Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 111 of 378
Found at i:30859596 original size:26 final size:26
Alignment explanation
Indices: 30859566--30859621 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
30859556 TGAAATGCCC
30859566 ATCATAGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
*
30859592 ATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
30859618 ATCA
1 ATCA
30859622 ATTTTTTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAACCCATT
Found at i:30861811 original size:29 final size:29
Alignment explanation
Indices: 30861778--30861851 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
30861768 GTGACGAGAT
30861778 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30861807 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30861836 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30861852 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30861867 original size:29 final size:29
Alignment explanation
Indices: 30861835--30861910 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
30861825 CTGGAAATAT
* *
30861835 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
30861864 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
30861893 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
30861911 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:30869686 original size:29 final size:29
Alignment explanation
Indices: 30869653--30869726 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
30869643 GTGACGAGAT
30869653 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30869682 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30869711 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30869727 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30869742 original size:29 final size:28
Alignment explanation
Indices: 30869710--30869784 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
30869700 CTGGAAATAT
* *
30869710 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
30869739 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
30869767 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
30869785 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:30869753 original size:58 final size:57
Alignment explanation
Indices: 30869653--30869784 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
30869643 GTGACGAGAT
* * * * * *
30869653 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
30869711 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
30869768 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
30869785 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:30877674 original size:26 final size:26
Alignment explanation
Indices: 30877644--30877699 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
30877634 TGAAATGCCC
*
30877644 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30877670 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30877696 ATCA
1 ATCA
30877700 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30882276 original size:12 final size:12
Alignment explanation
Indices: 30882259--30882283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30882249 TGACATCTCG
30882259 TATGATATTTGA
1 TATGATATTTGA
30882271 TATGATATTTGA
1 TATGATATTTGA
30882283 T
1 T
30882284 GCATCTCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TATGATATTTGA
Found at i:30882568 original size:27 final size:28
Alignment explanation
Indices: 30882538--30882606 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
30882528 ATAGTAAGTC
*
30882538 CGCACACTTAGTGCT-TA-ATAGTCAACT
1 CGCACACTTAGTGCTATACA-AGTAAACT
*
30882565 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAAGTAAACT
30882593 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30882607 CAATCTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 15 0.39
28 22 0.58
29 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAAGTAAACT
Found at i:30886039 original size:40 final size:40
Alignment explanation
Indices: 30885976--30886068 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
30885966 ATCTTCGTCT
* * **
30885976 AACCCAACACACC-A-TGTGGGGATAAAATTGACCCACCC
1 AACCCTACACACCAAGTATGGGGATAAAATCAACCCACCC
* *
30886014 ATCCCTACACACCAAGTATGGGGATAAAATCAACCCATCC
1 AACCCTACACACCAAGTATGGGGATAAAATCAACCCACCC
30886054 AACCCTACACACCAA
1 AACCCTACACACCAA
30886069 ATGGTACCGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
38 11 0.24
39 1 0.02
40 34 0.74
ACGTcount: A:0.39, C:0.35, G:0.12, T:0.14
Consensus pattern (40 bp):
AACCCTACACACCAAGTATGGGGATAAAATCAACCCACCC
Found at i:30892363 original size:25 final size:25
Alignment explanation
Indices: 30892316--30892363 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
30892306 TTCAGTTTAC
*
30892316 ACTACCTAAAGTGTTTCAGTAACGT
1 ACTACCTAAAGTGTCTCAGTAACGT
*
30892341 ACTACCTATAGTAGTCTCA-TAAC
1 ACTACCTAAAGT-GTCTCAGTAAC
30892364 ACATACACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (25 bp):
ACTACCTAAAGTGTCTCAGTAACGT
Found at i:30894560 original size:46 final size:46
Alignment explanation
Indices: 30894436--30894560 Score: 214
Period size: 46 Copynumber: 2.7 Consensus size: 46
30894426 TGTAACCCGC
* * *
30894436 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
30894482 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30894528 CCATAAGTGAACTCGGACTCAACTCAATGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
30894561 TGGATGCCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30896383 original size:13 final size:13
Alignment explanation
Indices: 30896365--30896408 Score: 88
Period size: 13 Copynumber: 3.4 Consensus size: 13
30896355 TCACACGCCT
30896365 GTGTGCCCTGCCC
1 GTGTGCCCTGCCC
30896378 GTGTGCCCTGCCC
1 GTGTGCCCTGCCC
30896391 GTGTGCCCTGCCC
1 GTGTGCCCTGCCC
30896404 GTGTG
1 GTGTG
30896409 GGCCCACATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.00, C:0.41, G:0.34, T:0.25
Consensus pattern (13 bp):
GTGTGCCCTGCCC
Found at i:30899408 original size:40 final size:40
Alignment explanation
Indices: 30899353--30899574 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
30899343 TATTCGGTTG
*
30899353 ATATCCGGGCTAAGTCCCGAAGGCATTTCTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
30899393 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
30899433 ATATTCGGGCTAAGTTCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
30899473 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* ** *
30899513 GTATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
30899553 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
30899575 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 14 0.09
40 147 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:30901296 original size:11 final size:11
Alignment explanation
Indices: 30901273--30901306 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
30901263 ATGTCAAATC
*
30901273 ATCAAGAATAA
1 ATCAAGAACAA
*
30901284 ATTAAGAACAA
1 ATCAAGAACAA
30901295 ATCAAGAACAA
1 ATCAAGAACAA
30901306 A
1 A
30901307 AATAGATGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.15
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:30906254 original size:18 final size:19
Alignment explanation
Indices: 30906219--30906255 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30906209 TGAATAGGCC
*
30906219 AAATGGGCCGGAATGGGCT
1 AAATGGGCCCGAATGGGCT
30906238 AAATGGGCCCG-ATGGGCT
1 AAATGGGCCCGAATGGGCT
30906256 GTTGGGCCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.24, C:0.19, G:0.41, T:0.16
Consensus pattern (19 bp):
AAATGGGCCCGAATGGGCT
Found at i:30906355 original size:28 final size:28
Alignment explanation
Indices: 30906324--30906440 Score: 107
Period size: 28 Copynumber: 4.1 Consensus size: 28
30906314 GTGAGCATGA
30906324 ATAT-AATGTGATTTGGGCTAGATGGGCC
1 ATATAAATGTGA-TTGGGCTAGATGGGCC
*
30906352 ATATAAATGAGATTGGGCCT-GATGGGCC
1 ATATAAATGTGATTGGG-CTAGATGGGCC
* **
30906380 ATATGAACATG-AATTGGGCCGGATGGGCC
1 ATAT-AA-ATGTGATTGGGCTAGATGGGCC
* *
30906409 ATATAAATGGGATTAGGCATA-ATGGGCC
1 ATATAAATGTGATTGGGC-TAGATGGGCC
30906437 ATAT
1 ATAT
30906441 GCATGTATGT
Statistics
Matches: 75, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
27 3 0.04
28 41 0.55
29 28 0.37
30 3 0.04
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCTAGATGGGCC
Found at i:30906404 original size:29 final size:28
Alignment explanation
Indices: 30906344--30906440 Score: 115
Period size: 28 Copynumber: 3.4 Consensus size: 28
30906334 ATTTGGGCTA
*
30906344 GATGGGCCATATAAATGAGATTGGGCCT
1 GATGGGCCATATAAATGAGATTGGGCCG
30906372 GATGGGCCATATGAACATGA-ATTGGGCCG
1 GATGGGCCATAT-AA-ATGAGATTGGGCCG
* * **
30906401 GATGGGCCATATAAATGGGATTAGGCAT
1 GATGGGCCATATAAATGAGATTGGGCCG
*
30906429 AATGGGCCATAT
1 GATGGGCCATAT
30906441 GCATGTATGT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
27 3 0.05
28 31 0.52
29 22 0.37
30 4 0.07
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (28 bp):
GATGGGCCATATAAATGAGATTGGGCCG
Found at i:30908719 original size:7 final size:7
Alignment explanation
Indices: 30908707--30908740 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
30908697 CTGTAAAACA
30908707 AGCGATT
1 AGCGATT
30908714 AGCGATT
1 AGCGATT
30908721 AGCGATT
1 AGCGATT
30908728 AGCGATT
1 AGCGATT
30908735 AGCGAT
1 AGCGAT
30908741 CCACCTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (7 bp):
AGCGATT
Found at i:30908925 original size:20 final size:20
Alignment explanation
Indices: 30908900--30908944 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
30908890 TATACGAAAA
*
30908900 TTAAAACTTTAAAACTTTAT
1 TTAAAACCTTAAAACTTTAT
*
30908920 TTAAAACCTTAAAATTTTAT
1 TTAAAACCTTAAAACTTTAT
30908940 TTAAA
1 TTAAA
30908945 GAATCAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAAACCTTAAAACTTTAT
Found at i:30909191 original size:11 final size:11
Alignment explanation
Indices: 30909168--30909201 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
30909158 ATGTCAAATC
*
30909168 ATCAAGAATAA
1 ATCAAGAACAA
*
30909179 ATTAAGAACAA
1 ATCAAGAACAA
30909190 ATCAAGAACAA
1 ATCAAGAACAA
30909201 A
1 A
30909202 ACTGGATGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.15
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:30916126 original size:43 final size:43
Alignment explanation
Indices: 30916065--30916334 Score: 316
Period size: 43 Copynumber: 6.3 Consensus size: 43
30916055 TATTTGAAAA
*
30916065 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGATCACGACCTTTAGCGGCGCTTTTTCCAC
* * * *
30916108 AAACGCCACTAAAGATCATGACCTATAGCGGAGCTTTTTCCAC
1 AAACGCCGCTAAAGATCACGACCTTTAGCGGCGCTTTTTCCAC
** **
30916151 AAACATCGCTAAAGATCGA-GA-CTTATAGCGATGCTTTTTCCAC
1 AAACGCCGCTAAAGATC-ACGACCTT-TAGCGGCGCTTTTTCCAC
* * *
30916194 AAACGCCGCTAAAGATCAAGACCTATAGCGGTGC-TTTTCCTAC
1 AAACGCCGCTAAAGATCACGACCTTTAGCGGCGCTTTTTCC-AC
* * *
30916237 AAACGCCGTTAAAGATCACGACCTTTAGCGACGCTTTTTCTAC
1 AAACGCCGCTAAAGATCACGACCTTTAGCGGCGCTTTTTCCAC
*
30916280 AAACGCC-CTAAAGATCACGACCTTTAGCGGCGC-TTTTCTCAA
1 AAACGCCGCTAAAGATCACGACCTTTAGCGGCGCTTTTTC-CAC
*
30916322 AAACGCTGCTAAA
1 AAACGCCGCTAAA
30916335 AGTCATGAAA
Statistics
Matches: 195, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
41 5 0.03
42 40 0.21
43 142 0.73
44 8 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCACGACCTTTAGCGGCGCTTTTTCCAC
Found at i:30920524 original size:19 final size:19
Alignment explanation
Indices: 30920502--30920546 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
30920492 TTAATCTCTA
*
30920502 TTTTATATTTTATTTTTAT
1 TTTTATATTTCATTTTTAT
*
30920521 TTTTGTATTTCATTTTTAT
1 TTTTATATTTCATTTTTAT
30920540 TTGTTAT
1 TT-TTAT
30920547 CAATGTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTTATATTTCATTTTTAT
Found at i:30920929 original size:7 final size:7
Alignment explanation
Indices: 30920888--30920931 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
30920878 CTAAAATATA
*
30920888 AACCATT
1 AACCCTT
*
30920895 AACCCTG
1 AACCCTT
*
30920902 AACCCAT
1 AACCCTT
*
30920909 AACCCAT
1 AACCCTT
30920916 AACCCTT
1 AACCCTT
30920923 AACCCTT
1 AACCCTT
30920930 AA
1 AA
30920932 ACTTTAAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.39, C:0.39, G:0.02, T:0.20
Consensus pattern (7 bp):
AACCCTT
Found at i:30921037 original size:14 final size:14
Alignment explanation
Indices: 30920993--30921031 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
30920983 TCATAAACCT
*
30920993 TAAACCCTCAATCA
1 TAAACCCTAAATCA
*
30921007 TATACCCTAAATCA
1 TAAACCCTAAATCA
30921021 TAAACCCTAAA
1 TAAACCCTAAA
30921032 CTATAATGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:30921239 original size:15 final size:15
Alignment explanation
Indices: 30921196--30921249 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
30921186 TATAAACTCT
* *
30921196 TAAT-CCTAGACCCC
1 TAATCCCTAAACCCA
30921210 TAA-CCCTTAAA-CCA
1 TAATCCC-TAAACCCA
30921224 TAATCCCTAAACCCA
1 TAATCCCTAAACCCA
*
30921239 TAATCCATAAA
1 TAATCCCTAAA
30921250 ACTTAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 14 0.42
15 19 0.58
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (15 bp):
TAATCCCTAAACCCA
Found at i:30921246 original size:22 final size:21
Alignment explanation
Indices: 30921207--30921248 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
30921197 AATCCTAGAC
*
30921207 CCCTAACCCTTAAACCATAAT
1 CCCTAACCCATAAACCATAAT
*
30921228 CCCTAAACCCATAATCCATAA
1 CCCT-AACCCATAAACCATAA
30921249 AACTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAACCCATAAACCATAAT
Found at i:30921490 original size:24 final size:24
Alignment explanation
Indices: 30921447--30921511 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 24
30921437 AGGGGTTATA
30921447 GTTTAGG-GTTTAAGAT-TTTTTAAG
1 GTTTAGGAGTTT-AG-TGTTTTTAAG
30921471 GTTTAGGAGTTTAGTG-TTTTAAG
1 GTTTAGGAGTTTAGTGTTTTTAAG
* * *
30921494 GATTA-TAGATTAGTGTTT
1 GTTTAGGAGTTTAGTGTTT
30921512 ATGATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 8 0.23
23 14 0.40
24 9 0.26
25 4 0.11
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (24 bp):
GTTTAGGAGTTTAGTGTTTTTAAG
Found at i:30921500 original size:54 final size:53
Alignment explanation
Indices: 30921419--30921521 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 53
30921409 TGTGATGTTT
* * *
30921419 TTTAGGGTCTAGTATTTTAGGGGTTATAGTTTAGGGTTTAAGATTTTTTAAGG
1 TTTAGGGTCTAGTATTTTAAGGATTATAGATTAGGGTTTAAGATTTTTTAAGG
* * * *
30921472 TTTAGGAGTTTAGTGTTTTAAGGATTATAGATTAGTGTTTATGATTTTTT
1 TTTAGG-GTCTAGTATTTTAAGGATTATAGATTAGGGTTTAAGATTTTTT
30921522 GGGGGGTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 6 0.14
54 36 0.86
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.50
Consensus pattern (53 bp):
TTTAGGGTCTAGTATTTTAAGGATTATAGATTAGGGTTTAAGATTTTTTAAGG
Found at i:30921625 original size:41 final size:40
Alignment explanation
Indices: 30921553--30921793 Score: 207
Period size: 41 Copynumber: 5.9 Consensus size: 40
30921543 GTTATATGAC
* * * *
30921553 TTTTAGCGGCATTTTCCCGAAAGCACCGCTAATGCTCCGAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCG-T
* *
30921594 TTTTAGCGGCGTTTTACCAAAAGTGCTGCTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCC-GT
*
30921635 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTCAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC-CGT
* * *** * *
30921676 TTTTAGTGGCATTTTTGGTAAAA-CGCCGCTATTGCTCTGT
1 TTTTAGCGGC-GTTTTACCAAAAGCGCCGCTAATGCTCCGT
* * ** *
30921716 TTTTAGCAGCGTTTTAACAAAAAATGCCGCTATTGC-CCTGT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCC-GT
* ** *
30921757 TTGTAGCGGCGTTTTACCAAAAATGCCGCTATTGCTC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
30921794 TATGTTTTAC
Statistics
Matches: 165, Mismatches: 28, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
39 4 0.02
40 33 0.20
41 118 0.72
42 10 0.06
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.34
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGT
Found at i:30921664 original size:82 final size:81
Alignment explanation
Indices: 30921553--30921793 Score: 229
Period size: 82 Copynumber: 3.0 Consensus size: 81
30921543 GTTATATGAC
* * * *
30921553 TTTTAGCGGCATTTTCCCGAAAGCACCGCTAATGCTCCGATTTTTAGCGGCGTTTTACCAAAAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGATTTTTAGCGGCGTTTTACCAAAA-T
* *
30921618 GCTGCTAATGCTCCGGT
65 GCCGCTATTGCTCCGGT
* * ***
30921635 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTC-ATTTTTAGTGGCATTTTTGGTAAAA
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC-CGATTTTTAGCGGC-GTTTTACCAAAA
* *
30921699 CGCCGCTATTGCT-CTGT
64 TGCCGCTATTGCTCCGGT
* * ** * *
30921716 TTTTAGCAGCGTTTTAACAAAAAATGCCGCTATTGC-CCTG-TTTGTAGCGGCGTTTTACCAAAA
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCC-GATTTTTAGCGGCGTTTTACC-AAA
30921779 ATGCCGCTATTGCTC
63 ATGCCGCTATTGCTC
30921794 TATGTTTTAC
Statistics
Matches: 127, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
80 5 0.04
81 43 0.34
82 70 0.55
83 9 0.07
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.34
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGATTTTTAGCGGCGTTTTACCAAAATG
CCGCTATTGCTCCGGT
Found at i:30921771 original size:122 final size:123
Alignment explanation
Indices: 30921578--30921802 Score: 303
Period size: 122 Copynumber: 1.8 Consensus size: 123
30921568 CCCGAAAGCA
* * * * *
30921578 CCGCTAATGCTCCGATTTTTAGCGGCGTTTTACCAAAAGTGCTGCTAATGCTCCGGTTTTTAGCG
1 CCGCTAATGCTCCGATTTTTAGCAGCGTTTTACAAAAAATGCCGCTAATGCTCCGGTTTGTAGCG
*
30921643 GCGTTTTACCAAAAGCGCCGCTAATGCTCTCAT-TTTTAGTGGCATTTTTGGTAAAACG
66 GCGTTTTACCAAAAACGCCGCTAATGCTCT-ATGTTTTAGTGGCATTTTTGGTAAAACG
* * * *
30921701 CCGCTATTGCTCTG-TTTTTAGCAGCGTTTTAACAAAAAATGCCGCTATTGC-CCTGTTTGTAGC
1 CCGCTAATGCTCCGATTTTTAGCAGCGTTTT-ACAAAAAATGCCGCTAATGCTCCGGTTTGTAGC
* *
30921764 GGCGTTTTACCAAAAATGCCGCTATTGCTCTATGTTTTA
65 GGCGTTTTACCAAAAACGCCGCTAATGCTCTATGTTTTA
30921803 CAATTTTTGT
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
121 2 0.02
122 58 0.66
123 28 0.32
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (123 bp):
CCGCTAATGCTCCGATTTTTAGCAGCGTTTTACAAAAAATGCCGCTAATGCTCCGGTTTGTAGCG
GCGTTTTACCAAAAACGCCGCTAATGCTCTATGTTTTAGTGGCATTTTTGGTAAAACG
Found at i:30921841 original size:12 final size:12
Alignment explanation
Indices: 30921826--30921851 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30921816 ATTTTTTGGT
30921826 AAAACGCCGCTA
1 AAAACGCCGCTA
30921838 AAAACGCCGCTA
1 AAAACGCCGCTA
30921850 AA
1 AA
30921852 GCCCTGTTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:30922504 original size:301 final size:301
Alignment explanation
Indices: 30921959--30922515 Score: 990
Period size: 301 Copynumber: 1.9 Consensus size: 301
30921949 ATTTGAGTTC
*
30921959 TTTCCAGGTAAGTTAAAATCACATTGGTCCGATCCATTTGTGATTCACCGATTTTATCCATACAG
1 TTTCCAGGTAAGTTAAAATCACATTGGTCCGATCCATTTGTGATTCACCAATTTTATCCATACAG
30922024 AGTTGTCGAACTTCAAAGTAAGAGAGGCAATTTTTTTGAGTTAATGCTCAACGCTCAAAACAATA
66 AGTTGTCGAACTTCAAAGTAAGAGAGGCAATTTTTTTGAGTTAATGCTCAACGCTCAAAACAATA
*
30922089 CTGGGGAGATAAAATTGAAAGGGATCAAATCTCATTCATTTTATCAGATGATTAATTTTTCTTGT
131 CTGGGGAGATAAAATTGAAAGGGATCAAATCTCATTCATTTTATCAGATGATTAATTTTTCTTAT
*
30922154 TTTCCTTTTTAAATAAATCATTTAGGGTATATTTTTGGGATTAGTATGTTTTAATAAATTCAAAG
196 TTTCCTTTTTAAATAAATCATTTAGGGAATATTTTTGGGATTAGTATGTTTTAATAAATTCAAAG
30922219 CAGGTCAGCAAGTCTTGTTATTCAATTCCAAATTAAGGTTT
261 CAGGTCAGCAAGTCTTGTTATTCAATTCCAAATTAAGGTTT
* * *
30922260 TTTCCAGGTAAGTTAAAATCACATTGGTTCGGTCCATTTGTGATTCACCAATTTTATCCATACGG
1 TTTCCAGGTAAGTTAAAATCACATTGGTCCGATCCATTTGTGATTCACCAATTTTATCCATACAG
*
30922325 AGTTGTCGAACTTCAAAGTAAGAGAGGTAATTTTTTTGAGTTAATGCTCAACGCTCAAAACAATA
66 AGTTGTCGAACTTCAAAGTAAGAGAGGCAATTTTTTTGAGTTAATGCTCAACGCTCAAAACAATA
* * *
30922390 CTGGGGAGATAAAATTGAACGGGATCATATCTCGTTCA-TTTATCAGATGATTAATTTTTCTTAT
131 CTGGGGAGATAAAATTGAAAGGGATCAAATCTCATTCATTTTATCAGATGATTAATTTTTCTTAT
* *
30922454 TTTCCTTTTTAAATAAATTATTTAGGGAATATTTTTTGGGATTTGTATGTTTTAATAAATTC
196 TTTCCTTTTTAAATAAATCATTTAGGGAATA-TTTTTGGGATTAGTATGTTTTAATAAATTC
30922516 TGTCTAAGAG
Statistics
Matches: 243, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
300 54 0.22
301 189 0.78
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (301 bp):
TTTCCAGGTAAGTTAAAATCACATTGGTCCGATCCATTTGTGATTCACCAATTTTATCCATACAG
AGTTGTCGAACTTCAAAGTAAGAGAGGCAATTTTTTTGAGTTAATGCTCAACGCTCAAAACAATA
CTGGGGAGATAAAATTGAAAGGGATCAAATCTCATTCATTTTATCAGATGATTAATTTTTCTTAT
TTTCCTTTTTAAATAAATCATTTAGGGAATATTTTTGGGATTAGTATGTTTTAATAAATTCAAAG
CAGGTCAGCAAGTCTTGTTATTCAATTCCAAATTAAGGTTT
Found at i:30925134 original size:71 final size:71
Alignment explanation
Indices: 30925048--30925211 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30925038 CGATTTGTCT
30925048 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30925113 CTTTCA
66 CTTTCA
30925119 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30925184 CTTTCA
66 CTTTCA
30925190 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
30925212 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:30925249 original size:71 final size:70
Alignment explanation
Indices: 30925048--30925245 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
30925038 CGATTTGTCT
* * * *
30925048 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30925113 CTTTCA
65 CTTTCA
* * * *
30925119 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30925184 CTTTCA
65 CTTTCA
* *
30925190 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
30925246 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:30932710 original size:71 final size:71
Alignment explanation
Indices: 30932624--30932787 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30932614 CGATTTGTCT
30932624 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30932689 CTTTCA
66 CTTTCA
30932695 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30932760 CTTTCA
66 CTTTCA
30932766 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
30932788 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:30932825 original size:71 final size:70
Alignment explanation
Indices: 30932624--30932821 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
30932614 CGATTTGTCT
* * * *
30932624 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30932689 CTTTCA
65 CTTTCA
* * * *
30932695 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30932760 CTTTCA
65 CTTTCA
* *
30932766 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
30932822 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:30935233 original size:78 final size:81
Alignment explanation
Indices: 30935098--30935281 Score: 252
Period size: 78 Copynumber: 2.3 Consensus size: 81
30935088 TCGAATGATG
*
30935098 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
30935162 TGTGCGAGTTACTA-A
66 TATGCGAGTTACTATA
* * **
30935177 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
30935239 TTATGCGAGTTACTATA
65 TTATGCGAGTTACTATA
* *
30935256 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30935282 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
77 1 0.01
78 50 0.54
79 28 0.30
80 14 0.15
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TATGCGAGTTACTATA
Found at i:30935288 original size:40 final size:39
Alignment explanation
Indices: 30935099--30935281 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 39
30935089 CGAATGATGT
* * *
30935099 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
30935139 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
30935178 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
30935216 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30935257 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30935282 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 26 0.20
39 20 0.16
40 71 0.56
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30943393 original size:78 final size:81
Alignment explanation
Indices: 30943258--30943441 Score: 252
Period size: 78 Copynumber: 2.3 Consensus size: 81
30943248 TCGAATGATG
*
30943258 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
30943322 TGTGCGAGTTACTA-A
66 TATGCGAGTTACTATA
* * **
30943337 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
30943399 TTATGCGAGTTACTATA
65 TTATGCGAGTTACTATA
* *
30943416 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30943442 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
77 1 0.01
78 50 0.54
79 28 0.30
80 14 0.15
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TATGCGAGTTACTATA
Found at i:30943448 original size:40 final size:39
Alignment explanation
Indices: 30943259--30943441 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 39
30943249 CGAATGATGT
* * *
30943259 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
30943299 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
30943338 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
30943376 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30943417 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30943442 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 26 0.20
39 20 0.16
40 71 0.56
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30945444 original size:24 final size:25
Alignment explanation
Indices: 30945394--30945452 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
30945384 TTTTTTCTCC
30945394 TAAATTTTAATTTTATTTGATTAAT
1 TAAATTTTAATTTTATTTGATTAAT
30945419 TAAATTTTCAA-TTTA-TTGAATT-AT
1 TAAATTTT-AATTTTATTTG-ATTAAT
30945443 TAATATTTTA
1 TAA-ATTTTA
30945453 TACTAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
24 9 0.29
25 20 0.65
26 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (25 bp):
TAAATTTTAATTTTATTTGATTAAT
Found at i:30947262 original size:40 final size:40
Alignment explanation
Indices: 30947218--30947334 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 40
30947208 TAAAAATTGA
**
30947218 ATAAATCGGGTATTAGCGGCGTTTTTGA-AAAAACGCCGCT
1 ATAAATCGAATATTAGCGGCGTTTTT-ACAAAAACGCCGCT
* * *
30947258 ATAAATTGAATATTAGCGGCGTTTTTACTAAAGCGCCGCT
1 ATAAATCGAATATTAGCGGCGTTTTTACAAAAACGCCGCT
** * * *
30947298 ATAGGTC-TATCTATAGCGGCGTTTTTATAAAAACGCC
1 ATAAATCGAATAT-TAGCGGCGTTTTTACAAAAACGCC
30947335 ACTAAAGATT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
39 4 0.06
40 58 0.94
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (40 bp):
ATAAATCGAATATTAGCGGCGTTTTTACAAAAACGCCGCT
Found at i:30947467 original size:54 final size:54
Alignment explanation
Indices: 30947385--30947494 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
30947375 TGGTGGCAAT
*
30947385 AGCGGCACTTCACCAAAAACGCCGCTATAGGTTTGAGTATTAGCGGCGTTTTTA
1 AGCGGCACTTCACCAAAAACGCCGCTATAGGTTTGAGTATTAGCGGCATTTTTA
30947439 AGCGGCACTTCACCAAAAACGCCGCTATAGGTTTGAGTATTAGCGGCATTTTTA
1 AGCGGCACTTCACCAAAAACGCCGCTATAGGTTTGAGTATTAGCGGCATTTTTA
30947493 AG
1 AG
30947495 GAAGCGCCGC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (54 bp):
AGCGGCACTTCACCAAAAACGCCGCTATAGGTTTGAGTATTAGCGGCATTTTTA
Found at i:30947746 original size:41 final size:41
Alignment explanation
Indices: 30947592--30947747 Score: 181
Period size: 41 Copynumber: 3.8 Consensus size: 41
30947582 TTAGTGGCAA
** * *
30947592 TAGCGGCGCTTCCTAAAAAATGCCGCTATAGA-TTGAGTAT
1 TAGCGGCGCTTTTTAAAAAACGCCGCTATAGATTTGAGTTT
* *
30947632 TAGCGGCGCTTTTTCAAAAACGCCGCTA-AGGATTTGGGTTT
1 TAGCGGCGCTTTTTAAAAAACGCCGCTATA-GATTTGAGTTT
* * *
30947673 TAGTGGCGTTTTTATAAAAAACGCCGCAATAGATTTGAGTTT
1 TAGCGGCGCTTTT-TAAAAAACGCCGCTATAGATTTGAGTTT
**
30947715 TAGCGGCGCTTTTTGGAAAACGCCGCTATAGAT
1 TAGCGGCGCTTTTTAAAAAACGCCGCTATAGAT
30947748 GTAAACAATT
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 26 0.27
41 34 0.35
42 34 0.35
43 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (41 bp):
TAGCGGCGCTTTTTAAAAAACGCCGCTATAGATTTGAGTTT
Found at i:30948270 original size:14 final size:14
Alignment explanation
Indices: 30948223--30948273 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
30948213 TTTTAACCCC
30948223 TAAACCCATAAACTA
1 TAAACCC-TAAACTA
* * *
30948238 TAGACCTTAAA-TT
1 TAAACCCTAAACTA
30948251 TGAAACCCTAAACTA
1 T-AAACCCTAAACTA
30948266 TAAACCCT
1 TAAACCCT
30948274 TAATTAATGA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
13 2 0.07
14 19 0.68
15 7 0.25
ACGTcount: A:0.45, C:0.25, G:0.04, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:30948541 original size:14 final size:15
Alignment explanation
Indices: 30948507--30948544 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
30948497 AGGTTTATGC
30948507 ATGGTTTAGGGTAAAT
1 ATGGTTTAGGGT-AAT
*
30948523 ATGGTTTAGGGT-TT
1 ATGGTTTAGGGTAAT
30948537 ATGGTTTA
1 ATGGTTTA
30948545 TATGGATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
16 12 0.57
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.45
Consensus pattern (15 bp):
ATGGTTTAGGGTAAT
Found at i:30948785 original size:7 final size:7
Alignment explanation
Indices: 30948775--30948844 Score: 59
Period size: 7 Copynumber: 9.7 Consensus size: 7
30948765 GTTAAGGGGA
30948775 TAGGGTT
1 TAGGGTT
30948782 TAGGGTT
1 TAGGGTT
*
30948789 TAGTGTT
1 TAGGGTT
**
30948796 TAAAGTT
1 TAGGGTT
30948803 TAGGGATT
1 TAGGG-TT
*
30948811 AAGGGTT
1 TAGGGTT
*
30948818 TACGGTT
1 TAGGGTT
*
30948825 TAAGGTT
1 TAGGGTT
*
30948832 CAAGGGTT
1 -TAGGGTT
30948840 TAGGG
1 TAGGG
30948845 GTTAATGGGA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
7 38 0.78
8 11 0.22
ACGTcount: A:0.23, C:0.03, G:0.36, T:0.39
Consensus pattern (7 bp):
TAGGGTT
Found at i:30948825 original size:22 final size:21
Alignment explanation
Indices: 30948762--30948841 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 21
30948752 TGAGGGTCTA
** *
30948762 AGGGTTAAGGGGATAGGGTTT
1 AGGGTTAAGGGTTTAAGGTTT
* * *
30948783 AGGGTTTAGTGTTTAAAGTTT
1 AGGGTTAAGGGTTTAAGGTTT
*
30948804 AGGGATTAAGGGTTTACGGTTT
1 AGGG-TTAAGGGTTTAAGGTTT
*
30948826 AAGGTTCAAGGGTTTA
1 AGGGTT-AAGGGTTTA
30948842 GGGGTTAATG
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 21 0.46
22 25 0.54
ACGTcount: A:0.25, C:0.03, G:0.36, T:0.36
Consensus pattern (21 bp):
AGGGTTAAGGGTTTAAGGTTT
Found at i:30948844 original size:29 final size:28
Alignment explanation
Indices: 30948776--30948844 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
30948766 TTAAGGGGAT
*
30948776 AGGGTTTAGGGTTTAGTGTTTAAAGTTT
1 AGGGTTTAGGGTTTAGTGTTTAAAGTTA
* *
30948804 AGGGATTAAGGGTTTACG-GTTTAAGGTTCA
1 AGGG-TTTAGGGTTTA-GTGTTTAAAGTT-A
30948834 AGGGTTTAGGG
1 AGGGTTTAGGG
30948845 GTTAATGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 4 0.12
29 25 0.74
30 5 0.15
ACGTcount: A:0.23, C:0.03, G:0.36, T:0.38
Consensus pattern (28 bp):
AGGGTTTAGGGTTTAGTGTTTAAAGTTA
Found at i:30948847 original size:80 final size:80
Alignment explanation
Indices: 30948734--30948935 Score: 230
Period size: 80 Copynumber: 2.5 Consensus size: 80
30948724 TATAGTTTAG
* * * * *
30948734 GGGTTAAC-ATTTAAAGGTT-GAGGGTCTAAGGGTTAAGGGGATAGGGTTTAGGGTTTAGTGTTT
1 GGGTTAACGGTTT-AAGGTTAGAGGGTTTAGGGGTTAAGGGGACAGGATTTAGGGTTTAGTGTTT
30948797 AAAGTTTAGGGATTAA
65 AAAGTTTAGGGATTAA
* * * *
30948813 GGGTTTACGGTTTAAGGTTCA-AGGGTTTAGGGGTTAATGGGACATGATTTTGGGTTTAGTGTTT
1 GGGTTAACGGTTTAAGGTT-AGAGGGTTTAGGGGTTAAGGGGACAGGATTTAGGGTTTAGTGTTT
*
30948877 AAATTTTAGGGATTAA
65 AAAGTTTAGGGATTAA
* * *
30948893 GGGTTAATGGTTTAGGGTTATGAGGGGTTTAGGGATTAAGGGG
1 GGGTTAACGGTTTAAGGTTA-GA-GGGTTTAGGGGTTAAGGGG
30948936 GCATGGGTTA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
79 14 0.14
80 70 0.69
81 1 0.01
82 17 0.17
ACGTcount: A:0.25, C:0.02, G:0.37, T:0.36
Consensus pattern (80 bp):
GGGTTAACGGTTTAAGGTTAGAGGGTTTAGGGGTTAAGGGGACAGGATTTAGGGTTTAGTGTTTA
AAGTTTAGGGATTAA
Found at i:30949140 original size:21 final size:22
Alignment explanation
Indices: 30949118--30949160 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30949108 CTTTTAAATA
**
30949118 TTAGTTAAATTTAAAAAATTAT
1 TTAGTTAAATGAAAAAAATTAT
*
30949140 TTATTTAAATGAAAAAAATTA
1 TTAGTTAAATGAAAAAAATTA
30949161 AAATACTATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
TTAGTTAAATGAAAAAAATTAT
Found at i:30952276 original size:64 final size:64
Alignment explanation
Indices: 30952205--30952506 Score: 541
Period size: 64 Copynumber: 4.7 Consensus size: 64
30952195 TAATATTTCT
* *
30952205 ATATTTCTATCACAATTTTTAATGAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
* *
30952269 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATATAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
*
30952333 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
*
30952397 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
*
30952461 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATAT
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATAT
30952507 CAATAAAATC
Statistics
Matches: 231, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 231 1.00
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
Found at i:30952595 original size:19 final size:21
Alignment explanation
Indices: 30952557--30952598 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
30952547 AGTGAATATT
30952557 TTAATATTTATAGAATAAATA
1 TTAATATTTATAGAATAAATA
*
30952578 TTAA-ATTTATA-CATAAATA
1 TTAATATTTATAGAATAAATA
30952597 TT
1 TT
30952599 GATCAAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAATATTTATAGAATAAATA
Found at i:30953797 original size:24 final size:24
Alignment explanation
Indices: 30953770--30953836 Score: 93
Period size: 23 Copynumber: 2.8 Consensus size: 24
30953760 ATTATTATTG
*
30953770 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
30953794 AAATATTATTC-TCC-TTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
30953817 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
30953837 CCATTTAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.05
23 19 0.50
24 15 0.39
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:30954057 original size:15 final size:15
Alignment explanation
Indices: 30954013--30954068 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
30954003 AACGACATGT
30954013 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
30954029 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
30954042 ATATTATTTAATTAA
1 ATATTATTTAATTAA
30954057 ATATTATTTAAT
1 ATATTATTTAAT
30954069 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:30954185 original size:9 final size:9
Alignment explanation
Indices: 30954173--30954398 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
30954163 TATTTGATAT
*
30954173 CATAATTTA
1 CATAACTTA
30954182 CATAACTTA
1 CATAACTTA
* *
30954191 TATAACATA
1 CATAACTTA
*
30954200 TATAACTTA
1 CATAACTTA
30954209 CATAACTTA
1 CATAACTTA
* *
30954218 TATAACATA
1 CATAACTTA
30954227 CATAACTTA
1 CATAACTTA
*
30954236 TATAACTTA
1 CATAACTTA
*
30954245 TATAACTTA
1 CATAACTTA
* *
30954254 GATAA-ATA
1 CATAACTTA
*
30954262 TATAACTTA
1 CATAACTTA
30954271 CATAACTTA
1 CATAACTTA
30954280 CATAATACTTA
1 CAT-A-ACTTA
* *
30954291 AATATATTTTATA
1 CATA-A--CT-TA
*
30954304 TCATAATTTA
1 -CATAACTTA
30954314 CATAACTTA
1 CATAACTTA
30954323 CATAACTTA
1 CATAACTTA
*
30954332 TATAACTTA
1 CATAACTTA
* *
30954341 GATAA-ATA
1 CATAACTTA
* *
30954349 TATAATTTA
1 CATAACTTA
*
30954358 CATAA-ATA
1 CATAACTTA
* * *
30954366 TATATCATA
1 CATAACTTA
*
30954375 TCATAAATTA
1 -CATAACTTA
30954385 CATAACTTA
1 CATAACTTA
30954394 CATAA
1 CATAA
30954399 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:30954195 original size:18 final size:18
Alignment explanation
Indices: 30954173--30954398 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
30954163 TATTTGATAT
* *
30954173 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
30954191 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
30954209 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
30954227 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
30954245 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
30954262 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
30954280 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
30954304 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
30954323 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
30954341 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
30954358 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
30954375 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
30954394 CATAA
1 CATAA
30954399 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:30954386 original size:114 final size:114
Alignment explanation
Indices: 30954201--30954411 Score: 309
Period size: 114 Copynumber: 1.9 Consensus size: 114
30954191 TATAACATAT
* * *
30954201 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
*
30954266 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
* * * * *
30954315 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
30954378 TAAATTACATAACTTACATAATACTTAAATATAT
64 TAAATTACATAACTTACATAATACTTAAATATAT
30954412 ATATCATACA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
112 5 0.06
113 18 0.21
114 63 0.73
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
Found at i:30960319 original size:32 final size:32
Alignment explanation
Indices: 30960283--30960361 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 32
30960273 AGAATTAATA
* *
30960283 TTTTTGGTTGTATTTTTATGTTAAATTTACTG
1 TTTTTGGTTGCATTTTTATATTAAATTTACTG
* * **
30960315 TTTTTGGCTGCA-TTTTATATTATATTTGTTG
1 TTTTTGGTTGCATTTTTATATTAAATTTACTG
* *
30960346 TATTTGGTTGGATTTT
1 TTTTTGGTTGCATTTT
30960362 AATGCAGAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.16, C:0.04, G:0.18, T:0.62
Consensus pattern (32 bp):
TTTTTGGTTGCATTTTTATATTAAATTTACTG
Found at i:30960460 original size:43 final size:42
Alignment explanation
Indices: 30960436--30960556 Score: 206
Period size: 43 Copynumber: 2.8 Consensus size: 42
30960426 GTAAAAAAAG
*
30960436 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCCTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG-CTTTTCCACAAA
30960479 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CCACAAA
*
30960522 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
30960557 TTCCAATAAG
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
42 4 0.05
43 71 0.95
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAA
Found at i:30962090 original size:22 final size:22
Alignment explanation
Indices: 30962064--30962108 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30962054 ATTATGTGTA
30962064 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
30962086 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
30962108 T
1 T
30962109 GGATTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:30964184 original size:56 final size:57
Alignment explanation
Indices: 30964116--30964223 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
30964106 ATATATATGA
* * * * *
30964116 CCCACTAGGCCC-AATCTCTTTCATATGGCCCATTAGGCCC-ATTCACATTTATGTGG
1 CCCACTAGGCCCAAATCACATTCATACGG-CCACTAGGCCCAAATCACATTTATGTGG
*
30964172 CCCATTAGGCCCAAATCACATTCATACGGCCACTAGGCCCAAATCACATTTA
1 CCCACTAGGCCCAAATCACATTCATACGGCCACTAGGCCCAAATCACATTTA
30964224 CAGCCATACT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 21 0.48
57 23 0.52
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.26
Consensus pattern (57 bp):
CCCACTAGGCCCAAATCACATTCATACGGCCACTAGGCCCAAATCACATTTATGTGG
Found at i:30964219 original size:28 final size:28
Alignment explanation
Indices: 30964110--30964221 Score: 118
Period size: 28 Copynumber: 4.0 Consensus size: 28
30964100 ACCTATATAT
* * *
30964110 ATATGACCCACTAGGCCCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
30964138 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* *
30964166 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCC-AATCACATTC
*
30964195 ATACGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
30964222 TACAGCCATA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 59 0.83
29 12 0.17
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:30972844 original size:89 final size:89
Alignment explanation
Indices: 30972692--30972875 Score: 352
Period size: 89 Copynumber: 2.1 Consensus size: 89
30972682 TCTTGATTCG
30972692 GTAGATTTTTAATCATTTTAACTTGGTTATATGTGGTATGTACTTTGGAGTGTCAAATAAATTGT
1 GTAGATTTTTAATCATTTTAACTTGGTTATATGTGGTATGTACTTTGGAGTGTCAAATAAATTGT
30972757 AATACCAAGTGTGTTTGAATTATA
66 AATACCAAGTGTGTTTGAATTATA
*
30972781 GTAGATTTTTAATCATTTTAACTTGGTTATATGTGGTATGTACTTTGGAGTGTCAAATGAATTGT
1 GTAGATTTTTAATCATTTTAACTTGGTTATATGTGGTATGTACTTTGGAGTGTCAAATAAATTGT
30972846 AATACCAAGTGTGTTTGAATTATA
66 AATACCAAGTGTGTTTGAATTATA
30972870 GT-GATT
1 GTAGATT
30972876 ATGGACACTT
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
88 4 0.04
89 90 0.96
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (89 bp):
GTAGATTTTTAATCATTTTAACTTGGTTATATGTGGTATGTACTTTGGAGTGTCAAATAAATTGT
AATACCAAGTGTGTTTGAATTATA
Found at i:30973251 original size:7 final size:7
Alignment explanation
Indices: 30973241--30973274 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
30973231 TACCACGAAT
*
30973241 ATGTGAT
1 ATGTGAG
*
30973248 ATGTAAG
1 ATGTGAG
30973255 ATGTGAG
1 ATGTGAG
30973262 ATGTGAG
1 ATGTGAG
30973269 ATGTGA
1 ATGTGA
30973275 TGACGAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (7 bp):
ATGTGAG
Found at i:30974281 original size:20 final size:20
Alignment explanation
Indices: 30974256--30974294 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
30974246 TTGAAACAAC
30974256 ATAGAAAAATAGGGAAAGTA
1 ATAGAAAAATAGGGAAAGTA
30974276 ATAGAAAAATAGGGAAAGT
1 ATAGAAAAATAGGGAAAGT
30974295 TTAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (20 bp):
ATAGAAAAATAGGGAAAGTA
Found at i:30976189 original size:47 final size:47
Alignment explanation
Indices: 30976135--30976288 Score: 148
Period size: 49 Copynumber: 3.2 Consensus size: 47
30976125 TTCCAAACAT
* *
30976135 GGTCTTACATTGACTCTCACATCTAAGTCGATGCCATGTCCCAGACA
1 GGTCTTACAATGACTTTCACATCTAAGTCGATGCCATGTCCCAGACA
* * *
30976182 GGTCTTACAATGACTTTCATACATC-AAGGCCGATGCCATTTCCCAAACA
1 GGTCTTACAATGACTTTC--ACATCTAA-GTCGATGCCATGTCCCAGACA
* * * ** * *
30976231 GGTCTTACAGTGGCTTTTACTTATCTGTGTCAATGGCATGTCCCAGACA
1 GGTCTTACAATGACTTTCAC--ATCTAAGTCGATGCCATGTCCCAGACA
30976280 GGTCTTACA
1 GGTCTTACA
30976289 CTAGCTTGCG
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
47 18 0.21
48 2 0.02
49 66 0.77
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (47 bp):
GGTCTTACAATGACTTTCACATCTAAGTCGATGCCATGTCCCAGACA
Found at i:30976220 original size:49 final size:48
Alignment explanation
Indices: 30976163--30976337 Score: 158
Period size: 49 Copynumber: 3.6 Consensus size: 48
30976153 ACATCTAAGT
30976163 CGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATACATCAAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATACATC-AGGC
* * * * * *
30976212 CGATGCCATTTCCCAAACAGGTCTTACAGTGGCTTT--TACTTATCTGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATAC--ATCAG-GC
* * * * * *
30976261 CAATGGCATGTCCCAGACAGGTCTTACACT-AGCTTGCGTAACTTCAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACAATGA-CTTTCAT-ACATCAGGC
*
30976310 CGATGCCATGTCCCAGACAAGTCTTACA
1 CGATGCCATGTCCCAGACAGGTCTTACA
30976338 CAAGCTCCCA
Statistics
Matches: 100, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
47 3 0.03
48 1 0.01
49 90 0.90
50 3 0.03
51 1 0.01
52 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATACATCAGGC
Found at i:30976353 original size:98 final size:98
Alignment explanation
Indices: 30976165--30976391 Score: 226
Period size: 98 Copynumber: 2.3 Consensus size: 98
30976155 ATCTAAGTCG
* * *
30976165 ATGCCATGTCCCAGACAGGTCTTACAAT-GACTTTCATACATCAAGGCCGATGCCATTTCCCAAA
1 ATGCCATGTCCCAGACAGGTCTTACACTAG-CTTGCATACATCAAGGCCGATGCCATGTCCCAAA
* *** *** **
30976229 CAGGTCTTACAGTGGCTTTTACTTATCTGTG-TCA
65 CAAGTCTTACACAAGCTCCCACTTATCAATGCT-A
* * * *
30976263 ATGGCATGTCCCAGACAGGTCTTACACTAGCTTGCGTAACTTC-AGGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCAT-ACATCAAGGCCGATGCCATGTCCCAAA
* *
30976327 CAAGTCTTACACAAGCTCCCATTTATCAATGCTG
65 CAAGTCTTACACAAGCTCCCACTTATCAATGCTA
* *
30976361 ATGCCATGTCCCAGATAGGTTTTACACTAGC
1 ATGCCATGTCCCAGACAGGTCTTACACTAGC
30976392 ACGCACATCA
Statistics
Matches: 105, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
98 99 0.94
99 6 0.06
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (98 bp):
ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATACATCAAGGCCGATGCCATGTCCCAAAC
AAGTCTTACACAAGCTCCCACTTATCAATGCTA
Found at i:30978251 original size:21 final size:21
Alignment explanation
Indices: 30978226--30978265 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30978216 CAAATATAAG
* *
30978226 AACATATTATTCATAATATGT
1 AACATATCATGCATAATATGT
30978247 AACATATCATGCATAATAT
1 AACATATCATGCATAATAT
30978266 CTCAATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AACATATCATGCATAATATGT
Found at i:30978481 original size:40 final size:40
Alignment explanation
Indices: 30978396--30978536 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
30978386 AAACACATCA
* * * *
30978396 TTTTCATTTGTTACCCTTTTCAGTTAATATCCTTTTCAACA
1 TTTTCATTTGTTATCCTTTTCAGAT-ACATCCTTTTCAACC
* * *
30978437 TTTTCATTTGATATCCTTTTCGGGTACATCCTTTTCAACC
1 TTTTCATTTGTTATCCTTTTCAGATACATCCTTTTCAACC
* * *
30978477 TTTTCATCTGTTATCCTTTTCAGATACTTCTTTTTCAACC
1 TTTTCATTTGTTATCCTTTTCAGATACATCCTTTTCAACC
*
30978517 TTTTAATTTGTTATCCTTTT
1 TTTTCATTTGTTATCCTTTT
30978537 TAACCCTTTC
Statistics
Matches: 86, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 65 0.76
41 21 0.24
ACGTcount: A:0.18, C:0.22, G:0.06, T:0.53
Consensus pattern (40 bp):
TTTTCATTTGTTATCCTTTTCAGATACATCCTTTTCAACC
Found at i:30978541 original size:25 final size:25
Alignment explanation
Indices: 30978506--30978586 Score: 119
Period size: 25 Copynumber: 3.2 Consensus size: 25
30978496 TCAGATACTT
*
30978506 CTTTTTCAACCTTTTAATTTGTTATC
1 CTTTTT-AACCTTTTCATTTGTTATC
*
30978532 CTTTTTAACCCTTTCATTTGTTATC
1 CTTTTTAACCTTTTCATTTGTTATC
*
30978557 CTTTTTAACCTTTCCATTT-TTATC
1 CTTTTTAACCTTTTCATTTGTTATC
30978581 CTTTTT
1 CTTTTT
30978587 GGATAACTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.22
25 34 0.67
26 6 0.12
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.59
Consensus pattern (25 bp):
CTTTTTAACCTTTTCATTTGTTATC
Found at i:30979998 original size:16 final size:17
Alignment explanation
Indices: 30979979--30980017 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
30979969 AGAATTAAAC
30979979 TTAACATTAA-CATTCA
1 TTAACATTAAGCATTCA
30979995 TTAA-ATTAAGCATTCA
1 TTAACATTAAGCATTCA
*
30980011 ATAACAT
1 TTAACAT
30980018 GCTTCCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 13 0.65
17 2 0.10
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (17 bp):
TTAACATTAAGCATTCA
Found at i:30990311 original size:55 final size:56
Alignment explanation
Indices: 30990242--30990364 Score: 151
Period size: 55 Copynumber: 2.2 Consensus size: 56
30990232 CGATATGGCC
* * *
30990242 GTGGTTGAGCCTGCCAAAACAACACAGGCATGCGACATGCCCGTGTGGAAGAA-CA
1 GTGGTCGAGCCTGCCAAAACAACACAGGCATGCGACACGACCGTGTGGAAGAATCA
** * * *
30990297 GTGGTCGAGCCTGCCAAAACTGCACGGGCGTTCGACACGACCGTGTGGAAGAATCA
1 GTGGTCGAGCCTGCCAAAACAACACAGGCATGCGACACGACCGTGTGGAAGAATCA
*
30990353 -TGGTCGAACCTG
1 GTGGTCGAGCCTG
30990365 TTAAATTAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 56 0.97
56 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.31, T:0.16
Consensus pattern (56 bp):
GTGGTCGAGCCTGCCAAAACAACACAGGCATGCGACACGACCGTGTGGAAGAATCA
Found at i:30995106 original size:23 final size:23
Alignment explanation
Indices: 30995076--30995133 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
30995066 ACGGATTCCT
*
30995076 CCCAAACACACCATAATATCCAA
1 CCCAAACACACCAGAATATCCAA
30995099 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
30995122 CCCAAACACACC
1 CCCAAACACACC
30995134 CGGAATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.47, C:0.43, G:0.02, T:0.09
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:30995523 original size:15 final size:15
Alignment explanation
Indices: 30995505--30995551 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
30995495 TATATTATAT
30995505 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * * *
30995520 TTCAATTAAAATGAT
1 TTCAATCAATATAAA
30995535 TTCAATCAATATAAA
1 TTCAATCAATATAAA
30995550 TT
1 TT
30995552 TAATAAATTC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:30995905 original size:2 final size:2
Alignment explanation
Indices: 30995898--30995927 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30995888 ATTTATTTAC
30995898 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30995928 ATAATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30996629 original size:13 final size:14
Alignment explanation
Indices: 30996611--30996639 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
30996601 GATTAACTTC
30996611 ATAAATATTTT-TA
1 ATAAATATTTTCTA
30996624 ATAAATATTTTCTA
1 ATAAATATTTTCTA
30996638 AT
1 AT
30996640 CCATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:31003992 original size:40 final size:41
Alignment explanation
Indices: 31003900--31004030 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
31003890 TCAAACACAT
* * ** * * *
31003900 CCTTTTCATTTGTTACCCTTTTTGGATAATATCCTTTACAG
1 CCTTTTCATTTGATATCCTTTTCAGATAACATCCTTTTCAA
*
31003941 CATTTTCATTTGATATCCTTTTC-GA-ATACATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCAGATA-ACATCCTTTTCAA
* * *
31003981 CCTTTTTATTTGCTATCCTTTTCAGATAACTTCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCAGATAACATCCTTTTCAA
31004022 CCTTTTCAT
1 CCTTTTCAT
31004031 GGATTCAAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 32 0.43
41 41 0.55
42 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.06, T:0.50
Consensus pattern (41 bp):
CCTTTTCATTTGATATCCTTTTCAGATAACATCCTTTTCAA
Found at i:31006556 original size:21 final size:21
Alignment explanation
Indices: 31006532--31006578 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
31006522 ACAATTATTG
31006532 TAATTGTGA-TTTAAGTTCTTA
1 TAATTGT-ATTTTAAGTTCTTA
*
31006553 TAATTGTATTTTAAGTTCTTT
1 TAATTGTATTTTAAGTTCTTA
31006574 TAATT
1 TAATT
31006579 TAGTTGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (21 bp):
TAATTGTATTTTAAGTTCTTA
Found at i:31009529 original size:29 final size:28
Alignment explanation
Indices: 31009488--31009567 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 28
31009478 GACTGTAAAA
31009488 GTGATTGGGCCTAGTGGGCCATAT-AGAT
1 GTGATTGGGCCTAGTGGGCCATATGA-AT
*
31009516 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCATATGAAT
*
31009545 GAGATTGGGCCTAGTGGGCCATA
1 GTGATTGGGCCTAGTGGGCCATA
31009568 AGCATGTATG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
28 22 0.47
29 24 0.51
30 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCATATGAAT
Found at i:31014600 original size:40 final size:40
Alignment explanation
Indices: 31014498--31014648 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
31014488 AAATTGAATG
* * * * *
31014498 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
31014538 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
31014578 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
31014618 AAAT-CGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
31014649 AAATCGTGAT
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 26 0.27
40 68 0.72
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:31019747 original size:40 final size:40
Alignment explanation
Indices: 31019605--31019826 Score: 267
Period size: 40 Copynumber: 5.5 Consensus size: 40
31019595 TATTCGGATG
* *
31019605 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
31019645 ATAT-CGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGT-G--ACT
*
31019687 ATAACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 AT-ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
31019728 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
31019768 ATATCCGGGCTAAGACCCGAAGGCATTT-TGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
31019807 ATATCC-GGCTAAAT-CCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
31019827 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
37 6 0.04
38 6 0.04
39 42 0.26
40 67 0.42
41 4 0.02
42 4 0.02
43 2 0.01
44 29 0.18
45 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:31021910 original size:40 final size:40
Alignment explanation
Indices: 31021844--31021994 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
31021834 AAATTGAATG
* *
31021844 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
31021883 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
31021923 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
31021963 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
31021995 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:31021978 original size:80 final size:79
Alignment explanation
Indices: 31021846--31021994 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
31021836 ATTGAATGAT
*
31021846 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
31021911 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * * *
31021925 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
31021988 TTTGTGC
63 ATTGTGC
31021995 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.26
80 45 0.74
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Found at i:31022009 original size:80 final size:79
Alignment explanation
Indices: 31021844--31022010 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
31021834 AAATTGAATG
*
31021844 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
31021909 TTGTGCTAGTGGCT
66 TTGTGCTAATGGCT
* * * * *
31021923 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
31021986 CATTTGTGC-ACATGGTT
63 CAATTGTGCTA-ATGGCT
31022003 ATATCCGG
1 ATATCCGG
31022011 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 18 0.24
80 56 0.76
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAATGGCT
Found at i:31029891 original size:40 final size:40
Alignment explanation
Indices: 31029806--31029956 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
31029796 AATTGAATGA
* * * *
31029806 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
31029846 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
31029887 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
31029926 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
31029957 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:31029940 original size:80 final size:80
Alignment explanation
Indices: 31029807--31029956 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
31029797 ATTGAATGAT
* *
31029807 ATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
31029872 TGTGCTAGTGGCTAC
66 TGTGCTAGTGGCTAC
* * * *
31029887 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
31029950 TTTGTGC
64 ATTGTGC
31029957 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 4 0.07
80 57 0.93
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCTAC
Found at i:31029970 original size:40 final size:40
Alignment explanation
Indices: 31029805--31029972 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
31029795 AAATTGAATG
* * *
31029805 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAA--ATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCGAATGGTT
* * * * *
31029845 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
* * **
31029885 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
*
31029925 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
31029965 ATATCCGG
1 ATATCCGG
31029973 TTATATTCCG
Statistics
Matches: 99, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 4 0.04
40 90 0.91
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
Found at i:31029971 original size:80 final size:80
Alignment explanation
Indices: 31029805--31029972 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
31029795 AAATTGAATG
* *
31029805 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
31029870 ATTGTGCTAGTGGCT
66 ATTGTGCTAATGGCT
* * * * *
31029885 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
31029948 CATTTGTGC-ACATGGTT
64 CAATTGTGCTA-ATGGCT
31029965 ATATCCGG
1 ATATCCGG
31029973 TTATATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAATGGCT
Found at i:31041334 original size:37 final size:37
Alignment explanation
Indices: 31041271--31041383 Score: 99
Period size: 37 Copynumber: 3.1 Consensus size: 37
31041261 TATTCAAAAA
*
31041271 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
31041307 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
* * * *
31041345 AAAGTGATTATCTTAATA-TTAAAT-TTAATTTAATGTT
1 TAA-T-ATTATCTTAATAGTTTAATATTAAATTAATATT
31041382 TA
1 TA
31041384 TCTACAAGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
36 5 0.08
37 36 0.57
38 9 0.14
39 12 0.19
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:31041441 original size:21 final size:21
Alignment explanation
Indices: 31041408--31041464 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
31041398 ATTCTATTAT
**
31041408 TTTAATAATATTTATTATTAAA
1 TTTAATAA-ATTTAACATTAAA
31041430 TTTAATAAATTTAACATTAAA
1 TTTAATAAATTTAACATTAAA
* *
31041451 TTGATTAAATTTAA
1 TTTAATAAATTTAA
31041465 TCATAGTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 23 0.74
22 8 0.26
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAATAAATTTAACATTAAA
Found at i:31046063 original size:19 final size:19
Alignment explanation
Indices: 31046039--31046077 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31046029 AATGAGCCAG
31046039 GTATTATTTTCTTATTGTT
1 GTATTATTTTCTTATTGTT
31046058 GTATTATTTTCTTATTGTT
1 GTATTATTTTCTTATTGTT
31046077 G
1 G
31046078 AACCATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.05, G:0.13, T:0.67
Consensus pattern (19 bp):
GTATTATTTTCTTATTGTT
Found at i:31046085 original size:19 final size:19
Alignment explanation
Indices: 31046044--31046086 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
31046034 GCCAGGTATT
* **
31046044 ATTTTCTTATTGTTGTATT
1 ATTTTCTTATTGTTGAACC
31046063 ATTTTCTTATTGTTGAACC
1 ATTTTCTTATTGTTGAACC
31046082 ATTTT
1 ATTTT
31046087 GAAAGATTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.63
Consensus pattern (19 bp):
ATTTTCTTATTGTTGAACC
Found at i:31046301 original size:21 final size:21
Alignment explanation
Indices: 31046276--31046318 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31046266 TACAAGTATA
31046276 TTTTTATTGAATTTAGTTTTT
1 TTTTTATTGAATTTAGTTTTT
* * *
31046297 TTTTTTTTTAATTTGGTTTTT
1 TTTTTATTGAATTTAGTTTTT
31046318 T
1 T
31046319 CTTTGTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (21 bp):
TTTTTATTGAATTTAGTTTTT
Found at i:31067530 original size:131 final size:131
Alignment explanation
Indices: 31067296--31067563 Score: 509
Period size: 131 Copynumber: 2.0 Consensus size: 131
31067286 GTCAATGGTA
* *
31067296 CCAAACCAACACACCATATGATCAATACAATTATTGTTATGGGTATTCTTATAGTGACCCTTCTA
1 CCAAACCAACACACCACATGATCAATACAATTACTGTTATGGGTATTCTTATAGTGACCCTTCTA
31067361 ATTATGGTTACCACCCATCAAAACTTCAAGTGTCGTCCTTCCATTATTATTTTGTTTATCAAACA
66 ATTATGGTTACCACCCATCAAAACTTCAAGTGTCGTCCTTCCATTATTATTTTGTTTATCAAACA
31067426 T
131 T
31067427 CCAAACCAACACACCACATGATCAATACAATTACTGTTATGGGTATTCTTATAGTGACCCTTCTA
1 CCAAACCAACACACCACATGATCAATACAATTACTGTTATGGGTATTCTTATAGTGACCCTTCTA
*
31067492 ATTATGGTTGCCACCCATCAAAACTTCAAGTGTCGTCCTTCCATTATTATTTTGTTTATCAAACA
66 ATTATGGTTACCACCCATCAAAACTTCAAGTGTCGTCCTTCCATTATTATTTTGTTTATCAAACA
31067557 T
131 T
31067558 CCAAAC
1 CCAAAC
31067564 TGCAAGGAAA
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 134 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (131 bp):
CCAAACCAACACACCACATGATCAATACAATTACTGTTATGGGTATTCTTATAGTGACCCTTCTA
ATTATGGTTACCACCCATCAAAACTTCAAGTGTCGTCCTTCCATTATTATTTTGTTTATCAAACA
T
Found at i:31073104 original size:6 final size:6
Alignment explanation
Indices: 31073095--31073123 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
31073085 AAAGTGTGGC
31073095 AATGTG AATGTG AATGTG AATGTG AATGT
1 AATGTG AATGTG AATGTG AATGTG AATGT
31073124 ACATGTATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (6 bp):
AATGTG
Found at i:31073512 original size:20 final size:21
Alignment explanation
Indices: 31073474--31073512 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
31073464 TTTATGATTT
*
31073474 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTCGGGTAAAAA
*
31073495 TAAAT-ATTTTCGGTTAAA
1 TAAATAATTTTCGGGTAAA
31073513 TTAAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (21 bp):
TAAATAATTTTCGGGTAAAAA
Found at i:31073823 original size:4 final size:4
Alignment explanation
Indices: 31073795--31073890 Score: 156
Period size: 4 Copynumber: 24.0 Consensus size: 4
31073785 GAATTGAGAG
* * * *
31073795 CTCT CTCT GTCT GTCT GTCT GTCT CTCT CTCT CTCT CTCT CTCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
31073843 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
31073891 TTTGCTTGTT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 90 1.00
ACGTcount: A:0.00, C:0.46, G:0.04, T:0.50
Consensus pattern (4 bp):
CTCT
Found at i:31074041 original size:79 final size:79
Alignment explanation
Indices: 31073910--31074070 Score: 268
Period size: 79 Copynumber: 2.0 Consensus size: 79
31073900 TTCCCTTTAA
* * *
31073910 AATCTCTCGAAATAATTTTTAAAGTTGGGAAAAAAGTCATCTGAATTTCTTCAAGCATTTTGATT
1 AATCTATCGAAATAATTTTCAAAGTTGGGAAAAAAGTCATCCGAATTTCTTCAAGCATTTTGATT
*
31073975 CAAACTTCTAAATC
66 CAAACTTATAAATC
*
31073989 AATCTATCGAAATAATTTTCAAAGTTGGGCAAAAAGTCATCCGAATTTCTTCAAGCATTTTGATT
1 AATCTATCGAAATAATTTTCAAAGTTGGGAAAAAAGTCATCCGAATTTCTTCAAGCATTTTGATT
*
31074054 CAAAGTTATAAATC
66 CAAACTTATAAATC
31074068 AAT
1 AAT
31074071 TATTTGAGTT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (79 bp):
AATCTATCGAAATAATTTTCAAAGTTGGGAAAAAAGTCATCCGAATTTCTTCAAGCATTTTGATT
CAAACTTATAAATC
Found at i:31076281 original size:28 final size:28
Alignment explanation
Indices: 31076245--31076308 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
31076235 ACTCAATGTA
*
31076245 CGAAATATTGAGAATGACACTTACTGTG
1 CGAAATATTGAGAATAACACTTACTGTG
* *
31076273 CGAGATATTGAGAATAACACTTAGTGTG
1 CGAAATATTGAGAATAACACTTACTGTG
31076301 CGAAATAT
1 CGAAATAT
31076309 CGAATGATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (28 bp):
CGAAATATTGAGAATAACACTTACTGTG
Found at i:31092947 original size:92 final size:92
Alignment explanation
Indices: 31092771--31092947 Score: 293
Period size: 92 Copynumber: 1.9 Consensus size: 92
31092761 GATAATGTAC
*
31092771 CCACAAAACTTGAAAAATTCAGCTTATGAAAATTCAAAATGATGTTTAGTCATCTTTTTCTGGTA
1 CCACAAAACTTGAAAAATTCAGCTTATGAAAATTCAAAATGATGTGTAGTCATCTTTTTCTGGTA
*
31092836 AAAACAGATTAATAGATTGGCAAAACT
66 AAAACAGATTAATAAATTGGCAAAACT
* * *
31092863 CCACAAAACTTGAAGAATTCAGCTTATGAAAATTCAAAGTGTTGTGTAGTCATCTTTTTCTGGTA
1 CCACAAAACTTGAAAAATTCAGCTTATGAAAATTCAAAATGATGTGTAGTCATCTTTTTCTGGTA
31092928 AAAACAGATGT-ATAAATTGG
66 AAAACAGAT-TAATAAATTGG
31092948 TCCAAAAAAG
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 78 0.99
93 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (92 bp):
CCACAAAACTTGAAAAATTCAGCTTATGAAAATTCAAAATGATGTGTAGTCATCTTTTTCTGGTA
AAAACAGATTAATAAATTGGCAAAACT
Found at i:31112422 original size:2 final size:2
Alignment explanation
Indices: 31112410--31112442 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
31112400 TTATTATAGT
31112410 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31112443 AAACGAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31112528 original size:26 final size:25
Alignment explanation
Indices: 31112462--31112534 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 25
31112452 TAAAAGAAAT
* *
31112462 AAAAA-AGAAACAGAATGAAAAACG
1 AAAAAGAGAAAGAGAAAGAAAAACG
* *
31112486 AAAACAGAG-AAGGGAAAGAAAGAAGG
1 AAAA-AGAGAAAGAGAAAGAAA-AACG
*
31112512 AAAAAGAGAAAGAGAAAAAAAAA
1 AAAAAGAGAAAGAGAAAGAAAAA
31112535 GAAGAAGGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
24 4 0.10
25 16 0.41
26 19 0.49
ACGTcount: A:0.71, C:0.04, G:0.23, T:0.01
Consensus pattern (25 bp):
AAAAAGAGAAAGAGAAAGAAAAACG
Found at i:31117372 original size:19 final size:19
Alignment explanation
Indices: 31117348--31117388 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
31117338 ATAATATTTT
31117348 TAGTGTTACAATAAAACAC
1 TAGTGTTACAATAAAACAC
31117367 TAGTGTTACAATAAAACAC
1 TAGTGTTACAATAAAACAC
31117386 TAG
1 TAG
31117389 AGTATTCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (19 bp):
TAGTGTTACAATAAAACAC
Found at i:31122111 original size:24 final size:24
Alignment explanation
Indices: 31122034--31122124 Score: 96
Period size: 23 Copynumber: 3.9 Consensus size: 24
31122024 TAAGCTGATG
* *
31122034 AACAGTAAGCTCTATTGAGC-AAA
1 AACAGTAAGCTCTAATGAGCTGAA
** *
31122057 AATGGTAAGCTCTATTGAGCTG-A
1 AACAGTAAGCTCTAATGAGCTGAA
* *
31122080 AACGGTAAGCTCCAATGAGCTGAA
1 AACAGTAAGCTCTAATGAGCTGAA
*
31122104 AACAGTAAGCTCTTATGAGCT
1 AACAGTAAGCTCTAATGAGCT
31122125 AATATATCGG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
23 38 0.67
24 19 0.33
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (24 bp):
AACAGTAAGCTCTAATGAGCTGAA
Found at i:31125214 original size:35 final size:35
Alignment explanation
Indices: 31125140--31125215 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
31125130 CTGTAACTAT
** * *
31125140 ATCTGTATCTGAAATGGGTTCAGGCCCGAATCTGT
1 ATCTGTATCTGAAATGGGCCCAGGCCCGAATATGA
* * *
31125175 ATCTGTATCTGACATGGGCCCAGGCCCTATTATGA
1 ATCTGTATCTGAAATGGGCCCAGGCCCGAATATGA
31125210 ATCTGT
1 ATCTGT
31125216 CTGACTAGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (35 bp):
ATCTGTATCTGAAATGGGCCCAGGCCCGAATATGA
Found at i:31136365 original size:18 final size:18
Alignment explanation
Indices: 31136325--31136358 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31136315 TTTTAATTTA
*
31136325 TTTATATTTAAATAATAC
1 TTTATATTTAAATAAAAC
31136343 TTTAT-TTTAAATAAAA
1 TTTATATTTAAATAAAA
31136359 ATTTTATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATATTTAAATAAAAC
Found at i:31136666 original size:16 final size:17
Alignment explanation
Indices: 31136637--31136676 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
31136627 AAAATTATAC
31136637 TTTTTAATAATTTAATAA
1 TTTTTAAT-ATTTAATAA
31136655 TTTTTAAT-TTTAATAA
1 TTTTTAATATTTAATAA
31136671 TTTTTA
1 TTTTTA
31136677 TAGGTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 14 0.64
18 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTAATATTTAATAA
Found at i:31137072 original size:7 final size:7
Alignment explanation
Indices: 31137055--31137092 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
31137045 AATTAGTAAT
31137055 AAAAAAG
1 AAAAAAG
31137062 -AAAAAG
1 AAAAAAG
31137068 AAAAAAG
1 AAAAAAG
31137075 AAAAAAG
1 AAAAAAG
31137082 AAAAAAG
1 AAAAAAG
31137089 AAAA
1 AAAA
31137093 TGGAAGCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:31146934 original size:28 final size:26
Alignment explanation
Indices: 31146903--31146955 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
31146893 TATTCATTAT
31146903 TTAAATTA-TTAAACATAATTAAAATATA
1 TTAAATTATTTAAA-A-AA-TAAAATATA
*
31146931 TTAATTTATTTAAAAAATAAAATAT
1 TTAAATTATTTAAAAAATAAAATAT
31146956 TATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 8 0.35
27 2 0.09
28 8 0.35
29 5 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAAATTATTTAAAAAATAAAATATA
Found at i:31147853 original size:2 final size:2
Alignment explanation
Indices: 31147846--31147888 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
31147836 ACAAAATTAA
31147846 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31147888 A
1 A
31147889 ATAGTTTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31153589 original size:51 final size:49
Alignment explanation
Indices: 31153459--31153690 Score: 320
Period size: 49 Copynumber: 4.7 Consensus size: 49
31153449 TCTATTGTGA
*
31153459 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
31153508 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * **
31153558 CGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
31153608 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
31153658 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
31153691 TGCATACTAG
Statistics
Matches: 157, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 73 0.46
50 45 0.29
51 39 0.25
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:31162328 original size:83 final size:83
Alignment explanation
Indices: 31162213--31162381 Score: 241
Period size: 83 Copynumber: 2.0 Consensus size: 83
31162203 CATATGCCTG
* * * * *
31162213 TGTCTCTGCTCATGTACCCAATTCTGAGCATTCTGTTTCTCAAATTTAAGGTGCAGGGGACACAT
1 TGTCTCTGCCCATGTACCCAATTATGAGCATTCTGTTTCTCAAAATTAAGGTACAGGGGACACAC
*
31162278 GGCCTAACCACATACCCA
66 GACCTAACCACATACCCA
* *
31162296 TGTCTCTGCCCGTGTGA-CCAATTATGAGCATTCTGTTTCTCAAAATTAAGGTACAGGTGACACA
1 TGTCTCTGCCCATGT-ACCCAATTATGAGCATTCTGTTTCTCAAAATTAAGGTACAGGGGACACA
*
31162360 CGACCTAACCACATGCCCA
65 CGACCTAACCACATACCCA
31162379 TGT
1 TGT
31162382 TACTAGGCCG
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
83 75 0.99
84 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (83 bp):
TGTCTCTGCCCATGTACCCAATTATGAGCATTCTGTTTCTCAAAATTAAGGTACAGGGGACACAC
GACCTAACCACATACCCA
Found at i:31174204 original size:45 final size:45
Alignment explanation
Indices: 31174154--31174239 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
31174144 AAACTTGTGT
*
31174154 CACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
*
31174199 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAG
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAG
31174240 CTCACATAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
Found at i:31174239 original size:21 final size:21
Alignment explanation
Indices: 31174170--31174239 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
31174160 CATCATGAAC
*
31174170 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* **
31174191 TCAGATGCCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
31174215 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
31174236 TCAG
1 TCAG
31174240 CTCACATAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 2 0.05
21 14 0.38
22 5 0.14
23 4 0.11
24 10 0.27
25 2 0.05
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:31175279 original size:9 final size:8
Alignment explanation
Indices: 31175252--31175284 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
31175242 AGAGTTTTCC
31175252 TATTCTTT
1 TATTCTTT
31175260 TATTCTTT
1 TATTCTTT
31175268 TATTCTTTT
1 TATTC-TTT
31175277 TATTCTTT
1 TATTCTTT
31175285 CAAAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTCTTT
Found at i:31175279 original size:17 final size:16
Alignment explanation
Indices: 31175252--31175284 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
31175242 AGAGTTTTCC
31175252 TATTCTTTTATTCTTT
1 TATTCTTTTATTCTTT
31175268 TATTCTTTTTATTCTTT
1 TATTC-TTTTATTCTTT
31175285 CAAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTCTTTTATTCTTT
Done.