Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 35 of 207
Found at i:10101408 original size:9 final size:9
Alignment explanation
Indices: 10101380--10101415 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
10101370 TTTTTTGGTT
10101380 TTTTTTATAA
1 TTTTTTAT-A
10101390 TTTATTTATA
1 TTT-TTTATA
10101400 TTTTTTATA
1 TTTTTTATA
10101409 TTTTTTA
1 TTTTTTA
10101416 AATCATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.52
10 7 0.28
11 5 0.20
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTTATA
Found at i:10110063 original size:9 final size:9
Alignment explanation
Indices: 10110049--10110085 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10110039 TATAGTTTGA
10110049 TATTCGAAT
1 TATTCGAAT
10110058 TATTCGAAT
1 TATTCGAAT
*
10110067 TATTCGAGT
1 TATTCGAAT
10110076 TATTCGAAT
1 TATTCGAAT
10110085 T
1 T
10110086 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10112756 original size:16 final size:16
Alignment explanation
Indices: 10112735--10112783 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
10112725 TTCGCTATAT
*
10112735 TGGAATAGAGGCGTAA
1 TGGAATAGAGGTGTAA
*
10112751 TGGAATATAGGTGTAA
1 TGGAATAGAGGTGTAA
10112767 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
10112783 T
1 T
10112784 AGCAAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.37, C:0.02, G:0.35, T:0.27
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:10112990 original size:16 final size:16
Alignment explanation
Indices: 10112953--10112994 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10112943 TTAATCATAT
*
10112953 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
10112969 TT-AAATATATTATAA
1 TTAAAATATATTATAA
10112984 TTAAAATATAT
1 TTAAAATATAT
10112995 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:10113001 original size:14 final size:15
Alignment explanation
Indices: 10112962--10113003 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10112952 TTTAAACATA
*
10112962 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10112977 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
10112991 A-TATAATTTAATA
1 ATTATAATTAAATA
10113004 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:10113100 original size:15 final size:14
Alignment explanation
Indices: 10113063--10113112 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
10113053 TATGATACTA
10113063 TAAAATA-TA-AAT
1 TAAAATATTATAAT
* *
10113075 TAACAAAATTATTAT
1 TAA-AATATTATAAT
10113090 TAAATATATTATAAT
1 TAAA-ATATTATAAT
10113105 TAAAATAT
1 TAAAATAT
10113113 CATGAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 3 0.10
14 7 0.23
15 17 0.57
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:10113160 original size:122 final size:122
Alignment explanation
Indices: 10112956--10113250 Score: 490
Period size: 122 Copynumber: 2.4 Consensus size: 122
10112946 ATCATATTTA
10112956 AACATAATTATTATTAAATATATTATAATTAAAATATAT-AATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGAATTTAATAAAATTCTTAATAATCA
*
10113020 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
10113076 AACAAAATTATTATTAAATATATTATAATTAAAATATCATGAATTTAATAAAATTCTTAATAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATAT-ATGAATTTAATAAAATTCTTAATAATC
*
10113141 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
65 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * *
10113199 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATG-ACTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGAATTTAATAAAATT
10113251 TAAAATAATT
Statistics
Matches: 164, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
120 48 0.29
121 5 0.03
122 109 0.66
123 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (122 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:10113296 original size:101 final size:92
Alignment explanation
Indices: 10113247--10113478 Score: 267
Period size: 91 Copynumber: 2.5 Consensus size: 92
10113237 GACTTAATAA
* *
10113247 AATTT-AAAATAATTATA-ACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTATACA-TAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAA
*
10113310 TATTACATATAATTTAA-TAATAATATAT
64 TATTAAATATAATTTAATTAATAATATAT
* * * * *
10113338 AATTTCATAAAATTCTTCATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTATACATAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAATA
*
10113403 TTAAATATAATTTAA-TAATGATATAT
66 TTAAATATAATTTAATTAATAATATAT
* * * * *
10113429 AATTTCATAAAATTCTTA-ATAATAAAATATTCTTATATGACTTCATATAA
1 AATTTCAAAAAATT-ATACATAATAAATTA-TCTTATATGAATTTATATAA
10113479 GATAATTTAT
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
91 99 0.82
92 22 0.18
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (92 bp):
AATTTCAAAAAATTATACATAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAATA
TTAAATATAATTTAATTAATAATATAT
Found at i:10113320 original size:26 final size:28
Alignment explanation
Indices: 10113291--10113351 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
10113281 TATGAATTTG
*
10113291 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
10113317 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
10113345 TAAAATT
1 TATAATT
10113352 CTTCATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:10113349 original size:47 final size:46
Alignment explanation
Indices: 10113298--10113441 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
10113288 TTGTATAATT
10113298 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
10113345 TAAAAT--TCT-TCA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
10113389 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
10113436 TAAAAT
1 TAAAAT
10113442 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:10113361 original size:91 final size:91
Alignment explanation
Indices: 10113266--10113468 Score: 325
Period size: 91 Copynumber: 2.2 Consensus size: 91
10113256 TAATTATAAC
* * * *
10113266 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
10113331 AATATATAATTTCATAAAATTCTTCA
66 AATATATAATTTCATAAAATTCTTAA
*
10113357 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
10113422 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
10113448 TAATAAAATATTCTTATATGA
1 TAATAAATTA-TCTTATATGA
10113469 CTTCATATAA
Statistics
Matches: 102, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 92 0.90
92 10 0.10
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (91 bp):
TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:10113433 original size:44 final size:43
Alignment explanation
Indices: 10113291--10113433 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
10113281 TATGAATTTG
* *
10113291 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
10113335 TATAATTTCATAAAATTCTTCATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
10113382 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
10113426 TATAATTT
1 TATAATTT
10113434 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:10113448 original size:47 final size:47
Alignment explanation
Indices: 10113316--10113454 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
10113306 TTATTATTAC
* *
10113316 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTCATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
10113363 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
10113407 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
10113454 A
1 A
10113455 ATATTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:10124427 original size:13 final size:13
Alignment explanation
Indices: 10124409--10124442 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
10124399 GTATGAACAT
*
10124409 AAGTTTTACACAC
1 AAGTTTCACACAC
10124422 AAGTTTCACACAC
1 AAGTTTCACACAC
10124435 AAGTTTCA
1 AAGTTTCA
10124443 TATATTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (13 bp):
AAGTTTCACACAC
Found at i:10124515 original size:21 final size:20
Alignment explanation
Indices: 10124475--10124515 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10124465 GTAGTGAAAA
* *
10124475 TTTATTTTCTAAGGATAAAT
1 TTTATTTTCCAAGAATAAAT
10124495 TTTATTTTCCAAGTAATAAAT
1 TTTATTTTCCAAG-AATAAAT
10124516 CGTTTTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTATTTTCCAAGAATAAAT
Found at i:10141866 original size:20 final size:20
Alignment explanation
Indices: 10141841--10141880 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10141831 CAATGTGGGG
*
10141841 ATAAAATCGACCCACCCAAC
1 ATAAAATCAACCCACCCAAC
10141861 ATAAAATCAACCCACCCAAC
1 ATAAAATCAACCCACCCAAC
10141881 CAGACACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.40, G:0.03, T:0.10
Consensus pattern (20 bp):
ATAAAATCAACCCACCCAAC
Found at i:10142448 original size:27 final size:27
Alignment explanation
Indices: 10142182--10142464 Score: 275
Period size: 27 Copynumber: 10.6 Consensus size: 27
10142172 GGGTATAATA
* *
10142182 GTCATTTTACCCTAT-GGGGTATCTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
** * * *
10142208 GTCATACTACTCTATGAGGGTATTTAG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
10142235 GTCATTTTACCCTATGGGCGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
10142262 GTCATTCTACCCTATGGGGGTA-TTCTG
1 GTCATTTTACCCTATGGGGGTATTTC-G
* * * *
10142289 GCCATTCTACCCTGTGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
10142316 ATTATTTTACCTTGTGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
10142343 ATTATTTTACCCTGTGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
10142370 ATCATTTTA-CCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
10142396 GTTATTTTACCCTATCGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
10142423 GTCATTTTACCTTAAGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
10142450 ATTATTTTACCCTAT
1 GTCATTTTACCCTAT
10142465 TTTGGGGTAT
Statistics
Matches: 212, Mismatches: 41, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
26 37 0.17
27 173 0.82
28 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:10145622 original size:29 final size:31
Alignment explanation
Indices: 10145565--10145623 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
10145555 TATATCAGTC
*
10145565 ATGCAGTGAACAGTATGTAATATCATTAATCG
1 ATGCAGTGAACAGTA-GTAAAATCATTAATCG
10145597 ATGCAGT-AACAGTA-TAAAATCATTAAT
1 ATGCAGTGAACAGTAGTAAAATCATTAAT
10145624 TAGTGCAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.46
31 7 0.27
32 7 0.27
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (31 bp):
ATGCAGTGAACAGTAGTAAAATCATTAATCG
Found at i:10145630 original size:29 final size:31
Alignment explanation
Indices: 10145565--10145631 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 31
10145555 TATATCAGTC
* *
10145565 ATGCAGTGAACAGTATGTAATATCATTAATCG
1 ATGCAGTGAACAGTA-GTAAAATCATTAATAG
10145597 ATGCAGT-AACAGTA-TAAAATCATTAATTAG
1 ATGCAGTGAACAGTAGTAAAATCATTAA-TAG
10145627 -TGCAG
1 ATGCAG
10145632 ATATGCAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 16 0.50
30 2 0.06
31 7 0.22
32 7 0.22
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (31 bp):
ATGCAGTGAACAGTAGTAAAATCATTAATAG
Found at i:10146073 original size:27 final size:27
Alignment explanation
Indices: 10146027--10146306 Score: 276
Period size: 27 Copynumber: 10.4 Consensus size: 27
10146017 AATAACAATT
*
10146027 ATTTTACCCTAT-GGGGTATTTCGTTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
** * **
10146053 ATACTACTCTATGGGGGTATTTCATTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* **
10146080 ATTTTACCCTATGCGAATATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * * **
10146107 ATTCTACCCTGTTGGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
10146134 ATTCTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
10146161 ATTTTACCCTGTGAGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
10146188 ATTTTACCTTAT-GGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
10146214 ACTTTACCCTGTGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *** *
10146241 CTTTTACCTTATATTGGTATTTAGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
10146268 ATTTTACCCCATTGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
10146295 ATTTTACCCTAT
1 ATTTTACCCTAT
10146307 TTTGGAGTCT
Statistics
Matches: 201, Mismatches: 51, Indels: 3
0.79 0.20 0.01
Matches are distributed among these distances:
26 30 0.15
27 171 0.85
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:10146231 original size:107 final size:106
Alignment explanation
Indices: 10146022--10146306 Score: 301
Period size: 107 Copynumber: 2.7 Consensus size: 106
10146012 AGGAGAATAA
* * ** *
10146022 CAATTATTTTACCCTATG-GGGTATTTCGTTCATACTACTCTATGGGGGTATTTC-ATTCATTTT
1 CAATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCT-T-GGGGTATTTCGA-TCATTTT
*
10146085 ACCCTATGCGAATATTTCGGTCATTCTACCCTGTTGGGGTATTT
63 ACCCTATGCGAATATTTCGGTCATTCTACCCTGTGGGGGTATTT
*
10146129 CAATCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTGTGAGGGTATTTCGATCATTTTA
1 CAATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCT-TG-GGGTATTTCGATCATTTTA
* **
10146194 CCTTATG-GGGTATTTCGGTCACTT-TACCCTGTGGGGGTATTT
64 CCCTATGCGAATATTTCGGTCA-TTCTACCCTGTGGGGGTATTT
** * * * * *
10146236 CGGTCCTTTTACCTTAT-ATTGGTATTTAGGTCATTTTACCCCATTGGGGTATTTCGGTCATTTT
1 CAATCATTTTACCCTATGA-GGGTATTTCGGTCATTTTA-CCC-TTGGGGTATTTCGATCATTTT
10146300 ACCCTAT
63 ACCCTAT
10146307 TTTGGAGTCT
Statistics
Matches: 151, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
106 1 0.01
107 98 0.65
108 50 0.33
109 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.42
Consensus pattern (106 bp):
CAATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTTGGGGTATTTCGATCATTTTACC
CTATGCGAATATTTCGGTCATTCTACCCTGTGGGGGTATTT
Found at i:10146593 original size:20 final size:19
Alignment explanation
Indices: 10146543--10146593 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
10146533 GGACCGACGA
10146543 GCCCATTAA-GCCCACACG
1 GCCCATTAAGGCCCACACG
**
10146561 GCCCATTTCGGCCCA-ACTTG
1 GCCCATTAAGGCCCACAC--G
10146581 GCCCATTAAGGCC
1 GCCCATTAAGGCC
10146594 AAAGCCCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 9 0.35
19 5 0.19
20 12 0.46
ACGTcount: A:0.22, C:0.41, G:0.20, T:0.18
Consensus pattern (19 bp):
GCCCATTAAGGCCCACACG
Found at i:10154522 original size:17 final size:17
Alignment explanation
Indices: 10154490--10154523 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10154480 TATCACTTGC
*
10154490 TATTTCAATAGCATTTT
1 TATTTCAATAACATTTT
*
10154507 TATTTCAATAATATTTT
1 TATTTCAATAACATTTT
10154524 CCATTTCAAA
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:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTCAATAACATTTT
Found at i:10156057 original size:27 final size:27
Alignment explanation
Indices: 10155957--10156043 Score: 156
Period size: 27 Copynumber: 3.2 Consensus size: 27
10155947 TTCACCAAGT
*
10155957 TTTAGGTGAAATAGGTGTTCATCAAAG
1 TTTAGGCGAAATAGGTGTTCATCAAAG
*
10155984 TTTAGGCGAAATAGGTGTTCATCAATG
1 TTTAGGCGAAATAGGTGTTCATCAAAG
10156011 TTTAGGCGAAATAGGTGTTCATCAAAG
1 TTTAGGCGAAATAGGTGTTCATCAAAG
10156038 TTTAGG
1 TTTAGG
10156044 TGAATTGGGA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.33
Consensus pattern (27 bp):
TTTAGGCGAAATAGGTGTTCATCAAAG
Found at i:10156924 original size:41 final size:41
Alignment explanation
Indices: 10156867--10156952 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
10156857 TTTTACAAGC
* *
10156867 TGTGTATCAGCGAAGCTCCCCTCGTGAGCTTTGTGATAAGT
1 TGTGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGT
* *
10156908 TGTGTATCAGGGAAGCTCTCCTAGTGAGCTTAGTGATAAGT
1 TGTGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGT
10156949 TGTG
1 TGTG
10156953 CGTCACGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGT
Found at i:10168559 original size:23 final size:23
Alignment explanation
Indices: 10168533--10168581 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
10168523 ACCTTTTGTT
10168533 TTTATTATTTTAATCAATTTAAG
1 TTTATTATTTTAATCAATTTAAG
*
10168556 TTTATTATTTTAATTAATTTAAG
1 TTTATTATTTTAATCAATTTAAG
10168579 TTT
1 TTT
10168582 TTTTTCTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATTATTTTAATCAATTTAAG
Found at i:10177718 original size:40 final size:40
Alignment explanation
Indices: 10177667--10177803 Score: 220
Period size: 40 Copynumber: 3.4 Consensus size: 40
10177657 AGCAACTTTT
* * *
10177667 AGTAGAATCAGTAGGTATGGCTCGATAGCACATACGTTTC
1 AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACATTTC
*
10177707 AGTAGATTCAGTAGGTATGGCTTGATAGCGCATACATTTC
1 AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACATTTC
* *
10177747 AGTAGATTCAATAGGTATGGCTCGATAGCGGATACATTTC
1 AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACATTTC
10177787 AGTAGATTCAGTAGGTA
1 AGTAGATTCAGTAGGTA
10177804 ATGCTCATTT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (40 bp):
AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACATTTC
Found at i:10184401 original size:12 final size:12
Alignment explanation
Indices: 10184384--10184408 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10184374 TGTGTGCATT
10184384 CGGTTAACCGAC
1 CGGTTAACCGAC
10184396 CGGTTAACCGAC
1 CGGTTAACCGAC
10184408 C
1 C
10184409 CGAATTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:10184582 original size:9 final size:9
Alignment explanation
Indices: 10184568--10184669 Score: 161
Period size: 9 Copynumber: 11.4 Consensus size: 9
10184558 TGGTTAAAAA
10184568 TTAACCGAT
1 TTAACCGAT
*
10184577 TTAACCTAT
1 TTAACCGAT
10184586 TTAACCGA-
1 TTAACCGAT
*
10184594 TTAACCGAC
1 TTAACCGAT
10184603 TTAACCGAT
1 TTAACCGAT
*
10184612 TTAACCGAC
1 TTAACCGAT
*
10184621 TTAACCGAC
1 TTAACCGAT
10184630 TTAACCGAT
1 TTAACCGAT
10184639 TTAACCGAT
1 TTAACCGAT
10184648 TTAACCGAT
1 TTAACCGAT
10184657 TTAACCGAT
1 TTAACCGAT
10184666 TTAA
1 TTAA
10184670 ATCACTATAT
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
8 8 0.09
9 79 0.91
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (9 bp):
TTAACCGAT
Found at i:10184724 original size:37 final size:37
Alignment explanation
Indices: 10184669--10184778 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
10184659 AACCGATTTA
* *
10184669 AATCACTATATAATTAAAAAAATTACATAAGTCTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
* * * *
10184706 AATCACTACATAACTAAAAACATTACATAAATTTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
10184743 AATCACTAAATAATTAAAAACATTACATAAGTCTTT
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTT
10184779 AAGTTTAACA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.34
Consensus pattern (37 bp):
AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
Found at i:10185014 original size:7 final size:7
Alignment explanation
Indices: 10185002--10185060 Score: 82
Period size: 7 Copynumber: 8.3 Consensus size: 7
10184992 GTACAGAAGA
10185002 AAACATG
1 AAACATG
10185009 AAACATG
1 AAACATG
* *
10185016 CAATATG
1 AAACATG
10185023 AAACATG
1 AAACATG
*
10185030 AAATCGTG
1 AAA-CATG
10185038 AAACATG
1 AAACATG
10185045 AAACATG
1 AAACATG
10185052 AAACATG
1 AAACATG
10185059 AA
1 AA
10185061 TTGTTCTTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (7 bp):
AAACATG
Found at i:10185081 original size:13 final size:13
Alignment explanation
Indices: 10185063--10185089 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10185053 AACATGAATT
10185063 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
10185076 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
10185089 G
1 G
10185090 AGCCTGGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.33, T:0.44
Consensus pattern (13 bp):
GTTCTTGGGCTTA
Found at i:10185313 original size:18 final size:19
Alignment explanation
Indices: 10185278--10185328 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
10185268 AACCGACCGA
**
10185278 TTAACCGAATTCGGTCGG-
1 TTAACCGAATTTTGTCGGT
*
10185296 TTAACCGAATTTTTTCGGTT
1 TTAACCGAATTTTGTCGG-T
10185316 TTAACCGAATTTT
1 TTAACCGAATTTT
10185329 ACACACCCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 15 0.54
20 13 0.46
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (19 bp):
TTAACCGAATTTTGTCGGT
Found at i:10188058 original size:29 final size:29
Alignment explanation
Indices: 10188026--10188093 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
10188016 TTTTGTAAAG
10188026 TAGGGGACAAAATTATAAAATCTAAAAAA
1 TAGGGGACAAAATTATAAAATCTAAAAAA
* *
10188055 TAGGGGA-AAAATTTTTAAATCTAAAAAA
1 TAGGGGACAAAATTATAAAATCTAAAAAA
*
10188083 TAAGGG-CAAAA
1 TAGGGGACAAAA
10188094 CCATAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 28 0.80
29 7 0.20
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (29 bp):
TAGGGGACAAAATTATAAAATCTAAAAAA
Found at i:10188100 original size:27 final size:28
Alignment explanation
Indices: 10188043--10188101 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
10188033 CAAAATTATA
* ***
10188043 AAATCTAAAAAATAGGGGAAAAATTTTT
1 AAATCTAAAAAATAAGGGAAAAATCCAT
*
10188071 AAATCTAAAAAATAAGGGCAAAA-CCAT
1 AAATCTAAAAAATAAGGGAAAAATCCAT
10188098 AAAT
1 AAAT
10188102 TTTGAAAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.22
Consensus pattern (28 bp):
AAATCTAAAAAATAAGGGAAAAATCCAT
Found at i:10189132 original size:23 final size:23
Alignment explanation
Indices: 10189106--10189152 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10189096 ACTAACCTCC
10189106 TATATTTTGAGGCATGACATTTA
1 TATATTTTGAGGCATGACATTTA
* **
10189129 TATATTTTGGGGTGTGACATTTA
1 TATATTTTGAGGCATGACATTTA
10189152 T
1 T
10189153 CACCTAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (23 bp):
TATATTTTGAGGCATGACATTTA
Found at i:10192160 original size:39 final size:39
Alignment explanation
Indices: 10192117--10192191 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
10192107 TTATTTTCTA
*
10192117 TTTTTCATA-TTTTTAATAATTTTTTAATTTTTTAAATAT
1 TTTTTCATACTTTTT-ATAATTTTTTAATATTTTAAATAT
** * *
10192156 TTTTTGGTACTTTTTATATTTTTTTCATATTTTAAA
1 TTTTTCATACTTTTTATAATTTTTTAATATTTTAAA
10192192 AAGATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 25 0.83
40 5 0.17
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (39 bp):
TTTTTCATACTTTTTATAATTTTTTAATATTTTAAATAT
Found at i:10192178 original size:9 final size:9
Alignment explanation
Indices: 10192110--10192179 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
10192100 TATGATTTTA
*
10192110 TTTTCTATT
1 TTTTATATT
*
10192119 TTTCATATT
1 TTTTATATT
*
10192128 TTTAATAATT
1 TTTTAT-ATT
10192138 TTTTA-ATT
1 TTTTATATT
10192146 TTTTAAATATT
1 TTTT--ATATT
* *
10192157 TTTTGGTACT
1 TTTT-ATATT
10192167 TTTTATATT
1 TTTTATATT
10192176 TTTT
1 TTTT
10192180 TCATATTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
8 7 0.15
9 19 0.40
10 15 0.31
11 7 0.15
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:10198990 original size:15 final size:14
Alignment explanation
Indices: 10198969--10199004 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
10198959 ATAATCCTTA
10198969 ATAATTATCTTAAT
1 ATAATTATCTTAAT
10198983 ATTAATTATCTTAAT
1 A-TAATTATCTTAAT
10198998 ATAATTA
1 ATAATTA
10199005 AAATAGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAATTATCTTAAT
Found at i:10201500 original size:44 final size:44
Alignment explanation
Indices: 10201433--10201525 Score: 179
Period size: 44 Copynumber: 2.1 Consensus size: 44
10201423 GGTAAAGTTG
10201433 AGAG-TAAGTTTCGTATGGTGGTCGTTTTAGTCATTAATAGTAT
1 AGAGCTAAGTTTCGTATGGTGGTCGTTTTAGTCATTAATAGTAT
10201476 AGAGCTAAGTTTCGTATGGTGGTCGTTTTAGTCATTAATAGTAT
1 AGAGCTAAGTTTCGTATGGTGGTCGTTTTAGTCATTAATAGTAT
10201520 AGAGCT
1 AGAGCT
10201526 TGTTTGAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 4 0.08
44 45 0.92
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (44 bp):
AGAGCTAAGTTTCGTATGGTGGTCGTTTTAGTCATTAATAGTAT
Found at i:10204493 original size:127 final size:127
Alignment explanation
Indices: 10204263--10204524 Score: 517
Period size: 127 Copynumber: 2.1 Consensus size: 127
10204253 TGGGCTGGAG
10204263 ATAT-CATATTAAAATATCATGCTTCGTCACCTGCCATTTCATCTTTCTTTGTCCTACAAATATT
1 ATATGCATATTAAAATATCATGCTTCGTCACCTGCCATTTCATCTTTCTTTGTCCTACAAATATT
10204327 AAACACTTCCTCTCTTACAGTAAACTATAACTTACAATGGGTAATTGCAGGTTTCCATTCAA
66 AAACACTTCCTCTCTTACAGTAAACTATAACTTACAATGGGTAATTGCAGGTTTCCATTCAA
10204389 ATATGCATATTAAAATATCATGCTTCGTCACCTGCCATTTCATCTTTCTTTGTCCTACAAATATT
1 ATATGCATATTAAAATATCATGCTTCGTCACCTGCCATTTCATCTTTCTTTGTCCTACAAATATT
10204454 AAACACTTCCTCTCTTACAGTAAACTATAACTTACAATGGGTAATTGCAGGTTTCCATTCAA
66 AAACACTTCCTCTCTTACAGTAAACTATAACTTACAATGGGTAATTGCAGGTTTCCATTCAA
10204516 ATATGCATA
1 ATATGCATA
10204525 AATTATAAAT
Statistics
Matches: 135, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
126 4 0.03
127 131 0.97
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (127 bp):
ATATGCATATTAAAATATCATGCTTCGTCACCTGCCATTTCATCTTTCTTTGTCCTACAAATATT
AAACACTTCCTCTCTTACAGTAAACTATAACTTACAATGGGTAATTGCAGGTTTCCATTCAA
Found at i:10207125 original size:4 final size:4
Alignment explanation
Indices: 10207112--10207142 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
10207102 TGATTTTTCG
10207112 AATT -ATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
10207143 GAAGTTCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
AATT
Found at i:10217111 original size:27 final size:27
Alignment explanation
Indices: 10217031--10217266 Score: 202
Period size: 27 Copynumber: 8.9 Consensus size: 27
10217021 GCTAATGACT
*
10217031 GAAATACCCCCAAT-GGTAAAATAACC
1 GAAATACCCTCAATAGGTAAAATAACC
* **
10217057 GAAATACCCTC-ATGGGTAAAATGGCC
1 GAAATACCCTCAATAGGTAAAATAACC
10217083 GAAATACCCTCAATAGGTAAAATAACC
1 GAAATACCCTCAATAGGTAAAATAACC
*
10217110 GAAATACCCTCAA-AGGGTAAAATAATC
1 GAAATACCCTCAATA-GGTAAAATAACC
* * * *
10217137 GAAATATCCTCGAT-GTGTAAAGTGACC
1 GAAATACCCTCAATAG-GTAAAATAACC
* * *
10217164 GAAATACCCTCGAT-GGATAAAATGATC
1 GAAATACCCTCAATAGG-TAAAATAACC
* *
10217191 GAAATACCTTCAA-AGGGTAAAATAACA
1 GAAATACCCTCAATA-GGTAAAATAACC
* * *
10217218 AAAATACCCTTGAA-GGGTAAAATAACC
1 GAAATACCC-TCAATAGGTAAAATAACC
10217245 GAAATACCC-CAA-AGGGTAAAAT
1 GAAATACCCTCAATA-GGTAAAAT
10217267 GACTGTTATA
Statistics
Matches: 172, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
25 4 0.02
26 42 0.24
27 121 0.70
28 5 0.03
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (27 bp):
GAAATACCCTCAATAGGTAAAATAACC
Found at i:10217173 original size:81 final size:80
Alignment explanation
Indices: 10217031--10217266 Score: 266
Period size: 81 Copynumber: 3.0 Consensus size: 80
10217021 GCTAATGACT
* * *
10217031 GAAATACCC-CCAATGGTAAAATAACCGAAATACCCTC-ATGGGTAAAATGGCCGAAATACCCTC
1 GAAATACCCTCAAAGGGTAAAATAA-CGAAATACCCTCGATGGGTAAAATGACCGAAATACCCTC
10217094 AATAGGTAAAATAACC
65 AATAGGTAAAATAACC
* * *
10217110 GAAATACCCTCAAAGGGTAAAATAATCGAAATATCCTCGATGTGTAAAGTGACCGAAATACCCTC
1 GAAATACCCTCAAAGGGTAAAATAA-CGAAATACCCTCGATGGGTAAAATGACCGAAATACCCTC
* * *
10217175 GAT-GGATAAAATGATC
65 AATAGG-TAAAATAACC
* * * * *
10217191 GAAATACCTTCAAAGGGTAAAATAACAAAAATACCCTTGAAGGGTAAAATAACCGAAATACCC-C
1 GAAATACCCTCAAAGGGTAAAATAAC-GAAATACCCTCGATGGGTAAAATGACCGAAATACCCTC
10217255 AA-AGGGTAAAAT
65 AATA-GGTAAAAT
10217267 GACTGTTATA
Statistics
Matches: 132, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
79 9 0.07
80 35 0.27
81 88 0.67
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (80 bp):
GAAATACCCTCAAAGGGTAAAATAACGAAATACCCTCGATGGGTAAAATGACCGAAATACCCTCA
ATAGGTAAAATAACC
Found at i:10217668 original size:28 final size:28
Alignment explanation
Indices: 10217623--10217688 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
10217613 ACTGCATTGT
* * *
10217623 ACTGATTATTGTATTGGGCTAAGGCTCAC
1 ACTG-TTACTGTAATGGGCTAAGGCCCAC
10217652 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTAATGGGCTAAGGCCCAC
*
10217680 ATTG-TACTG
1 ACTGTTACTG
10217689 ATACTGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 5 0.15
28 24 0.73
29 4 0.12
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (28 bp):
ACTGTTACTGTAATGGGCTAAGGCCCAC
Found at i:10223508 original size:27 final size:25
Alignment explanation
Indices: 10223451--10223697 Score: 210
Period size: 27 Copynumber: 9.2 Consensus size: 25
10223441 ATTGTGGGTT
10223451 AATGACCGAAATACCC-CTAAGGGTAA
1 AATGA-CGAAATACCCTC-AAGGGTAA
*
10223477 AATGATCGAAATACCCTCAATAGGTAA
1 AATGA-CGAAATACCCTCAA-GGGTAA
* *
10223504 AATGACCAAAATACCCTTGAAGGGTAA
1 AATGA-CGAAATACCC-TCAAGGGTAA
* *
10223531 AATTACCAAAATACCCTCGAAGGGTAA
1 AATGA-CGAAATACCCTC-AAGGGTAA
* *
10223558 AATAATCGAAATACCCTTGAAGGGTAA
1 AATGA-CGAAATACCC-TCAAGGGTAA
*
10223585 AATGACTGAAATACCCTCGATGGGTAA
1 AATGAC-GAAATACCCTC-AAGGGTAA
*
10223612 AATGACTGAAATACCCTTGAAGGGTAA
1 AATGAC-GAAATACCC-TCAAGGGTAA
* * *
10223639 AATGACTAAAATACCCCCAAAGGTAA
1 AATGAC-GAAATACCCTCAAGGGTAA
10223665 AATGATCGAAATACCC-CTATAGGGTAA
1 AATGA-CGAAATACCCTC-A-AGGGTAA
10223692 AATGAC
1 AATGAC
10223698 TGTTGTACCG
Statistics
Matches: 187, Mismatches: 23, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
25 1 0.01
26 42 0.22
27 139 0.74
28 5 0.03
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (25 bp):
AATGACGAAATACCCTCAAGGGTAA
Found at i:10223543 original size:54 final size:53
Alignment explanation
Indices: 10223451--10223697 Score: 291
Period size: 54 Copynumber: 4.6 Consensus size: 53
10223441 ATTGTGGGTT
* * *
10223451 AATGACCGAAATACCCCT-AAGGGTAAAATGATCGAAATACCCTCAATAGGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCAAAATACCCTCAA-AGGTAA
* * *
10223504 AATGACCAAAATACCCTTGAAGGGTAAAATTACCAAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCAAAATACCCTC-AAAGGTAA
* * ** **
10223558 AATAATCGAAATACCCTTGAAGGGTAAAATGACTGAAATACCCTCGATGGGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCAAAATACCCTC-AAAGGTAA
* * *
10223612 AATGACTGAAATACCCTTGAAGGGTAAAATGACTAAAATACCCCCAAAGGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCAAAATACCCTCAAAGGTAA
* *
10223665 AATGATCGAAATACCCCT-ATAGGGTAAAATGAC
1 AATGACCGAAATACCCTTGA-AGGGTAAAATGAC
10223698 TGTTGTACCG
Statistics
Matches: 168, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
52 1 0.01
53 50 0.30
54 115 0.68
55 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (53 bp):
AATGACCGAAATACCCTTGAAGGGTAAAATGACCAAAATACCCTCAAAGGTAA
Found at i:10223558 original size:81 final size:80
Alignment explanation
Indices: 10223451--10223697 Score: 284
Period size: 81 Copynumber: 3.1 Consensus size: 80
10223441 ATTGTGGGTT
* * *
10223451 AATGACCGAAATACCC-CTAAGGGTAAAATGATCGAAATACCCTCAATAGGTAAAATGACCAAAA
1 AATGACCAAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCAA-AGGTAAAATGACCGAAA
10223515 TACCCTTGAAGGGTAA
65 TACCCTTGAAGGGTAA
* * * * *
10223531 AATTACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTTGAAGGGTAAAATGACTGAAA
1 AATGACCAAAATACCCTCGAAGGGTAAAATGATCGAAATACCC-TCAAAGGTAAAATGACCGAAA
* *
10223596 TACCCTCGATGGGTAA
65 TACCCTTGAAGGGTAA
** * * * *
10223612 AATGACTGAAATACCCTTGAAGGGTAAAATGA-CTAAAATACCCCCAAAGGTAAAATGATCGAAA
1 AATGACCAAAATACCCTCGAAGGGTAAAATGATC-GAAATACCCTCAAAGGTAAAATGACCGAAA
*
10223676 TACCCCT-ATAGGGTAA
65 TACCCTTGA-AGGGTAA
10223692 AATGAC
1 AATGAC
10223698 TGTTGTACCG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.01
80 48 0.35
81 87 0.63
82 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (80 bp):
AATGACCAAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCAAAGGTAAAATGACCGAAAT
ACCCTTGAAGGGTAA
Found at i:10223901 original size:26 final size:25
Alignment explanation
Indices: 10223872--10223943 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
10223862 ATGCCACATA
10223872 TACTGTTACTCACAGCTTTGATGCGT
1 TACTGTTACT-ACAGCTTTGATGCGT
*
10223898 TACTGTTACTAGCAGCTTTGCTGCGT
1 TACTGTTACTA-CAGCTTTGATGCGT
* * *
10223924 TATTATTACTGGCAGCTTTG
1 TACTGTTACT-ACAGCTTTG
10223944 CTGTGATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 1 0.03
26 39 0.98
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (25 bp):
TACTGTTACTACAGCTTTGATGCGT
Found at i:10223944 original size:26 final size:26
Alignment explanation
Indices: 10223884--10223946 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
10223874 CTGTTACTCA
* *
10223884 CAGCTTTGATGCGTTACTGTTACTAG
1 CAGCTTTGCTGCGTTACTATTACTAG
* *
10223910 CAGCTTTGCTGCGTTATTATTACTGG
1 CAGCTTTGCTGCGTTACTATTACTAG
10223936 CAGCTTTGCTG
1 CAGCTTTGCTG
10223947 TGATTTTGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.40
Consensus pattern (26 bp):
CAGCTTTGCTGCGTTACTATTACTAG
Found at i:10224108 original size:27 final size:27
Alignment explanation
Indices: 10224058--10224132 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
10224048 CATTGTACTG
*
10224058 ATTACTGTATTGGGCTAAGGCCCACACT
1 ATTACTGTATT-GGATAAGGCCCACACT
*
10224086 ATTACTGTAATGGATAAGGCCCACACT
1 ATTACTGTATTGGATAAGGCCCACACT
*
10224113 A-TACTGATATTGTATAAGGC
1 ATTACTG-TATTGGATAAGGC
10224133 TCAGGCCCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 27 0.64
28 10 0.24
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (27 bp):
ATTACTGTATTGGATAAGGCCCACACT
Found at i:10225188 original size:43 final size:42
Alignment explanation
Indices: 10225140--10225247 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 42
10225130 CGAAAACTTG
* * *
10225140 TAAGGGTTGAACGGAACCTCATAAGAGCTGGACAGAAACCCAA
1 TAAGGGTTAAACGGAAACTCATAAGAGCTGAACAGAAACCC-A
* * * *
10225183 TAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACGGAAACCCA
1 TAAGGGTTAAACGGAAACTCATAAGAGCTGAACAGAAACCCA
* *
10225225 TTAGGGTTAAATGGAAACTCATA
1 TAAGGGTTAAACGGAAACTCATA
10225248 TGAGTTAACT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 19 0.35
43 35 0.65
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (42 bp):
TAAGGGTTAAACGGAAACTCATAAGAGCTGAACAGAAACCCA
Found at i:10225254 original size:21 final size:21
Alignment explanation
Indices: 10225216--10225282 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
10225206 AGAGCTGAAC
* *
10225216 GGAAACCCATTAGGGTTAAAT
1 GGAAACTCATTAGAGTTAAAT
*
10225237 GGAAACTCA-TATGAGTTAACT
1 GGAAACTCATTA-GAGTTAAAT
* *
10225258 -GAAGCTCATTAGAGCTAAAT
1 GGAAACTCATTAGAGTTAAAT
10225278 GGAAA
1 GGAAA
10225283 GTAAACACGA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.24
Consensus pattern (21 bp):
GGAAACTCATTAGAGTTAAAT
Found at i:10230906 original size:28 final size:28
Alignment explanation
Indices: 10230874--10230958 Score: 147
Period size: 28 Copynumber: 3.1 Consensus size: 28
10230864 CCAGACTTGT
10230874 TATATCTTTCTTTGCACGTCAAGCATGA
1 TATATCTTTCTTTGCACGTCAAGCATGA
10230902 TATATCTTTCTTTGCACGTCAAGCAT--
1 TATATCTTTCTTTGCACGTCAAGCATGA
*
10230928 TATATCTTTCTTTACACGTCAAGCATGA
1 TATATCTTTCTTTGCACGTCAAGCATGA
10230956 TAT
1 TAT
10230959 TTGGTACAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
26 25 0.46
28 29 0.54
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (28 bp):
TATATCTTTCTTTGCACGTCAAGCATGA
Found at i:10230938 original size:26 final size:26
Alignment explanation
Indices: 10230873--10230958 Score: 136
Period size: 26 Copynumber: 3.2 Consensus size: 26
10230863 TCCAGACTTG
10230873 TTATATCTTTCTTTGCACGTCAAGCA
1 TTATATCTTTCTTTGCACGTCAAGCA
10230899 TGATATATCTTTCTTTGCACGTCAAGCA
1 T--TATATCTTTCTTTGCACGTCAAGCA
*
10230927 TTATATCTTTCTTTACACGTCAAGCA
1 TTATATCTTTCTTTGCACGTCAAGCA
*
10230953 TGATAT
1 TTATAT
10230959 TTGGTACAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
26 30 0.54
28 26 0.46
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (26 bp):
TTATATCTTTCTTTGCACGTCAAGCA
Found at i:10236375 original size:78 final size:81
Alignment explanation
Indices: 10236216--10236379 Score: 180
Period size: 80 Copynumber: 2.0 Consensus size: 81
10236206 CCAAAAATAA
*
10236216 AAAATTTTAATTTAGTCTTCTTATAAAATAGATAAACTATAAATTAATATATAGCAGACTTGCAC
1 AAAATTTTAATTCAGTCTTCTTATAAAATAGATAAACTATAAATTAATATATA-CAGACTTGCAC
* *
10236281 TTTGACCCTTCAAAATG
65 TTAGACCCTCCAAAATG
*
10236298 AAAATTTTCAATTCAGTCCTT-TTAT-AAATA-A-AAACTATAAATTAATATAGTA-ATA-TTGC
1 AAAATTTT-AATTCAGT-CTTCTTATAAAATAGATAAACTATAAATTAATATA-TACAGACTTGC
* *
10236357 ACTATAGTCCC-CCCAAATG
63 ACT-TAGACCCTCCAAAATG
10236376 AAAA
1 AAAA
10236380 AATTATGTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
78 17 0.24
79 7 0.10
80 18 0.25
81 3 0.04
82 13 0.18
83 11 0.15
84 3 0.04
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (81 bp):
AAAATTTTAATTCAGTCTTCTTATAAAATAGATAAACTATAAATTAATATATACAGACTTGCACT
TAGACCCTCCAAAATG
Found at i:10246068 original size:151 final size:151
Alignment explanation
Indices: 10245893--10246180 Score: 456
Period size: 151 Copynumber: 1.9 Consensus size: 151
10245883 GTTTAGATTT
* *
10245893 TTTTTTAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAATTTTAAAA-TTTTAAAACAAAG
1 TTTTTAAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
*
10245957 TTTTGAT-CTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAA-AAACAGTGATTTTTTT
66 TTTTGATACTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAA-AACAAACAGTGA--TTTTT
10246020 TTAAAGAAAAAGAGAAATGTTAGA
128 TTAAAGAAAAAGAGAAATGTTAGA
* *
10246044 TTTTTAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
1 TTTTTAAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
* **
10246109 TTTTGATATTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAAACAAGTAGTGATTTTTTTA
66 TTTTGATACTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAAACAAACAGTGATTTTTTTA
10246174 AAGAAAA
131 AAGAAAA
10246181 CATTGATTTT
Statistics
Matches: 126, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
151 62 0.49
152 22 0.17
153 42 0.33
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (151 bp):
TTTTTAAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
TTTTGATACTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAAACAAACAGTGATTTTTTTA
AAGAAAAAGAGAAATGTTAGA
Found at i:10248201 original size:16 final size:16
Alignment explanation
Indices: 10248180--10248211 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10248170 GTTTTGTTGC
*
10248180 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
10248196 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
10248212 CTTTCAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:10248504 original size:51 final size:50
Alignment explanation
Indices: 10248429--10248625 Score: 200
Period size: 51 Copynumber: 3.9 Consensus size: 50
10248419 ATTAATGATA
* * * * *
10248429 CCGGTTCACATAGTATCCTACACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT-ACTAT
* * *
10248480 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGTTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-CTAT
* * * * * *
10248531 CCGGTACGCATAGTAGCCTGCGCATAGTACTACACATGCGACC-TATTATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACTA-T
**
10248581 TTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
10248626 CACTTTCCCT
Statistics
Matches: 119, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
49 3 0.03
50 40 0.34
51 74 0.62
52 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACTAT
Found at i:10248644 original size:101 final size:102
Alignment explanation
Indices: 10248432--10248652 Score: 252
Period size: 101 Copynumber: 2.2 Consensus size: 102
10248422 AATGATACCG
* *
10248432 GTTCACATAGTATCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
* * *
10248497 CTGCACATAGTACTACACACGTGATCGAAGTTATCCG
66 CTGCACATAGTACTACACACGTGATCCAACTTATCCC
* * * * * ** *
10248534 GTACGCATAGTAGCCTGCGCATAGTACTACACATGCGACC-T-ATTATTTTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTA-TCCGATACACGTAGTAG
10248597 CCTGCACATAGTACTACACACGTGA-CCATCACTT-TCCC
65 CCTGCACATAGTACTACACACGTGATCCA--ACTTATCCC
* *
10248635 TTTCACATAGTGGCCTAC
1 GTTCACATAGTAGCCTAC
10248653 TCACAGTTTG
Statistics
Matches: 98, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
100 5 0.05
101 56 0.57
102 37 0.38
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (102 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACACGTGATCCAACTTATCCC
Found at i:10249581 original size:13 final size:13
Alignment explanation
Indices: 10249563--10249590 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10249553 TTAGTCCTTT
10249563 TGACTAAATTAAG
1 TGACTAAATTAAG
10249576 TGACTAAATTAAG
1 TGACTAAATTAAG
10249589 TG
1 TG
10249591 CCCAAACGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (13 bp):
TGACTAAATTAAG
Found at i:10251492 original size:42 final size:42
Alignment explanation
Indices: 10251412--10251493 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
10251402 TATTTTCTCT
**
10251412 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
*
10251454 ATGCCATA-TCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGT-CCAACTATGGTCTTACACA-TATGCACATAT
10251494 CACACCGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.03
42 32 0.91
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
Found at i:10254490 original size:44 final size:46
Alignment explanation
Indices: 10254397--10254495 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 46
10254387 AATAATAACA
* *
10254397 GATACACGGTGGATTCAGCACACAGCAACCACCCTTTGTAATCAAT
1 GATACACGGTGGATTCAACACACAGCAACCACCCTTTATAATCAAT
* * *
10254443 GATATACGGTGGGA-TCAACACATAGCAACCA-CC-TTATAATTAAT
1 GATACACGGT-GGATTCAACACACAGCAACCACCCTTTATAATCAAT
10254487 GATAC-CGGT
1 GATACACGGT
10254496 TCACATAGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
43 4 0.09
44 13 0.28
45 2 0.04
46 24 0.52
47 3 0.07
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (46 bp):
GATACACGGTGGATTCAACACACAGCAACCACCCTTTATAATCAAT
Found at i:10254566 original size:51 final size:51
Alignment explanation
Indices: 10254491--10254691 Score: 196
Period size: 51 Copynumber: 4.0 Consensus size: 51
10254481 ATTAATGATA
* * * * *
10254491 CCGGTTCACATAGTATCCTACACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* * *
10254542 CCGATACACGTAGTACCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
** * * *
10254593 CCGGTA-TGGATAGTAGCCTGCACATAGTACTATACATGCGACCTATCA-T-T
1 CCGGTACACG-TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
* *
10254643 CTGGCACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
10254692 TTCCCTTTCA
Statistics
Matches: 120, Mismatches: 22, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
49 4 0.03
50 39 0.32
51 74 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:10254676 original size:101 final size:102
Alignment explanation
Indices: 10254500--10254683 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
10254490 ACCGGTTCAC
* * *
10254500 ATAGTATCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTACCCTGCAC
1 ATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCCTGCAC
10254565 ATAGTACTACACACGTGATCGAAGCTATCCGGTATGG
66 ATAGTACTACACACGTGATCGAAGCTATCCGGTATGG
* * * * *
10254602 ATAGTAGCCTGCACATAGTACTATACATGCGACCTATCA-T-TCTGGCACACGTAGTAGCCTGCA
1 ATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGACACACGTAGTACCCTGCA
10254665 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
10254684 CCATCACTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
101 38 0.52
102 31 0.42
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
ATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTATGG
Found at i:10254707 original size:101 final size:103
Alignment explanation
Indices: 10254495--10254714 Score: 236
Period size: 101 Copynumber: 2.2 Consensus size: 103
10254485 ATGATACCGG
* * *
10254495 TTCACATAGTATCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTACCC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCC
* *
10254560 TGCACATAGTACTACACACGTGATCGAAGCTATCCGGT
66 TGCACATAGTACTACACACGTGATCCAAGCTATCCGCT
* ** * * * * *
10254598 AT-GGATAGTAGCCTGCACATAGTACTATACATGCGACCTATCA-T-TCTGGCACACGTAGTAGC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGACACACGTAGTACC
*
10254660 CTGCACATAGTACTACACACGTGA-CCATCA-CTTTCC-CT
65 CTGCACATAGTACTACACACGTGATCCA--AGCTATCCGCT
*
10254698 TTCACATAGTGGCCTAC
1 TTCACATAGTAGCCTAC
10254715 TCACAGTTTG
Statistics
Matches: 94, Mismatches: 19, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
100 4 0.04
101 53 0.56
102 32 0.34
103 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (103 bp):
TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCC
TGCACATAGTACTACACACGTGATCCAAGCTATCCGCT
Found at i:10255552 original size:28 final size:28
Alignment explanation
Indices: 10255512--10255567 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10255502 CAACAAGTTA
*
10255512 ACCAATGGTCTAATTATCATTTAAGGAC
1 ACCAATGGTCTAATTACCATTTAAGGAC
10255540 ACCAATGGTCTAATTACCATTTAAGGAC
1 ACCAATGGTCTAATTACCATTTAAGGAC
10255568 CTCCAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (28 bp):
ACCAATGGTCTAATTACCATTTAAGGAC
Found at i:10268848 original size:42 final size:42
Alignment explanation
Indices: 10268802--10268896 Score: 163
Period size: 42 Copynumber: 2.3 Consensus size: 42
10268792 AAGAAAAGCA
* *
10268802 TTCATTGCATTTAGAGGCCTAAGTGTGAAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGAAGGTCCATCTACTT
*
10268844 TTCATTGCATTTAGAGGCCCAGGTGTGAAGGTCCATCTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGAAGGTCCATCTACTT
10268886 TTCATTGCATT
1 TTCATTGCATT
10268897 GTATATGAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAAGTGTGAAGGTCCATCTACTT
Found at i:10269375 original size:18 final size:18
Alignment explanation
Indices: 10269352--10269388 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10269342 ATTGAAAAAC
10269352 AATATATATATACATGAA
1 AATATATATATACATGAA
10269370 AATATATATATACATGAA
1 AATATATATATACATGAA
10269388 A
1 A
10269389 TGAAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (18 bp):
AATATATATATACATGAA
Found at i:10274689 original size:16 final size:16
Alignment explanation
Indices: 10274668--10274699 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10274658 TTAATATCTA
10274668 TATAAGATTAAGGTGT
1 TATAAGATTAAGGTGT
*
10274684 TATAAGGTTAAGGTGT
1 TATAAGATTAAGGTGT
10274700 GTCTTGAGTG
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:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (16 bp):
TATAAGATTAAGGTGT
Found at i:10292250 original size:21 final size:22
Alignment explanation
Indices: 10292215--10292278 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
10292205 GAGAAGTAGG
10292215 CACCAAAGTGTTAAACAATAGA
1 CACCAAAGTGTTAAACAATAGA
* *
10292237 CACCAAAG-GTTAAATAATAGG
1 CACCAAAGTGTTAAACAATAGA
*
10292258 CACCGAAGTGCTT-AACAATAG
1 CACCAAAGTG-TTAAACAATAG
10292279 GCATCGCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 18 0.50
22 16 0.44
23 2 0.06
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (22 bp):
CACCAAAGTGTTAAACAATAGA
Found at i:10292279 original size:22 final size:22
Alignment explanation
Indices: 10292188--10292281 Score: 95
Period size: 22 Copynumber: 4.3 Consensus size: 22
10292178 CACAACACCT
* *
10292188 ATAGGCACCGAAGTGTTGAGA-A
1 ATAGGCACCAAAGTGTT-AAACA
*
10292210 GTAGGCACCAAAGTGTTAAACA
1 ATAGGCACCAAAGTGTTAAACA
* *
10292232 ATAGACACCAAAG-GTTAAATA
1 ATAGGCACCAAAGTGTTAAACA
*
10292253 ATAGGCACCGAAGTGCTT-AACA
1 ATAGGCACCAAAGTG-TTAAACA
10292275 ATAGGCA
1 ATAGGCA
10292282 TCGCAATGCG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
21 20 0.33
22 38 0.63
23 2 0.03
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.18
Consensus pattern (22 bp):
ATAGGCACCAAAGTGTTAAACA
Found at i:10301177 original size:36 final size:36
Alignment explanation
Indices: 10301130--10301207 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
10301120 GTTCTGGGAC
10301130 TCCATCGCGACCACCACCTTCGAGGAGTTCGGGAAA
1 TCCATCGCGACCACCACCTTCGAGGAGTTCGGGAAA
* *
10301166 TCCATCGCGACCACCACTTTCGAGGAGTTCGGGAAC
1 TCCATCGCGACCACCACCTTCGAGGAGTTCGGGAAA
10301202 TCCATC
1 TCCATC
10301208 TCGTTCGTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.19
Consensus pattern (36 bp):
TCCATCGCGACCACCACCTTCGAGGAGTTCGGGAAA
Found at i:10309019 original size:28 final size:25
Alignment explanation
Indices: 10308952--10309003 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
10308942 AAAATTGGTA
10308952 AGACATTTTCCATTCTTCTCTAAGC
1 AGACATTTTCCATTCTTCTCTAAGC
10308977 AGACATTTTCCATTC-TCTTCTAAGC
1 AGACATTTTCCATTCTTC-TCTAAGC
10309002 AG
1 AG
10309004 CAGGCATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
AGACATTTTCCATTCTTCTCTAAGC
Found at i:10311482 original size:14 final size:14
Alignment explanation
Indices: 10311463--10311490 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10311453 ACAATTTATT
10311463 AATATATATTAATA
1 AATATATATTAATA
10311477 AATATATATTAATA
1 AATATATATTAATA
10311491 TATGTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:10311635 original size:34 final size:35
Alignment explanation
Indices: 10311577--10311643 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
10311567 CAAACACCAG
10311577 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
10311612 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
10311644 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:10315191 original size:23 final size:22
Alignment explanation
Indices: 10315148--10315191 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
10315138 TTCTAAGTCA
10315148 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
10315171 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
10315192 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:10315300 original size:45 final size:45
Alignment explanation
Indices: 10315236--10315329 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
10315226 AACAGATACT
* *
10315236 CGGTGGATTCAGCATATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTC
* *
10315281 CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATTATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTC
10315326 CGGT
1 CGGT
10315330 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTC
Found at i:10324585 original size:7 final size:8
Alignment explanation
Indices: 10324560--10324584 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10324550 GTCAACAAAT
10324560 AATTAAAA
1 AATTAAAA
10324568 AATTAAAA
1 AATTAAAA
10324576 AATTAAAA
1 AATTAAAA
10324584 A
1 A
10324585 TAAGTACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATTAAAA
Found at i:10326290 original size:16 final size:15
Alignment explanation
Indices: 10326269--10326331 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 15
10326259 AAAATTTGAA
10326269 AAAATTTGAGCCAGAG
1 AAAATTTGAGCC-GAG
* *
10326285 AAAATTTAAGTCTGAG
1 AAAATTTGAG-CCGAG
*
10326301 AAAATTCGAGCTCGAG
1 AAAATTTGAGC-CGAG
10326317 AAAATTCT-AGCCGAG
1 AAAATT-TGAGCCGAG
10326332 CTTATTCGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
15 5 0.13
16 32 0.84
17 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (15 bp):
AAAATTTGAGCCGAG
Found at i:10330652 original size:16 final size:16
Alignment explanation
Indices: 10330631--10330663 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10330621 TTATCAAATG
10330631 TATCAAGGCAACATGT
1 TATCAAGGCAACATGT
10330647 TATCAAGGCAACATGT
1 TATCAAGGCAACATGT
10330663 T
1 T
10330664 TGGAATCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (16 bp):
TATCAAGGCAACATGT
Found at i:10337197 original size:18 final size:17
Alignment explanation
Indices: 10337176--10337210 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10337166 TTATTATTAA
*
10337176 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10337194 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10337211 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10337317 original size:18 final size:17
Alignment explanation
Indices: 10337294--10337330 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
10337284 AATTATTATT
10337294 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
10337310 AAATATATGATTTAATA
1 AAATATATGATTTAATA
10337327 AAAT
1 AAAT
10337331 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:10337437 original size:18 final size:17
Alignment explanation
Indices: 10337414--10337450 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
10337404 AATTATTATT
10337414 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
10337430 AAATATATGATTTAATA
1 AAATATATGATTTAATA
10337447 AAAT
1 AAAT
10337451 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:10337557 original size:18 final size:17
Alignment explanation
Indices: 10337534--10337570 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
10337524 AATTATTATT
10337534 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
10337550 AAATATATGATTTAATA
1 AAATATATGATTTAATA
10337567 AAAT
1 AAAT
10337571 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:10337677 original size:18 final size:17
Alignment explanation
Indices: 10337654--10337690 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
10337644 AATTATTATT
10337654 AAATATAT--TTTAATTA
1 AAATATATCATTTAA-TA
10337670 AAATATATCATTTAATA
1 AAATATATCATTTAATA
10337687 AAAT
1 AAAT
10337691 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATATATCATTTAATA
Found at i:10337700 original size:120 final size:120
Alignment explanation
Indices: 10337156--10337691 Score: 959
Period size: 120 Copynumber: 4.5 Consensus size: 120
10337146 TTAATCATAT
* *
10337156 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
10337221 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
*
10337276 TTTAAGCTAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
*
10337341 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAAATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
*
10337396 TTTAAGCTAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
10337461 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
10337516 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAA
1 TTT-AAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAA
* * *
10337580 TCAATATTATTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
65 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
*
10337636 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATCATTTAATAAAATT
1 TTT-AAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
10337692 TAAAATAATT
Statistics
Matches: 405, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
120 403 1.00
121 2 0.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
Found at i:10337801 original size:78 final size:78
Alignment explanation
Indices: 10337715--10337868 Score: 272
Period size: 78 Copynumber: 2.0 Consensus size: 78
10337705 AGTAATAAAT
* * *
10337715 TTTCTTATATGAATTTGTATAATTTAATATAATTATTATTAAATATAATTTAATAATAATATATA
1 TTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATA
10337780 ATTTCATAAAAAA
66 ATTTCATAAAAAA
*
10337793 TTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATA
1 TTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATA
10337858 ATTTCATAAAA
66 ATTTCATAAAA
10337869 TTCTTGATAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (78 bp):
TTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATA
ATTTCATAAAAAA
Found at i:10337883 original size:47 final size:47
Alignment explanation
Indices: 10337825--10337976 Score: 172
Period size: 47 Copynumber: 3.3 Consensus size: 47
10337815 TTTAAAATAA
*
10337825 TTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTC
1 TTAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTC
* * * **
10337872 TTGATAATAAAT-T-TTCTTATATGAAT-TTATATAATTT-A-AAAA-AA
1 TTAATAATAAATATAAT-TTA-AT-AATGATATATAATTTCATAAAATTC
*
10337916 TTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTC
1 TTAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTC
10337963 TTAATAATAAATAT
1 TTAATAATAAATAT
10337977 TCTTATATGA
Statistics
Matches: 83, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.04
44 22 0.27
45 10 0.12
46 10 0.12
47 35 0.42
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (47 bp):
TTAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTC
Found at i:10337900 original size:91 final size:91
Alignment explanation
Indices: 10337785--10337991 Score: 371
Period size: 91 Copynumber: 2.3 Consensus size: 91
10337775 ATATAATTTC
* *
10337785 ATAA-AAAATTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
1 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAAAAATTAATATTAAATATAATTTAATAA
*
10337849 TGATATATAATTTCATAAAATTCTTG
66 TGATATATAATTTCATAAAATTCTTA
10337875 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAAAAATTAATATTAAATATAATTTAATAA
1 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAAAAATTAATATTAAATATAATTTAATAA
10337940 TGATATATAATTTCATAAAATTCTTA
66 TGATATATAATTTCATAAAATTCTTA
*
10337966 ATAATAAATATTCTTATATGAATTTA
1 ATAATAAATTTTCTTATATGAATTTA
10337992 CTAAAATCAT
Statistics
Matches: 112, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 4 0.04
91 108 0.96
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (91 bp):
ATAATAAATTTTCTTATATGAATTTATATAATTTAAAAAAATTAATATTAAATATAATTTAATAA
TGATATATAATTTCATAAAATTCTTA
Found at i:10337947 original size:44 final size:44
Alignment explanation
Indices: 10337808--10337961 Score: 152
Period size: 44 Copynumber: 3.4 Consensus size: 44
10337798 TATATGAATT
*
10337808 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
1 TATATAATTTAAAAAAATTAATATTAAATATAATTTAATAATGA
** * * * *
10337852 TATATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAAT-T
1 TATATAATTT-A-AAAA-AATTAATATTAAATATAAT-TTA-AT-AATGA
10337899 TATATAATTTAAAAAAATTAATATTAAATATAATTTAATAATGA
1 TATATAATTTAAAAAAATTAATATTAAATATAATTTAATAATGA
* *
10337943 TATATAATTTCATAAAATT
1 TATATAATTTAAAAAAATT
10337962 CTTAATAATA
Statistics
Matches: 86, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
43 3 0.03
44 39 0.45
45 10 0.12
46 9 0.10
47 22 0.26
48 3 0.03
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (44 bp):
TATATAATTTAAAAAAATTAATATTAAATATAATTTAATAATGA
Found at i:10342028 original size:23 final size:23
Alignment explanation
Indices: 10341968--10342030 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
10341958 TCTACTCACT
10341968 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAA-AACAATTTCCAGC
* * *
10341992 AGAC-TATTAAAACAATTTCTAG-
1 A-ACAAATCAAAACAATTTCCAGC
10342014 AACAAATCAATAACAAT
1 AACAAATCAA-AACAAT
10342031 ATCAAAACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
21 2 0.06
22 5 0.16
23 17 0.55
24 5 0.16
25 2 0.06
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.22
Consensus pattern (23 bp):
AACAAATCAAAACAATTTCCAGC
Found at i:10342057 original size:107 final size:107
Alignment explanation
Indices: 10341940--10342169 Score: 433
Period size: 107 Copynumber: 2.1 Consensus size: 107
10341930 ACTATACTTG
*
10341940 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATTAAAAC
1 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
* *
10342005 AATTTCTAGAACAAATCAATAACAATATCAAAACAAATGCAA
66 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
10342047 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
1 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
10342112 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
66 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
10342154 CAATTTCCAGTTTCAT
1 CAATTTCCAGTTTCAT
10342170 TGAAAACAAC
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 120 1.00
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.26
Consensus pattern (107 bp):
CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
Found at i:10342135 original size:23 final size:24
Alignment explanation
Indices: 10342075--10342137 Score: 87
Period size: 23 Copynumber: 2.7 Consensus size: 24
10342065 TCTACTCACT
10342075 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAAGAACAATTTCCAGC
*
10342099 AGAC-TATCAA-AACAATTTCCAG-
1 A-ACAAATCAAGAACAATTTCCAGC
10342121 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
10342138 ATCAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 18 0.53
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.08, T:0.17
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCAGC
Found at i:10342146 original size:22 final size:22
Alignment explanation
Indices: 10342104--10342149 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10342094 CCAGCAGACT
* *
10342104 ATCAAAACAATTTCCAGAACAA
1 ATCAAAACAATATCCAAAACAA
10342126 ATCAAGAACAATAT-CAAAACAA
1 ATCAA-AACAATATCCAAAACAA
10342148 AT
1 AT
10342150 GCAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (22 bp):
ATCAAAACAATATCCAAAACAA
Found at i:10343568 original size:34 final size:33
Alignment explanation
Indices: 10343527--10343595 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
10343517 ATAAACATAA
**
10343527 AAAAATATACATGCATGTTTAAATCATGAAATAT
1 AAAAATATACATGCATGTGAAAATCATGAAA-AT
* * *
10343561 AAAAATATATATGTATGTGAAAATTATGAAAAT
1 AAAAATATACATGCATGTGAAAATCATGAAAAT
10343594 AA
1 AA
10343596 GATAAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.32
Consensus pattern (33 bp):
AAAAATATACATGCATGTGAAAATCATGAAAAT
Found at i:10343730 original size:24 final size:24
Alignment explanation
Indices: 10343690--10343740 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
10343680 ATGTAGATAT
*
10343690 AATAATATATAATATAACAATAAC
1 AATAATATATAAAATAACAATAAC
*
10343714 AATAATCATA-AAAATAATAATAAC
1 AATAAT-ATATAAAATAACAATAAC
10343738 AAT
1 AAT
10343741 GTTAACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (24 bp):
AATAATATATAAAATAACAATAAC
Found at i:10344877 original size:14 final size:15
Alignment explanation
Indices: 10344850--10344887 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
10344840 TCTTCATTTG
10344850 TTTTGGGTCACTTGTA
1 TTTTGGG-CACTTGTA
10344866 TTTTGGGC-CTTGTA
1 TTTTGGGCACTTGTA
*
10344880 TTCTGGGC
1 TTTTGGGC
10344888 TAGCTCGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 1 0.05
16 7 0.33
ACGTcount: A:0.08, C:0.16, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTTGGGCACTTGTA
Found at i:10345444 original size:44 final size:44
Alignment explanation
Indices: 10345385--10345484 Score: 155
Period size: 44 Copynumber: 2.3 Consensus size: 44
10345375 ACTGTAACTT
* *
10345385 CAGGGAGGTAAGATTCTCAATCTTCAACCTATTCCACTACTGAC
1 CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTACTGAC
* *
10345429 CAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGAC
1 CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTACTGAC
*
10345473 CAGAGAGATAAG
1 CAGGGAGATAAG
10345485 GCTGGGGACT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (44 bp):
CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTACTGAC
Found at i:10345740 original size:88 final size:88
Alignment explanation
Indices: 10345626--10346499 Score: 1093
Period size: 88 Copynumber: 9.9 Consensus size: 88
10345616 GCTGGGGTCA
* * * * * * **
10345626 TCGATCTGTTTTGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
* * *
10345691 CTAGGGAGGCAAGGATGGTGTCT
66 CCAGGGAGGCAAGGCTGGTATCT
* * * * * * *
10345714 TCGATCTGCTTCGCTGTC-AGTGCAGGAAAGCAAGATCTGTTATTTTTAACCTGCTTCGCTGCAA
1 TCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAA
* * *
10345778 CCCAAGGAGGCAAGGCTAGTGTCT
65 CCCAGGGAGGCAAGGCTGGTATCT
* * * * *
10345802 TCGATCTGCTTCTCTCTCGGTGCAGGAAGGCAAAATCTGCTATCTTCAACCTACTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
*
10345867 CCAGGGAGGCAAGGCTGATATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* * * * * *
10345890 TTGATCTACTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
10345955 CCAGGGAGGCAAGGCTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* * * * *
10345978 TCGATCTGCTTTGCTATCGATGCAGGAAGGCAAGATCTCCTATCTTCAACCTGCTCTACTACGAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
* *
10346043 CCAGTGAGGCAAGGTTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* * * * * *
10346066 TCGGTTTGCTTCGCTGTCGATGCAGTAAGGCAAAAATCTGTTGTCTTCAACCTGCTCCACTACAA
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGC-AAGATCTGCTATCTTCAACCTGCTCCACTACAA
*
10346131 TCCAGGGAGGCAAGGCTGGTATCT
65 CCCAGGGAGGCAAGGCTGGTATCT
* * * * * *
10346155 TCGATCTGCTTCTCTGTTGATGTAGAAATGCAAGATCTGCTATCTTCAACCTGCTCCACTACGAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
* *
10346220 CCATGGAGGCAAGGTTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* * * * * * * * *
10346243 TCGGTTTGGTTTGCTGTCGATGCAGTAAGGCAAAATCTACTGTCTTCAACTTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
*
10346308 CCAAGGAGGCAAGGCTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
*
10346331 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
* *
10346396 CCAAGGAGACAAGGCTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
*
10346419 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
*
10346484 CCAGGGAGACAAGGCT
66 CCAGGGAGGCAAGGCT
10346500 TTGTGATTTC
Statistics
Matches: 678, Mismatches: 105, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
88 606 0.89
89 72 0.11
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
CCAGGGAGGCAAGGCTGGTATCT
Found at i:10345890 original size:43 final size:43
Alignment explanation
Indices: 10345842--10345979 Score: 123
Period size: 43 Copynumber: 3.2 Consensus size: 43
10345832 CAAAATCTGC
10345842 TATCTTCAACCTACTCCACTACAACCCAGGGAGGCAAGGCTGA
1 TATCTTCAACCTACTCCACTACAACCCAGGGAGGCAAGGCTGA
** * * * **** * * *
10345885 TATCTTTGATCTACTTCACTGTCGGTACAGGAAGGCAAGATCTGC
1 TATCTTCAACCTACTCCACT-ACAACCCAGGGAGGCAAG-GCTGA
* * *
10345930 TATCTTTAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGG
1 TATCTTCAACCTACTCCACTACAACCCAGGGAGGCAAGGCTGA
10345973 TATCTTC
1 TATCTTC
10345980 GATCTGCTTT
Statistics
Matches: 68, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 25 0.37
44 24 0.35
45 19 0.28
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (43 bp):
TATCTTCAACCTACTCCACTACAACCCAGGGAGGCAAGGCTGA
Found at i:10345967 original size:44 final size:44
Alignment explanation
Indices: 10345824--10346488 Score: 263
Period size: 44 Copynumber: 15.1 Consensus size: 44
10345814 TCTCTCGGTG
* * *
10345824 CAGGAAGGCAAAATCTGCTATCTTCAACCTACTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * ** * * * * ***
10345868 CAGGGAGGCAAG-GCTGATATCTTTGATCTACTTCACTGTCGGTA
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
* *
10345912 CAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * * *** **
10345956 CAGGGAGGCAAG-GCTGGTATCTTCGATCTGCTTTGCTATCGATG
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA-CGACC
* *
10346000 CAGGAAGGCAAGATCTCCTATCTTCAACCTGCTCTACTACGACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * **** * * * **
10346044 CAGTG-AGGCAAGGT-TGGTATCTTCGGTTTGCTTCGCTGTCGATG
1 CAG-GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
* * * * * *
10346088 CAGTAAGGCAAAAATCTGTTGTCTTCAACCTGCTCCACTACAATC
1 CAGGAAGGC-AAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * * * * ** **
10346133 CAGGGAGGCAAG-GCTGGTATCTTCGATCTGCTTCTCTGTTGATG
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
* * *
10346177 TAGAAATGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * **** * *** * **
10346221 CATGG-AGGCAAGGT-TGGTATCTTCGGTTTGGTTTGCTGTCGATG
1 CA-GGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
* * * * * *
10346265 CAGTAAGGCAAAATCTACTGTCTTCAACTTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * * * * **
10346309 CAAGG-AGGCAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCGATG
1 C-AGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
10346353 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * * * * * **
10346397 CAAGG-AGACAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCGATG
1 C-AGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
10346441 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
10346485 CAGG
1 CAGG
10346489 GAGACAAGGC
Statistics
Matches: 419, Mismatches: 179, Indels: 46
0.65 0.28 0.07
Matches are distributed among these distances:
43 125 0.30
44 151 0.36
45 128 0.31
46 15 0.04
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
Found at i:10352263 original size:42 final size:42
Alignment explanation
Indices: 10352202--10352385 Score: 264
Period size: 42 Copynumber: 4.4 Consensus size: 42
10352192 CAGTGCCTAT
* * * *
10352202 CAGGTTTATTGCCAGTGAAACAATATCAGACTTTATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* *
10352244 CAGGCTTAATGCCGGTGAAATAATTTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
10352286 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * *
10352328 CAGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
10352369 CAGGC-TAAGTGCCGGTG
1 CAGGCTTAA-TGCCGGTG
10352386 TACTGAATCA
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
40 3 0.02
41 30 0.23
42 97 0.75
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
Found at i:10355839 original size:36 final size:34
Alignment explanation
Indices: 10355758--10355840 Score: 85
Period size: 36 Copynumber: 2.4 Consensus size: 34
10355748 GAAAATGAAT
* *
10355758 AAAATTATAAACATAAAAAAATATACATGCATGTT
1 AAAATTATGAA-ATAAAAAAATATACATGCATGTG
* * * *
10355793 TAAATCATGAAATAGAAAAATATATATATGTATGTG
1 AAAATTATGAAATA-AAAAA-ATATACATGCATGTG
10355829 AAAATTATGAAA
1 AAAATTATGAAA
10355841 ATAAGATAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
34 3 0.08
35 13 0.34
36 22 0.58
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (34 bp):
AAAATTATGAAATAAAAAAATATACATGCATGTG
Found at i:10355945 original size:3 final size:3
Alignment explanation
Indices: 10355937--10355988 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
10355927 ATATGTAGAT
* * * *
10355937 ATA ATA ATA ATA TATA AT- ATA ACA ATA AAA ATA ATC ATA AAA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10355982 ATA ATA A
1 ATA ATA A
10355989 CAATGTTAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:10355958 original size:18 final size:17
Alignment explanation
Indices: 10355935--10355988 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
10355925 ATATATGTAG
*
10355935 ATATAATAATAATATATA
1 ATATAAAAATAATA-ATA
* *
10355953 ATATAACAATAAAAATA
1 ATATAAAAATAATAATA
10355970 ATCATAAAAATAATAATA
1 AT-ATAAAAATAATAATA
10355988 A
1 A
10355989 CAATGTTAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (17 bp):
ATATAAAAATAATAATA
Found at i:10358196 original size:21 final size:22
Alignment explanation
Indices: 10358154--10358196 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
10358144 AAGTGAACAG
10358154 TGCAATAATCGATGAAGAAGAACC
1 TGCAATAATCGAT--AGAAGAACC
10358178 TGCAATAATCGAT-GAAGAA
1 TGCAATAATCGATAGAAGAA
10358197 AAGGAAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
24 13 0.68
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (22 bp):
TGCAATAATCGATAGAAGAACC
Found at i:10359190 original size:41 final size:41
Alignment explanation
Indices: 10359133--10359216 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
10359123 ATTTATTATG
*
10359133 TTGGACAAATTTTCTAAAAATGTATGCAGTTCTTTAAAAGA
1 TTGGACAAATTTTCTAAAAATATATGCAGTTCTTTAAAAGA
10359174 TTGGACAAATTTTCTAAAAATATATGCAGTTCTTTAAAAGA
1 TTGGACAAATTTTCTAAAAATATATGCAGTTCTTTAAAAGA
10359215 TT
1 TT
10359217 AATTTCGTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (41 bp):
TTGGACAAATTTTCTAAAAATATATGCAGTTCTTTAAAAGA
Found at i:10359429 original size:22 final size:21
Alignment explanation
Indices: 10359396--10359437 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
10359386 AAAATAAGTT
10359396 TTAATTTCTTATGATATAAAAA
1 TTAATTTCTTAT-ATATAAAAA
*
10359418 TTAATATT-TTATATTTAAAA
1 TTAAT-TTCTTATATATAAAA
10359438 TAGTGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 7 0.39
22 9 0.50
23 2 0.11
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATTTCTTATATATAAAAA
Found at i:10364506 original size:20 final size:20
Alignment explanation
Indices: 10364481--10364519 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
10364471 TGGAGCAGGA
10364481 ATATCAATACCTTAAGAAAT
1 ATATCAATACCTTAAGAAAT
10364501 ATATCAATACCTTAAGAAA
1 ATATCAATACCTTAAGAAA
10364520 AGTATTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.28
Consensus pattern (20 bp):
ATATCAATACCTTAAGAAAT
Found at i:10368882 original size:23 final size:23
Alignment explanation
Indices: 10368850--10368893 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10368840 ACTGCCATTT
10368850 TCTAAATAAAACAATAATAAATA
1 TCTAAATAAAACAATAATAAATA
* * *
10368873 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAACAATAATAAA
10368894 ATAATATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
TCTAAATAAAACAATAATAAATA
Found at i:10370548 original size:17 final size:17
Alignment explanation
Indices: 10370526--10370559 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10370516 TCTCCAAATG
*
10370526 TTTTGGGTTCTTTTTTT
1 TTTTGGGTTATTTTTTT
*
10370543 TTTTGGTTTATTTTTTT
1 TTTTGGGTTATTTTTTT
10370560 CAATCTAGAT
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:0.03, C:0.03, G:0.15, T:0.79
Consensus pattern (17 bp):
TTTTGGGTTATTTTTTT
Found at i:10375782 original size:124 final size:123
Alignment explanation
Indices: 10375561--10375859 Score: 435
Period size: 124 Copynumber: 2.4 Consensus size: 123
10375551 AAGTGTTTGA
* * **
10375561 AAAACTACGATAGAATCTTTTAGTACAATCATTCAACAAATACAA--AAAAAAAGGGGTAATGTG
1 AAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATA-AAGGAAAAAAAAGGGTAAAATG
*
10375624 TAAGTAAAGGACTAAAGTAAATAGTGTAAATTTTGTTTTGAAGTGTTTGAAAAAATTGG
65 TAAGTAAAGGACTAAAGTAAATAGTGTAAATTTTGTTTTGAAGTATTTGAAAAAATTGG
* * *
10375683 AAAAC-AGTGATAGAATCTTTTGGTACAATTATTCAATAAATAAAGGGAAAAAAAAGGGTAAAAT
1 AAAACTA-CGATAGAATCTTTTGGTACAATCATTCAACAAATAAA-GGAAAAAAAAGGGTAAAAT
* *
10375747 GTAAGTAAAGGGCTAAAGTAAACT-GTGTAAATTTTGTTTTGAAGTATTTGATAAAATTGG
64 GTAAGTAAAGGACTAAAGTAAA-TAGTGTAAATTTTGTTTTGAAGTATTTGAAAAAATTGG
10375807 AAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGAGAAAAAA
1 AAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAG-GAAAAAA
10375860 TTGAGTATGA
Statistics
Matches: 157, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
121 3 0.02
122 36 0.23
123 1 0.01
124 115 0.73
125 2 0.01
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (123 bp):
AAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGAAAAAAAAGGGTAAAATGT
AAGTAAAGGACTAAAGTAAATAGTGTAAATTTTGTTTTGAAGTATTTGAAAAAATTGG
Found at i:10380505 original size:49 final size:49
Alignment explanation
Indices: 10380383--10380508 Score: 157
Period size: 50 Copynumber: 2.6 Consensus size: 49
10380373 TTCGTCACGT
* * * *
10380383 GTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCAT
1 GTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGATC-CAC
* *
10380433 GTGTAGTACTATGTGCAGGCTACTATGCGTACCGG-ATAGCTTTGAT-CAC
1 GTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAAT-G-ATAGATCCAC
10380482 GTGTAGTACTATGTGCAGGCTACTATG
1 GTGTAGTACTATGTGCAGGCTACTATG
10380509 TGAATCGGGT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
49 31 0.46
50 34 0.50
51 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (49 bp):
GTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGATCCAC
Found at i:10380527 original size:49 final size:49
Alignment explanation
Indices: 10380383--10380527 Score: 148
Period size: 49 Copynumber: 2.9 Consensus size: 49
10380373 TTCGTCACGT
* * * * * * *
10380383 GTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCAT
1 GTGTAGTACTATGTGCAGGCTACTATGTGTACGGGTATCATTGATC-CAC
* * * *
10380433 GTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTTGAT-CAC
1 GTGTAGTACTATGTGCAGGCTACTATGTGTA-CGGGTATCATTGATCCAC
*
10380482 GTGTAGTACTATGTGCAGGCTACTATGTGAATCGGGTATCATTGAT
1 GTGTAGTACTATGTGCAGGCTACTATGTGTA-CGGGTATCATTGAT
10380528 TATAAGGTGG
Statistics
Matches: 77, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
49 42 0.55
50 29 0.38
51 6 0.08
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (49 bp):
GTGTAGTACTATGTGCAGGCTACTATGTGTACGGGTATCATTGATCCAC
Found at i:10383194 original size:24 final size:24
Alignment explanation
Indices: 10383165--10383218 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
10383155 TCCGCATCAT
* *
10383165 CCGCAACTGTGATAGACACCGCAA
1 CCGCAACTGCGACAGACACCGCAA
*
10383189 TCGCAACTGCGACAGACACCGCAA
1 CCGCAACTGCGACAGACACCGCAA
10383213 CCGCAA
1 CCGCAA
10383219 TTTAGTACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.37, G:0.20, T:0.09
Consensus pattern (24 bp):
CCGCAACTGCGACAGACACCGCAA
Found at i:10385225 original size:19 final size:19
Alignment explanation
Indices: 10385201--10385254 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
10385191 AATCATATTT
*
10385201 TCTAAGATTGCGTATCATA
1 TCTAAGATTGCATATCATA
*
10385220 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
10385239 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10385255 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10386547 original size:11 final size:11
Alignment explanation
Indices: 10386531--10386568 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
10386521 GACCCAGCCC
10386531 ATATTAAATAT
1 ATATTAAATAT
10386542 ATATTAAATAT
1 ATATTAAATAT
10386553 ATA-TATAATAT
1 ATATTA-AATAT
10386564 ATATT
1 ATATT
10386569 TGATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 2 0.08
11 22 0.88
12 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:10390793 original size:8 final size:9
Alignment explanation
Indices: 10390769--10390796 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10390759 TGGTTGAAGA
10390769 AAGAAAAAT
1 AAGAAAAAT
10390778 AAGAAAAAT
1 AAGAAAAAT
10390787 AAGAAAAAT
1 AAGAAAAAT
10390796 A
1 A
10390797 TTATAGCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
AAGAAAAAT
Found at i:10391829 original size:13 final size:13
Alignment explanation
Indices: 10391804--10391838 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
10391794 TTCAGTCCTT
10391804 TACAGATACAGATA
1 TACAGA-ACAGATA
*
10391818 TGCAGAACAGATA
1 TACAGAACAGATA
10391831 TACAGAAC
1 TACAGAAC
10391839 CCTACCCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (13 bp):
TACAGAACAGATA
Done.