGTTCTGTTGCCTCTATTTA
1 AATGAGCCATTTATTTTTTC-AAAGTTCTGTTGCCTCTATTCA
* * ** *
23450931 GAGGAGTAATTTATTTTTTCAAAAGTTCTGTTGTCTCTATTCA
1 AATGAGCCATTTATTTTTTC-AAAGTTCTGTTGCCTCTATTCA
* *
23450974 GAGGAGCCATTTATTTTTTCAAAGTT
1 AATGAGCCATTTATTTTTTCAAAGTT
23451000 GTTTCGCCTT
Statistics
Matches: 280, Mismatches: 38, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
41 5 0.02
42 154 0.55
43 121 0.43
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (42 bp):
AATGAGCCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCA
Found at i:23450749 original size:85 final size:85
Alignment explanation
Indices: 23450638--23450999 Score: 435
Period size: 85 Copynumber: 4.3 Consensus size: 85
23450628 GATTGTCAAT
*
23450638 GAGCCATTTATTTTTCT-AAAGTTCTGTTACCTCTATTCAAATGAGCCATTTATTTTTTCAAAGT
1 GAGCCATTTATTTTTTTCAAAGTTCTGTTACCTCTATTCAAATGAGCCATTTATTTTTTCAAAGT
* * *
23450702 TCTATTGCCTCTATTGACAG
66 TCTGTTGCCTCTATTCAGAG
* **
23450722 GAGCCATTTATTTTTTTCAAAGTTCTGTTGCCTCTATTCAAAAAAGCCATTTATTTTTTCAAAGT
1 GAGCCATTTATTTTTTTCAAAGTTCTGTTACCTCTATTCAAATGAGCCATTTATTTTTTCAAAGT
* * *
23450787 TTTGTTGCCTCTATTTAGAT
66 TCTGTTGCCTCTATTCAGAG
* * * *
23450807 AAGCCATTT-TATTTTTCCAAAGTACTGTTACCTCTATTCATATGAGCCATTTATTTTTTCAAAG
1 GAGCCATTTAT-TTTTTTCAAAGTTCTGTTACCTCTATTCAAATGAGCCATTTATTTTTTCAAAG
** * *
23450871 TTCTGTTATCTCTATTCATAT
65 TTCTGTTGCCTCTATTCAGAG
* * * * * * **
23450892 GAGCCATTTATCTTTCT-AAAGTTCTGTTGCCTCTATTTAGAGGAGTAATTTATTTTTTCAAAAG
1 GAGCCATTTATTTTTTTCAAAGTTCTGTTACCTCTATTCAAATGAGCCATTTATTTTTTC-AAAG
*
23450956 TTCTGTTGTCTCTATTCAGAG
65 TTCTGTTGCCTCTATTCAGAG
23450977 GAGCCATTTA-TTTTTTCAAAGTT
1 GAGCCATTTATTTTTTTCAAAGTT
23451000 GTTTCGCCTT
Statistics
Matches: 236, Mismatches: 37, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
84 56 0.24
85 179 0.76
86 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (85 bp):
GAGCCATTTATTTTTTTCAAAGTTCTGTTACCTCTATTCAAATGAGCCATTTATTTTTTCAAAGT
TCTGTTGCCTCTATTCAGAG
Found at i:23450865 original size:127 final size:126
Alignment explanation
Indices: 23450639--23450999 Score: 463
Period size: 127 Copynumber: 2.8 Consensus size: 126
23450629 ATTGTCAATG
* * * *
23450639 AGCCATTTATTTTTCTAAAGTTCTGTTACCTCTATTCAAATGAGCCATTTATTTTTTCAAAGTTC
1 AGCCATTTATTTTTCTAAAGTTCTGTTGCCTCTATTTAGATGAGCCATTTATTTTTCCAAAGTTC
* * *
23450704 TATTGCCTCTATTGACAGGAGCCATTTATTTTTTTCAAAGTTCTGTTGCCTCTATTCAAAAA
66 TGTTGCCTCTATTCACAGGAGCCATTTA-TTTTTTCAAAGTTCTGTTACCTCTATTCAAAAA
* *
23450766 AGCCATTTATTTTT-TCAAAGTTTTGTTGCCTCTATTTAGATAAGCCATTTTATTTTTCCAAAGT
1 AGCCATTTATTTTTCT-AAAGTTCTGTTGCCTCTATTTAGATGAGCCA-TTTATTTTTCCAAAGT
* * * * * * **
23450830 ACTGTTACCTCTATTCATATGAGCCATTTATTTTTTCAAAGTTCTGTTATCTCTATTCATATG
64 TCTGTTGCCTCTATTCACAGGAGCCATTTATTTTTTCAAAGTTCTGTTACCTCTATTCAAAAA
* * ** *
23450893 AGCCATTTATCTTTCTAAAGTTCTGTTGCCTCTATTTAGAGGAGTAATTTATTTTTTCAAAAGTT
1 AGCCATTTATTTTTCTAAAGTTCTGTTGCCTCTATTTAGATGAGCCATTTA-TTTTTCCAAAGTT
* *
23450958 CTGTTGTCTCTATTCAGAGGAGCCATTTATTTTTTCAAAGTT
65 CTGTTGCCTCTATTCACAGGAGCCATTTATTTTTTCAAAGTT
23451000 GTTTCGCCTT
Statistics
Matches: 201, Mismatches: 29, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
126 5 0.02
127 156 0.78
128 40 0.20
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (126 bp):
AGCCATTTATTTTTCTAAAGTTCTGTTGCCTCTATTTAGATGAGCCATTTATTTTTCCAAAGTTC
TGTTGCCTCTATTCACAGGAGCCATTTATTTTTTCAAAGTTCTGTTACCTCTATTCAAAAA
Found at i:23451601 original size:21 final size:20
Alignment explanation
Indices: 23451577--23451618 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
23451567 AGCAATCATA
23451577 GAATTTTTAGGAATTTTTTTT
1 GAATTTTTAGG-ATTTTTTTT
*
23451598 GAATTTTTAGGTTTTTTTTT
1 GAATTTTTAGGATTTTTTTT
23451618 G
1 G
23451619 GAAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.64
Consensus pattern (20 bp):
GAATTTTTAGGATTTTTTTT
Found at i:23453209 original size:20 final size:19
Alignment explanation
Indices: 23453176--23453213 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
23453166 ATCTGAATTT
23453176 AATCTAAACTAAATACAAAA
1 AATCTAAACTAAAT-CAAAA
23453196 AATCTAAA-TCAAATCAAA
1 AATCTAAACT-AAATCAAA
23453214 TATTATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (19 bp):
AATCTAAACTAAATCAAAA
Found at i:23454568 original size:54 final size:54
Alignment explanation
Indices: 23454510--23454619 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
23454500 ATGCGATAAT
*
23454510 TTTTTTATTTTTATTTATAAAATTTAAAAATTTTATTAACAAGGATCAAAACAA
1 TTTTTTATTTTTATTTATAAAATTTAAAAATTTTATTAACAAGGAACAAAACAA
23454564 TTTTTTATTTTTATTTATAAAATTTAAAAATTTTATTAACAAGGAACAAAACAA
1 TTTTTTATTTTTATTTATAAAATTTAAAAATTTTATTAACAAGGAACAAAACAA
23454618 TT
1 TT
23454620 ATCCATTTAC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (54 bp):
TTTTTTATTTTTATTTATAAAATTTAAAAATTTTATTAACAAGGAACAAAACAA
Found at i:23456354 original size:17 final size:17
Alignment explanation
Indices: 23456307--23456355 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
23456297 AATTAAGAGA
23456307 TTAATATATATTT-ATTT
1 TTAATATAT-TTTAATTT
*
23456324 TTAAATATTTTTTAATTT
1 TT-AATATATTTTAATTT
23456342 TTAATATATTTTAA
1 TTAATATATTTTAA
23456356 AAAAGTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTAATATATTTTAATTT
Found at i:23456930 original size:13 final size:13
Alignment explanation
Indices: 23456912--23456936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23456902 ATTTACATTC
23456912 TATTATGTAAAGA
1 TATTATGTAAAGA
23456925 TATTATGTAAAG
1 TATTATGTAAAG
23456937 CTTCTTTTAT
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
TATTATGTAAAGA
Found at i:23458478 original size:23 final size:20
Alignment explanation
Indices: 23458452--23458493 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 20
23458442 TGTTTTTATT
23458452 ATTTATTTTAATATAAAATTTTA
1 ATTTA-TTTAA-AT-AAATTTTA
23458475 ATTTATTTAAATAAATTTT
1 ATTTATTTAAATAAATTTT
23458494 GATATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 5 0.26
23 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTATTTAAATAAATTTTA
Found at i:23462524 original size:13 final size:13
Alignment explanation
Indices: 23462506--23462530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23462496 ATTTACATTC
23462506 TATTATGTAAAGA
1 TATTATGTAAAGA
23462519 TATTATGTAAAG
1 TATTATGTAAAG
23462531 CTTCTTTTAT
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
TATTATGTAAAGA
Found at i:23467204 original size:23 final size:20
Alignment explanation
Indices: 23467177--23467218 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 20
23467167 GGTTTTTATT
23467177 ATTTATTTTAATATAAAATTTTA
1 ATTTA-TTTAA-AT-AAATTTTA
23467200 ATTTATTTAAATAAATTTT
1 ATTTATTTAAATAAATTTT
23467219 GATATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 5 0.26
23 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTATTTAAATAAATTTTA
Found at i:23470778 original size:19 final size:19
Alignment explanation
Indices: 23470742--23470783 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
23470732 TGAAATAATT
*
23470742 TTTTTGATATTAGTTTTACA
1 TTTTTGATATTAGATTTA-A
*
23470762 TTTTTG-TATTTGATTTAA
1 TTTTTGATATTAGATTTAA
23470780 TTTT
1 TTTT
23470784 AAATATTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 6 0.30
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (19 bp):
TTTTTGATATTAGATTTAA
Found at i:23471260 original size:13 final size:13
Alignment explanation
Indices: 23471242--23471266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23471232 ATTTACATTC
23471242 TATTATGTAAAGA
1 TATTATGTAAAGA
23471255 TATTATGTAAAG
1 TATTATGTAAAG
23471267 CTTCTTTTAT
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
TATTATGTAAAGA
Found at i:23475953 original size:23 final size:20
Alignment explanation
Indices: 23475926--23475967 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 20
23475916 TGTTTTTATT
23475926 ATTTATTTTAATATAAAATTTTA
1 ATTTA-TTTAA-AT-AAATTTTA
23475949 ATTTATTTAAATAAATTTT
1 ATTTATTTAAATAAATTTT
23475968 GATATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 5 0.26
23 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTATTTAAATAAATTTTA
Found at i:23478973 original size:27 final size:26
Alignment explanation
Indices: 23478916--23478973 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
23478906 TTTGTCTCTA
* *
23478916 TTTTTTTAATGTTTTATGTTGTAGTT
1 TTTTTTTAATATTTTATGTTGTAATT
*
23478942 CTTTTTTAATATTTTGATAGTT-TAATT
1 TTTTTTTAATATTTT-AT-GTTGTAATT
23478969 TTTTT
1 TTTTT
23478974 AAATTCATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 13 0.50
27 10 0.38
28 3 0.12
ACGTcount: A:0.19, C:0.02, G:0.10, T:0.69
Consensus pattern (26 bp):
TTTTTTTAATATTTTATGTTGTAATT
Found at i:23479045 original size:11 final size:10
Alignment explanation
Indices: 23479024--23479061 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
23479014 TATATATATC
23479024 TATTTTTAAT
1 TATTTTTAAT
23479034 TATTTTTAA-
1 TATTTTTAAT
23479043 -ATTTTTAAT
1 TATTTTTAAT
23479052 ATATTTTTAA
1 -TATTTTTAA
23479062 AAAGTATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.32
10 9 0.36
11 8 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TATTTTTAAT
Found at i:23479048 original size:18 final size:19
Alignment explanation
Indices: 23479025--23479062 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
23479015 ATATATATCT
23479025 ATTTTTAAT-TATTTTTAA
1 ATTTTTAATATATTTTTAA
23479043 ATTTTTAATATATTTTTAA
1 ATTTTTAATATATTTTTAA
23479062 A
1 A
23479063 AAGTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTAATATATTTTTAA
Found at i:23479918 original size:22 final size:21
Alignment explanation
Indices: 23479893--23479935 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23479883 ACAATTTTGG
23479893 ACAAATTAGGACAAAATTTCTT
1 ACAAATTA-GACAAAATTTCTT
* *
23479915 ACAATTTAGATAAAATTTCTT
1 ACAAATTAGACAAAATTTCTT
23479936 TCCTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (21 bp):
ACAAATTAGACAAAATTTCTT
Found at i:23483573 original size:117 final size:117
Alignment explanation
Indices: 23483443--23483720 Score: 409
Period size: 117 Copynumber: 2.4 Consensus size: 117
23483433 TTTTGTGTAG
* * *
23483443 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTT-GAAAATTTATTTTTAAGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTAGAAAACTTATTTTCAAGAAAA
*
23483507 ATTGATACTTTCAACTTTTTCTT-AAAAATA-TTTTTTAGAAAACTTATTTTCAA
65 ATTAATACTTTCAA-TTTTT-TTCAAAAATATTTTTTTAGAAAACTTATTTTCAA
* * *
23483560 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTTCAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGAAAAA
* *
23483625 TTAATACTTTTAATTTTTTTCCAAAAATATTTTTTTTAGAAACCTTATTTTCAA
66 TTAATACTTTCAATTTTTTT-CAAAAATA-TTTTTTTAGAAAACTTATTTTCAA
23483679 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
23483721 TTGAATTTTA
Statistics
Matches: 146, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
115 2 0.01
116 11 0.08
117 70 0.48
119 63 0.43
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (117 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGAAAAA
TTAATACTTTCAATTTTTTTCAAAAATATTTTTTTAGAAAACTTATTTTCAA
Found at i:23483741 original size:58 final size:59
Alignment explanation
Indices: 23483443--23483720 Score: 391
Period size: 59 Copynumber: 4.7 Consensus size: 59
23483433 TTTTGTGTAG
* * *
23483443 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTT-GAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTAGAAAACTTATTTTCAA
* *
23483502 GAAAAATTGATACTTTCAACTTTTTCTTAAAAATA-TTTTTTAGAAAACTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAA
* *
23483560 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAA
* * * ** *
23483619 GGAAAATTAATACTTTTAA-TTTTTTTCCAAAAATATTTTTTTTAGAAACCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAAATA-TTTTTTTAGAAAACTTATTTTCAA
23483679 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
23483721 TTGAATTTTA
Statistics
Matches: 195, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
57 6 0.03
58 51 0.26
59 86 0.44
60 47 0.24
61 5 0.03
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAA
Done.