Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold23_ERROPOS187738
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: 99999
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Found at i:3725 original size:27 final size:27
Alignment explanation
Indices: 3706--3805 Score: 112
Period size: 27 Copynumber: 3.6 Consensus size: 27
3696 ATATATTAAG
*
3706 TCCGCACACTCAGTGCTATATAATCAA
1 TCCGCACACTTAGTGCTATATAATCAA
3733 -CTCGCACACTTAGTGCTATATAATCAA
1 TC-CGCACACTTAGTGCTATATAATCAA
* * *
3760 ACTCGCACACTTAGTGCTATACAATTTAAA
1 TC-CGCACACTTAGTGCTATATAA--TCAA
*
3790 CCCGCACACTTAGTGC
1 TCCGCACACTTAGTGC
3806 CAATCTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
26 1 0.02
27 24 0.37
28 22 0.34
29 14 0.22
30 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (27 bp):
TCCGCACACTTAGTGCTATATAATCAA
Found at i:3771 original size:28 final size:28
Alignment explanation
Indices: 3708--3805 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
3698 ATATTAAGTC
*
3708 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
3735 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
3763 CGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
3792 CGCACACTTAGTGC
1 CGCACACTTAGTGC
3806 CAATCTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 22 0.34
28 24 0.37
29 19 0.29
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:11803 original size:27 final size:26
Alignment explanation
Indices: 11786--11855 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
11776 ATATTAAGTC
11786 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
11813 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
11841 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
11856 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:11849 original size:28 final size:28
Alignment explanation
Indices: 11786--11883 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
11776 ATATTAAGTC
*
11786 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
11813 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
11841 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
11870 CGCACACTTAGTGC
1 CGCACACTTAGTGC
11884 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15472 original size:22 final size:20
Alignment explanation
Indices: 15442--15485 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
15432 ATCCAATTCA
15442 ATTTCCATATACCATGTAACAC
1 ATTTCCATATA--ATGTAACAC
*
15464 ATTTTCATATAATGTAACAC
1 ATTTCCATATAATGTAACAC
15484 AT
1 AT
15486 CCATAACGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTTCCATATAATGTAACAC
Found at i:19448 original size:27 final size:27
Alignment explanation
Indices: 19418--19486 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
19408 TTAAGTCCGT
19418 CACACTCA-TGCTATATAATCAAACTC-G
1 CACACT-AGTGCTATATAA-CAAACTCGG
19445 CACACTTAGTGCT-TATAACAAACTCGG
1 CACAC-TAGTGCTATATAACAAACTCGG
19472 CACACTAGTGCTATA
1 CACACTAGTGCTATA
19487 ACAATTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
26 14 0.37
27 19 0.50
28 5 0.13
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.26
Consensus pattern (27 bp):
CACACTAGTGCTATATAACAAACTCGG
Found at i:27580 original size:27 final size:26
Alignment explanation
Indices: 27550--27621 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
27540 ATTAAGTCCA
27550 CACACTCAGTGCTATAAATCAAACTCG
1 CACACT-AGTGCTATAAATCAAACTCG
* *
27577 CACACTTGTGCTATATTATCAAACTCG
1 CACACTAGTGCTATA-AATCAAACTCG
*
27604 CACACTTAGTGCTGTAAA
1 CACAC-TAGTGCTATAAA
27622 CAATTTAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 8 0.21
27 22 0.58
28 8 0.21
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.28
Consensus pattern (26 bp):
CACACTAGTGCTATAAATCAAACTCG
Found at i:30114 original size:1 final size:1
Alignment explanation
Indices: 30108--30147 Score: 71
Period size: 1 Copynumber: 40.0 Consensus size: 1
30098 CATTGAAGTA
*
30108 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGAGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
30148 AACACACGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.03, C:0.00, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:33285 original size:38 final size:40
Alignment explanation
Indices: 33223--33403 Score: 189
Period size: 39 Copynumber: 4.6 Consensus size: 40
33213 CTACTCGTTT
*
33223 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
33263 C-AATG-CTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
33301 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
33340 CAAATGCCTTC-GGATCTTAGTCC-GATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
33380 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
33404 ACATCATTCA
Statistics
Matches: 118, Mismatches: 12, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
38 31 0.26
39 59 0.50
40 28 0.24
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:41532 original size:118 final size:119
Alignment explanation
Indices: 41351--41572 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
41341 TCCTCGTTCA
*
41351 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
41416 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
41470 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
41532 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
41573 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:41572 original size:40 final size:40
Alignment explanation
Indices: 41349--41572 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
41339 GCTCCTCGTT
* *
41349 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
41389 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
41429 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
41469 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
41507 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
41548 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41573 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:44484 original size:18 final size:18
Alignment explanation
Indices: 44461--44528 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
44451 AGGATGTGTC
**
44461 ATTCATTTTCAAAATTTT
1 ATTCATTTTCAAAAAATT
* *
44479 ATTCATTATCAAAAAGTT
1 ATTCATTTTCAAAAAATT
* *
44497 ATAC-TCTTTCAAAACATT
1 ATTCAT-TTTCAAAAAATT
*
44515 ATTAATTTTCAAAA
1 ATTCATTTTCAAAA
44529 CATCACTTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 1 0.03
18 37 0.95
19 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.44
Consensus pattern (18 bp):
ATTCATTTTCAAAAAATT
Found at i:45508 original size:17 final size:17
Alignment explanation
Indices: 45486--45533 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
45476 ATCCCATGTA
45486 GGCCCACACGCCCGTGT
1 GGCCCACACGCCCGTGT
*
45503 GGCCCACACGCCTGTGT
1 GGCCCACACGCCCGTGT
45520 GGCCCACACAGCCC
1 GGCCCACAC-GCCC
45534 AAAATGGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 25 0.89
18 3 0.11
ACGTcount: A:0.15, C:0.48, G:0.27, T:0.10
Consensus pattern (17 bp):
GGCCCACACGCCCGTGT
Found at i:45615 original size:17 final size:18
Alignment explanation
Indices: 45578--45615 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
45568 CCCAAAATTT
*
45578 CCACACGCTCGTGTGGGC
1 CCACACGCCCGTGTGGGC
*
45596 CCACACGCCCTTGT-GGC
1 CCACACGCCCGTGTGGGC
45613 CCA
1 CCA
45616 TACGACCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.13, C:0.45, G:0.26, T:0.16
Consensus pattern (18 bp):
CCACACGCCCGTGTGGGC
Found at i:46541 original size:24 final size:22
Alignment explanation
Indices: 46497--46543 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
46487 AACTCTAAAC
* *
46497 ATATCCCTAAAAATTCTCCACA
1 ATATCCCCAAAAATTCGCCACA
46519 ATATCCTCCAAAAATTCGGCCACA
1 ATATCC-CCAAAAATTC-GCCACA
46543 A
1 A
46544 CAACCCCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 9 0.43
24 6 0.29
ACGTcount: A:0.40, C:0.32, G:0.04, T:0.23
Consensus pattern (22 bp):
ATATCCCCAAAAATTCGCCACA
Found at i:49081 original size:6 final size:6
Alignment explanation
Indices: 49063--49224 Score: 102
Period size: 6 Copynumber: 26.3 Consensus size: 6
49053 AAGAAACATT
*
49063 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
49110 GTCACAGA ATCAGA ATTAGA ATCAGT A-CAAGGTA ATC-GA ATCAAA ATCAAA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATC-A-G-A ATCAGA ATCAGA ATCAGA
* * *
49161 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAAGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA
*
49211 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
49225 GTGAATGCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
5 11 0.09
6 96 0.79
7 10 0.08
8 4 0.03
9 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:49121 original size:31 final size:31
Alignment explanation
Indices: 49083--49224 Score: 180
Period size: 31 Copynumber: 4.6 Consensus size: 31
49073 GAATCAGAAT
* * * *
49083 CAGAATCAGAATCAGAATCAGAATTAGGTCA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
* *
49114 CAGAATCAGAATTAGAATCAGTA-CAAGGTAA
1 CAGAATCAAAATCAGAATCAGTATC-AGGTAA
*
49145 TC-GAATCAAAATCAAAATCAGTATCAGGTAA
1 -CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
49176 CAGAATCAAAATCAGAATCAGTATCAAGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
49207 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
49225 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
30 1 0.01
31 95 0.97
32 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.20
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:50033 original size:27 final size:27
Alignment explanation
Indices: 49987--50394 Score: 396
Period size: 27 Copynumber: 15.2 Consensus size: 27
49977 GGCAAAAAGG
* *
49987 GTAATT-TACCCCATAAGGGTATCTT-A
1 GTAATTCTACCCTACAAGGGTAT-TTCA
* *
50013 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
50040 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
50067 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
50094 GTAATTCTA-ACTACAGGGGTATTT-T
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * * *
50119 GATATTTCCACCTTACAAGGGCATTTCG
1 G-TAATTCTACCCTACAAGGGTATTTCA
* * * *
50147 GTATTTCTATCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
50174 GTATTTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
50201 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
50228 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
**
50255 GTAATTCTACATTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
50282 GTAATTCTACTCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
50309 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *** *
50336 GTAATTTTA-TAAATCGAGGGTATTTCA
1 GTAATTCTACCCTA-CAAGGGTATTTCA
* ** *
50363 GTAATTTTACAAT-CAACGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
50389 GTAATT
1 GTAATT
50395 TTACAAATCA
Statistics
Matches: 325, Mismatches: 50, Indels: 14
0.84 0.13 0.04
Matches are distributed among these distances:
25 1 0.00
26 46 0.14
27 276 0.85
28 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:50412 original size:27 final size:26
Alignment explanation
Indices: 50188--50504 Score: 231
Period size: 27 Copynumber: 11.8 Consensus size: 26
50178 TTCTACCTTA
* **
50188 CAAGGGTATTTCAGTAATTCTACCCT
1 CAAGGGTATTTCAGTAATTTTACAAT
* * * **
50214 ACAGGGGTATTTCGGTAATTCTACCTT
1 -CAAGGGTATTTCAGTAATTTTACAAT
* * *
50241 ACAGGGGTATTTCAGTAATTCTACATT
1 -CAAGGGTATTTCAGTAATTTTACAAT
* **
50268 ACAAGGGTATTTCAGTAATTCTACTCT
1 -CAAGGGTATTTCAGTAATTTTACAAT
* **
50295 ACAAGGGTATTTCAGTAATTCTACCCT
1 -CAAGGGTATTTCAGTAATTTTACAAT
* *
50322 ACAAGGGTATTTCGGTAATTTTATAAAT
1 -CAAGGGTATTTCAGTAATTTTA-CAAT
*
50350 CGAGGGTATTTCAGTAATTTTACAAT
1 CAAGGGTATTTCAGTAATTTTACAAT
*
50376 CAACGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTAC-AAT
* ** * *
50403 CAAGGATATTTGGGTAATTTTATAAAC
1 CAAGGGTATTTCAGTAATTTTA-CAAT
** *
50430 CGGGGGTACTTT-GGTAATTTTACAAGT
1 CAAGGGTA-TTTCAGTAATTTTACAA-T
* * *
50457 CGAGGGTATTTTAGTAATTTTATAAT
1 CAAGGGTATTTCAGTAATTTTACAAT
* *
50483 CGATGGTATTTCAGTAATTTTA
1 CAAGGGTATTTCAGTAATTTTA
50505 TAAACCGGGG
Statistics
Matches: 249, Mismatches: 35, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
26 50 0.20
27 195 0.78
28 4 0.02
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (26 bp):
CAAGGGTATTTCAGTAATTTTACAAT
Found at i:50419 original size:80 final size:78
Alignment explanation
Indices: 50296--50555 Score: 281
Period size: 80 Copynumber: 3.3 Consensus size: 78
50286 TTCTACTCTA
* ** *
50296 CAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTATAAATCGAGGGTA-TT
1 CAAGGGTATTTCAGTAATTTTACAAT-CAA-GGTATTTCGGTAATTTTATAAACCGAGGGTACTT
50360 TCAGTAATTTTACAAT
64 T-AGTAATTTTACAAT
* * *
50376 CAACGGTATTTCAGTAATTTTACAAATCAAGGATATTTGGGTAATTTTATAAACCGGGGGTACTT
1 CAAGGGTATTTCAGTAATTTTAC-AATCAAGG-TATTTCGGTAATTTTATAAACCGAGGGTACTT
*
50441 TGGTAATTTTACAAGT
64 TAGTAATTTTACAA-T
* * * * * *
50457 CGAGGGTATTTTAGTAATTTTATAATCGATGGTATTTCAGTAATTTTATAAACCGGGGGTACTTT
1 CAAGGGTATTTCAGTAATTTTACAATC-AAGGTATTTCGGTAATTTTATAAACCGAGGGTACTTT
*
50522 GGTAATTTTACAA-
65 AGTAATTTTACAAT
**
50535 CTGGGGGTATTTCAGTAATTT
1 C-AAGGGTATTTCAGTAATTT
50556 GGTAGACTAA
Statistics
Matches: 157, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 19 0.12
80 110 0.70
81 27 0.17
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (78 bp):
CAAGGGTATTTCAGTAATTTTACAATCAAGGTATTTCGGTAATTTTATAAACCGAGGGTACTTTA
GTAATTTTACAAT
Found at i:50505 original size:26 final size:26
Alignment explanation
Indices: 50245--50555 Score: 198
Period size: 27 Copynumber: 11.7 Consensus size: 26
50235 TACCTTACAG
* * * *
50245 GGGTATTTCAGTAATTCTACATTACAA
1 GGGTATTTCAGTAATTTTATAAT-CGA
* * *
50272 GGGTATTTCAGTAATTCTACT-CTACAA
1 GGGTATTTCAGTAATTTTA-TAAT-CGA
* *** *
50299 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTTTATAAT-CGA
*
50326 GGGTATTTCGGTAATTTTATAAATCGA
1 GGGTATTTCAGTAATTTTAT-AATCGA
* *
50353 GGGTATTTCAGTAATTTTACAATCAA
1 GGGTATTTCAGTAATTTTATAATCGA
* * *
50379 CGGTATTTCAGTAATTTTACAAATCAA
1 GGGTATTTCAGTAATTTTA-TAATCGA
* ** * *
50406 GGATATTTGGGTAATTTTATAAACCGG
1 GGGTATTTCAGTAATTTTAT-AATCGA
* *
50433 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTATAA-TCGA
*
50460 GGGTATTTTAGTAATTTTATAATCGA
1 GGGTATTTCAGTAATTTTATAATCGA
* * *
50486 TGGTATTTCAGTAATTTTATAAACCGG
1 GGGTATTTCAGTAATTTTAT-AATCGA
* * *
50513 GGGTACTTT-GGTAATTTTACAA-CTGG
1 GGGTA-TTTCAGTAATTTTATAATC-GA
50539 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
50556 GGTAGACTAA
Statistics
Matches: 236, Mismatches: 36, Indels: 25
0.79 0.12 0.08
Matches are distributed among these distances:
25 4 0.02
26 66 0.28
27 159 0.67
28 7 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTTATAATCGA
Found at i:50544 original size:53 final size:53
Alignment explanation
Indices: 50245--50555 Score: 243
Period size: 54 Copynumber: 5.8 Consensus size: 53
50235 TACCTTACAG
* * * * ** *
50245 GGGTATTTCAGTAATTCTACATTACAAGGGTATTTCAGTAATTCTAC-TCTACAA
1 GGGTATTTCAGTAATTTTACAAT-CGAGGGTATTTCAGTAATTTTACAAAT-CGA
* ** * * *
50299 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTATAAATCGA
1 GGGTATTTCAGTAATTTTACAAT-CGAGGGTATTTCAGTAATTTTACAAATCGA
* * *
50353 GGGTATTTCAGTAATTTTACAATCAACGGTATTTCAGTAATTTTACAAATCAA
1 GGGTATTTCAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACAAATCGA
* ** * * * * *
50406 GGATATTTGGGTAATTTTATAAACCGGGGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTATTTCAGTAATTTTA-CAATCGAGGGTA-TTTCAGTAATTTTACAAATCGA
* * * * * *
50460 GGGTATTTTAGTAATTTTATAATCGATGGTATTTCAGTAATTTTATAAACCGG
1 GGGTATTTCAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACAAATCGA
* *
50513 GGGTACTTT-GGTAATTTTACAA-CTGGGGGTATTTCAGTAATTT
1 GGGTA-TTTCAGTAATTTTACAATC-GAGGGTATTTCAGTAATTT
50556 GGTAGACTAA
Statistics
Matches: 209, Mismatches: 42, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
52 4 0.02
53 96 0.46
54 105 0.50
55 4 0.02
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (53 bp):
GGGTATTTCAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACAAATCGA
Found at i:52500 original size:6 final size:6
Alignment explanation
Indices: 52482--52643 Score: 118
Period size: 6 Copynumber: 26.3 Consensus size: 6
52472 AAGAAACATT
*
52482 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
52529 GTCACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CCGA ATCAAA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* * *
52580 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* *
52630 ATCAAA ATTAGA AT
1 ATCAGA ATCAGA AT
52644 GTGAATGCAA
Statistics
Matches: 123, Mismatches: 19, Indels: 28
0.72 0.11 0.16
Matches are distributed among these distances:
5 8 0.07
6 100 0.81
7 11 0.09
8 4 0.03
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:52503 original size:18 final size:18
Alignment explanation
Indices: 52482--52643 Score: 118
Period size: 19 Copynumber: 8.8 Consensus size: 18
52472 AAGAAACATT
52482 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
52500 ATCAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAGA
* *
52518 ATCAGAATTAG-GTCACAGA
1 ATCAGAATCAGAAT--CAGA
*
52537 ATCAGAATCAGAATCAGT
1 ATCAGAATCAGAATCAGA
* *
52555 ATCAGGTAA-CCGAATCAAA
1 ATCA-G-AATCAGAATCAGA
*
52574 ATCAGAATCAGTATCAGGTA
1 ATCAGAATCAGAATCA-G-A
*
52594 A-CAGAATCAAAATCAGA
1 ATCAGAATCAGAATCAGA
*
52611 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
* *
52630 ATCAAAATTAGAAT
1 ATCAGAATCAGAAT
52644 GTGAATGCAA
Statistics
Matches: 113, Mismatches: 18, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
17 7 0.06
18 49 0.43
19 50 0.44
20 7 0.06
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.20
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:52540 original size:31 final size:31
Alignment explanation
Indices: 52502--52643 Score: 221
Period size: 31 Copynumber: 4.6 Consensus size: 31
52492 GAATCAGAAT
* * * *
52502 CAGAATCAGAATCAGAATCAGAATTAGGTCA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
52533 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
52564 CCGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
52595 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
52626 CAGAATCAAAATTAGAAT
1 CAGAATCAAAATCAGAAT
52644 GTGAATGCAA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.20
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:52801 original size:27 final size:26
Alignment explanation
Indices: 52763--52848 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
52753 AGCATGACTG
* *
52763 CCAGAATAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGATAGAGCCA
* *
52789 CCAGATACAGATATTTTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGATAGAGCCA
* ** *
52816 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGATAGAGCCA
52843 CCAGAA
1 CCAGAA
52849 TAAGATAATG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 11 0.22
27 39 0.78
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (26 bp):
CCAGAACAGATATTGTGATAGAGCCA
Found at i:52860 original size:27 final size:27
Alignment explanation
Indices: 52811--52870 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
52801 ATTTTGGTAG
* *
52811 AGCCACCAGAACAAATATTTGTGGCAT
1 AGCCACCAGAACAAATATATGTGGCAA
*
52838 AGCCACCAGAATAAGATA-ATGTGGCAA
1 AGCCACCAGAACAA-ATATATGTGGCAA
52865 AGCCAC
1 AGCCAC
52871 TTAACAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (27 bp):
AGCCACCAGAACAAATATATGTGGCAA
Found at i:53465 original size:27 final size:27
Alignment explanation
Indices: 53428--53862 Score: 308
Period size: 27 Copynumber: 16.2 Consensus size: 27
53418 GGCAAAAAGG
* * *
53428 GTAATTTTACCCCATAAGGGTATCTCA
1 GTAATTCTACCCTATAAGGGTATTTCA
* * *
53455 GTAATTGTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTATAAGGGTATTTCA
* * * *
53482 GTATTTCTACCCTAAAAGCGTATTTCG
1 GTAATTCTACCCTATAAGGGTATTTCA
* *
53509 GTAATTCTATCCTATAGGGGTATTTCA
1 GTAATTCTACCCTATAAGGGTATTTCA
* *
53536 GTAATTCTA-CCTA-CAGGGATATTT-T
1 GTAATTCTACCCTATAAGGG-TATTTCA
*
53561 GATATTTCTACCCTATAAGGGTATTTCA
1 G-TAATTCTACCCTATAAGGGTATTTCA
* * * *
53589 GTATTTCTATCCTA-CAGGGGATTTCA
1 GTAATTCTACCCTATAAGGGTATTTCA
* * * *
53615 ATAATTCTACCCTACAGGGGTATTT-T
1 GTAATTCTACCCTATAAGGGTATTTCA
* * *
53641 GATATTTCTACGCTACAAGGGTATTTCA
1 G-TAATTCTACCCTATAAGGGTATTTCA
* * * *
53669 GTAATTCTACCC-CTAGGGGCATTTCG
1 GTAATTCTACCCTATAAGGGTATTTCA
* * *
53695 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTATAAGGGTATTTCA
* *** * * **
53722 GTAATTCCATATTACAGGGGTATTTTG
1 GTAATTCTACCCTATAAGGGTATTTCA
* * * *
53749 GGAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTATAAGGGTATTTCA
* *
53776 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTATAAGGGTATTTCA
* *
53803 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTATAAGGGTATTTCA
* ***
53830 GTAATTTTA-TAAATCAAGGGTATTTCA
1 GTAATTCTACCCTAT-AAGGGTATTTCA
53857 GTAATT
1 GTAATT
53863 TTACAATTAA
Statistics
Matches: 325, Mismatches: 73, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
25 4 0.01
26 58 0.18
27 257 0.79
28 6 0.02
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTATAAGGGTATTTCA
Found at i:53514 original size:54 final size:54
Alignment explanation
Indices: 53428--53835 Score: 387
Period size: 54 Copynumber: 7.6 Consensus size: 54
53418 GGCAAAAAGG
* * * * * *
53428 GTAATTTTACCCCATAAGGGTATCTCAGTAATTGTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * * *
53482 GTATTTCTACCCTAAAAGCGTATTTCGGTAATTCTATCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * * *
53536 GTAATTCTA-CCTAC-AGGGATATTTTGATATTTCTACCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * ** *
53589 GTATTTCTATCCTAC-AGGGGATTTCAATAATTCTACCCTACAGGGGTATTT-T
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * * *
53641 GATATTTCTACGCTACAAGGGTATTTCAGTAATTCTACCC--CTAGGGGCATTTCG
1 G-TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC-AGGGGTATTTCA
* * * * *** **
53695 GTAATTCTACCTTACAGGGGTATTTCAGTAATTCCATATTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * *
53749 GGAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
53803 GTAATTCTACCCTACAAGGGTATTTCGGTAATT
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATT
53836 TTATAAATCA
Statistics
Matches: 293, Mismatches: 53, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
52 5 0.02
53 118 0.40
54 169 0.58
55 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:53570 original size:80 final size:82
Alignment explanation
Indices: 53427--53862 Score: 440
Period size: 80 Copynumber: 5.4 Consensus size: 82
53417 GGGCAAAAAG
* * * * * *
53427 GGTAATTTTACCCCATAAGGGTATCTCAGTAATTGTACCCTACAGGGGTA-TTTCAGTATTTCTA
1 GGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTCAGTATTTCTA
* *
53491 CCCTAAAAGCGTATTTC
66 CCCTACAAGGGTATTTC
* *
53508 GGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTA-CCTACAGGGATATTTTGA-TATTTCTA
1 GGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTCAGTATTTCTA
*
53571 CCCTATAAGGGTATTTC
66 CCCTACAAGGGTATTTC
* * * * *
53588 AGTATTTCTATCCTACAGGGG-ATTTCAATAATTCTACCCTACAGGGGTATTTTGA-TATTTCTA
1 GGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTCAGTATTTCTA
*
53651 CGCTACAAGGGTATTTC
66 CCCTACAAGGGTATTTC
* ** * * * * *
53668 AGTAATTCTA-CCCCTAGGGGCATTTCGGTAATTCTACCTTACAGGGGTA-TTTCAGTAATTCCA
1 GGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTCAGTATTTCTA
*** * *
53731 TATTACAGGGGTATTTT
66 CCCTACAAGGGTATTTC
* * * * * *
53748 GGGAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTT-AGTAATTCTA
1 GGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTCAGTATTTCTA
53812 CCCTACAAGGGTATTTC
66 CCCTACAAGGGTATTTC
* ** *
53829 GGTAATTTTAT-AAATCAAGGGTATTTCAGTAATT
1 GGTAATTCTATCCTAT-AGGGGTATTTCAGTAATT
53863 TTACAATTAA
Statistics
Matches: 294, Mismatches: 54, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
79 25 0.09
80 153 0.52
81 113 0.38
82 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (82 bp):
GGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTCAGTATTTCTA
CCCTACAAGGGTATTTC
Found at i:53848 original size:54 final size:54
Alignment explanation
Indices: 53472--53969 Score: 184
Period size: 54 Copynumber: 9.3 Consensus size: 54
53462 TACCCTACAG
* * * * * * ** *
53472 GGGTATTTCAGTATTTCTACCCTAAAAGCGTATTTCGGTAATTCTATCCTAT-AG
1 GGGTATTTTAGTAATTCTACCATACAAGGGTATTTCGGTAATTTTA-CAAATCAA
* * * **
53526 GGGTATTTCAGTAATTCTACC-TAC-AGGGATATTTTGAT-ATTTCTACCCTAT-AA
1 GGGTATTTTAGTAATTCTACCATACAAGGG-TATTTCGGTAATTT-TA-CAAATCAA
* * * ** * ** *
53579 GGGTATTTCAGTATTTCTATCC-TAC-AGGGGATTTCAATAATTCTAC-CCTACAG
1 GGGTATTTTAGTAATTCTA-CCATACAAGGGTATTTCGGTAATTTTACAAAT-CAA
* * * *** *
53632 GGGTATTTT-GATATTTCTACGC-TACAAGGGTATTTCAGTAATTCTACCCCT-AG
1 GGGTATTTTAG-TAATTCTAC-CATACAAGGGTATTTCGGTAATTTTACAAATCAA
* ** * * * * * *
53685 GGGCATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAA--TTCCATATTACAG
1 GGGTATTTTAGTAATTCTACCATACAAGGGTATTTCGGTAATTTTACA-AAT-CAA
* * * * * **
53739 GGGTATTTTGGGAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC-CCTACAA
1 GGGTATTTTAGTAATTCTACCATACAAGGGTATTTCGGTAATTTTACAAAT-CAA
* *
53793 GGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTATAAATCAA
1 GGGTATTTTAGTAATTCTACCATACAAGGGTATTTCGGTAATTTTACAAATCAA
* * * * * * *
53847 GGGTATTTCAGTAATTTTACAAT-TAACGATATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTAGTAATTCTACCATACAAGGGTATTTCGGTAATTTTACAAATCAA
* ** * * * * * *
53900 GGATATTTGGGTAATTTTA-TAAACCTAGGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTATTTTAGTAATTCTACCATA-CAAGGGTA-TTTCGGTAATTTTACAAATCAA
53954 GGGTATTTTAGTAATT
1 GGGTATTTTAGTAATT
53970 TTACAATCGA
Statistics
Matches: 356, Mismatches: 67, Indels: 42
0.77 0.14 0.09
Matches are distributed among these distances:
51 3 0.01
52 12 0.03
53 140 0.39
54 192 0.54
55 7 0.02
56 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (54 bp):
GGGTATTTTAGTAATTCTACCATACAAGGGTATTTCGGTAATTTTACAAATCAA
Found at i:53863 original size:27 final size:27
Alignment explanation
Indices: 53817--54028 Score: 173
Period size: 27 Copynumber: 7.9 Consensus size: 27
53807 TTCTACCCTA
*
53817 CAAGGGTATTTCGGTAATTTTATAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
53844 CAAGGGTATTTCAGTAATTTTAC-AAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
53870 TAACGATATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * * *
53897 CGAGGATATTTGGGTAATTTTATAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
53924 CTAGGGTACTTT-GGTAATTTTACAAGT
1 CAAGGGTA-TTTCGGTAATTTTACAAAT
* **
53951 CGAGGGTATTTTAGTAATTTTAC-AAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * * *
53977 CGACGATATTTCAGTAATTTTATAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
54003 CTAGGGGTACTTT-GGTAATTTTACAA
1 C-AAGGGTA-TTTCGGTAATTTTACAA
54029 CTGGGGGTAT
Statistics
Matches: 149, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 47 0.32
27 96 0.64
28 6 0.04
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:53913 original size:80 final size:79
Alignment explanation
Indices: 53823--54028 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 79
53813 CCTACAAGGG
* * *
53823 TATTTCGGTAATTTTATAAATCAAGGGTA-TTTCAGTAATTTTACAA-TTAACGATATTTCGGTA
1 TATTTCGGTAATTTTATAAA-CAAGGGTACTTT-GGTAATTTTACAAGTCAACGATATTTCAGTA
*
53886 ATTTTACAAATCGAGGA
64 ATTTTAC-AATCGACGA
* * * * * *
53903 TATTTGGGTAATTTTATAAACCTAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAA
1 TATTTCGGTAATTTTATAAA-CAAGGGTACTTTGGTAATTTTACAAGTCAACGATATTTCAGTAA
53968 TTTTACAATCGACGA
65 TTTTACAATCGACGA
* *
53983 TATTTCAGTAATTTTATAAACTAGGGGTACTTTGGTAATTTTACAA
1 TATTTCGGTAATTTTATAAAC-AAGGGTACTTTGGTAATTTTACAA
54029 CTGGGGGTAT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 86 0.80
81 21 0.19
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.41
Consensus pattern (79 bp):
TATTTCGGTAATTTTATAAACAAGGGTACTTTGGTAATTTTACAAGTCAACGATATTTCAGTAAT
TTTACAATCGACGA
Found at i:54020 original size:107 final size:107
Alignment explanation
Indices: 53819--54025 Score: 276
Period size: 107 Copynumber: 1.9 Consensus size: 107
53809 CTACCCTACA
* * *
53819 AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTCAGTAATTTTACAATTAACGATATTTCGG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCAACGATATTTCAG
*
53884 TAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACCT
66 TAATTTTACAAATAGAGGATATTTGGGTAATTTTATAAACCT
* * * *
53926 AGGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAATCGACGATATTTCA
1 AGGGTA-TTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCAACGATATTTCA
* *
53990 GTAATTTTATAAACTAG-GGGTACTTT-GGTAATTTTA
65 GTAATTTTACAAA-TAGAGGATA-TTTGGGTAATTTTA
54026 CAACTGGGGG
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
107 79 0.91
108 8 0.09
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (107 bp):
AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCAACGATATTTCAG
TAATTTTACAAATAGAGGATATTTGGGTAATTTTATAAACCT
Found at i:54036 original size:26 final size:27
Alignment explanation
Indices: 53883--54049 Score: 114
Period size: 27 Copynumber: 6.3 Consensus size: 27
53873 CGATATTTCG
* * *
53883 GTAATTTTACAAATCGAGGATA-TTTGG
1 GTAATTTTACAACTCGAGGGTACTTT-A
* * *
53910 GTAATTTTATAAAC-CTAGGGTACTTTG
1 GTAATTTTA-CAACTCGAGGGTACTTTA
* *
53937 GTAATTTTACAAGTCGAGGGTATTTTA
1 GTAATTTTACAACTCGAGGGTACTTTA
* *
53964 GTAATTTTACAA-TCGACGATA-TTTCA
1 GTAATTTTACAACTCGAGGGTACTTT-A
* * *
53990 GTAATTTTATAAACTAG-GGGTACTTTG
1 GTAATTTTA-CAACTCGAGGGTACTTTA
*
54017 GTAATTTTACAACT-GGGGGTA-TTTCA
1 GTAATTTTACAACTCGAGGGTACTTT-A
54043 GTAATTT
1 GTAATTT
54050 GGTAAACCAA
Statistics
Matches: 113, Mismatches: 18, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
25 7 0.06
26 35 0.31
27 61 0.54
28 10 0.09
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAACTCGAGGGTACTTTA
Found at i:56015 original size:6 final size:6
Alignment explanation
Indices: 55997--56164 Score: 112
Period size: 6 Copynumber: 27.3 Consensus size: 6
55987 AAGAAACATT
* *
55997 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAGA ATCAGA ATCAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
56045 ATTA-A GTCACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CCGA ATCAAA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * *
56095 ATCAGA ATTAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCACGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
56146 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
56165 GTGAATGCAA
Statistics
Matches: 126, Mismatches: 22, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
5 9 0.07
6 102 0.81
7 10 0.08
8 5 0.04
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:56062 original size:31 final size:31
Alignment explanation
Indices: 56024--56164 Score: 192
Period size: 31 Copynumber: 4.5 Consensus size: 31
56014 AATCAGAATT
* * * * * *
56024 AGAATCAGAATCAGAATTAGAATTAAGTCAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
56055 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
56086 CGAATCAAAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
56117 AGAATCAAAATCAGAATCAGTATCACGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
56148 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
56165 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 99 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.21
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:56276 original size:27 final size:26
Alignment explanation
Indices: 56246--56346 Score: 112
Period size: 27 Copynumber: 3.8 Consensus size: 26
56236 CTGCAATAAT
* *
56246 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
*
56273 AGATATTGTGGTAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
* *
56299 AAATATTTGTGGCATAGCCACCAGAATC
1 AGATA-TTGTGGCAGAGCCACCAGAA-C
* *
56327 AGATAATGTGGCAAAGCCAC
1 AGATATTGTGGCAGAGCCAC
56347 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 6 0.10
27 52 0.83
28 5 0.08
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:56948 original size:27 final size:27
Alignment explanation
Indices: 56911--57347 Score: 515
Period size: 27 Copynumber: 16.2 Consensus size: 27
56901 GGCAAAAAGG
* *
56911 GTAATTTTACCCTATAAGGGTATCTT-A
1 GTAATTCTACCCTACAAGGGTAT-TTCA
*
56938 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
56965 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
56992 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
57019 GTACTTCTA-CTTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
57044 GATATTTCTACCCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
* * *
57072 GTATTTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
57099 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* **
57126 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
57153 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
57180 GTAATTCTACCCAAC-AGGCGTATTTCA
1 GTAATTCTACCCTACAAGG-GTATTTCA
* **
57207 GTAATTCTACCTTACTGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
** * *
57234 GTAATTCTACATTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
57261 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
57287 GATAATTCTACCCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
*
57315 GTAATTCTGCCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
57342 ATAATT
1 GTAATT
57348 TTATAAATCG
Statistics
Matches: 364, Mismatches: 38, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
25 1 0.00
26 28 0.08
27 331 0.91
28 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:57013 original size:81 final size:81
Alignment explanation
Indices: 56911--57347 Score: 572
Period size: 81 Copynumber: 5.4 Consensus size: 81
56901 GGCAAAAAGG
* * *
56911 GTAATTTTACCCTATAAGGGTATCTT-AGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTAC
1 GTAATTCTACCCTACAAGGGTAT-TTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
*
56975 CCTACAAGGGTATTTCG
65 CCTACAAGGGTATTTCA
* * * * *
56992 GTAATTCTATCCTACAGGGGTATTTCAGTACTTCTA-CTTACAGGGGTATTTCGATATTTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
57056 CTACAAGGGTATTTCA
66 CTACAAGGGTATTTCA
* * * *
57072 GTATTTCTATCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
**
57137 CTACAAGGGTATTTTG
66 CTACAAGGGTATTTCA
* * * * *
57153 GTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCAACAGGCGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
* **
57218 TTACTGGGGTATTTCA
66 CTACAAGGGTATTTCA
** * * * *
57234 GTAATTCTACATTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
57299 CTACAAGGGTATTTCA
66 CTACAAGGGTATTTCA
* *
57315 GTAATTCTGCCCTACAAGGGTATTTCAATAATT
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATT
57348 TTATAAATCG
Statistics
Matches: 308, Mismatches: 46, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
80 75 0.24
81 233 0.76
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
CTACAAGGGTATTTCA
Found at i:57361 original size:27 final size:27
Alignment explanation
Indices: 57331--57561 Score: 175
Period size: 27 Copynumber: 8.7 Consensus size: 27
57321 CTGCCCTACA
**
57331 AGGGTATTTCAATAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
* * **
57358 AGGGTATTTCAGTAATTTTA-CAATTA
1 AGGGTATTTCGGTAATTTTATAAATCG
* *
57384 ACGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
* * * *
57411 AGGATATTTGGGCAATTTTATAAACCG
1 AGGGTATTTCGGTAATTTTATAAATCG
* * *
57438 GGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGGTAATTTTATAAATCG
** * *
57465 AGGGTATTTTAGTCATTTTA-CAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
* *
57491 ACGGTATTTCGGTAATTTTATAAACCG
1 AGGGTATTTCGGTAATTTTATAAATCG
* * *
57518 GGGGTACTTT-GGTAATTTTACAACT-G
1 AGGGTA-TTTCGGTAATTTTATAAATCG
* *
57544 GGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
57562 GGTAGACTAA
Statistics
Matches: 160, Mismatches: 38, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
25 3 0.02
26 58 0.36
27 93 0.58
28 6 0.04
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTATAAATCG
Found at i:57428 original size:80 final size:80
Alignment explanation
Indices: 57344--57540 Score: 247
Period size: 80 Copynumber: 2.5 Consensus size: 80
57334 GTATTTCAAT
* * * * *
57344 AATTTTATAAATCGAGGGTA-TTTCAGTAATTTTACAA-TTAACGGTATTTCGGTAATTTTACAA
1 AATTTTATAAACCGGGGGTACTTT-GGTAATTTTACAAGTCAACGGTATTTCAGTAATTTTAC-A
*
57407 ATCGA-GGATATTTGGGC
64 ATCGACGG-TATTTCGGC
* * * *
57424 AATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTCATTTTACAAT
1 AATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCAACGGTATTTCAGTAATTTTACAAT
*
57489 CGACGGTATTTCGGT
66 CGACGGTATTTCGGC
57504 AATTTTATAAACCGGGGGTACTTTGGTAATTTTACAA
1 AATTTTATAAACCGGGGGTACTTTGGTAATTTTACAA
57541 CTGGGGGTAT
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
80 80 0.78
81 23 0.22
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (80 bp):
AATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCAACGGTATTTCAGTAATTTTACAAT
CGACGGTATTTCGGC
Found at i:57550 original size:53 final size:53
Alignment explanation
Indices: 57331--57561 Score: 198
Period size: 53 Copynumber: 4.3 Consensus size: 53
57321 CTGCCCTACA
** * * *
57331 AGGGTATTTCAATAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAATTA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAACTG
* * ** * * *
57384 ACGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGCAATTTTATAAACCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTA-CAACTG
* * * *
57438 GGGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTTAGTCATTTTACAA-TCG
1 AGGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAACT-G
* * * * *
57491 ACGGTATTTCGGTAATTTTATAAACCGGGGGTACTTT-GGTAATTTTACAACTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTACAACTG
* *
57544 GGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
57562 GGTAGACTAA
Statistics
Matches: 139, Mismatches: 33, Indels: 12
0.76 0.18 0.07
Matches are distributed among these distances:
52 3 0.02
53 92 0.66
54 41 0.29
55 3 0.02
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAACTG
Found at i:59527 original size:6 final size:6
Alignment explanation
Indices: 59518--59676 Score: 128
Period size: 6 Copynumber: 25.8 Consensus size: 6
59508 TATTAGAACT
* * *
59518 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATT AGAATT AG-GTCAC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C
* * *
59567 AGAATC AGAATC AGAATC AGTATC AGGTAA-C CGAATC AAAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* * *
59616 AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
59666 AAAATC AGAAT
1 AGAATC AGAAT
59677 GTGAATGCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 24
0.75 0.11 0.15
Matches are distributed among these distances:
5 7 0.06
6 102 0.83
7 10 0.08
8 4 0.03
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:59573 original size:31 final size:31
Alignment explanation
Indices: 59518--59676 Score: 223
Period size: 31 Copynumber: 5.2 Consensus size: 31
59508 TATTAGAACT
* *
59518 AGAATCAGAATCA-G-AATCAGAATCAGAATC
1 AGAATCAGTATCAGGTAA-CAGAATCAAAATC
* * * * *
59548 AGAATTAGAATTAGGTCACAGAATCAGAATC
1 AGAATCAGTATCAGGTAACAGAATCAAAATC
*
59579 AGAATCAGTATCAGGTAACCGAATCAAAATC
1 AGAATCAGTATCAGGTAACAGAATCAAAATC
59610 AGAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGTATCAGGTAACAGAATCAAAATC
59641 AGAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGTATCAGGTAACAGAATCAAAATC
59672 AGAAT
1 AGAAT
59677 GTGAATGCAA
Statistics
Matches: 117, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
30 11 0.09
31 105 0.90
32 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAGTATCAGGTAACAGAATCAAAATC
Found at i:59633 original size:19 final size:19
Alignment explanation
Indices: 59609--59666 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
59599 GAATCAAAAT
59609 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
59628 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
59640 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
59659 CAGAATCA
1 CAGAATCA
59667 AAATCAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:59834 original size:27 final size:26
Alignment explanation
Indices: 59796--59903 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
59786 AGCATGACTG
* * *
59796 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
59822 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
59849 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
59876 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAGAGCCA
59903 C
1 C
59904 TTAACAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 11 0.16
27 53 0.77
28 5 0.07
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:59986 original size:32 final size:31
Alignment explanation
Indices: 59917--59992 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
59907 ACAGAATACG
* *
59917 TGGCACAAAGCCATCAATAACTGTAATAACT
1 TGGCACAAAGCCATCAATAACAGTAATAAAT
* * *
59948 TGGGCACATAGCCATCAGTGACAGTAATATAAT
1 T-GGCACAAAGCCATCAATAACAGTAATA-AAT
*
59981 TGGCACACAGCC
1 TGGCACAAAGCC
59993 TTCGGTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 1 0.03
32 33 0.89
33 3 0.08
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (31 bp):
TGGCACAAAGCCATCAATAACAGTAATAAAT
Found at i:62162 original size:6 final size:6
Alignment explanation
Indices: 62144--62335 Score: 151
Period size: 6 Copynumber: 31.3 Consensus size: 6
62134 AAGAAACATT
* * *
62144 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAAA ATTAAA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
62192 ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCCGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * * *
62241 ATCAGT ATCAGGTA A-CAGA ATCAAA ATTAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
62291 ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
62336 GTGAATGCAA
Statistics
Matches: 148, Mismatches: 24, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.05
6 124 0.84
7 12 0.08
8 4 0.03
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:62237 original size:31 final size:31
Alignment explanation
Indices: 62194--62335 Score: 221
Period size: 31 Copynumber: 4.6 Consensus size: 31
62184 AAATCAGAAT
* * * *
62194 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
**
62225 CAGAATCCGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
62256 CAGAATCAAAATTAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
62287 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
62318 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
62336 GTGAATGCAA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:62293 original size:19 final size:19
Alignment explanation
Indices: 62269--62325 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
62259 AATCAAAATT
62269 AGAATCAGTATCAGGTAAC
1 AGAATCAGTATCAGGTAAC
*
62288 AGAATCA--A--A---ATC
1 AGAATCAGTATCAGGTAAC
62300 AGAATCAGTATCAGGTAAC
1 AGAATCAGTATCAGGTAAC
62319 AGAATCA
1 AGAATCA
62326 AAATCAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 14
0.64 0.04 0.31
Matches are distributed among these distances:
12 9 0.31
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 16 0.55
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (19 bp):
AGAATCAGTATCAGGTAAC
Found at i:62504 original size:27 final size:26
Alignment explanation
Indices: 62455--62562 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
62445 AGCATGGCTG
* ** *
62455 CCAGAACAGATATTTTGATAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
62481 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* * *
62508 CCAGAATAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
62535 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAGAGCCA
62562 C
1 C
62563 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.15
27 54 0.79
28 4 0.06
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:63175 original size:27 final size:27
Alignment explanation
Indices: 63145--63537 Score: 443
Period size: 27 Copynumber: 14.6 Consensus size: 27
63135 TACCACATAA
*
63145 GGGTATCTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * * *
63172 GGGTATTTCGGTATTTCTTCCCTGCAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
63199 GGGTTTTTCGGTAATTCTATCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
63226 GGGTATTTCAGTACTTCTA-CTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
63252 GGGTATTTC-GATATTTCTACCTTACAA
1 GGGTATTTCAG-TAATTCTACCCTACAG
** * *
63279 GGGTATTTTGGTATTTCTATCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
63306 GGGTATTT-AGATAATTCTACCCTACAG
1 GGGTATTTCAG-TAATTCTACCCTACAG
* * *
63333 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
63360 GGGTATTTCGGTATTTCTACCCTGCAG
1 GGGTATTTCAGTAATTCTACCCTACAG
63387 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
**
63414 GGGTATTTCAGTAATTCTACATTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
63441 GGGTATTTC-GATAATTCTACTCTACAG
1 GGGTATTTCAG-TAATTCTACCCTACAG
* * *
63468 AGGTATTTCGGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
*
63495 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
*
63522 CGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
63538 TTATAAATCG
Statistics
Matches: 316, Mismatches: 43, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
25 1 0.00
26 24 0.08
27 288 0.91
28 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:63244 original size:81 final size:81
Alignment explanation
Indices: 63145--63537 Score: 513
Period size: 81 Copynumber: 4.9 Consensus size: 81
63135 TACCACATAA
* * * *
63145 GGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTTCCCTGCAAGGGTTTTTCGG
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
63210 TAATTCTATCCTACAG
66 TAATTCTATCCTACAG
* * * * *
63226 GGGTATTTCAGTACTTCTA-CTTACAGGGGTATTTCGATATTTCTACCTTACAAGGGTATTTTGG
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
*
63290 TATTTCTATCCTACAG
66 TAATTCTATCCTACAG
63306 GGGTATTT-AGATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCG
1 GGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCG
* * *
63370 GTATTTCTACCCTGCAG
65 GTAATTCTATCCTACAG
* * ** * *
63387 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACATTACAGGGGTATTTCGA
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
63452 TAATTCTA-CTCTACAG
66 TAATTCTATC-CTACAG
* * * * * * *
63468 AGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAACGGTATTTCAG
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
63533 TAATT
66 TAATT
63538 TTATAAATCG
Statistics
Matches: 274, Mismatches: 34, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
79 2 0.01
80 69 0.25
81 201 0.73
82 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (81 bp):
GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
TAATTCTATCCTACAG
Found at i:63552 original size:54 final size:54
Alignment explanation
Indices: 63333--63590 Score: 204
Period size: 54 Copynumber: 4.8 Consensus size: 54
63323 TACCCTACAG
* * * * * *** *
63333 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTGC-A
1 GGGTATTTCAGTAATTCTACCCTACAACGGTATTTCAGTAATTCTAAAATACGA
** * *
63386 GGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACATTAC-A
1 -GGGTATTTCAGTAATTCTACCCTACAACGGTATTTCAGTAATTCTAAAATACGA
* * *** *
63440 GGGGTATTTC-GATAATTCTACTCTACAGA-GGTATTTCGGTAATTCTACCCTACAA
1 -GGGTATTTCAG-TAATTCTACCCTACA-ACGGTATTTCAGTAATTCTAAAATACGA
*
63495 GGGTATTTCAGTAATTCTACCCTACAACGGTATTTCAGTAATTTTATAAAT-CGA
1 GGGTATTTCAGTAATTCTACCCTACAACGGTATTTCAGTAATTCTA-AAATACGA
* * ** *
63549 GGGTATTTTAGTAATTTTACAAT-CAACGGTATTTCGGTAATT
1 GGGTATTTCAGTAATTCTACCCTACAACGGTATTTCAGTAATT
63591 TTGCAAATCG
Statistics
Matches: 173, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
53 20 0.12
54 150 0.87
55 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (54 bp):
GGGTATTTCAGTAATTCTACCCTACAACGGTATTTCAGTAATTCTAAAATACGA
Found at i:63553 original size:27 final size:27
Alignment explanation
Indices: 63523--63730 Score: 183
Period size: 27 Copynumber: 7.8 Consensus size: 27
63513 ACCCTACAAC
* *
63523 GGTATTTCAGTAATTTTATAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
** * *
63550 GGTATTTTAGTAATTTTAC-AATCAAC
1 GGTATTTCGGTAATTTTACAAATCGAG
*
63576 GGTATTTCGGTAATTTTGCAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * * *
63603 GATATTTGGGTAATTTTATAAACCG-G
1 GGTATTTCGGTAATTTTACAAATCGAG
*
63629 GGTTACTTT-GGTAATTTTACAAGTCGAG
1 GG-TA-TTTCGGTAATTTTACAAATCGAG
* ** *
63657 GGTCTTTTAGTAATTTTAC-AATCGAC
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
63683 GGAATTTCGGTAATTTTATAAACCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
63710 GGTACTTT-GGTAATTTTACAA
1 GGTA-TTTCGGTAATTTTACAA
63731 CTAGGGGTAT
Statistics
Matches: 143, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
26 45 0.31
27 89 0.62
28 9 0.06
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAG
Found at i:63616 original size:80 final size:80
Alignment explanation
Indices: 63496--63730 Score: 269
Period size: 80 Copynumber: 2.9 Consensus size: 80
63486 ACCCTACAAG
* ** * * * * * *
63496 GGTATTTCAGTAATTCTACCCTACAACGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTAGT
1 GGTATTTCAGTAATTTTACAAT-CGACGGAATTTCGGTAATTTTATAAACCGAGGGTACTTTGGT
63561 AATTTTACAA-TCAAC
65 AATTTTACAAGTCAAC
* * *
63576 GGTATTTCGGTAATTTTGCAAATCGA-GGATATTTGGGTAATTTTATAAACCG-GGGTTACTTTG
1 GGTATTTCAGTAATTTTAC-AATCGACGGA-ATTTCGGTAATTTTATAAACCGAGGG-TACTTTG
* *
63639 GTAATTTTACAAGTCGAG
63 GTAATTTTACAAGTCAAC
* *
63657 GGTCTTTTAGTAATTTTACAATCGACGGAATTTCGGTAATTTTATAAACCGAGGGTACTTTGGTA
1 GGTATTTCAGTAATTTTACAATCGACGGAATTTCGGTAATTTTATAAACCGAGGGTACTTTGGTA
63722 ATTTTACAA
66 ATTTTACAA
63731 CTAGGGGTAT
Statistics
Matches: 130, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.04
80 100 0.77
81 25 0.19
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (80 bp):
GGTATTTCAGTAATTTTACAATCGACGGAATTTCGGTAATTTTATAAACCGAGGGTACTTTGGTA
ATTTTACAAGTCAAC
Found at i:63643 original size:107 final size:107
Alignment explanation
Indices: 63532--63727 Score: 295
Period size: 107 Copynumber: 1.8 Consensus size: 107
63522 CGGTATTTCA
* * *
63532 GTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCAACGGTATTTCGGTAATTTTGCAA
1 GTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCAACGGAATTTCGGTAATTTTACAA
*
63597 ATCGAGGATA-TTTGGGTAATTTTATAAACCGGGGTTACTTTG
66 ACCGAGGATACTTT-GGTAATTTTATAAACCGGGGTTACTTTG
* * * *
63639 GTAATTTTACAAGTCGAGGGTCTTTTAGTAATTTTACAATCGACGGAATTTCGGTAATTTTATAA
1 GTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCAACGGAATTTCGGTAATTTTACAA
*
63704 ACCGAGGGTACTTTGGTAATTTTA
66 ACCGAGGATACTTTGGTAATTTTA
63728 CAACTAGGGG
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 76 0.96
108 3 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (107 bp):
GTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCAACGGAATTTCGGTAATTTTACAA
ACCGAGGATACTTTGGTAATTTTATAAACCGGGGTTACTTTG
Found at i:63738 original size:107 final size:106
Alignment explanation
Indices: 63523--63751 Score: 284
Period size: 107 Copynumber: 2.2 Consensus size: 106
63513 ACCCTACAAC
* *
63523 GGTA-TTTCAGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCAACGGTATTTCGGT
1 GGTACTTT-AGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCAACGGAATTTCGGT
* * *
63587 AATTTTGCAAATCGAGGATATTTGGGTAATTTTATAAACCGG
65 AATTTTACAAACCGAGGATATTTGGGTAATTTTATAAACAGG
* * * *
63629 GGTTACTTTGGTAATTTTACAAGTCGAGGGTCTTTTAGTAATTTTACAATCGACGGAATTTCGGT
1 GG-TACTTTAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCAACGGAATTTCGGT
* * *
63694 AATTTTATAAACCGAGGGTACTTT-GGTAATTTTA-CAACTAGG
65 AATTTTACAAACCGAGGATA-TTTGGGTAATTTTATAAAC-AGG
*
63736 GGTATTTTAGTAATTT
1 GGTACTTTAGTAATTT
63752 GGTAAACTAA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
106 17 0.16
107 82 0.78
108 6 0.06
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (106 bp):
GGTACTTTAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCAACGGAATTTCGGTA
ATTTTACAAACCGAGGATATTTGGGTAATTTTATAAACAGG
Found at i:63749 original size:53 final size:52
Alignment explanation
Indices: 63522--63751 Score: 189
Period size: 53 Copynumber: 4.3 Consensus size: 52
63512 TACCCTACAA
* * * *
63522 CGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCAA
1 CGGTATTTCGGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAT-AG
* * * *
63575 CGGTATTTCGGTAATTTTGCAAATCGAGGATA-TTTGGGTAATTTTATAA-ACCG
1 CGGTATTTCGGTAATTTTACAAATCGAGGGTACTTT-AGTAATTTTACAATA--G
* * *
63628 GGGTTACTTT-GGTAATTTTACAAGTCGAGGGT-CTTTTAGTAATTTTACAATCG
1 CGG-TA-TTTCGGTAATTTTACAAATCGAGGGTAC-TTTAGTAATTTTACAATAG
* * * *
63681 ACGGAATTTCGGTAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAACTAG
1 -CGGTATTTCGGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAA-TAG
* **
63735 GGGTATTTTAGTAATTT
1 CGGTATTTCGGTAATTT
63752 GGTAAACTAA
Statistics
Matches: 140, Mismatches: 25, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
51 1 0.01
52 6 0.04
53 90 0.64
54 37 0.26
55 6 0.04
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (52 bp):
CGGTATTTCGGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAATAG
Found at i:65777 original size:31 final size:31
Alignment explanation
Indices: 65748--65849 Score: 143
Period size: 31 Copynumber: 3.3 Consensus size: 31
65738 TCAGAATCAG
* * * * *
65748 AATCAAAATCAGAATTAGGTGACAGAATCAG
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
65779 AATCAGAATCAGTATCAGGTAACCA-AATCAA
1 AATCAGAATCAGTATCAGGTAA-CAGAATCAA
65810 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
65841 AATCAGAAT
1 AATCAGAAT
65850 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
30 2 0.03
31 60 0.94
32 2 0.03
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAA
Found at i:65781 original size:6 final size:6
Alignment explanation
Indices: 65701--65849 Score: 90
Period size: 6 Copynumber: 24.3 Consensus size: 6
65691 AAGAAACATT
* * * * *
65701 ATCAGA A-CTAGA ATCAAA ATCAAA ATCAAA ATTAAA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
65749 ATCAAA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * * *
65800 ACCA-A ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
65848 AT
1 AT
65850 GTGAATGCAA
Statistics
Matches: 113, Mismatches: 19, Indels: 22
0.73 0.12 0.14
Matches are distributed among these distances:
5 8 0.07
6 93 0.82
7 7 0.06
8 5 0.04
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:66285 original size:22 final size:22
Alignment explanation
Indices: 66234--66292 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
66224 GTAAATACGT
66234 TTGGCACAAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * * *
66256 ATGACACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
66278 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
66293 CGATAACGGG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:66679 original size:27 final size:27
Alignment explanation
Indices: 66642--67070 Score: 477
Period size: 27 Copynumber: 15.9 Consensus size: 27
66632 GGAAAAAAGG
* * * *
66642 GTAATTTTACCCCATAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
66669 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
66696 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
66723 ATAATTCTATCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
66750 GTAATTCTA-CTTATAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
66775 GATATTTCTACCCTACAAGGGTATTTCG
1 G-TAATTCTACCCTACAAGGGTATTTCA
* * *
66803 GTATTTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
66830 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
66857 GTATTTCTACCCTACTAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* **
66884 GTATTTCTACCCTGTAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
66911 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * * *
66938 TTAATTTTATCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
** *
66965 GTAATTCTACATTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
66991 GATAATTCTACCCTACAAGGGTATTTTA
1 G-TAATTCTACCCTACAAGGGTATTTCA
*
67019 GTAATTCTACCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
67046 GTAATTCTACCCTACAATGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
67071 TGATAATTTT
Statistics
Matches: 342, Mismatches: 55, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
25 1 0.00
26 21 0.06
27 318 0.93
28 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:67093 original size:54 final size:53
Alignment explanation
Indices: 66982--67150 Score: 137
Period size: 54 Copynumber: 3.2 Consensus size: 53
66972 TACATTACAG
* * *** *
66982 GGGTATTTC-GATAATTCTACCCTACAAGGGTATTTT-AGTAATTCTACCCTATAA
1 GGGTATTTCAG-TAATTCTACCCTACAACGGTATTTTGA-TAATTTTAAAAT-TGA
*
67036 GGGTATTTCAGTAATTCTACCCTACAATGGTATTTTGATAATTTTATAAATTGA
1 GGGTATTTCAGTAATTCTACCCTACAACGGTATTTTGATAATTTTA-AAATTGA
* * ** * * *
67090 GGGTATTACAGTAATTTTACAAT-CAACGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTCTACCCTACAACGGTATTTTGATAATTTTA-AAATTGA
*
67143 GGATATTT
1 GGGTATTT
67151 GGGTAATTTT
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
53 31 0.33
54 61 0.64
55 3 0.03
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (53 bp):
GGGTATTTCAGTAATTCTACCCTACAACGGTATTTTGATAATTTTAAAATTGA
Found at i:67174 original size:80 final size:80
Alignment explanation
Indices: 67037--67292 Score: 241
Period size: 80 Copynumber: 3.2 Consensus size: 80
67027 ACCCTATAAG
* ** * * * ** * **
67037 GGTATTTCAGTAATTCTACCCTACAATGGTATTTTGATAATTTTATAAATTGAGGGTA-TTACAG
1 GGTATTTCAGTAATTTTACAAT-CGACGGTATTTCGATAATTTTATAAACCGGGGGTACTT-TGG
67101 TAATTTTACAA-TCAAC
64 TAATTTTACAAGTCAAC
* * * *
67117 GGTATTTCGGTAATTTTACAAATCGA-GGATATTTGGGTAATTTTATAATCCGGGGGTACTTTGG
1 GGTATTTCAGTAATTTTAC-AATCGACGG-TATTTCGATAATTTTATAAACCGGGGGTACTTTGG
* * *
67181 AAATTTTACAAGTCGAG
64 TAATTTTACAAGTCAAC
* *
67198 GGTATTTTAGTAATTTTACAATCGACGGTATTTCGATAATTTTATAAACCGGAGGTACTTTGGTA
1 GGTATTTCAGTAATTTTACAATCGACGGTATTTCGATAATTTTATAAACCGGGGGTACTTTGGTA
* **
67263 ATTTTACAACT-AGG
66 ATTTTACAAGTCAAC
67277 GGTATTTCAGTAATTT
1 GGTATTTCAGTAATTT
67293 GGTAAACTAA
Statistics
Matches: 144, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
79 18 0.12
80 101 0.70
81 25 0.17
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.39
Consensus pattern (80 bp):
GGTATTTCAGTAATTTTACAATCGACGGTATTTCGATAATTTTATAAACCGGGGGTACTTTGGTA
ATTTTACAAGTCAAC
Found at i:67186 original size:107 final size:107
Alignment explanation
Indices: 67075--67268 Score: 275
Period size: 107 Copynumber: 1.8 Consensus size: 107
67065 GTATTTTGAT
* * * *
67075 AATTTTATAAATTGAGGGTATTACAGTAATTTTACAATCAACGGTATTTCGGTAATTTTACAAAT
1 AATTTTACAAATCGAGGGTATTACAGTAATTTTACAATCAACGGTATTTCGATAATTTTACAAAC
67140 C-GAGGATA-TTTGGGTAATTTTATAATCCGGGGGTACTTTGGA
66 CGGAGG-TACTTT-GGTAATTTTATAATCCGGGGGTACTTTGGA
* ** * *
67182 AATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAATCGACGGTATTTCGATAATTTTATAAAC
1 AATTTTACAAATCGAGGGTATTACAGTAATTTTACAATCAACGGTATTTCGATAATTTTACAAAC
67247 CGGAGGTACTTTGGTAATTTTA
66 CGGAGGTACTTTGGTAATTTTA
67269 CAACTAGGGG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
107 69 0.91
108 7 0.09
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (107 bp):
AATTTTACAAATCGAGGGTATTACAGTAATTTTACAATCAACGGTATTTCGATAATTTTACAAAC
CGGAGGTACTTTGGTAATTTTATAATCCGGGGGTACTTTGGA
Found at i:67264 original size:27 final size:26
Alignment explanation
Indices: 67064--67292 Score: 144
Period size: 27 Copynumber: 8.6 Consensus size: 26
67054 ACCCTACAAT
* * * *
67064 GGTATTTTGATAATTTTATAAATTGA
1 GGTATTTCGGTAATTTTACAAATCGA
* * *
67090 GGGTATTACAGTAATTTTAC-AATCAA
1 -GGTATTTCGGTAATTTTACAAATCGA
67116 CGGTATTTCGGTAATTTTACAAATCGA
1 -GGTATTTCGGTAATTTTACAAATCGA
* * *
67143 GGATATTTGGGTAATTTTA-TAATCCGGG
1 GG-TATTTCGGTAATTTTACAAAT-C-GA
* *
67171 GGTACTTT-GGAAATTTTACAAGTCGA
1 GGTA-TTTCGGTAATTTTACAAATCGA
**
67197 GGGTATTTTAGTAATTTTAC-AATCGA
1 -GGTATTTCGGTAATTTTACAAATCGA
* * *
67223 CGGTATTTCGATAATTTTATAAACCGGA
1 -GGTATTTCGGTAATTTTACAAATC-GA
* * *
67251 GGTACTTT-GGTAATTTTACAACTAGG
1 GGTA-TTTCGGTAATTTTACAAATCGA
*
67277 GGTATTTCAGTAATTT
1 GGTATTTCGGTAATTT
67293 GGTAAACTAA
Statistics
Matches: 156, Mismatches: 34, Indels: 25
0.73 0.16 0.12
Matches are distributed among these distances:
25 3 0.02
26 62 0.40
27 78 0.50
28 13 0.08
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACAAATCGA
Found at i:67299 original size:53 final size:53
Alignment explanation
Indices: 67198--67299 Score: 118
Period size: 53 Copynumber: 1.9 Consensus size: 53
67188 ACAAGTCGAG
* * *
67198 GGTATTTTAGTAATTTTACAATCGACGGTATTTCGATAATTTTATAAACCGGA
1 GGTACTTTAGTAATTTTACAATAGACGGTATTTCGATAATTTGATAAACCGGA
* * *
67251 GGTACTTTGGTAATTTTACAACTAG-GGGTATTTC-AGTAATTTGGTAAAC
1 GGTACTTTAGTAATTTTACAA-TAGACGGTATTTCGA-TAATTTGATAAAC
67300 TAAAGTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
52 1 0.02
53 38 0.93
54 2 0.05
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (53 bp):
GGTACTTTAGTAATTTTACAATAGACGGTATTTCGATAATTTGATAAACCGGA
Found at i:69325 original size:40 final size:40
Alignment explanation
Indices: 69280--69411 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
69270 ATTATTTGTC
* * * *
69280 GCACTTAGTGTGTGATTCAATATAGCTTCAGCTATATATG
1 GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
*
69320 ACACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
* * *
69360 GCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTATG
1 GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
69400 GCACTTAGTGTG
1 GCACTTAGTGTG
69412 TGAGACATCA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
Found at i:76890 original size:40 final size:40
Alignment explanation
Indices: 76823--76917 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
76813 TTATTTGTGG
*
76823 CACTTAGTGTGCGATACAATATAGCTTCGACTATATATGA
1 CACTTAGTGTGCGATACAACATAGCTTCGACTATATATGA
* * * * * *
76863 CATTTAGTGTGCGATTCGACATTGCTTCGGCTATATATGG
1 CACTTAGTGTGCGATACAACATAGCTTCGACTATATATGA
76903 CACTTAGTGTGCGAT
1 CACTTAGTGTGCGAT
76918 CTAAGATAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (40 bp):
CACTTAGTGTGCGATACAACATAGCTTCGACTATATATGA
Found at i:76936 original size:40 final size:40
Alignment explanation
Indices: 76820--76936 Score: 105
Period size: 40 Copynumber: 2.9 Consensus size: 40
76810 CAGTTATTTG
* *
76820 TGGCACTTAGTGTGCGATAC-AATATAGC-TTCGACTATATA
1 TGGCACTTAGTGTGCGAT-CTAACATAGCTTTAG-CTATATA
* * * * **
76860 TGACATTTAGTGTGCGAT-TCGACATTGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATCT-AACATAGCTTTAGCTATATA
*
76900 TGGCACTTAGTGTGCGATCTAAGATAGCTTTAGCTAT
1 TGGCACTTAGTGTGCGATCTAACATAGCTTTAGCTAT
76937 GTATAGAACT
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
40 56 0.95
41 3 0.05
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATCTAACATAGCTTTAGCTATATA
Found at i:77031 original size:16 final size:16
Alignment explanation
Indices: 77009--77063 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
76999 GTTTGGTTCA
*
77009 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
* *
77025 TTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
77041 CTGTAATGGAATAGTG
1 CTGTAATGGAATAGAG
77057 CTGTAAT
1 CTGTAAT
77064 AAGTAATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:77333 original size:17 final size:17
Alignment explanation
Indices: 77311--77343 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
77301 AATTATTATT
77311 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
77328 AAATATAATTTAATAA
1 AAATATAATTTAATAA
77344 CATTCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:83597 original size:23 final size:23
Alignment explanation
Indices: 83570--83645 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
83560 CTTGCACATT
83570 TTCATTTAATAGTAACATTGACA
1 TTCATTTAATAGTAACATTGACA
* * *
83593 TTCA--TACAT-GCATGCCTTGCACA
1 TTCATTTA-ATAGTA-ACATTG-ACA
83616 CTTTCATTTAATAGTAACATTGACA
1 --TTCATTTAATAGTAACATTGACA
83641 TTCAT
1 TTCAT
83646 ACATGCTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
21 4 0.10
22 6 0.15
23 12 0.31
25 7 0.18
26 6 0.15
27 4 0.10
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (23 bp):
TTCATTTAATAGTAACATTGACA
Found at i:83615 original size:48 final size:48
Alignment explanation
Indices: 83556--83651 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
83546 ATGTCAGTGT
*
83556 ATGCCTTGCACATTTTCATTTAATAGTAACATTGACATTCATACATGC
1 ATGCCTTGCACACTTTCATTTAATAGTAACATTGACATTCATACATGC
83604 ATGCCTTGCACACTTTCATTTAATAGTAACATTGACATTCATACATGC
1 ATGCCTTGCACACTTTCATTTAATAGTAACATTGACATTCATACATGC
83652 TTTTAGTAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.36
Consensus pattern (48 bp):
ATGCCTTGCACACTTTCATTTAATAGTAACATTGACATTCATACATGC
Found at i:88771 original size:93 final size:93
Alignment explanation
Indices: 88657--88825 Score: 236
Period size: 93 Copynumber: 1.8 Consensus size: 93
88647 CATCTAAGTA
* *
88657 GATGCCATGTCCCAGATAGGTCTTACACTAGCTCTCGC-T-TATCTG-TGTCGATGCCATGTCCC
1 GATGCCATGTCCCAGATAGGTCTTACACTAGCT-T-GCATATAT-TGAGGCCGATGCCATGTCCC
* *
88719 AGATAGTTCTTACATTGACACACCTCAAGCC
63 AGACAGGTCTTACATTGACACACCTCAAGCC
* *
88750 GATGCCGTGTCTCAGATAGGTCTTACACTAGCTTGCATATATTGAGGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGATAGGTCTTACACTAGCTTGCATATATTGAGGCCGATGCCATGTCCCAGA
88815 CAGGTCTTACA
66 CAGGTCTTACA
88826 CTAGCACGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
91 2 0.03
92 4 0.06
93 61 0.91
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGATAGGTCTTACACTAGCTTGCATATATTGAGGCCGATGCCATGTCCCAGA
CAGGTCTTACATTGACACACCTCAAGCC
Found at i:88997 original size:14 final size:14
Alignment explanation
Indices: 88980--89009 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
88970 TAAATACAAA
88980 TAAATTACATTATT
1 TAAATTACATTATT
88994 TAAATTACATTATT
1 TAAATTACATTATT
89008 TA
1 TA
89010 CGTACAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTACATTATT
Done.