Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 80 of 292
Found at i:24575251 original size:27 final size:27
Alignment explanation
Indices: 24574695--24575240 Score: 378
Period size: 27 Copynumber: 20.3 Consensus size: 27
24574685 TTTTTACATT
24574695 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * *
24574722 GAGGGTAAGACGGTAATTCTGTAAATT
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
24574749 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
24574776 GAGGGTAAGATGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
24574803 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * *
24574830 GAGGGTAAAACGATAATTCCGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * **
24574857 GAGGGTAAAATAGTAATTCTAT-CTTAC
1 GAGGGTAAAATGGTAATTCTGTAAAT-C
** * * **
24574884 -AGGAGT-ATTTCAGTAATTTTACAAATC
1 GAGG-GTAAAAT-GGTAATTCTGTAAATC
** * * *
24574911 GAGGGT-ATTTCAGTAATTTTGCAAA-C
1 GAGGGTAAAAT-GGTAATTCTGTAAATC
*** * * **
24574937 TGAGGGTATTTTAGTAATTTTACAAATC
1 -GAGGGTAAAATGGTAATTCTGTAAATC
* ** * *
24574965 GAGGAT-ATTTGGGTAATTTTATAAATC
1 GAGGGTAAAAT-GGTAATTCTGTAAATC
* *** *
24574992 GGGGGTACTTTGGTAATT-T-TACAAGTT
1 GAGGGTAAAATGGTAATTCTGTA-AA-TC
** * *
24575019 GAGGGT-ATTTCAGTAATT-T-CATAATC
1 GAGGGTAAAAT-GGTAATTCTGTA-AATC
*
24575045 GAGGGTAAAATGGTAATTTTGTAAA-C
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
24575071 TGAGGGTAAACTGGTAATTTTGTAAATC
1 -GAGGGTAAAATGGTAATTCTGTAAATC
**
24575099 GAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
24575126 AAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
24575153 GAGGGTAAAATGATAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
24575180 GAGGGTAAAATGGTAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
24575207 GAGGGTGAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
24575234 GAGGGTA
1 GAGGGTA
24575241 CTTTGGTAAT
Statistics
Matches: 430, Mismatches: 71, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.00
26 30 0.07
27 385 0.90
28 13 0.03
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.32
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTGTAAATC
Found at i:24575277 original size:81 final size:81
Alignment explanation
Indices: 24574589--24575285 Score: 314
Period size: 81 Copynumber: 8.6 Consensus size: 81
24574579 CACAAAGTAG
* *** * * * ** ***
24574589 GGGTATTTTGGTAATTTTACAAACCAATGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGG
1 GGGTAATTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGG
* * * *
24574654 TAATTTTGTAAACCAA
66 TAATTCTATAAATCGA
* ** * *** * * * *
24574670 GGGT-ATTTCAGTAATTTTTTACATTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAGACG
1 GGGTAATTT-GGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATG
* *
24574734 GTAATTCTGTAAATTGA
65 GTAATTCTATAAATCGA
** * * * * *** * * *
24574751 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAGATGGTAATTCTGTAAATCGAGGGTAAAATAG
1 GGGTAATTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGG
24574816 TAATTCTATAAATCGA
66 TAATTCTATAAATCGA
*** * **** * *** * * **
24574832 GGGTAAAACGATAATTCCGTAAATCGAGGGTAAAATAGTAATTCTATCT-TA-C-AGGAGT-ATT
1 GGGTAATTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATT-T-TGTAAATCGAGG-GTAAAA
* * *
24574893 TCAGTAATTTTACAAATCGA
63 T-GGTAATTCTATAAATCGA
* * * ** * **
24574913 GGGT-ATTTCAGTAATTTTGCAAACTGAGGGTATTTTAGTAATTTTACAAATCGAGGAT-ATTTG
1 GGGTAATTT-GGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAT-
* *
24574976 GGTAATTTTATAAATCGG
64 GGTAATTCTATAAATCGA
* * * **
24574994 GGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAGTAATTTCAT-AATCGAGGGTAAAATGG
1 GGGTAATTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGG
* *
24575058 TAATTTTGTAAA-CTGA
66 TAATTCTATAAATC-GA
** ** * **** * *
24575074 GGGTAAACTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATGG
1 GGGTAATTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGG
24575139 TAATTCTATAAATCGA
66 TAATTCTATAAATCGA
** * * * * *** * * *
24575155 GGGTAAAATGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGG
1 GGGTAATTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGG
*
24575220 TAATTCTGTAAATCGA
66 TAATTCTATAAATCGA
* ** *
24575236 GGGTACTTTGGTAATTTTACAAATTGAGGACATTTTAGTAATTTGGTAAA
1 GGGTAATTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAA
24575286 CTAAATTATT
Statistics
Matches: 476, Mismatches: 125, Indels: 30
0.75 0.20 0.05
Matches are distributed among these distances:
79 2 0.00
80 68 0.14
81 394 0.83
82 10 0.02
83 2 0.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (81 bp):
GGGTAATTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGG
TAATTCTATAAATCGA
Found at i:24578922 original size:46 final size:45
Alignment explanation
Indices: 24578756--24578931 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 45
24578746 TGTAACCCGC
* * *
24578756 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCAT
* ** * * *
24578802 CCATAAGTGAACTCAAACTCAACTCAATGAGTTCGGATGCCTAG-AT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA--CTTCGCAT
* * * *
24578848 ACATCTCA-CGAGCACGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCAT
* *
24578895 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
24578932 TGCTCAACCA
Statistics
Matches: 98, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
45 3 0.03
46 63 0.64
47 29 0.30
48 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACTTCGCAT
Found at i:24582460 original size:24 final size:24
Alignment explanation
Indices: 24582433--24582541 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 24
24582423 CTGGAGGCCT
*
24582433 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
24582457 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
* *
24582482 AGCCCTTTTCGGTAAACTAGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
*
24582507 AGCCCTTTTTGGTAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
24582532 AGCCCTTTTG
1 AGCCCTTTTG
24582542 CACTTCCTCC
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.01
24 19 0.25
25 53 0.69
26 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:24582474 original size:25 final size:25
Alignment explanation
Indices: 24582446--24582540 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
24582436 CTCTTTTAAT
*
24582446 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
24582471 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
24582496 AACTAGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
24582521 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
24582541 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGGTA
Found at i:24585765 original size:18 final size:18
Alignment explanation
Indices: 24585716--24585756 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
24585706 CGTACATGAG
* *
24585716 AGAAACAAAAACAAAGAA
1 AGAAAAAAAAAAAAAGAA
24585734 AGAAAAAAAAAAAAAGAA
1 AGAAAAAAAAAAAAAGAA
24585752 AGAAA
1 AGAAA
24585757 GGAAGAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAAAAAGAA
Found at i:24585765 original size:22 final size:22
Alignment explanation
Indices: 24585716--24585765 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
24585706 CGTACATGAG
*
24585716 AGAAACAAAAACAAAGAAAGAA
1 AGAAAAAAAAACAAAGAAAGAA
* * *
24585738 AAAAAAAAAAAGAAAGAAAGGA
1 AGAAAAAAAAACAAAGAAAGAA
24585760 AGAAAA
1 AGAAAA
24585766 GTGTTCATCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (22 bp):
AGAAAAAAAAACAAAGAAAGAA
Found at i:24587054 original size:40 final size:40
Alignment explanation
Indices: 24586995--24587141 Score: 132
Period size: 40 Copynumber: 3.7 Consensus size: 40
24586985 CAATTGAATG
* * * *
24586995 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
24587035 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* ** * ****
24587075 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
24587115 CTATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
24587142 CGTGCACGTG
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:24587142 original size:40 final size:39
Alignment explanation
Indices: 24587036--24587162 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 39
24587026 CTGGAAATTA
* * *
24587036 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
24587074 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* *
24587116 TATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
24587156 TATCCGG
1 TATCCGG
24587163 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 71 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:24589145 original size:30 final size:30
Alignment explanation
Indices: 24589060--24589146 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
24589050 CCTACAGGGG
* * * *
24589060 ACACACGGCCGAGTCACACG-GTCGTATGTC
1 ACACACGGCTGAGACACACGCCT-GTGTGTC
*
24589090 ACACACGGTTGAGACACACGCCTGTGTGTC
1 ACACACGGCTGAGACACACGCCTGTGTGTC
*
24589120 ACACATGGCTGAGACACACGCCTGTGT
1 ACACACGGCTGAGACACACGCCTGTGT
24589147 CTTAGGTCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
30 48 0.98
31 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.18
Consensus pattern (30 bp):
ACACACGGCTGAGACACACGCCTGTGTGTC
Found at i:24589532 original size:41 final size:41
Alignment explanation
Indices: 24589436--24589596 Score: 227
Period size: 41 Copynumber: 4.0 Consensus size: 41
24589426 TTTTAAAATA
* * * *
24589436 CAGAGCAATAGCGGCG-TTTTAAGAAAAATGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGCTAAAAAC
* **
24589477 C-GAGCAATAGCGGCGCTTTTCTTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
24589517 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
*
24589558 CAGGGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
24589597 GTCATATAAC
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 31 0.28
41 79 0.72
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
Found at i:24590639 original size:15 final size:15
Alignment explanation
Indices: 24590619--24590649 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24590609 TTAATTTAGT
*
24590619 AGATAAATGTATATA
1 AGATAAATATATATA
24590634 AGATAAATATATATA
1 AGATAAATATATATA
24590649 A
1 A
24590650 ATTATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
AGATAAATATATATA
Found at i:24590649 original size:10 final size:10
Alignment explanation
Indices: 24590636--24590694 Score: 55
Period size: 10 Copynumber: 5.3 Consensus size: 10
24590626 TGTATATAAG
24590636 ATAAATATAT
1 ATAAATATAT
24590646 ATAAATTATTATT
1 ATAAA-TA-TA-T
*
24590659 TTAAAATATAT
1 AT-AAATATAT
24590670 ATAAATATATAT
1 AT-AA-ATATAT
24590682 ATAAATATAT
1 ATAAATATAT
24590692 ATA
1 ATA
24590695 TATGAAAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
10 14 0.33
11 9 0.21
12 12 0.29
13 4 0.10
14 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATAAATATAT
Found at i:24590667 original size:24 final size:23
Alignment explanation
Indices: 24590638--24590696 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
24590628 TATATAAGAT
*
24590638 AAATATATATAAAT-TATTATTTTA
1 AAATATATATAAATATA-TA-TATA
24590662 AAATATATATAAATATATATATA
1 AAATATATATAAATATATATATA
24590685 AATATATATATA
1 AA-ATATATATA
24590697 TGAAAAGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 5 0.16
24 25 0.78
25 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATATATATAAATATATATATA
Found at i:24590671 original size:2 final size:2
Alignment explanation
Indices: 24590664--24590697 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
24590654 TTATTTTAAA
* *
24590664 AT AT AT AT AA AT AT AT AT AT AA AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24590698 GAAAAGTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:24596841 original size:12 final size:12
Alignment explanation
Indices: 24596824--24596849 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24596814 ACGATCGAGG
24596824 GATGAATCTGAT
1 GATGAATCTGAT
24596836 GATGAATCTGAT
1 GATGAATCTGAT
24596848 GA
1 GA
24596850 GGAGGATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:24600820 original size:43 final size:42
Alignment explanation
Indices: 24600773--24601054 Score: 291
Period size: 43 Copynumber: 6.6 Consensus size: 42
24600763 ACTAGGCAAA
* *
24600773 TTAGCGGCATTTTTTAAAAAAGCGTCGCTAAAAGTACAGGTCT
1 TTAGCGGCATTTTTTATAAAAGCGCCGCTAAAAGTAC-GGTCT
* *
24600816 TTAGCGGCGTTTTTT-TAAAAGAACGCCGC-AAAAGCACGGGTCT
1 TTAGCGGCATTTTTTATAAAAG--CGCCGCTAAAAGTAC-GGTCT
* * *
24600859 TTAGCGGTATTTTTTAAAAAAGCGCCGCTAAAAGTACGGTTT
1 TTAGCGGCATTTTTTATAAAAGCGCCGCTAAAAGTACGGTCT
* *
24600901 TGTAGTGGCATTTTTTATAAAAGCGCCGCTAAAAGTACGATTCT
1 T-TAGCGGCATTTTTTATAAAAGCGCCGCTAAAAGTACG-GTCT
* * * *
24600945 GTAGCGGCATTTTTTATAAAAGCCCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCATTTTTTATAAAAGCGCCGCTAAAAGTAC-GGTCT
* * * * *
24600988 TTAGCGGC-GTTTTTATAAGAGTGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCATTTTTTATAAAAGCGCCGCTAAAAGTAC-GGTCT
* *
24601030 TTGGCGGCGTTTTTTATAAAAGCGC
1 TTAGCGGCATTTTTTATAAAAGCGC
24601055 AAAAAAGAAA
Statistics
Matches: 201, Mismatches: 30, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
42 53 0.26
43 135 0.67
44 13 0.06
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TTAGCGGCATTTTTTATAAAAGCGCCGCTAAAAGTACGGTCT
Found at i:24605499 original size:55 final size:55
Alignment explanation
Indices: 24605371--24605479 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
24605361 GTTGAGCTTG
* * *
24605371 CCAAAACAACACGGGTGTGAGACACGCCCGTGTGGAAGAACCGTGGGCGAGCCTA
1 CCAAAACAACACGGGCGTGAGACACGCCCGTGTGGAACAACCGTGGGCGAACCTA
* * *
24605426 CCAAAACAACATGGGCGTGTGACACGCCCGTGTGGAACAACCGTGGTCGAACCT
1 CCAAAACAACACGGGCGTGAGACACGCCCGTGTGGAACAACCGTGGGCGAACCT
24605480 GTTAAATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.13
Consensus pattern (55 bp):
CCAAAACAACACGGGCGTGAGACACGCCCGTGTGGAACAACCGTGGGCGAACCTA
Found at i:24610580 original size:26 final size:26
Alignment explanation
Indices: 24610551--24610603 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
24610541 TAATAGTTAG
24610551 TTCAAGAACGAGTAATTATAAATATT
1 TTCAAGAACGAGTAATTATAAATATT
24610577 TTCAAGAACGAGTAATTATAAATATT
1 TTCAAGAACGAGTAATTATAAATATT
24610603 T
1 T
24610604 AAAACCTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (26 bp):
TTCAAGAACGAGTAATTATAAATATT
Found at i:24612484 original size:41 final size:41
Alignment explanation
Indices: 24612423--24612519 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 41
24612413 TAACCTGGGT
* * *
24612423 CTGCTCACACAAGCTGTCGGTCAGAATGTAGCTACACGGTG
1 CTGCTCACACAAGCTATCGGTCAGAACGTAGCTACACAGTG
* *
24612464 CTGCTCACACAAGCTATCGGTTAGAGCGTAGCTACACAGTG
1 CTGCTCACACAAGCTATCGGTCAGAACGTAGCTACACAGTG
24612505 CTGCTCACACAAGCT
1 CTGCTCACACAAGCT
24612520 GTCGAGTATC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.22
Consensus pattern (41 bp):
CTGCTCACACAAGCTATCGGTCAGAACGTAGCTACACAGTG
Found at i:24616357 original size:27 final size:27
Alignment explanation
Indices: 24616296--24616357 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
24616286 GTCTATCGGG
* * *
24616296 ACATTAAAAAAGGGGTAGTTCATTGAG
1 ACATTAAAAAAGGGATAGTTCATCGAA
* *
24616323 ACAATAAAAATGGGATAGTTCATCGAA
1 ACATTAAAAAAGGGATAGTTCATCGAA
24616350 ACATTAAA
1 ACATTAAA
24616358 CACTAGGTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.24
Consensus pattern (27 bp):
ACATTAAAAAAGGGATAGTTCATCGAA
Found at i:24629780 original size:27 final size:26
Alignment explanation
Indices: 24629744--24629856 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
24629734 TAGCATGGCT
* *
24629744 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
24629770 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
24629798 ACTAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
24629825 ACCAGATCAGATAATTGTAGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
24629852 ACCAG
1 ACCAG
24629857 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 53 0.70
28 16 0.21
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:24629806 original size:54 final size:54
Alignment explanation
Indices: 24629747--24629853 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
24629737 CATGGCTACC
* *
24629747 AGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACT
1 AGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTAGCAGAGCCACT
* * *
24629801 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTAGCATAGCCAC
1 AGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTAGCAGAGCCAC
24629854 CAGGACGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (54 bp):
AGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTAGCAGAGCCACT
Found at i:24630268 original size:16 final size:15
Alignment explanation
Indices: 24630247--24630278 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
24630237 TCAAAATACC
24630247 GGCTTTTCGGCATTTT
1 GGCTTTTCGGC-TTTT
24630263 GGCTTTTCGGCTTTT
1 GGCTTTTCGGCTTTT
24630278 G
1 G
24630279 TCGATCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.03, C:0.19, G:0.28, T:0.50
Consensus pattern (15 bp):
GGCTTTTCGGCTTTT
Found at i:24631836 original size:50 final size:50
Alignment explanation
Indices: 24631771--24631867 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
24631761 ACCGAAGCTC
* * *
24631771 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAA
* *
24631821 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAA
24631868 AACCGTCTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAA
Found at i:24634358 original size:50 final size:50
Alignment explanation
Indices: 24634279--24634522 Score: 294
Period size: 50 Copynumber: 4.9 Consensus size: 50
24634269 AAGGGTAAAA
* * *
24634279 TGCCGATGCCATGTCCGAGACATAGTCTTACACTAGCTCTCATATATCGG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGG
* *
24634329 TACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGG
* * * * *
24634379 TGCCAATGTCATGTTCTAGTCATGGTCTTACACTGGCTCTCATATATCGG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGG
* * * * **
24634429 TGCCGATGCCATGTCCCAGACAAGGTCTTACA-TTGC-CTCACATAACAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGG
* * * *
24634477 TGCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATA
24634523 ACCCTAGTAT
Statistics
Matches: 162, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
48 36 0.22
49 6 0.04
50 120 0.74
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGG
Found at i:24634981 original size:101 final size:100
Alignment explanation
Indices: 24634682--24634981 Score: 393
Period size: 101 Copynumber: 3.0 Consensus size: 100
24634672 AATTATTCAA
* *
24634682 ACGTAAGACCATGGTTGGACCATGGTAGTTTTTATATGTAAGTCCATAGTTGGGCTATGGCATTC
1 ACGTAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTC
* * *
24634747 TTATGATAATACCATATCTGGGTTATGGTACTATGG
66 TTATGATAAGACCATAACTGGGTTAT-GCACTATGG
* * *
24634783 ACGTAAGACCATGGCTGGACCATGGTAGTGTTTATACGTAAGTCCATAGTTGGGTTATGACATTC
1 ACGTAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTC
* * * *
24634848 TTATGATAAGACCCTAAATAGATTATGTCACTATGG
66 TTATGATAAGACCATAACTGGGTTATG-CACTATGG
* * * * * *
24634884 ACGTAAGACCATGGTTGGACTATGGCAGTGTTTATATGTAAGACCATAGCTAGGCTATGAAATTC
1 ACGTAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTC
* *
24634949 TAATAATAAGACCATAACTGGGTTATAGCACTA
66 TTATGATAAGACCATAACTGGGTTAT-GCACTA
24634982 CAAATGTAAG
Statistics
Matches: 170, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
100 1 0.01
101 168 0.99
102 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (100 bp):
ACGTAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTC
TTATGATAAGACCATAACTGGGTTATGCACTATGG
Found at i:24635010 original size:101 final size:100
Alignment explanation
Indices: 24634682--24635041 Score: 375
Period size: 101 Copynumber: 3.6 Consensus size: 100
24634672 AATTATTCAA
* * * * *
24634682 ACGTAAGACCATGGTTGGACCATGGTAGTTTTTATATGTAAGTCCATAGTTGGGCTATGGCATTC
1 ACGTAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTC
* * *
24634747 TTATGATAATACCATATCTGGGTTATGGTACTATGG
66 TTATGATAAGACCATAACTGGGTTAT-GCACTATGG
* * * *
24634783 ACGTAAGACCATGGCTGGACCATGGTAGTGTTTATACGTAAGTCCATAGTTGGGTTATGACATTC
1 ACGTAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTC
* * * *
24634848 TTATGATAAGACCCTAAATAGATTATGTCACTATGG
66 TTATGATAAGACCATAACTGGGTTATG-CACTATGG
* * * * *
24634884 ACGTAAGACCATGGTTGGACTATGGCAGTGTTTATATGTAAGACCATAGCTAGGCTATGAAATTC
1 ACGTAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTC
* * ***
24634949 TAATAATAAGACCATAACTGGGTTATAGCACTACAA
66 TTATGATAAGACCATAACTGGGTTAT-GCACTATGG
* * * * * *
24634985 ATGTAAGACCGTGGCAGGGCCATGGCA--ATATATATGTAAGACCATAG-TGGGACTATG
1 ACGTAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGG-CTATG
24635042 GCACAATAGA
Statistics
Matches: 217, Mismatches: 39, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
98 3 0.01
99 23 0.11
100 1 0.00
101 189 0.87
102 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (100 bp):
ACGTAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTC
TTATGATAAGACCATAACTGGGTTATGCACTATGG
Found at i:24635778 original size:32 final size:32
Alignment explanation
Indices: 24635742--24635805 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
24635732 CATGTCTTAA
24635742 AATGTTTGGATTATAGAAATATCGTTAAGTTT
1 AATGTTTGGATTATAGAAATATCGTTAAGTTT
24635774 AATGTTTGGATTATAGAAATATCGTTAAGTTT
1 AATGTTTGGATTATAGAAATATCGTTAAGTTT
24635806 TACTCAGCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (32 bp):
AATGTTTGGATTATAGAAATATCGTTAAGTTT
Found at i:24637299 original size:27 final size:27
Alignment explanation
Indices: 24637269--24637422 Score: 184
Period size: 27 Copynumber: 5.7 Consensus size: 27
24637259 TTAGTTTACC
*
24637269 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * * *
24637296 AAATTACTAAAATACCCTTGGTATATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
24637323 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
24637350 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* **
24637377 AAATTACCGAAATACCCCTA-TAGGGTA
1 AAATTACCAAAATACCCCTAGT-TTGTA
* *
24637404 GAATTACCGAAATACCCCT
1 AAATTACCAAAATACCCCT
24637423 GTAGGGTAGA
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 110 0.99
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:24637417 original size:81 final size:81
Alignment explanation
Indices: 24637269--24637527 Score: 256
Period size: 81 Copynumber: 3.2 Consensus size: 81
24637259 TTAGTTTACC
* * * ** * * *
24637269 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTA-TATAAAATCACCAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-GTAGGGTAGAATTACCGA
**
24637333 AATACCCCTAGT-TTGTA
65 AATACCCCT-GTAGGGTA
* *
24637350 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCGAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAA
24637415 ATACCCCTGTAGGGTA
66 ATACCCCTGTAGGGTA
* ** * * ** *
24637431 GAATTACCGGAATA-CCTTTGTAGGGTAGAAA-TACCAAAATACCCCTGTAGGGTAGAATTACTG
1 AAATTACCAAAATACCCCTAGT-TTGTA-AAATTACCAAAATACCCCTGTAGGGTAGAATTACCG
24637494 AAATACCCCTGTAGGGTA
64 AAATACCCCTGTAGGGTA
* *
24637512 GAATTACCAAGATACC
1 AAATTACCAAAATACC
24637528 TTGTGGGGTA
Statistics
Matches: 148, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
80 9 0.06
81 135 0.91
82 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAA
ATACCCCTGTAGGGTA
Found at i:24637427 original size:27 final size:27
Alignment explanation
Indices: 24637351--24637545 Score: 225
Period size: 27 Copynumber: 7.3 Consensus size: 27
24637341 TAGTTTGTAA
* ** *
24637351 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
*
24637378 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
24637405 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
24637432 AATTACCGGAATACCTTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
24637459 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
24637486 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
24637513 AATTACC-AAGATA-CCTTGTGGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
24637539 AATTACC
1 AATTACC
24637546 ATTTTGCCCC
Statistics
Matches: 145, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 20 0.14
27 125 0.86
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:24637528 original size:81 final size:80
Alignment explanation
Indices: 24637374--24637546 Score: 260
Period size: 81 Copynumber: 2.1 Consensus size: 80
24637364 CCCCTAGTTT
*
24637374 GTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
1 GTAAAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
*
24637439 GGAATACCTTTGTAGG
66 AGAATACC-TTGTAGG
* *
24637455 GTAGAAA-TACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
1 GTA-AAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC
*
24637519 CA-AGATACCTTGTGGG
65 CAGA-ATACCTTGTAGG
24637535 GTAAAATTACCA
1 GTAAAATTACCA
24637547 TTTTGCCCCT
Statistics
Matches: 84, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
79 3 0.04
80 15 0.18
81 63 0.75
82 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (80 bp):
GTAAAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
AGAATACCTTGTAGG
Found at i:24637986 original size:31 final size:31
Alignment explanation
Indices: 24637948--24638042 Score: 145
Period size: 31 Copynumber: 3.1 Consensus size: 31
24637938 TTGCATTCAC
*
24637948 ATTCTGATTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
24637979 ATTCTGATTTTGATTTTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
24638010 ATTCTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
24638041 AT
1 AT
24638043 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:24644826 original size:53 final size:54
Alignment explanation
Indices: 24644697--24644951 Score: 256
Period size: 55 Copynumber: 4.8 Consensus size: 54
24644687 ACACGGGTAC
* * * *
24644697 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
24644746 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
24644799 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
24644854 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
24644907 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
24644952 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 24, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.29
54 10 0.06
55 70 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:24644888 original size:108 final size:110
Alignment explanation
Indices: 24644744--24644941 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
24644734 ATCCTTTTGA
* *
24644744 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
24644807 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
24644852 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
*
24644917 TTCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
24644942 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.60
109 7 0.09
110 24 0.30
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:24652013 original size:16 final size:16
Alignment explanation
Indices: 24651994--24652024 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24651984 CTTCTTCACT
24651994 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
24652010 TACTTACTTACTTAA
1 TACTCACTTACTTAA
24652025 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:24652030 original size:20 final size:20
Alignment explanation
Indices: 24651991--24652030 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24651981 AAACTTCTTC
* *
24651991 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
24652011 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
24652031 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:24652345 original size:53 final size:54
Alignment explanation
Indices: 24652216--24652470 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
24652206 ACACGGGTAC
* * * *
24652216 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
24652265 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
24652318 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
24652373 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
24652426 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
24652471 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 10 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:24652407 original size:108 final size:110
Alignment explanation
Indices: 24652263--24652460 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
24652253 ATCCTTTTGA
* *
24652263 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
24652326 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
24652371 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
24652436 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
24652461 CGGTATCCTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:24653843 original size:48 final size:45
Alignment explanation
Indices: 24653778--24654045 Score: 154
Period size: 46 Copynumber: 5.8 Consensus size: 45
24653768 TATCTATGTT
* *
24653778 GATGCCATGTTCCAGACATGGTCTTACACTGACACCTCTATATGTGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTATA-GTGCC
* *
24653826 GATGCCATGTCCCAGACATGGTTTTACACTGACACATC--TCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTATAGT-GCC
* * ** *
24653872 AATGCATGTCCTAGACATGTCTTACACT-AGCTTACATCTCGAG-GGC
1 GATGCATGTCCCAGACATGTCTTACACTGA-C--ACATCTATAGTGCC
* * * * *
24653918 GATGCATGTCCCAGACATGTCTTACACT-AGCTCTTGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGA-CACATCTAT-AGTGCC
* * * * *
24653964 GACGCCATCTCCCAGACATGGTCTTACACTGGCTC-TC-ATAATGTGGCA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTAT-A-GT-GCC
* *
24654012 GATGGATGTCCCAGACATGTCTTACACTGGCACA
1 GATGCATGTCCCAGACATGTCTTACACTGACACA
24654046 CAAATAACCT
Statistics
Matches: 176, Mismatches: 30, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 14 0.08
45 16 0.09
46 64 0.36
47 27 0.15
48 54 0.31
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGACACATCTATAGTGCC
Found at i:24660250 original size:21 final size:20
Alignment explanation
Indices: 24660217--24660257 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
24660207 CTTTGAAACT
*
24660217 GGGCACATGCCCGTGTGGAA
1 GGGCACACGCCCGTGTGGAA
24660237 GGGCAACACGCCCGTGTGGAA
1 GGGC-ACACGCCCGTGTGGAA
24660258 CTTGTACTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.22, C:0.27, G:0.39, T:0.12
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAA
Found at i:24661413 original size:38 final size:39
Alignment explanation
Indices: 24661366--24661532 Score: 238
Period size: 38 Copynumber: 4.4 Consensus size: 39
24661356 TTGCTCAATA
*
24661366 CCTTCGGGACTTAGCC-GTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATG
* *
24661404 CCTTCGGGAC-T-CCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATG
*
24661441 -CTTCGGGACTTGGCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATG
*
24661479 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGTTATAGTAACTCGCACAAATG
24661518 CCTTCGGG-CTTAGCC
1 CCTTCGGGACTTAGCC
24661533 CAGTTATCAA
Statistics
Matches: 118, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
36 11 0.09
37 24 0.20
38 43 0.36
39 38 0.32
40 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATG
Found at i:24661472 original size:75 final size:76
Alignment explanation
Indices: 24661366--24661532 Score: 243
Period size: 77 Copynumber: 2.2 Consensus size: 76
24661356 TTGCTCAATA
* *
24661366 CCTTCGGGACTTAGCCGTTATAGTAACTCGCACAATTGCCTTCGGGAC-T-CCCGGTTATAGTAA
1 CCTTCGGGACTTAGCCGTTATAGTAACTCGCACAAATGCCTTC-GGACTTACCCGGATATAGTAA
*
24661429 CTCGCACAATTG
65 CTCGCACAAATG
*
24661441 -CTTCGGGACTTGGCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGATATAGTA
1 CCTTCGGGACTTAGCC-GTTATAGTAACTCGCACAAATGCCTTCGGACTTA-CCCGGATATAGTA
24661505 ACTCGCACAAATG
64 ACTCGCACAAATG
24661518 CCTTCGGG-CTTAGCC
1 CCTTCGGGACTTAGCC
24661533 CAGTTATCAA
Statistics
Matches: 82, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
74 18 0.22
75 27 0.33
77 30 0.37
78 7 0.09
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (76 bp):
CCTTCGGGACTTAGCCGTTATAGTAACTCGCACAAATGCCTTCGGACTTACCCGGATATAGTAAC
TCGCACAAATG
Found at i:24661502 original size:39 final size:40
Alignment explanation
Indices: 24661366--24661539 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 40
24661356 TTGCTCAATA
*
24661366 CCTTCGGGACTTAG-CC-GTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
24661404 CCTTCGGGAC-T--CCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
24661441 -CTTCGGGACTT-GGCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
24661479 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
24661518 CCTTCGGG-CTTAGCCCAGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
24661540 CAATCCGAAT
Statistics
Matches: 123, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
36 11 0.09
37 24 0.20
38 40 0.33
39 46 0.37
40 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:24669457 original size:40 final size:40
Alignment explanation
Indices: 24669376--24669582 Score: 283
Period size: 40 Copynumber: 5.2 Consensus size: 40
24669366 AAACCAAGTA
** * *
24669376 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
24669415 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
24669455 CCTTCAGGACTTAGCCCGGTTATAGTAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
24669495 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
24669535 CCTTCGGGATTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
24669575 CCTTCGGG
1 CCTTCGGG
24669583 CTTTGTAACA
Statistics
Matches: 151, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.09
40 138 0.91
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:24670985 original size:71 final size:71
Alignment explanation
Indices: 24670899--24671062 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
24670889 CGATTTGTCT
24670899 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
24670964 CTTTCA
66 CTTTCA
24670970 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
24671035 CTTTCA
66 CTTTCA
24671041 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
24671063 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:24671100 original size:71 final size:70
Alignment explanation
Indices: 24670899--24671096 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
24670889 CGATTTGTCT
* * * *
24670899 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
24670964 CTTTCA
65 CTTTCA
* * * *
24670970 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
24671035 CTTTCA
65 CTTTCA
* *
24671041 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
24671097 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:24685516 original size:258 final size:258
Alignment explanation
Indices: 24685048--24685562 Score: 832
Period size: 258 Copynumber: 2.0 Consensus size: 258
24685038 GCCGTGTGGT
* * *
24685048 CAAATTAATTTTCACAAATTAGGTATAGGTCTCACATGGGCAAGACACACACTAGTGTTCTAAGC
1 CAAACTAATTTTCACAAATTAGGTACAGGTCTCACATGGCCAAGACACACACTAGTGTTCTAAGC
* * * * *
24685113 CATATATCTTTCACGGCTGAGGCACATGCCCATGTCTCCGCTCGTGTGCCCAATTTTGAGCATTC
66 CATATATCTTCCACGGCTAAGACACACGCCCATGTCTCCGATCGTGTGCCCAATTTTGAGCATTC
*
24685178 CGTTTCTCAATTTTAGGAGGCAAGGGACACACGGCCAAACCACATGCCCATGTGTCAGGCTGTGT
131 CGTTTCTCAATTTTAGGAGGCAAGGGACACACGGCCAAACCACATGCCCATGTGTCAGGCCGTGT
* *
24685243 GTCACATACGGTCAAGACACACGTCCGTCTGTCTATCTATGTAGAAAAAATAAGGCCATTTCA
196 GTCACACACGGTCAAGACACACGTCCGTCTGTCTACCTATGTAGAAAAAATAAGGCCATTTCA
* *
24685306 CAAACTAATTTTCACAAATTAGGTGCAGGTCTCACATGGCCTAGACACACACTAGTGTTCTAAGC
1 CAAACTAATTTTCACAAATTAGGTACAGGTCTCACATGGCCAAGACACACACTAGTGTTCTAAGC
* * *
24685371 CGTATATCTTCCATGGCTAAGATACACGCCCATGTCTCCGATCGTGTGCCCAATTTTGAGCATTC
66 CATATATCTTCCACGGCTAAGACACACGCCCATGTCTCCGATCGTGTGCCCAATTTTGAGCATTC
* * *
24685436 TGTTTCTCAATTTTAGGAGGCAGGGGACACATGGCCAAACCACATGCCCATGTGTCAGGCCGTGT
131 CGTTTCTCAATTTTAGGAGGCAAGGGACACACGGCCAAACCACATGCCCATGTGTCAGGCCGTGT
* * *
24685501 GTCACACATGGTCAAGACACACGTCCGTCTGTCTACCTGTGTGGAAAAAATAAGGCCATTTC
196 GTCACACACGGTCAAGACACACGTCCGTCTGTCTACCTATGTAGAAAAAATAAGGCCATTTC
24685563 CTAACCTTAT
Statistics
Matches: 235, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
258 235 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (258 bp):
CAAACTAATTTTCACAAATTAGGTACAGGTCTCACATGGCCAAGACACACACTAGTGTTCTAAGC
CATATATCTTCCACGGCTAAGACACACGCCCATGTCTCCGATCGTGTGCCCAATTTTGAGCATTC
CGTTTCTCAATTTTAGGAGGCAAGGGACACACGGCCAAACCACATGCCCATGTGTCAGGCCGTGT
GTCACACACGGTCAAGACACACGTCCGTCTGTCTACCTATGTAGAAAAAATAAGGCCATTTCA
Found at i:24686608 original size:24 final size:24
Alignment explanation
Indices: 24686559--24686643 Score: 77
Period size: 24 Copynumber: 3.5 Consensus size: 24
24686549 GAGAGTCATA
* **
24686559 ATCAGGAAATTCACAAAGAATTAT
1 ATCAGGAAGTTCACAAAGAACCAT
24686583 ATCAGGAAGTTCACAAAGAACCAT
1 ATCAGGAAGTTCACAAAGAACCAT
**
24686607 ATC-GAGAAGCTTCGGAAAG--CCAAT
1 ATCAG-GAAG-TTCACAAAGAACC-AT
24686631 ATCAGGAAGTTCA
1 ATCAGGAAGTTCA
24686644 AGTGAGCCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 6 0.12
24 37 0.73
25 8 0.16
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAGGAAGTTCACAAAGAACCAT
Found at i:24691949 original size:40 final size:40
Alignment explanation
Indices: 24691886--24692069 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
24691876 TATTCGAATG
* *
24691886 ATATCCGGGCTAAG-TCCCAAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
24691926 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
24691966 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
24692006 ATATCCGGGCTAAG-TCCTGAAGGCATTTATGGTAGTGACC
1 ATATCCGGGCTAAGATCC-GAAGGCATTTATGCTAGTGACT
*
24692046 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
24692070 CTTGTGTGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 3 0.02
40 116 0.94
41 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:24692019 original size:80 final size:80
Alignment explanation
Indices: 24691886--24692069 Score: 248
Period size: 80 Copynumber: 2.3 Consensus size: 80
24691876 TATTCGAATG
* * * *
24691886 ATATCCGGGCTAAGTCCCAAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCC-GAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCTGAAGGC
* *
24691950 ATTTGTGCG-AGTTG-CT
65 ATTTATG-GTAG-TGACC
* *
24691966 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCTGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCTGAAGGCA
24692031 TTTATGGTAGTGACC
66 TTTATGGTAGTGACC
24692046 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
24692070 CTTGTGTGAG
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
79 6 0.06
80 87 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCTGAAGGCA
TTTATGGTAGTGACC
Found at i:24692372 original size:22 final size:22
Alignment explanation
Indices: 24692330--24692373 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24692320 AAAATGTGCA
* *
24692330 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
24692352 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
24692374 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:24700234 original size:40 final size:40
Alignment explanation
Indices: 24700174--24700356 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
24700164 TATTCGAATG
*
24700174 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
24700214 ATATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCT-AG-TGACT
* * *
24700254 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
24700294 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
24700334 ATATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGATCCGAAGG
24700357 ACTTGTGCGA
Statistics
Matches: 125, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 2 0.02
40 119 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:24700307 original size:80 final size:80
Alignment explanation
Indices: 24700174--24700364 Score: 255
Period size: 80 Copynumber: 2.4 Consensus size: 80
24700164 TATTCGAATG
* * * *
24700174 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
24700238 ATTTGTG-TGAGTTG-CT
65 ATTTATGCT-AG-TGACC
*
24700254 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
24700319 TTTATGCTAGTGACC
66 TTTATGCTAGTGACC
*
24700334 ATATCCGGGCTAAGACCCGAAGG-ACTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
24700365 GAGTGGTTAT
Statistics
Matches: 100, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
79 10 0.10
80 89 0.89
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCTAGTGACC
Found at i:24700662 original size:22 final size:22
Alignment explanation
Indices: 24700620--24700663 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24700610 AAAATGTGCA
* *
24700620 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
24700642 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
24700664 CAAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:24704722 original size:30 final size:31
Alignment explanation
Indices: 24704688--24704751 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
24704678 ATTTATTTTA
*
24704688 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTATTATTATTTTAGAA-GCAT
24704718 TTGTTAATTTTTATTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
24704749 TTG
1 TTG
24704752 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 22 0.71
32 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:24706557 original size:240 final size:240
Alignment explanation
Indices: 24706134--24706568 Score: 836
Period size: 240 Copynumber: 1.8 Consensus size: 240
24706124 AAGTATGACC
24706134 TAACCATCCCAAGTGATTTGGCCACATTTCATATGTTTATTTATAATATACCATATTTAATCATC
1 TAACCATCCCAAGTGATTTGGCCACATTTCATATGTTTATTTATAATATACCATATTTAATCATC
*
24706199 ATAAGAACATTTAACCACAACAAGCACAATTAGTAGGTCATAGCCTACATCAAAATGAGCCATGT
66 ATAAGAACATCTAACCACAACAAGCACAATTAGTAGGTCATAGCCTACATCAAAATGAGCCATGT
24706264 CTTATGGCCATATACAAAAAGAATAAGTTTAATATTTAAGCCTTTACATAGGCCAAC-CAATGAC
131 CTTATGGCCATATACAAAAAGAATAAGTTTAATATTTAAGCCTTTACATAGGCCAACGCAA-GAC
24706328 ACATATCACAAAATAACCAAAACCTATACATGCCATTGAAACAAAA
195 ACATATCACAAAATAACCAAAACCTATACATGCCATTGAAACAAAA
24706374 TAACCATCCCAAGTGATTTGGCCACATTTCATATGTTTATTTATAATATACCATATTTAATCATC
1 TAACCATCCCAAGTGATTTGGCCACATTTCATATGTTTATTTATAATATACCATATTTAATCATC
*
24706439 ATAAGAACATCTAACCACAACAAGCACAATTTGTAGGTCATAGCCTACATCAAAATGAGCCATGT
66 ATAAGAACATCTAACCACAACAAGCACAATTAGTAGGTCATAGCCTACATCAAAATGAGCCATGT
24706504 CTTATGGCCATATACAAAAAGAATAAGTTTAATATTTAAGCCTTTACATAGGCCAACGCAAGACA
131 CTTATGGCCATATACAAAAAGAATAAGTTTAATATTTAAGCCTTTACATAGGCCAACGCAAGACA
24706569 AGTTAATAGT
Statistics
Matches: 192, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
240 189 0.98
241 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (240 bp):
TAACCATCCCAAGTGATTTGGCCACATTTCATATGTTTATTTATAATATACCATATTTAATCATC
ATAAGAACATCTAACCACAACAAGCACAATTAGTAGGTCATAGCCTACATCAAAATGAGCCATGT
CTTATGGCCATATACAAAAAGAATAAGTTTAATATTTAAGCCTTTACATAGGCCAACGCAAGACA
CATATCACAAAATAACCAAAACCTATACATGCCATTGAAACAAAA
Found at i:24714563 original size:3 final size:3
Alignment explanation
Indices: 24714555--24714609 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
24714545 TGCCAAGTTA
24714555 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24714603 AAT AAT A
1 AAT AAT A
24714610 TTGAATCTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24733297 original size:48 final size:48
Alignment explanation
Indices: 24733244--24733578 Score: 510
Period size: 48 Copynumber: 6.9 Consensus size: 48
24733234 TAAATATATA
*
24733244 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATACG
1 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATACG
24733292 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATACG
1 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATACG
* **
24733340 TATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATACG
* * * *
24733388 TATATGTGGTAAAGCCGAATGACTATTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATACG
24733436 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATACG
1 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATACG
* **
24733484 TATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATA
1 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG--ATACG
* * *
24733534 TATATGTGGTAAATCCGAATGGCTAATGA-GCAATATGTAGGAGAT
1 TATATGTGGTAAAGCCGAATGGCTAAT-ATGAAATATGTATGAGAT
24733579 GTGTGTATAT
Statistics
Matches: 264, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
48 223 0.84
50 40 0.15
51 1 0.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATACG
Found at i:24733499 original size:144 final size:145
Alignment explanation
Indices: 24733239--24733578 Score: 601
Period size: 144 Copynumber: 2.3 Consensus size: 145
24733229 CAAGATAAAT
24733239 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATACGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATACGTATATGTGGTAA
24733304 AGCCGAATGGCTAATATGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAACAT
66 AGCCGAATGGCTAATATGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAACAT
24733369 GAAATATGTATGAG-
131 GAAATATGTATGAGA
* * *
24733383 ATATATATATGTGGTAAAGCCGAATGACTATTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATACGTATATGTGGTAA
24733448 AGCCGAATGGCTAATATGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAACAT
66 AGCCGAATGGCTAATATGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAACAT
24733513 GAAATATGTATGAGA
131 GAAATATGTATGAGA
* * * *
24733528 TATATATATATGTGGTAAATCCGAATGGCTAATGAGCAATATGTAGGAGAT
1 -ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
24733579 GTGTGTATAT
Statistics
Matches: 185, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
144 141 0.76
146 44 0.24
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (145 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATACGTATATGTGGTAA
AGCCGAATGGCTAATATGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAACAT
GAAATATGTATGAGA
Found at i:24733681 original size:47 final size:47
Alignment explanation
Indices: 24733630--24733734 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
24733620 TAGTATTAAT
* *
24733630 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATA
24733677 TATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATA
*
24733724 AATGTGATAAG
1 TATGTGATAAG
24733735 TCCCGAACAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATA
Found at i:24737957 original size:15 final size:15
Alignment explanation
Indices: 24737939--24737975 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
24737929 TCCAAGATTG
24737939 AGAAACCTAGAATAA
1 AGAAACCTAGAATAA
*
24737954 AGAAATCTAGAATAA
1 AGAAACCTAGAATAA
24737969 AGAAACC
1 AGAAACC
24737976 CAAGATACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (15 bp):
AGAAACCTAGAATAA
Found at i:24744610 original size:180 final size:179
Alignment explanation
Indices: 24744302--24744630 Score: 453
Period size: 180 Copynumber: 1.8 Consensus size: 179
24744292 TAAGATCCGT
* * * * * * *
24744302 TAATTTTTTCTGAAACTAAACTCATATATCTTCTTACCATAAAATTTTTATAATTTTTGATCTAG
1 TAATTTTTCCAGAAACTAAACTCACATATATTCCTACCATAAAATTTTCAGAATTTTTGATCTAG
* * * * *
24744367 AAAATAAGTATAGTTTATTCATTAAAGATACCCCTATTTCACTGTCTGATAGTTCCGACCTCTCT
66 AAAATAAGTACAGTTTATTCAATAAAGAGACCCCTATTTCACTGTCTGACAGTTCCAACCTCTC-
24744432 TCACTAAAAATTATTAATCTCATGGTACGAGAATCCAAATTGAGAACTGC
130 TCACTAAAAATTATTAATCTCATGGTACGAGAATCCAAATTGAGAACTGC
* *
24744482 TAATTTTTCCAGAAACTAGACTCACATATATTCCTACCATAAAATTTTCAGAATTTTT-AGTTTA
1 TAATTTTTCCAGAAACTAAACTCACATATATTCCTACCATAAAATTTTCAGAATTTTTGA-TCTA
* * * * *
24744546 GCAAATAAGTACATTTTATTCAATAAATAGACCCCTATTTCACTTTTTGACAGTTCCAACCTCTC
65 GAAAATAAGTACAGTTTATTCAATAAAGAGACCCCTATTTCACTGTCTGACAGTTCCAACCTCTC
*
24744611 TCACTAAAAATTATTTATCT
130 TCACTAAAAATTATTAATCT
24744631 TATGTTACAG
Statistics
Matches: 128, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
179 20 0.16
180 108 0.84
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.39
Consensus pattern (179 bp):
TAATTTTTCCAGAAACTAAACTCACATATATTCCTACCATAAAATTTTCAGAATTTTTGATCTAG
AAAATAAGTACAGTTTATTCAATAAAGAGACCCCTATTTCACTGTCTGACAGTTCCAACCTCTCT
CACTAAAAATTATTAATCTCATGGTACGAGAATCCAAATTGAGAACTGC
Found at i:24744989 original size:16 final size:16
Alignment explanation
Indices: 24744964--24744995 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24744954 GATTGTTTTA
24744964 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
24744980 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
24744996 ACTCCATTCT
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:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:24745304 original size:50 final size:50
Alignment explanation
Indices: 24745195--24745320 Score: 155
Period size: 50 Copynumber: 2.5 Consensus size: 50
24745185 ACCGAAGCTC
* * ** *
24745195 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACACGACCTAACAA
* * * *
24745245 TCT-AGTACACGTAGTAGCCTACACTTAGTACTACACACATGACTTAACCA
1 TCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACACGACCTAACAA
24745295 TCTGATACACGTAGTAGCCTGCACTT
1 TCTGATACACGTAGTAGCCTGCACTT
24745321 CTGTGACAGC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
50 63 0.98
51 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (50 bp):
TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACACGACCTAACAA
Found at i:24746839 original size:29 final size:29
Alignment explanation
Indices: 24746804--24746877 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
24746794 GTTGTGAGAT
* *
24746804 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
24746833 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
24746862 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24746878 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:24748237 original size:18 final size:18
Alignment explanation
Indices: 24748214--24748252 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
24748204 GCCAGCCCGT
24748214 CTGGAAATTTAAAATGGA
1 CTGGAAATTTAAAATGGA
24748232 CTGGAAATTTAAAATGGA
1 CTGGAAATTTAAAATGGA
24748250 CTG
1 CTG
24748253 TGCAATAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (18 bp):
CTGGAAATTTAAAATGGA
Found at i:24754650 original size:29 final size:29
Alignment explanation
Indices: 24754615--24754688 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
24754605 GTTGTGAGAT
* *
24754615 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
24754644 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
24754673 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24754689 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:24758000 original size:26 final size:26
Alignment explanation
Indices: 24757953--24758003 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
24757943 CTCGCTGCAA
24757953 TCTGGTGCCTCGCCACATATATCTGT
1 TCTGGTGCCTCGCCACATATATCTGT
* *
24757979 TCTGGTGACTTCGTCACA-ATATCTG
1 TCTGGTG-CCTCGCCACATATATCTG
24758004 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGCCTCGCCACATATATCTGT
Found at i:24758073 original size:26 final size:27
Alignment explanation
Indices: 24758043--24758102 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
24758033 ACATATATAT
*
24758043 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
24758069 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
24758096 ATATCTG
1 ATATCTG
24758103 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:24766836 original size:40 final size:39
Alignment explanation
Indices: 24766741--24766928 Score: 137
Period size: 40 Copynumber: 4.7 Consensus size: 39
24766731 TGCTGGAAAT
* * * * **
24766741 TATAACCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
*
24766780 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * *
24766820 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTCAC
* * * * * *
24766858 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * * *
24766899 CATAACCGGGCTATGTCCCGAAGGCGATTG
1 TATATCCGGGCTAAGACCCGAAGGC-ATTG
24766929 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 25, Indels: 13
0.75 0.16 0.08
Matches are distributed among these distances:
38 3 0.03
39 52 0.44
40 58 0.50
41 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:24766908 original size:79 final size:80
Alignment explanation
Indices: 24766742--24766923 Score: 183
Period size: 79 Copynumber: 2.3 Consensus size: 80
24766732 GCTGGAAATT
* * *
24766742 ATAACCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCAT
1 ATAACCGGGCTAAGACCCGAAGGCAATGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCAT
*
24766807 TCGTGCGAGTCATTC
66 TCGTGCGAGTCATCC
* * * * *
24766822 -TATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCA-ATGTGCTAATCGCT-ATATCCGGGCTAAGACCCGAAGGC
* * * *
24766884 CTTGGTGCGGGTTA-CC
64 ATTCGTGCGAGTCATCC
* *
24766900 ATAACCGGGCTATGTCCCGAAGGC
1 ATAACCGGGCTAAGACCCGAAGGC
24766924 GATTGAACGA
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 76 0.92
80 5 0.06
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTCATCC
Found at i:24771922 original size:26 final size:27
Alignment explanation
Indices: 24771893--24771952 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
24771883 CACTATGTAT
*
24771893 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
24771919 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
24771946 ATATCTG
1 ATATCTG
24771953 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:24772750 original size:20 final size:20
Alignment explanation
Indices: 24772722--24772759 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24772712 AGGTATGTGA
*
24772722 TTAATTAAGTCAGTAAGTAT
1 TTAAGTAAGTCAGTAAGTAT
*
24772742 TTAAGTAAGTGAGTAAGT
1 TTAAGTAAGTCAGTAAGT
24772760 GAAGAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.37
Consensus pattern (20 bp):
TTAAGTAAGTCAGTAAGTAT
Found at i:24780076 original size:55 final size:53
Alignment explanation
Indices: 24779989--24780243 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
24779979 ATTAGGGTTT
* *
24779989 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTGTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTATAAGGC
* * * *
24780044 AAGGATACCATTTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TATAAGGC
* * * * *
24780099 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTATAAGGC
* * * *
24780152 AAGGATACCATGTAAGACCATGTCGAGACAT-GACAATGGTAAGTTT-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGA-ATTGGTAAGTTTATAAGGC
* * *
24780201 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAG
24780244 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 34 0.20
50 2 0.01
51 1 0.01
52 7 0.04
53 41 0.25
54 7 0.04
55 71 0.43
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTATAAGGC
Found at i:24780195 original size:108 final size:110
Alignment explanation
Indices: 24779996--24780196 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
24779986 TTTAAGGATA
** *
24779996 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTGTAAGGCAAGGATACCATTTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGATACCATGTAAGA
* *
24780061 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
* *
24780106 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-GTTCATAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGATACCATGTAAGA
* *
24780169 CCATGTCGAGACATGACAATGGTAAGTT
66 CCATGTCAAGACATGACAATGATAAGTT
24780197 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 49 0.60
109 7 0.09
110 26 0.32
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:24780456 original size:16 final size:16
Alignment explanation
Indices: 24780435--24780465 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24780425 ATAAATTTGA
24780435 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
24780451 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
24780466 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:24796344 original size:46 final size:44
Alignment explanation
Indices: 24796277--24796445 Score: 187
Period size: 46 Copynumber: 3.7 Consensus size: 44
24796267 TGGTATGTGT
*
24796277 GCCAGTGTAAGTCATGTTTGGGACATGCATCGACGACATT-ATGAGA
1 GCCAGTGTAAGACATGTTTGGGACATGCATCG--G-CATTAATGAGA
24796323 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCATTAAGATGAGA
1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCATT-A-ATGAGA
* * * *
24796369 GCTAGTGTAAGACATGTCTGGGATATGCATCGGCATTGAGAGGAGA
1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCATT-A-ATGAGA
* * * *
24796415 GCTAGTGTGAGACATGTCTAGGACATGCATC
1 GCCAGTGTAAGACATGTTTGGGACATGCATC
24796446 AGGCTCGAGA
Statistics
Matches: 111, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
46 106 0.95
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTTTGGGACATGCATCGGCATTAATGAGA
Found at i:24811755 original size:81 final size:80
Alignment explanation
Indices: 24811629--24811950 Score: 335
Period size: 81 Copynumber: 4.0 Consensus size: 80
24811619 TTTTACACTA
* * * * * * *
24811629 CAAGGGTATTTGATTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCGGGGGTGTT
1 CAAGGGTATTTCAATAATTTTACAAAT-CGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATT
*
24811693 TCAGTAATTTTAAAAAT
65 TC-GTAATTTTACAAAT
* * * *
24811710 CAAAGGTATCTCAATAATTTTACAAATCGAGAGTATTTCGGTAATTTTACAAATCGAGGATATTT
1 CAAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTT
24811775 CGGTAATTTTACAAAT
66 C-GTAATTTTACAAAT
* * ** ** *
24811791 CAAGGGTGTTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTT-TTAATCAAGGGTATTT
1 CAAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTT
24811855 CGATAATTTTACAAAT
66 CG-TAATTTTACAAAT
** * * * *
24811871 CAAGGGTATTTCAATAATTTTGTAAACCGAGGGTATTTCGGTAATTTTATAGA-CTAGGGGTATT
1 CAAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA-GGGTATT
*
24811935 TCGGTAATTTTTCAAA
65 TC-GTAATTTTACAAA
24811951 CTAGGGGTAC
Statistics
Matches: 201, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.00
80 69 0.34
81 128 0.64
82 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTT
CGTAATTTTACAAAT
Found at i:24811903 original size:27 final size:27
Alignment explanation
Indices: 24811631--24811950 Score: 281
Period size: 27 Copynumber: 11.9 Consensus size: 27
24811621 TTACACTACA
* * * *
24811631 AGGGTATTTGATTAATTTTAC-ACTACA
1 AGGGTATTTCAGTAATTTTACAAAT-CG
24811658 AGGGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * * *
24811685 GGGGTGTTTCAGTAATTTTAAAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
24811712 AAGGTATCTCAATAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
24811739 AGAGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
24811766 AGGATATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
24811793 AGGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** *
24811820 AGGGTATTTTAGTAATTTT-TTAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
24811846 AGGGTATTTC-GATAATTTTACAAATCA
1 AGGGTATTTCAG-TAATTTTACAAATCG
* ** *
24811873 AGGGTATTTCAATAATTTTGTAAACCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
24811900 AGGGTATTTCGGTAATTTTATAGA-CT
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
24811926 AGGGGTATTTCGGTAATTTTTCAAA
1 A-GGGTATTTCAGTAATTTTACAAA
24811951 CTAGGGGTAC
Statistics
Matches: 238, Mismatches: 48, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
25 1 0.00
26 22 0.09
27 212 0.89
28 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:24811969 original size:134 final size:134
Alignment explanation
Indices: 24811643--24811971 Score: 333
Period size: 134 Copynumber: 2.4 Consensus size: 134
24811633 GGTATTTGAT
* * * ** *
24811643 TAATTTTAC-ACTACAAGGGTATTTC-GATAATTTTACAAATCGGGGGTGTTTCAGTAATTTTAA
1 TAATTTTACAAAT-CAAGGGTATTTCAG-TAATTTTACAAATAGAGGGTACTTCAGTAATTTT-T
* * ** *
24811706 AAATCAAAGGTATCTCAATAATTTTACAAATCGAGAGTATTTCGGTAATTTTACAAATCGAGGAT
63 TAATCAAAGGTATCTCAATAATTTTACAAATCAAGAGTATTTCAATAATTTTACAAACCGAGGAT
24811771 ATTTCGG
128 ATTTCGG
* * * *
24811778 TAATTTTACAAATCAAGGGTGTTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTTTAA
1 TAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATAGAGGGTACTTCAGTAATTTTTTAA
* * * * ** *
24811843 TCAAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAATAATTTTGTAAACCGAGGGTATT
66 TCAAAGGTATCTCAATAATTTTACAAATCAAGAGTATTTCAATAATTTTACAAACCGAGGATATT
24811908 TCGG
131 TCGG
* * * * * *
24811912 TAATTTTATAGA-CTAGGGGTATTTCGGTAATTTTTCAAACTAG-GGGTACTTCGGTAATTT
1 TAATTTTACAAATC-AAGGGTATTTCAGTAATTTTACAAA-TAGAGGGTACTTCAGTAATTT
24811972 CTCTTTATTA
Statistics
Matches: 162, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
133 1 0.01
134 105 0.65
135 53 0.33
136 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (134 bp):
TAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATAGAGGGTACTTCAGTAATTTTTTAA
TCAAAGGTATCTCAATAATTTTACAAATCAAGAGTATTTCAATAATTTTACAAACCGAGGATATT
TCGG
Found at i:24812325 original size:28 final size:28
Alignment explanation
Indices: 24812288--24812379 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
24812278 TGGCCCCTTT
* * *
24812288 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
24812316 AGGCCCAATCACATTCATATGGCACATC
1 AGGCCCAATCACATTCATATGGCCCATC
24812344 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
24812372 AAGCCCAA
1 AGGCCCAA
24812380 CTAGTTCCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.29, C:0.36, G:0.15, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:24814345 original size:29 final size:29
Alignment explanation
Indices: 24814301--24814362 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
24814291 TAAGCATACT
24814301 AAATAAATTTCACAAATAAAAAGTTAAGA
1 AAATAAATTTCACAAATAAAAAGTTAAGA
* *
24814330 AAATAAATTTCTCAAATAAAAATTTAAGA
1 AAATAAATTTCACAAATAAAAAGTTAAGA
24814359 AAAT
1 AAAT
24814363 TAAGAGGCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.27
Consensus pattern (29 bp):
AAATAAATTTCACAAATAAAAAGTTAAGA
Found at i:24815291 original size:27 final size:27
Alignment explanation
Indices: 24815261--24815625 Score: 396
Period size: 27 Copynumber: 13.6 Consensus size: 27
24815251 TACACTACAT
* * *
24815261 GGGTATTTCGATAATTTTACAAATTGG
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
24815288 GGGTGTTTCGGTGATTTTACAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
24815315 GGGTATCTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
24815342 GGGTATCTCGGTAATTTTACAAAT-GA
1 GGGTATTTCGGTAATTTTACAAATCGA
24815368 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * ** *
24815395 AGGTGTTTTAGTAATTTTACAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
**
24815422 GGGTATTTCTATAATTTTAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
24815448 GGGTATTTTGGTAATTTTACAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
** ** *
24815475 GGGTATTTCAATAATTTTGTAAACCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
24815502 GGGTATTTCAGTAATTTTACAAA-CTGG
1 GGGTATTTCGGTAATTTTACAAATC-GA
* *
24815529 GGGTATTTCAGTAATTTTACAAACCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
24815556 GGGTATTTCGATAATTTTACAAACCG-
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * *
24815582 GGGTATTTTGGTGATTTTATAAATCGG
1 GGGTATTTCGGTAATTTTACAAATCGA
*
24815609 GGGTACTTCGGTAATTT
1 GGGTATTTCGGTAATTT
24815626 CTCTTTATTA
Statistics
Matches: 285, Mismatches: 48, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 69 0.24
27 215 0.75
28 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:24815412 original size:80 final size:79
Alignment explanation
Indices: 24815261--24815625 Score: 394
Period size: 80 Copynumber: 4.5 Consensus size: 79
24815251 TACACTACAT
* * * **
24815261 GGGTATTTCGATAATTTTACAAATTGGGGGTGTTTCGGTGATTTTACAAATCAAGGGTATCTCGG
1 GGGTATTTCGGTAATTTTACAAA-TGGGGGTATTTCGGTAATTTTACAAATCAAGGGTAT-TTAG
*
24815326 TAATTTTACAAATCGA
64 TAATTTTACAAACCGA
* *
24815342 GGGTATCTCGGTAATTTTACAAATGAGGGTATTTCGGTAATTTTACAAATCGAAGGTGT-TTTAG
1 GGGTATTTCGGTAATTTTACAAATGGGGGTATTTCGGTAATTTTACAAATC-AAGG-GTATTTAG
* *
24815406 TAATTTTACAAATCAA
64 TAATTTTACAAACCGA
** * * *
24815422 GGGTATTTCTATAATTTTAC-AATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAA
1 GGGTATTTCGGTAATTTTACAAAT-GGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT-AG
**
24815486 TAATTTTGTAAACCGA
64 TAATTTTACAAACCGA
* * * * *
24815502 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTCGA
1 GGGTATTTCGGTAATTTTACAAA-TGGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTAG-
24815567 TAATTTTACAAACCG-
64 TAATTTTACAAACCGA
* * * *
24815582 GGGTATTTTGGTGATTTTATAAATCGGGGGTACTTCGGTAATTT
1 GGGTATTTCGGTAATTTTACAAAT-GGGGGTATTTCGGTAATTT
24815626 CTCTTTATTA
Statistics
Matches: 241, Mismatches: 34, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
78 2 0.01
79 11 0.05
80 152 0.63
81 73 0.30
82 3 0.01
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (79 bp):
GGGTATTTCGGTAATTTTACAAATGGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTAGTA
ATTTTACAAACCGA
Found at i:24815613 original size:107 final size:107
Alignment explanation
Indices: 24815235--24815625 Score: 394
Period size: 107 Copynumber: 3.6 Consensus size: 107
24815225 ACCCTACCGA
* * * * * * * * *
24815235 GGTATGTCGGTCATTTTACACTACATGGGTATTTCGATAATTTTACAAATTGGGGGTGTTTCGGT
1 GGTATTTCGGTAATTTTACA-AACAGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGT
* * *
24815300 GATTTTACAAATCAAGGGTATCTCGGTAATTTTACAAATCGAG
65 AATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGAG
* * * * *
24815343 GGTATCTCGGTAATTTTACAAA-TGAGGGTATTTCGGTAATTTTACAAATCGAAGGTGTTTTAGT
1 GGTATTTCGGTAATTTTACAAACAG-GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGT
24815407 AATTTTACAAATCAAGGGTATTTCTA-TAATTTTAC-AATCGAG
65 AATTTTACAAATCAAGGGTATTTC-AGTAATTTTACAAATCGAG
* * ** ** *
24815449 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAATAATTTTGTAAACCGAGGGTATTTCAGT
1 GGTATTTCGGTAATTTTACAAA-CAGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGT
** *
24815514 AATTTTACAAA-CTGGGGGTATTTCAGTAATTTTACAAACCGAG
65 AATTTTACAAATC-AAGGGTATTTCAGTAATTTTACAAATCGAG
* * * * * * * *
24815557 GGTATTTCGATAATTTTACAAACCGGGGTATTTTGGTGATTTTATAAATCGGGGGTACTTCGGTA
1 GGTATTTCGGTAATTTTACAAACAGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTA
24815622 ATTT
66 ATTT
24815626 CTCTTTATTA
Statistics
Matches: 234, Mismatches: 42, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
106 29 0.12
107 161 0.69
108 44 0.19
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (107 bp):
GGTATTTCGGTAATTTTACAAACAGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTA
ATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGAG
Found at i:24815987 original size:28 final size:28
Alignment explanation
Indices: 24815951--24816057 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
24815941 GCCAATTTCG
* *
24815951 TTCACATGGCCCATCAGGCCTAATCACA
1 TTCATATGGCCCATCAGGCCCAATCACA
* * *
24815979 TTCATATGGCCCTTTAGGCCCACTCACA
1 TTCATATGGCCCATCAGGCCCAATCACA
*
24816007 TTCATATGGCCAATCAGGCCCAATCACA
1 TTCATATGGCCCATCAGGCCCAATCACA
*
24816035 TTCATATGGCCTATCAGGCCCAA
1 TTCATATGGCCCATCAGGCCCAA
24816058 CTATTTCCCA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
TTCATATGGCCCATCAGGCCCAATCACA
Found at i:24817543 original size:42 final size:42
Alignment explanation
Indices: 24817426--24817543 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
24817416 CAGAGAACAT
* * *
24817426 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * * * * *
24817468 ACATCGATGCCACTGTCCTAGACAGGGTCTTACACGAAATCAG
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * *
24817511 ATACTATGCCAATGTCCCAAACATGGTTTTACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACA
24817544 TGCAAAAAAA
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:24833105 original size:2 final size:2
Alignment explanation
Indices: 24833098--24833136 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24833088 AATGATGATG
24833098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24833137 AGTTAAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24836832 original size:35 final size:35
Alignment explanation
Indices: 24836786--24836856 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
24836776 GTTCATATGT
24836786 TAAAAATAAGCTTTAGAATAATTGTATTTAAATGC
1 TAAAAATAAGCTTTAGAATAATTGTATTTAAATGC
24836821 TAAAAATAAGCTTTAGAATAATTGTATTTAAATGC
1 TAAAAATAAGCTTTAGAATAATTGTATTTAAATGC
24836856 T
1 T
24836857 TTAATATAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (35 bp):
TAAAAATAAGCTTTAGAATAATTGTATTTAAATGC
Found at i:24840527 original size:16 final size:16
Alignment explanation
Indices: 24840506--24840536 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24840496 ATTACGAATT
*
24840506 AGATATCTCCCTGTAC
1 AGATATCTCCATGTAC
24840522 AGATATCTCCATGTA
1 AGATATCTCCATGTA
24840537 TAGAGTTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (16 bp):
AGATATCTCCATGTAC
Found at i:24841993 original size:30 final size:30
Alignment explanation
Indices: 24841946--24842005 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
24841936 ATTTAATATG
*
24841946 AACTTTGGCAAATTTACATTTTTGCCCCTA
1 AACTTTGGCAAATTTACACTTTTGCCCCTA
*
24841976 AACTTTTGCATAA-TTACACTTTTGCCCCTA
1 AACTTTGGCA-AATTTACACTTTTGCCCCTA
24842006 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAATTTACACTTTTGCCCCTA
Found at i:24845431 original size:40 final size:39
Alignment explanation
Indices: 24845386--24845593 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
24845376 CGGAATACAA
*
24845386 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
24845426 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
24845466 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
24845506 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
24845546 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
24845586 CCGGATAT
1 CCGGATAT
24845594 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:24845533 original size:80 final size:81
Alignment explanation
Indices: 24845386--24845591 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
24845376 CGGAATACAA
* * * *
24845386 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
24845450 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
24845466 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
24845529 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
24845546 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
24845592 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:24853413 original size:40 final size:39
Alignment explanation
Indices: 24853368--24853575 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
24853358 CGGAATACAA
*
24853368 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
24853408 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
24853448 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
24853488 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
24853528 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
24853568 CCGGATAT
1 CCGGATAT
24853576 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:24853515 original size:80 final size:81
Alignment explanation
Indices: 24853368--24853573 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
24853358 CGGAATACAA
* * * *
24853368 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
24853432 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
24853448 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
24853511 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
24853528 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
24853574 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:24869979 original size:32 final size:32
Alignment explanation
Indices: 24869938--24870001 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
24869928 TGTTTGGCTT
24869938 TTACTTGTTGACAAATTAAACATCTCGAGACA
1 TTACTTGTTGACAAATTAAACATCTCGAGACA
24869970 TTACTTGTTGACAAATTAAACATCTCGAGACA
1 TTACTTGTTGACAAATTAAACATCTCGAGACA
24870002 AACTCTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (32 bp):
TTACTTGTTGACAAATTAAACATCTCGAGACA
Found at i:24877174 original size:18 final size:16
Alignment explanation
Indices: 24877126--24877170 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
24877116 AAGGATGAAC
*
24877126 TAAAAATAAATTAAAA
1 TAAAAATAAAATAAAA
24877142 TAAAAAGTAAAATAAAA
1 TAAAAA-TAAAATAAAA
24877159 GTAAAAATAAAA
1 -TAAAAATAAAA
24877171 ATAATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 6 0.23
17 14 0.54
18 6 0.23
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:24877179 original size:25 final size:24
Alignment explanation
Indices: 24877138--24877185 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
24877128 AAAATAAATT
24877138 AAAATAAAAAGTAAAATAAAAGTA
1 AAAATAAAAAGTAAAATAAAAGTA
24877162 AAAATAAAAA-TAATAAATAAAAGT
1 AAAATAAAAAGT-A-AAATAAAAGT
24877186 CTTTAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.05
24 11 0.50
25 10 0.45
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAATAAAAAGTAAAATAAAAGTA
Found at i:24877183 original size:12 final size:12
Alignment explanation
Indices: 24877126--24877185 Score: 63
Period size: 12 Copynumber: 5.1 Consensus size: 12
24877116 AAGGATGAAC
24877126 TAAAAAT-AAA-
1 TAAAAATAAAAG
*
24877136 TTAAAATAAAAAG
1 TAAAAAT-AAAAG
24877149 T-AAAATAAAAG
1 TAAAAATAAAAG
*
24877160 TAAAAATAAAAA
1 TAAAAATAAAAG
24877172 TAATAAATAAAAG
1 TAA-AAATAAAAG
24877185 T
1 T
24877186 CTTTAATCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
10 6 0.14
11 6 0.14
12 20 0.48
13 10 0.24
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (12 bp):
TAAAAATAAAAG
Found at i:24882072 original size:24 final size:24
Alignment explanation
Indices: 24882040--24882145 Score: 166
Period size: 24 Copynumber: 4.5 Consensus size: 24
24882030 AATCTCAAAT
24882040 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
24882064 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
24882088 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
24882112 GCACTATGTGTGCGA---ACTAAT-
1 GCACTATGTGTGCGATTTACT-ATG
24882133 GCACTATGTGTGC
1 GCACTATGTGTGC
24882146 AACGTTTGGT
Statistics
Matches: 79, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
21 16 0.20
22 2 0.03
24 61 0.77
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:24889918 original size:24 final size:24
Alignment explanation
Indices: 24889886--24889970 Score: 161
Period size: 24 Copynumber: 3.5 Consensus size: 24
24889876 AATCTCAAAT
24889886 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
24889910 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
24889934 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
24889958 GCACTATGTGTGC
1 GCACTATGTGTGC
24889971 AACGTTTGGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:24893017 original size:40 final size:39
Alignment explanation
Indices: 24892852--24893035 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
24892842 AAATTGAATG
* * *
24892852 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
24892892 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
24892932 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
24892972 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
24893011 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
24893036 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:24893060 original size:80 final size:81
Alignment explanation
Indices: 24892892--24893080 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
24892882 GCTGGAAATT
* * * *
24892892 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
24892957 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
24892973 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
24893036 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
24893052 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
24893081 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:24901107 original size:40 final size:39
Alignment explanation
Indices: 24900942--24901125 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
24900932 AAATTGAATG
* * *
24900942 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
24900982 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
24901022 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
24901062 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
24901101 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
24901126 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:24901150 original size:80 final size:81
Alignment explanation
Indices: 24900982--24901170 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
24900972 GCTGGAAATT
* * * *
24900982 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
24901047 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
24901063 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
24901126 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
24901142 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
24901171 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:24902742 original size:55 final size:55
Alignment explanation
Indices: 24902676--24902803 Score: 247
Period size: 55 Copynumber: 2.3 Consensus size: 55
24902666 CGAATCTGTC
24902676 AAAACAACATGGGCGTGCGACATGCCCGTGTCTAGAGGCCATGGTTGAAACTGAG
1 AAAACAACATGGGCGTGCGACATGCCCGTGTCTAGAGGCCATGGTTGAAACTGAG
24902731 AAAACAACATGGGCGTGCGACATGCCCGTGTCTAGAGGCCATGGTTGAAACTGAG
1 AAAACAACATGGGCGTGCGACATGCCCGTGTCTAGAGGCCATGGTTGAAACTGAG
*
24902786 AAAACAACACGGGCGTGC
1 AAAACAACATGGGCGTGC
24902804 AACACACCAG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 72 1.00
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.16
Consensus pattern (55 bp):
AAAACAACATGGGCGTGCGACATGCCCGTGTCTAGAGGCCATGGTTGAAACTGAG
Found at i:24902828 original size:55 final size:55
Alignment explanation
Indices: 24902676--24902854 Score: 146
Period size: 55 Copynumber: 3.3 Consensus size: 55
24902666 CGAATCTGTC
* * ** * * * *
24902676 AAAACAACATGGGCGTGCGACATGCCCGTGTCTAGAGGCCATGGTTGAAACTGAG
1 AAAACAACACGGGCGTGCAACACACCAGTGCCCAGAGCCCATGGTTGAAACTGAG
* * ** * * * *
24902731 AAAACAACATGGGCGTGCGACATGCCCGTGTCTAGAGGCCATGGTTGAAACTGAG
1 AAAACAACACGGGCGTGCAACACACCAGTGCCCAGAGCCCATGGTTGAAACTGAG
* * *
24902786 AAAACAACACGGGCGTGCAACACACCAGTGCCCATTA-CCCATGG-TCAAGACTGAT
1 AAAACAACACGGGCGTGCAACACACCAGTGCCCA-GAGCCCATGGTTGAA-ACTGAG
*
24902841 AAAATAACACGGGC
1 AAAACAACACGGGC
24902855 ATGGACATCC
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
54 3 0.03
55 106 0.96
56 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.16
Consensus pattern (55 bp):
AAAACAACACGGGCGTGCAACACACCAGTGCCCAGAGCCCATGGTTGAAACTGAG
Found at i:24913660 original size:30 final size:28
Alignment explanation
Indices: 24913620--24913692 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
24913610 GACAAGATTG
* *
24913620 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTT--AATTATACA
* * *
24913650 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGGGTTTAATTATACA
24913678 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
24913693 ATTCACTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 20 0.54
30 17 0.46
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTTTAATTATACA
Found at i:24921627 original size:30 final size:28
Alignment explanation
Indices: 24921587--24921659 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
24921577 GACAAGATTG
* *
24921587 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTT--AATTATACA
* * *
24921617 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGGGTTTAATTATACA
24921645 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
24921660 ATTCACTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 20 0.54
30 17 0.46
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTTTAATTATACA
Found at i:24934416 original size:45 final size:44
Alignment explanation
Indices: 24934325--24934455 Score: 174
Period size: 45 Copynumber: 3.0 Consensus size: 44
24934315 CCGAATTTAT
* * * *
24934325 TCACCGGCATT-TTGCCTGCTAGGCTCGAGGCCCAAAAAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
* *
24934368 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAATATC
*
24934413 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAATA
1 TCACCGGCATTATAGCCTGCTAGGCT-CAAGGCCCGAATAATA
24934456 CTGTACAACA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
43 10 0.13
44 14 0.18
45 51 0.67
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
Found at i:24938007 original size:71 final size:71
Alignment explanation
Indices: 24937891--24938033 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
24937881 TAACACCCTG
*
24937891 AATTTGGGCCTAGAAGTTTTGGGCCTTGAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTG
1 AATTTGGGCCTAGAAGTTTTGGGCCTTAAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTG
24937956 TTGTGC
66 TTGTGC
24937962 AATTTGGGCCTAGAAGTTTTGGGCCTTAAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTG
1 AATTTGGGCCTAGAAGTTTTGGGCCTTAAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTG
24938027 TTGTGC
66 TTGTGC
24938033 A
1 A
24938034 TGTAAATTTC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.32
Consensus pattern (71 bp):
AATTTGGGCCTAGAAGTTTTGGGCCTTAAGCATGGGAGCGGTTGAAGGCAGCTTATAATATTCTG
TTGTGC
Found at i:24938861 original size:27 final size:27
Alignment explanation
Indices: 24938831--24939122 Score: 404
Period size: 27 Copynumber: 10.8 Consensus size: 27
24938821 AATACCAAAG
*
24938831 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
24938858 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
24938885 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
24938912 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
24938939 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
24938966 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
24938993 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * **
24939020 TACCCTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
24939047 TACCTTCAATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
**
24939074 TACCCTCGATTTATGGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
24939101 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
24939123 CGAAATACCC
Statistics
Matches: 239, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 239 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:24939154 original size:27 final size:27
Alignment explanation
Indices: 24939117--24939311 Score: 257
Period size: 27 Copynumber: 7.2 Consensus size: 27
24939107 CGATTTACAA
*
24939117 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
24939144 AAATACTGAAATACCAC-TGTAGGGTAG
1 AATTACTGAAATACC-CTTGTAGGGTAG
* *
24939171 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
24939198 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
24939225 AAATACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
24939252 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * * *
24939279 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
24939306 AATTAC
1 AATTAC
24939312 CATTTTACCC
Statistics
Matches: 149, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 147 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:24939304 original size:81 final size:81
Alignment explanation
Indices: 24939117--24939296 Score: 317
Period size: 81 Copynumber: 2.2 Consensus size: 81
24939107 CGATTTACAA
24939117 AATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCACTGTAGGGTAGAATTACTAAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCACTGTAGGGTAGAATTACTAAAA
*
24939182 TACCCCTGTAGGGTAG
66 TACCCCTATAGGGTAG
*
24939198 AATTACTGAAATACCCTTGTAGGGTAGAAATACTGAAATACC-CTTGTAGGGTAGAATTACTAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCAC-TGTAGGGTAGAATTACTAAA
24939262 ATACCCCTATAGGGTAG
65 ATACCCCTATAGGGTAG
*
24939279 AATTACCGAGATACCCTT
1 AATTACCGAAATACCCTT
24939297 ATGGGGTAAA
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
80 1 0.01
81 93 0.99
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCACTGTAGGGTAGAATTACTAAAA
TACCCCTATAGGGTAG
Found at i:24939676 original size:26 final size:27
Alignment explanation
Indices: 24939647--24939706 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
24939637 CCACATATAT
*
24939647 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
24939673 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
24939700 ATATCTG
1 ATATCTG
24939707 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:24939865 original size:25 final size:25
Alignment explanation
Indices: 24939825--24939971 Score: 102
Period size: 25 Copynumber: 5.7 Consensus size: 25
24939815 TTGCATTCAC
*
24939825 ATTCTAATTCTGATTCTATTACCTG
1 ATTCTGATTCTGATTCTATTACCTG
* * *
24939850 ATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTATTACCTG
* * *
24939875 ATTTTGATTCTGGTTCTGATTCTAATTCT-
1 ATTCTGATTCTGATTCT-A-T-T-A-CCTG
*
24939904 ATTACCTGATACTGATTCTGATT--CTG
1 ATT--CTGATTCTGATTCT-ATTACCTG
* * *
24939930 ATTCTGATTTTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTATTACCTG
24939955 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
24939972 GATTCTCATT
Statistics
Matches: 95, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
23 1 0.01
24 12 0.13
25 56 0.59
26 3 0.03
27 1 0.01
28 1 0.01
29 5 0.05
30 3 0.03
31 13 0.14
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTATTACCTG
Found at i:24939866 original size:31 final size:31
Alignment explanation
Indices: 24939825--24939934 Score: 127
Period size: 31 Copynumber: 3.5 Consensus size: 31
24939815 TTGCATTCAC
*
24939825 ATTCTAATTCTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTATTACCTGATACTG
* *
24939856 ATTCTGATTCTG-TTACCTAATT--TTGATTCTG
1 ATTCTGATTCTGATT--CT-ATTACCTGATACTG
* *
24939887 GTTCTGATTCTAATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTATTACCTGATACTG
24939918 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
24939935 GATTTTGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
29 3 0.05
30 4 0.06
31 50 0.78
32 4 0.06
33 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATTACCTGATACTG
Found at i:24939894 original size:37 final size:37
Alignment explanation
Indices: 24939847--24939977 Score: 136
Period size: 37 Copynumber: 3.4 Consensus size: 37
24939837 ATTCTATTAC
*
24939847 CTGATACTGATTCTGATTCTGTTACCTAATTTTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTTTGATT
* * *
24939884 CTGGTTCTGATTCTAATTCTATTACCTGATACTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCT-A-A-T--TT-TGATT
* * * *
24939927 CTGATTCTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTTTGATT
24939964 CTGATTCTGATTCT
1 CTGATTCTGATTCT
24939978 CATTTTGATT
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
37 41 0.54
38 2 0.03
39 1 0.01
40 2 0.03
41 1 0.01
42 2 0.03
43 27 0.36
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATTTTGATT
Done.