Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 740 of 770
Found at i:234502881 original size:29 final size:29
Alignment explanation
Indices: 234502849--234502924 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
234502839 CTGGAAATAT
* *
234502849 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
234502878 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
234502907 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
234502925 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:234502892 original size:58 final size:58
Alignment explanation
Indices: 234502792--234502924 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
234502782 GTGACGAGAT
* * * * * *
234502792 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
234502850 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
234502908 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
234502925 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:234510579 original size:40 final size:40
Alignment explanation
Indices: 234510524--234510733 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
234510514 AACATTGGAA
234510524 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
234510564 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
234510604 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
234510644 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
234510683 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
234510724 CTATATCCGG
1 ATATATCCGG
234510734 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:234518706 original size:40 final size:40
Alignment explanation
Indices: 234518651--234518860 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
234518641 AACATTGGAA
234518651 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
234518691 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
234518731 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
234518771 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
234518810 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
234518851 CTATATCCGG
1 ATATATCCGG
234518861 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:234523485 original size:40 final size:41
Alignment explanation
Indices: 234523409--234523598 Score: 294
Period size: 40 Copynumber: 4.7 Consensus size: 41
234523399 TCGGGGTTTA
234523409 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
234523450 AATCCGAGCTTGGTCTCGAA-GGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
234523490 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
234523531 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
234523571 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
234523599 TGAGTCAGCG
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 72 0.54
41 61 0.46
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:234523513 original size:81 final size:81
Alignment explanation
Indices: 234523409--234523598 Score: 292
Period size: 81 Copynumber: 2.3 Consensus size: 81
234523399 TCGGGGTTTA
* * *
234523409 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTCGAA-GGC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAA-CCGAACCTAGTCTCGAAGGGC
* * *
234523473 TTTTGAGCCAGTGTCAT
65 CTTCGAGCCAATGTCAT
*
234523490 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGTTTCGAAGGGCC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGTCTCGAAGGGCC
*
234523555 TTCGGGCCAATGTCAT
66 TTCGAGCCAATGTCAT
234523571 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
234523599 TGAGTCAGCG
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 13 0.13
81 87 0.87
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (81 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGTCTCGAAGGGCC
TTCGAGCCAATGTCAT
Found at i:234524292 original size:17 final size:18
Alignment explanation
Indices: 234524270--234524310 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
234524260 GATAATGGCA
234524270 TGTATA-GGGCTGACCCT
1 TGTATATGGGCTGACCCT
234524287 TGTATATTGGGCTGACCCT
1 TGTATA-TGGGCTGACCCT
234524306 TGTAT
1 TGTAT
234524311 TAAGTATCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
19 16 0.73
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.37
Consensus pattern (18 bp):
TGTATATGGGCTGACCCT
Found at i:234525400 original size:19 final size:20
Alignment explanation
Indices: 234525376--234525427 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
234525366 ACTATAGCAA
234525376 CACACAATTT-CAA-TTATTT
1 CACAC-ATTTACAACTTATTT
234525395 CACACATTTACAACTTATTT
1 CACACATTTACAACTTATTT
*
234525415 TACA-ACTTTACAA
1 CACACA-TTTACAA
234525428 AATANNNNNN
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.14
19 9 0.31
20 16 0.55
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (20 bp):
CACACATTTACAACTTATTT
Found at i:234527422 original size:40 final size:39
Alignment explanation
Indices: 234527257--234527440 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
234527247 AAATTGAATG
* * *
234527257 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
234527297 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
234527337 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
234527377 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
234527416 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
234527441 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:234527465 original size:80 final size:81
Alignment explanation
Indices: 234527297--234527485 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
234527287 GCTGGAAATT
* * * *
234527297 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
234527362 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
234527378 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
234527441 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
234527457 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
234527486 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:234534722 original size:40 final size:39
Alignment explanation
Indices: 234534557--234534740 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
234534547 AAATTGAATG
* * *
234534557 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
234534597 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
234534637 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
234534677 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
234534716 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
234534741 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:234534765 original size:80 final size:81
Alignment explanation
Indices: 234534597--234534785 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
234534587 GCTGGAAATT
* * * *
234534597 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
234534662 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
234534678 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
234534741 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
234534757 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
234534786 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:234542022 original size:40 final size:39
Alignment explanation
Indices: 234541857--234542024 Score: 133
Period size: 40 Copynumber: 4.2 Consensus size: 39
234541847 AAATTGAATG
* * *
234541857 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
234541897 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
234541937 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
234541977 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
234542016 GATATCCGG
1 -ATATCCGG
234542025 TTAAGTCCCG
Statistics
Matches: 100, Mismatches: 23, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 91 0.91
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:234543987 original size:27 final size:28
Alignment explanation
Indices: 234543948--234544017 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
234543938 ATAGTGAGTC
*
234543948 CGCACACTCAGTGCTATATAAT-CAACT
1 CGCACACTTAGTGCTATATAATCCAACT
*
234543975 CGCACACTTAGTGCTATATGATCCAACT
1 CGCACACTTAGTGCTATATAATCCAACT
234544003 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
234544018 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCCAACT
Found at i:234547209 original size:27 final size:26
Alignment explanation
Indices: 234547098--234547250 Score: 120
Period size: 24 Copynumber: 6.0 Consensus size: 26
234547088 TACCATTATT
* *
234547098 ATTATCATATATTTTATATTATTTT--
1 ATTATTATATATATTAT-TTATTTTAA
* * *
234547123 ATT-TTACATATGTTATTTCTTTTAA
1 ATTATTATATATATTATTTATTTTAA
* * *
234547148 ACTATTATACATATTGTTTATTTTGAA
1 ATTATTATATATATTATTTATTTT-AA
* *
234547175 ACTT-TTATATACATTTTTGTATTTTAA
1 A-TTATTATATATATTATT-TATTTTAA
* *
234547202 ATTATTATGTATATTATTTACTTT-A
1 ATTATTATATATATTATTTATTTTAA
234547227 A-TATTATATATATTATTTATTTTA
1 ATTATTATATATATTATTTATTTTA
234547251 GACCTTTTTA
Statistics
Matches: 100, Mismatches: 20, Indels: 16
0.74 0.15 0.12
Matches are distributed among these distances:
23 6 0.06
24 30 0.30
25 7 0.07
26 22 0.22
27 28 0.28
28 7 0.07
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (26 bp):
ATTATTATATATATTATTTATTTTAA
Found at i:234551042 original size:40 final size:39
Alignment explanation
Indices: 234550877--234551060 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
234550867 AAATTGAATG
* * *
234550877 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
234550917 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
234550957 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
234550997 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
234551036 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
234551061 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:234551085 original size:80 final size:81
Alignment explanation
Indices: 234550917--234551105 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
234550907 GCTGGAAATT
* * * *
234550917 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
234550982 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
234550998 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
234551061 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
234551077 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
234551106 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:234558576 original size:40 final size:39
Alignment explanation
Indices: 234558411--234558594 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
234558401 AAATTGAATG
* * *
234558411 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
234558451 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
234558491 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
234558531 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
234558570 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
234558595 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:234558619 original size:80 final size:81
Alignment explanation
Indices: 234558451--234558639 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
234558441 GCTGGAAATT
* * * *
234558451 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
234558516 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
234558532 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
234558595 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
234558611 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
234558640 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:234563582 original size:42 final size:42
Alignment explanation
Indices: 234563535--234563669 Score: 243
Period size: 42 Copynumber: 3.2 Consensus size: 42
234563525 AGTATTGGTC
234563535 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
234563577 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
* *
234563619 TTGGCACTAAGTGTGCGGGTATAAATGGACACGGCGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
*
234563661 TTGGCACTA
1 TCGGCACTA
234563670 CGTGCGGGTT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.30, C:0.17, G:0.33, T:0.20
Consensus pattern (42 bp):
TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
Found at i:234563748 original size:27 final size:28
Alignment explanation
Indices: 234563691--234563760 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
234563681 AAAATTGTAC
**
234563691 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
234563719 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
234563746 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
234563761 GATTCATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:234568413 original size:40 final size:40
Alignment explanation
Indices: 234568347--234568513 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
234568337 AAATTGAATG
* * *
234568347 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
234568386 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
234568426 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
234568466 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
234568506 ATATCCGG
1 ATATCCGG
234568514 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:234575913 original size:40 final size:40
Alignment explanation
Indices: 234575868--234576034 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
234575858 CGGAATATAA
234575868 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
234575908 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
234575948 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
234575988 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
234576027 CCGGATAT
1 CCGGATAT
234576035 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:234583924 original size:37 final size:38
Alignment explanation
Indices: 234583828--234583934 Score: 137
Period size: 37 Copynumber: 2.8 Consensus size: 38
234583818 ATATAATCGT
* *
234583828 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACACTA
*
234583867 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-G-CCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACACTA
*
234583904 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
234583935 TAATTTCCAG
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
36 2 0.03
37 29 0.48
38 1 0.02
39 29 0.48
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAACACTA
Found at i:234589933 original size:40 final size:39
Alignment explanation
Indices: 234589768--234589951 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
234589758 AAATTGAATG
* * *
234589768 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
234589808 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
234589848 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
234589888 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
234589927 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
234589952 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:234589976 original size:80 final size:81
Alignment explanation
Indices: 234589808--234589996 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
234589798 GCTGGAAATT
* * * *
234589808 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
234589873 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
234589889 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
234589952 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
234589968 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
234589997 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:234598051 original size:40 final size:39
Alignment explanation
Indices: 234597886--234598069 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
234597876 AAATTGAATG
* * *
234597886 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
234597926 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
234597966 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
234598006 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
234598045 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
234598070 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:234598094 original size:80 final size:81
Alignment explanation
Indices: 234597926--234598114 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
234597916 GCTGGAAATT
* * * *
234597926 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
234597991 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
234598007 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
234598070 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
234598086 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
234598115 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:234607187 original size:17 final size:18
Alignment explanation
Indices: 234607145--234607193 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
234607135 AGTTGAAAAG
234607145 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
234607164 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
234607181 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
234607194 GCTTCTTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:234608141 original size:40 final size:40
Alignment explanation
Indices: 234608020--234608143 Score: 130
Period size: 40 Copynumber: 3.1 Consensus size: 40
234608010 TTGAATGATG
* * * ** *
234608020 TCCGGGCTAAG-CCCGAAGACAATTGTGCTAGTGGCTACA
1 TCCGGGCTAAGACCCGAAGGCAATTGTGCGATTGATTATA
*
234608059 TCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTT-ATTCTA
1 TCCGGGCTAAGACCCGAAGGCAATT-GTGCGA-TTGATTATA
234608099 TCCGGGCTAAGACCCGAAGGCAATTGTGC-ACTTGATTATA
1 TCCGGGCTAAGACCCGAAGGCAATTGTGCGA-TTGATTATA
234608139 TCCGG
1 TCCGG
234608144 TTATATTCCG
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
39 17 0.24
40 50 0.70
41 4 0.06
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCAATTGTGCGATTGATTATA
Found at i:234613691 original size:39 final size:39
Alignment explanation
Indices: 234613573--234613755 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
234613563 TCGTTCAAAC
* * ** * **
234613573 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
234613613 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
234613653 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
234613692 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
234613731 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
234613756 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:234621500 original size:29 final size:28
Alignment explanation
Indices: 234621435--234621537 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 28
234621425 GCATGAGTAT
* *
234621435 AATATGATTTAGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCTAAT-GGCCATATG
** *
234621464 AAGGTGAATTGGGCCTAATGGACCATAAG
1 AATATGAATTGGGCCTAATGG-CCATATG
* * *
234621493 AATATGAACTGGGCCAAATAGGCCATTTG
1 AATATGAATTGGGCCTAAT-GGCCATATG
*
234621522 AATA-AAATTGGGCCTA
1 AATATGAATTGGGCCTA
234621538 GTGGGCTATA
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
28 11 0.19
29 45 0.78
30 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (28 bp):
AATATGAATTGGGCCTAATGGCCATATG
Found at i:234623552 original size:39 final size:39
Alignment explanation
Indices: 234623437--234623617 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
234623427 TCGTTCAAAC
* * ** * **
234623437 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
234623477 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
234623517 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
234623556 GCCTTCGGGCTTAGCCCGG--ATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
234623593 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
234623618 CTCGAACATT
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
37 37 0.30
39 49 0.40
40 38 0.31
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:234623608 original size:76 final size:78
Alignment explanation
Indices: 234623437--234623617 Score: 231
Period size: 76 Copynumber: 2.3 Consensus size: 78
234623427 TCGTTCAAAC
* * **
234623437 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGA-ATC
* *
234623502 ACAATTTGCACAATT
64 ACAACTCGCACAATT
* ** * *
234623517 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-ATCAT
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGAATCAC
234623580 AACTCGCACAATT
66 AACTCGCACAATT
234623593 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
234623618 CTCGAACATT
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
76 40 0.44
78 9 0.10
79 32 0.36
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGAATCAC
AACTCGCACAATT
Found at i:234626709 original size:19 final size:19
Alignment explanation
Indices: 234626663--234626710 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
234626653 GTATATATTT
234626663 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
234626681 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
234626700 TAAGTTTTATT
1 TAAATTTTATT
234626711 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:234630920 original size:35 final size:35
Alignment explanation
Indices: 234630850--234630920 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
234630840 CACTTGCCTC
* *
234630850 TTCCCACTCTCCCATGCTGTCTGCCATCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
* *
234630885 TTCCCATTCTCCCATGCTGTCTGCCACCAATACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
234630920 T
1 T
234630921 CACACACTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.18, C:0.44, G:0.10, T:0.28
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:234631320 original size:12 final size:12
Alignment explanation
Indices: 234631305--234631347 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
234631295 TAAAACATAA
234631305 AAAAAAATATAC
1 AAAAAAATATAC
*
234631317 AAAAAGATATAC
1 AAAAAAATATAC
234631329 AAAAAAATATAC
1 AAAAAAATATAC
234631341 AAAAAAA
1 AAAAAAA
234631348 AAAAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAAAAATATAC
Found at i:234632065 original size:2 final size:2
Alignment explanation
Indices: 234631989--234632049 Score: 65
Period size: 2 Copynumber: 32.0 Consensus size: 2
234631979 ATCATTTCTA
* * *
234631989 AT AT GT AT AT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
234632029 AT AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
234632050 GCCATTAGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
1 3 0.06
2 47 0.94
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
AT
Found at i:234644404 original size:14 final size:14
Alignment explanation
Indices: 234644385--234644413 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
234644375 CGCTGAGGTA
234644385 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
234644399 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
234644413 T
1 T
234644414 CATCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:234644524 original size:72 final size:74
Alignment explanation
Indices: 234644399--234645142 Score: 549
Period size: 72 Copynumber: 9.8 Consensus size: 74
234644389 CAATTTCTGT
234644399 TTTTCAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTCATC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
234644464 CGTTGAGGTAA
64 CGTTGAGGTAA
* * *
234644475 TTTT-AATTTCTGTTCATC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACG
1 TTTTCAATTTCTGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACA
* *
234644538 CGCTGAGGTATT
64 CGTTGAGGTA-A
** *
234644550 TTTTCTGTTTTTCAAT-TTCTGTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTTTC--AATTTC--TGTTC--ATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
234644613 GACACGTTGAGGTAA
60 GACACGTTGAGGTAA
* *
234644628 TTTT-AATTTCTGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACA
1 TTTTCAATTTCTGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACA
* *
234644692 TGCTGAGGT-A
64 CGTTGAGGTAA
**** * * * * * *
234644702 TTTTCAATTTCTGTTTTCAATTTCTGTTCATCAAAATCA-ACT-C-ATATTGCGAGAGGTGAG-T
1 TTTTCAATTTCTG--TTC-A--TC-AAAAATC-AACTCATATTGCGAGA--G-GTGAGTTGAGCC
* ** * ** * *
234644763 TGAGCCTCAAG-ACACGTTGAGG
56 TCAG-GACACGTTGA-GGT-A-A
* * * *
234644785 TAATTTCAATTTCT-TT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 T-TTTC-AATTTCTGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
234644848 CGTTGAGGTAA
64 CGTTGAGGTAA
* * ** *
234644859 -TTTCAATTTCTGTT-TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
234644922 TTGAGGT-A
66 TTGAGGTAA
* *
234644930 TTTTCAATTTCTGTTTTCA-AAAAAATCAACTTATATTGCGAGAGGTGAGTT-AGCCTC-GGTTC
1 TTTTCAATTTCTG--TTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
* *
234644992 ACATGCTGAGGT-A
61 ACACGTTGAGGTAA
* **
234645005 TTCTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTCTG---TTC-ATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
234645070 CACGTTGAGGTAA
62 CACGTTGAGGTAA
* *
234645083 TTTT-AATTTCTGTTCATCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCAG
1 TTTTCAATTTCTGTTCATC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
234645143 CTCACGCGCT
Statistics
Matches: 532, Mismatches: 84, Indels: 105
0.74 0.12 0.15
Matches are distributed among these distances:
71 8 0.02
72 110 0.21
73 46 0.09
74 51 0.10
75 102 0.19
76 26 0.05
77 31 0.06
78 47 0.09
79 25 0.05
80 12 0.02
81 49 0.09
82 15 0.03
83 1 0.00
84 2 0.00
85 7 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (74 bp):
TTTTCAATTTCTGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
TTGAGGTAA
Found at i:234644720 original size:13 final size:13
Alignment explanation
Indices: 234644702--234644729 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
234644692 TGCTGAGGTA
234644702 TTTTCAATTTCTG
1 TTTTCAATTTCTG
234644715 TTTTCAATTTCTG
1 TTTTCAATTTCTG
234644728 TT
1 TT
234644730 CATCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:234644850 original size:71 final size:73
Alignment explanation
Indices: 234644716--234645141 Score: 562
Period size: 72 Copynumber: 5.8 Consensus size: 73
234644706 CAATTTCTGT
*
234644716 TTTCAATTTCTG--TTCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
1 TTTCAATTTCTGTTTTCA-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
234644779 TTGAGGTAA
65 TTGAGGTAA
234644788 TTTCAATTTCT-TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
234644851 TGAGGTAA
66 TGAGGTAA
* **
234644859 TTTCAATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
*
234644923 TGAGGTAT
66 TGAGGTAA
* *
234644931 TTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTT-AGCCTC-GGTTCAC
1 TTTCAATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---AC
* *
234644994 ATGCTGAGGT-A
62 ACGTTGAGGTAA
*
234645005 TTCTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TT-TCAATTTCTGT-TTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
234645070 CACGTTGAGGTAA
61 CACGTTGAGGTAA
* * * *
234645083 TTTTAATTTCTGTTCATCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCA
1 TTTCAATTTCTGTT-TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
234645142 GCTCACGCGC
Statistics
Matches: 318, Mismatches: 20, Indels: 29
0.87 0.05 0.08
Matches are distributed among these distances:
71 65 0.20
72 85 0.27
73 9 0.03
74 29 0.09
75 60 0.19
76 5 0.02
77 22 0.07
78 35 0.11
79 6 0.02
80 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (73 bp):
TTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
TGAGGTAA
Found at i:234648245 original size:28 final size:28
Alignment explanation
Indices: 234648176--234648276 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
234648166 GACAAAATTG
* * * *
234648176 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
234648206 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
234648234 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
234648263 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
234648277 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:234648270 original size:29 final size:28
Alignment explanation
Indices: 234648205--234648276 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
234648195 AAAATTGTAC
*
234648205 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
234648233 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
234648262 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
234648277 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:234652637 original size:9 final size:9
Alignment explanation
Indices: 234652623--234652654 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
234652613 CAACGTTTTT
234652623 TTGCATTCA
1 TTGCATTCA
234652632 TTGCATTCA
1 TTGCATTCA
234652641 TTGCATTCA
1 TTGCATTCA
234652650 -TGCAT
1 TTGCAT
234652655 CGGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:234660836 original size:43 final size:44
Alignment explanation
Indices: 234660782--234660876 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 44
234660772 GCCTCAGCGA
* * *
234660782 AGCAGATTGAAGTCACTAGCCTTATCTCCCTGAAGT-GCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
* * *
234660825 AGCAGACTGAAGTTACAAGTCTCATCTCCTTGAAGTCGCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
234660869 AGCAGACT
1 AGCAGACT
234660877 AAATGTACAG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
43 30 0.67
44 15 0.33
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (44 bp):
AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
Found at i:234661003 original size:30 final size:31
Alignment explanation
Indices: 234660969--234661028 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
234660959 GCCGAATTTG
*
234660969 CAGAT-CTTATCACCCTAAGCAGTAGGGAAA
1 CAGATGCTTAACACCCTAAGCAGTAGGGAAA
*
234660999 CAGATGAGCTTAACCCCCTAAGCAGTAGGG
1 CAGAT--GCTTAACACCCTAAGCAGTAGGG
234661029 TAATAGGCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 5 0.20
33 20 0.80
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.18
Consensus pattern (31 bp):
CAGATGCTTAACACCCTAAGCAGTAGGGAAA
Found at i:234661261 original size:86 final size:85
Alignment explanation
Indices: 234661140--234661342 Score: 207
Period size: 86 Copynumber: 2.4 Consensus size: 85
234661130 CCACCAAGCT
* * * * ***
234661140 TTAACCCCCTAA--AGTAGGGTAACAAGCTGAAGTTTATAGATATTATTGCCCTAAGCAATAGGG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTG-AGTTTACAGAT-CTAAACCCCTAAGCAATAGGG
* **
234661203 TAACA-AGCCAA-ATTTTCAAACC
64 AAACAGA-CCAATA-TGACAAACC
* *
234661225 TTAAACCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAGATCTAAACCCCTAAGCAGTAGGGAA
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAGATCTAAACCCCTAAGCAATAGGGAA
* *
234661290 ACAGATCAATGATGACAAGCC
66 ACAGACCAAT-ATGACAAACC
234661311 TTAACCCCCTAAGCAGTAGGGTAACAGGTTGA
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTGA
234661343 AAATCAAATA
Statistics
Matches: 98, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
85 34 0.35
86 48 0.49
87 16 0.16
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (85 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAGATCTAAACCCCTAAGCAATAGGGAA
ACAGACCAATATGACAAACC
Found at i:234661282 original size:42 final size:44
Alignment explanation
Indices: 234661223--234661342 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
234661213 AATTTTCAAA
* *
234661223 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA-GTTTAC-AG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
* * * **
234661265 -ATCTAAACCCCTAAGCAGTAGGGAAACAGATCAATGATGACAAG
1 CCT-TAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
*
234661309 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA
234661343 AAATCAAATA
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 4 0.07
44 28 0.46
45 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (44 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
Found at i:234661419 original size:42 final size:40
Alignment explanation
Indices: 234661373--234661501 Score: 154
Period size: 42 Copynumber: 3.1 Consensus size: 40
234661363 GAAATGGCGT
*
234661373 TGGAACAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
1 TGGAA-AGCTAAA-GCTACAGCAGATCTCCTTGAAGTTTCAG
* * *
234661415 TGGAATTGATCGAAGCTACAGCAGATCTCCTTGAAGTTTCA-
1 TGGAA-AGCT-AAAGCTACAGCAGATCTCCTTGAAGTTTCAG
234661456 TGGATTAAGC-AAAGCTACAGCAGATCTCCTTGAAGTTTCAG
1 TGGA--AAGCTAAAGCTACAGCAGATCTCCTTGAAGTTTCAG
234661497 TGGAA
1 TGGAA
234661502 TTGATTGAAG
Statistics
Matches: 75, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
39 1 0.01
40 29 0.39
41 8 0.11
42 34 0.45
43 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (40 bp):
TGGAAAGCTAAAGCTACAGCAGATCTCCTTGAAGTTTCAG
Found at i:234661482 original size:40 final size:41
Alignment explanation
Indices: 234661384--234661500 Score: 182
Period size: 40 Copynumber: 2.9 Consensus size: 41
234661374 GGAACAGCTA
* * *
234661384 AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATC
1 AAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGG-ATTAAGC
*
234661426 GAAGCTACAGCAGATCTCCTTGAAGTTTCA-TGGATTAAGC
1 AAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGATTAAGC
234661466 AAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGA
1 AAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGA
234661501 ATTGATTGAA
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 34 0.49
41 7 0.10
42 28 0.41
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (41 bp):
AAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGATTAAGC
Found at i:234663159 original size:3 final size:3
Alignment explanation
Indices: 234663092--234663142 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
234663082 TATACATTTA
234663092 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
234663140 TAT
1 TAT
234663143 ATAGTTTTGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:234667821 original size:40 final size:40
Alignment explanation
Indices: 234667736--234667886 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
234667726 AATTGAATGA
* * *
234667736 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
234667776 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
234667817 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
234667856 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
234667887 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:234667900 original size:40 final size:40
Alignment explanation
Indices: 234667772--234667902 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
234667762 TATGCTGGAA
* * *
234667772 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
234667812 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
234667852 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
234667892 ATTATATCCGG
1 ATTATATCCGG
234667903 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:234675758 original size:40 final size:39
Alignment explanation
Indices: 234675692--234675856 Score: 147
Period size: 40 Copynumber: 4.2 Consensus size: 39
234675682 AAATTGAATG
* *
234675692 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
* * * **
234675731 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
* *
234675771 ACATCCGGGCTAAGACCCGAAGGC-ATTCG-TGCGAGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTTGCTG-GAGATT
* * ** *
234675809 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
234675849 ATATCCGG
1 ATATCCGG
234675857 TTATATTCCG
Statistics
Matches: 98, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
37 1 0.01
38 26 0.27
39 18 0.18
40 53 0.54
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTTGCTGGAGATT
Found at i:234675824 original size:38 final size:38
Alignment explanation
Indices: 234675693--234675840 Score: 149
Period size: 40 Copynumber: 3.8 Consensus size: 38
234675683 AATTGAATGA
* * * *
234675693 TATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGATTC
* * *
234675732 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT-TC
234675770 TACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATTC
1 T--ATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATTC
*
234675810 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
234675841 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
37 1 0.01
38 28 0.31
39 17 0.19
40 44 0.48
41 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (38 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATTC
Found at i:234675855 original size:78 final size:78
Alignment explanation
Indices: 234675692--234675856 Score: 192
Period size: 78 Copynumber: 2.1 Consensus size: 78
234675682 AAATTGAATG
*
234675692 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGC-GGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
234675757 TTGTGCTAGTGGCT
65 TTGTGCTAGTGACT
* * * * *
234675771 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCA
* *
234675834 TTTGTGC-ACGTGATT
64 ATTGTGCTA-GTGACT
234675849 ATATCCGG
1 ATATCCGG
234675857 TTATATTCCG
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
77 1 0.01
78 45 0.62
79 16 0.22
80 11 0.15
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (78 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGACT
Found at i:234683688 original size:40 final size:40
Alignment explanation
Indices: 234683622--234683772 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
234683612 AAATTGAATG
* * *
234683622 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
234683661 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
234683701 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
234683741 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
234683773 ACGTGATTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:234683786 original size:40 final size:40
Alignment explanation
Indices: 234683658--234683788 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
234683648 TATGCTGGAA
* * *
234683658 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
234683698 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
234683738 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
234683778 ATTATATCCGG
1 ATTATATCCGG
234683789 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:234688478 original size:40 final size:40
Alignment explanation
Indices: 234688393--234688543 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
234688383 AATTGAATGA
* * * **
234688393 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
234688433 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
234688474 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
234688513 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
234688544 ACGTGTTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:234696434 original size:302 final size:302
Alignment explanation
Indices: 234695888--234696447 Score: 1102
Period size: 302 Copynumber: 1.9 Consensus size: 302
234695878 CAAGAGGTAT
*
234695888 ACTAATAAACTGTACCAATTGGCCCGACCAAAAATCCTAGAAATAAATCCATGGATGGATATATG
1 ACTAATAAACTGTACCAATTGGCCCAACCAAAAATCCTAGAAATAAATCCATGGATGGATATATG
234695953 AGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGTTTTGAAACTCGAGATATGATTTTT
66 AGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGTTTTGAAACTCGAGATATGATTTTT
*
234696018 AAGGCGACAGTGACGCAGTTTTCCAGCCTGATTGGAAATGTCAAATTGGTGGGCAAAAACATGTG
131 AAGGCGACAGTGACGCAGTTTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAAAACATGTG
234696083 AACTTGGCTTGTTAACCCCTCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAACG
196 AACTTGGCTTGTTAACCCCTCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAACG
234696148 CGAAGGTCAGAGCAGTCGATCCCTGTAACTTGGGTAACTTTA
261 CGAAGGTCAGAGCAGTCGATCCCTGTAACTTGGGTAACTTTA
234696190 ACTAATAAACTGTACCAATTGGCCCAACCAAAAATCCTAGAAATAAATCCATGGATGGATATATG
1 ACTAATAAACTGTACCAATTGGCCCAACCAAAAATCCTAGAAATAAATCCATGGATGGATATATG
234696255 AGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGTTTTGAAACTCGAGATATGATTTTT
66 AGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGTTTTGAAACTCGAGATATGATTTTT
234696320 AAGGCGACAGTGACGCAGTTTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAAAACATGTG
131 AAGGCGACAGTGACGCAGTTTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAAAACATGTG
234696385 AACTTGGCTTGTTAACCCCTCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAA
196 AACTTGGCTTGTTAACCCCTCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAA
234696448 TCCATTACTA
Statistics
Matches: 256, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
302 256 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (302 bp):
ACTAATAAACTGTACCAATTGGCCCAACCAAAAATCCTAGAAATAAATCCATGGATGGATATATG
AGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGTTTTGAAACTCGAGATATGATTTTT
AAGGCGACAGTGACGCAGTTTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAAAACATGTG
AACTTGGCTTGTTAACCCCTCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAACG
CGAAGGTCAGAGCAGTCGATCCCTGTAACTTGGGTAACTTTA
Found at i:234699087 original size:40 final size:40
Alignment explanation
Indices: 234699025--234699203 Score: 231
Period size: 40 Copynumber: 4.5 Consensus size: 40
234699015 GGGCTAAGTC
*
234699025 CCGAAGGC-TTTGTGCTATGTTACTAAATCTGGACTAAGAT
1 CCGAAGGCATTTGTGCGA-GTTACTAAATCTGGACTAAGAT
* * *
234699065 CCGAAGGCAATTATGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGAT
234699105 CCGAAGGCATTTGTGCGAGTTACTAAAT-TCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCT-GGACTAAGAT
* * *
234699145 CCAAAGGCATTTGTTCGAGTTACTAAATCCGGGA-TAAG-T
1 CCGAAGGCATTTGTGCGAGTTACTAAAT-CTGGACTAAGAT
234699184 CCCGAAGGCATTTGTGCGAG
1 -CCGAAGGCATTTGTGCGAG
234699204 CTGCTATAAC
Statistics
Matches: 122, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 112 0.92
41 9 0.07
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGAT
Found at i:234699145 original size:80 final size:80
Alignment explanation
Indices: 234699012--234699203 Score: 266
Period size: 80 Copynumber: 2.4 Consensus size: 80
234699002 TCGAATGATG
* * *
234699012 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTATGTTACTAAATCTGGACTAAGATCCGAAGGCAAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCTGGACTAAGATCCAAAGGCAAT
234699076 TATGCGAGTTACTAAA
65 TATGCGAGTTACTAAA
*
234699092 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAAT-TCGGACTAAGATCCAAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCT-GGACTAAGATCCAAAGGCAA
* *
234699155 TTGTTCGAGTTACTAAA
64 TTATGCGAGTTACTAAA
234699172 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAG
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAG
234699204 CTGCTATAAC
Statistics
Matches: 101, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
79 2 0.02
80 87 0.86
81 12 0.12
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGATCCAAAGGCAATT
ATGCGAGTTACTAAA
Found at i:234699217 original size:40 final size:40
Alignment explanation
Indices: 234699012--234699237 Score: 207
Period size: 40 Copynumber: 5.7 Consensus size: 40
234699002 TCGAATGATG
* *
234699012 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTATGTTACTAAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* * *
234699052 T-CTGGACTAAGAT-CCGAAGGCAATTATGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
234699092 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
234699132 TTC-GGACTAAGAT-CCAAAGGCATTTGTTCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
234699172 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTGCTATAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
234699213 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGATAAGTCCCGAAGGCATTTG
234699238 AATGAGTAGC
Statistics
Matches: 161, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
39 4 0.02
40 144 0.89
41 13 0.08
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (40 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:234703411 original size:40 final size:39
Alignment explanation
Indices: 234703367--234703492 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
234703357 GGGACTCAAC
*
234703367 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
234703407 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
234703447 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
234703487 CCGGAT
1 CCGGAT
234703493 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:234703451 original size:80 final size:80
Alignment explanation
Indices: 234703306--234703492 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
234703296 GCTACACATT
* * *
234703306 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
234703370 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
234703386 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
234703449 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
234703467 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
234703493 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:234710023 original size:40 final size:40
Alignment explanation
Indices: 234709915--234710124 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
234709905 CGGGATTTAA
* * * * *
234709915 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
234709955 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234709995 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234710035 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234710075 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234710115 CCGGATATAT
1 CCGGATATAT
234710125 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:234718156 original size:40 final size:40
Alignment explanation
Indices: 234718048--234718257 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
234718038 CGGGATTTAA
* * * * *
234718048 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
234718088 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234718128 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234718168 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234718208 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234718248 CCGGATATAT
1 CCGGATATAT
234718258 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:234720952 original size:21 final size:21
Alignment explanation
Indices: 234720928--234720972 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
234720918 GAGGGATCAA
* *
234720928 ATGCTGGAGTCCCAGAAAAAC
1 ATGCTGGAATCACAGAAAAAC
*
234720949 ATGCTGGAATCACAGAACAAC
1 ATGCTGGAATCACAGAAAAAC
234720970 ATG
1 ATG
234720973 ATAAGCCAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (21 bp):
ATGCTGGAATCACAGAAAAAC
Found at i:234727265 original size:28 final size:29
Alignment explanation
Indices: 234727233--234727322 Score: 166
Period size: 28 Copynumber: 3.2 Consensus size: 29
234727223 CACACCACAT
234727233 TGCCATAT-TTTCCAGCACGCACACTTAG
1 TGCCATATATTTCCAGCACGCACACTTAG
234727261 TGCCAT-TATTTCCAGCACGCACACTTAG
1 TGCCATATATTTCCAGCACGCACACTTAG
234727289 TGCCATATATTTCCAGCACGCACACTTAG
1 TGCCATATATTTCCAGCACGCACACTTAG
234727318 TGCCA
1 TGCCA
234727323 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
27 1 0.02
28 32 0.53
29 27 0.45
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
TGCCATATATTTCCAGCACGCACACTTAG
Found at i:234727341 original size:57 final size:55
Alignment explanation
Indices: 234727233--234727341 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 55
234727223 CACACCACAT
* * *
234727233 TGCCATATTTTCCAGCACGCACACTTAGTGCCATTATTTCCAGCACGCACACTTAG
1 TGCCATATTTTCCAGCACGCACACTTAGTGCCA-TATCTCCACCACACACACTTAG
*
234727289 TGCCATATATTTCCAGCACGCACACTTAGTGCCA-ATCTCGTCACCATACACAC
1 TGCCATAT-TTTCCAGCACGCACACTTAGTGCCATATCTC--CACCACACACAC
234727342 GTATTGCCCG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
55 4 0.09
56 8 0.17
57 34 0.74
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.27
Consensus pattern (55 bp):
TGCCATATTTTCCAGCACGCACACTTAGTGCCATATCTCCACCACACACACTTAG
Found at i:234735073 original size:29 final size:29
Alignment explanation
Indices: 234735001--234735112 Score: 210
Period size: 29 Copynumber: 3.9 Consensus size: 29
234734991 GCACACTTAG
234735001 TATTTCCAGCACGCACAC-TAGTGCCATA
1 TATTTCCAGCACGCACACTTAGTGCCATA
234735029 TA-TTCCAGCACGCACACTTAGTGCCATA
1 TATTTCCAGCACGCACACTTAGTGCCATA
234735057 TATTTCCAGCACGCACACTTAGTGCCATA
1 TATTTCCAGCACGCACACTTAGTGCCATA
234735086 TATTTCCAGCACGCACACTTAGTGCCA
1 TATTTCCAGCACGCACACTTAGTGCCA
234735113 ATCTCGTCAC
Statistics
Matches: 82, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
27 15 0.18
28 14 0.17
29 53 0.65
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
TATTTCCAGCACGCACACTTAGTGCCATA
Found at i:234742796 original size:22 final size:21
Alignment explanation
Indices: 234742761--234742801 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
234742751 GTGCCGTATT
**
234742761 TTTCCAGCTTGCACAGCATATA
1 TTTCCAGCACGCACA-CATATA
234742783 TTTCCAGCACGCACACATA
1 TTTCCAGCACGCACACATA
234742802 GTGCCATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (21 bp):
TTTCCAGCACGCACACATATA
Found at i:234742810 original size:27 final size:27
Alignment explanation
Indices: 234742780--234742890 Score: 195
Period size: 27 Copynumber: 4.0 Consensus size: 27
234742770 TGCACAGCAT
*
234742780 ATATTTCCAGCACGCACACATAGTGCC
1 ATATTTCCAGCACGCACACTTAGTGCC
234742807 ATATTTCCAGCACGCACACTTAGTGCC
1 ATATTTCCAGCACGCACACTTAGTGCC
234742834 ATATTTCCAGCACGCACACTTAGTGCC
1 ATATTTCCAGCACGCACACTTAGTGCC
234742861 ATATATTTCCAGCACGCACACTTAGTGCC
1 --ATATTTCCAGCACGCACACTTAGTGCC
234742890 A
1 A
234742891 ATCTCGTCAC
Statistics
Matches: 81, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
27 54 0.67
29 27 0.33
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.25
Consensus pattern (27 bp):
ATATTTCCAGCACGCACACTTAGTGCC
Found at i:234742874 original size:56 final size:54
Alignment explanation
Indices: 234742780--234742890 Score: 195
Period size: 56 Copynumber: 2.0 Consensus size: 54
234742770 TGCACAGCAT
234742780 ATATTTCCAGCACGCACACATAGTGCCATATTTCCAGCACGCACACTTAGTGCC
1 ATATTTCCAGCACGCACACATAGTGCCATATTTCCAGCACGCACACTTAGTGCC
*
234742834 ATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 ATATTTCCAGCACGCACACATAGTGCC--ATATTTCCAGCACGCACACTTAGTGCC
234742890 A
1 A
234742891 ATCTCGTCAC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 26 0.48
56 28 0.52
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.25
Consensus pattern (54 bp):
ATATTTCCAGCACGCACACATAGTGCCATATTTCCAGCACGCACACTTAGTGCC
Found at i:234748829 original size:26 final size:26
Alignment explanation
Indices: 234748793--234748927 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
234748783 CATGAAATTC
234748793 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
**
234748819 TTATCATGAAACATTTACCTAATACA
1 TTATCATGAAACATTTACCTAACCCA
*
234748845 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
234748871 TTATCATG-AACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
*
234748896 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
234748922 TTATCA
1 TTATCA
234748928 ATTTGTATCA
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
25 24 0.24
26 75 0.76
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:234748908 original size:51 final size:52
Alignment explanation
Indices: 234748793--234748927 Score: 236
Period size: 51 Copynumber: 2.6 Consensus size: 52
234748783 CATGAAATTC
*
234748793 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAATACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACACA
*
234748845 TTATCATAAAACATTTACCTAACCCATTATCATG-AACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACACA
*
234748896 TTATCATGAAACATTTACCTAACCTATTATCA
1 TTATCATGAAACATTTACCTAACCCATTATCA
234748928 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
51 46 0.58
52 33 0.42
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACACA
Found at i:234753805 original size:12 final size:12
Alignment explanation
Indices: 234753788--234753818 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
234753778 AGTACTACCT
234753788 CGGCCTCGACCA
1 CGGCCTCGACCA
234753800 CGGCCTCGACCA
1 CGGCCTCGACCA
234753812 CGGCCTC
1 CGGCCTC
234753819 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:234757070 original size:24 final size:25
Alignment explanation
Indices: 234757003--234757133 Score: 203
Period size: 24 Copynumber: 5.2 Consensus size: 25
234756993 CATGAAATTC
234757003 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
**
234757029 TTATCATGAAACATTTACCTAATACA
1 TTATCATG-AACATTTACCTAACCCA
234757055 TTATCAT-AACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCCA
234757079 TTATCATGAACATTTACCTAA-CCA
1 TTATCATGAACATTTACCTAACCCA
*
234757103 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCCA
234757128 TTATCA
1 TTATCA
234757134 ATTTGTATCA
Statistics
Matches: 98, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
24 46 0.47
25 21 0.21
26 31 0.32
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:234757115 original size:49 final size:51
Alignment explanation
Indices: 234757003--234757133 Score: 214
Period size: 49 Copynumber: 2.6 Consensus size: 51
234756993 CATGAAATTC
234757003 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAATACA
1 TTATCATG-AACATTTACCTAACCCATTATCATGAAACATTTACCTAATACA
*
234757055 TTATCAT-AACATTTACCTAACCCATTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAACATTTACCTAACCCATTATCATGAAACATTTACCTAATACA
*
234757103 TTATCATGAACATTTACCTAACCTATTATCA
1 TTATCATGAACATTTACCTAACCCATTATCA
234757134 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 9 0.12
49 35 0.46
50 25 0.33
52 7 0.09
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (51 bp):
TTATCATGAACATTTACCTAACCCATTATCATGAAACATTTACCTAATACA
Found at i:234757731 original size:24 final size:24
Alignment explanation
Indices: 234757704--234757771 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
234757694 ATTATTATTG
*
234757704 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
234757728 AAATATTATTC-TCCGTTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
*
234757752 AAATATTATCGTCTGTTTTA
1 AAATATTATCGTCCGTTTTA
234757772 CCGTTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:234757910 original size:9 final size:9
Alignment explanation
Indices: 234757898--234758141 Score: 161
Period size: 9 Copynumber: 26.6 Consensus size: 9
234757888 TATTTGATAT
*
234757898 CATAATTTA
1 CATAACTTA
234757907 CATAACTTA
1 CATAACTTA
* *
234757916 TATAACATA
1 CATAACTTA
*
234757925 TATAACTTA
1 CATAACTTA
234757934 CATAACTTA
1 CATAACTTA
* *
234757943 TATAACATA
1 CATAACTTA
234757952 CATAACTTA
1 CATAACTTA
* *
234757961 TATAACATA
1 CATAACTTA
234757970 CATAACTTA
1 CATAACTTA
*
234757979 TATAACTTA
1 CATAACTTA
*
234757988 TATAACTTA
1 CATAACTTA
* *
234757997 GATAA-ATA
1 CATAACTTA
*
234758005 TATAACTTA
1 CATAACTTA
234758014 CATAACTTA
1 CATAACTTA
234758023 CATAATACTTA
1 CAT-A-ACTTA
* *
234758034 AATATATTTTATA
1 CATA-A--CT-TA
*
234758047 TCATAATTTA
1 -CATAACTTA
234758057 CATAACTTA
1 CATAACTTA
234758066 CATAACTTA
1 CATAACTTA
*
234758075 TATAACTTA
1 CATAACTTA
* *
234758084 GATAA-ATA
1 CATAACTTA
* *
234758092 TATAATTTA
1 CATAACTTA
*
234758101 CATAA-ATA
1 CATAACTTA
* * *
234758109 TATATCATA
1 CATAACTTA
*
234758118 TCATAAATTA
1 -CATAACTTA
234758128 CATAACTTA
1 CATAACTTA
234758137 CATAA
1 CATAA
234758142 TACTTAAATA
Statistics
Matches: 188, Mismatches: 37, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
8 17 0.09
9 144 0.77
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:234757920 original size:18 final size:18
Alignment explanation
Indices: 234757898--234758141 Score: 188
Period size: 18 Copynumber: 13.3 Consensus size: 18
234757888 TATTTGATAT
* *
234757898 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
234757916 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
234757934 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
*
234757952 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
234757970 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
234757988 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
234758005 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
234758023 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
234758047 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
234758066 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
234758084 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
234758101 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
234758118 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
234758137 CATAA
1 CATAA
234758142 TACTTAAATA
Statistics
Matches: 182, Mismatches: 34, Indels: 20
0.77 0.14 0.08
Matches are distributed among these distances:
17 38 0.21
18 110 0.60
19 11 0.06
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:234757929 original size:27 final size:27
Alignment explanation
Indices: 234757894--234758141 Score: 196
Period size: 27 Copynumber: 9.0 Consensus size: 27
234757884 AATATATTTG
* *
234757894 ATATCATAATTTACATAACTTATATAAC
1 ATAT-ATAACTTACATAACTTACATAAC
*
234757922 ATATATAACTTACATAACTTATATAAC
1 ATATATAACTTACATAACTTACATAAC
* * *
234757949 ATACATAACTTATATAACATACATAAC
1 ATATATAACTTACATAACTTACATAAC
* * *
234757976 TTATATAACTTATATAACTTAGATAA-
1 ATATATAACTTACATAACTTACATAAC
234758002 ATATATAACTTACATAACTTACATAATAC
1 ATATATAACTTACATAACTTACAT-A-AC
* ** *
234758031 TTAAATATATTTTATATCATAATTTACATAAC
1 --ATATATA-ACT-TA-CATAACTTACATAAC
* * * *
234758063 TTACATAACTTATATAACTTAGATAA-
1 ATATATAACTTACATAACTTACATAAC
* * * *
234758089 ATATATAATTTACATAA-ATATATATC
1 ATATATAACTTACATAACTTACATAAC
*
234758115 ATATCATAAATTACATAACTTACATAA
1 ATAT-ATAACTTACATAACTTACATAA
234758142 TACTTAAATA
Statistics
Matches: 174, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
25 5 0.03
26 38 0.22
27 91 0.52
28 12 0.07
29 1 0.01
30 4 0.02
31 6 0.03
32 3 0.02
33 3 0.02
34 11 0.06
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (27 bp):
ATATATAACTTACATAACTTACATAAC
Found at i:234762136 original size:14 final size:14
Alignment explanation
Indices: 234762119--234762148 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
234762109 TATAATTTTA
234762119 ATCTTTGTCATGTT
1 ATCTTTGTCATGTT
234762133 ATCTTTGTCATGTT
1 ATCTTTGTCATGTT
234762147 AT
1 AT
234762149 ATAATTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.13, G:0.13, T:0.57
Consensus pattern (14 bp):
ATCTTTGTCATGTT
Found at i:234763392 original size:24 final size:25
Alignment explanation
Indices: 234763347--234763393 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
234763337 ATAATCTTTA
* **
234763347 ATTATAATTGTTTAATTCATTATTT
1 ATTATAATTGTTAAATGAATTATTT
234763372 ATTA-AATTGTTAAATGAATTAT
1 ATTATAATTGTTAAATGAATTAT
234763394 AATTAAGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.53
Consensus pattern (25 bp):
ATTATAATTGTTAAATGAATTATTT
Found at i:234764041 original size:31 final size:31
Alignment explanation
Indices: 234764006--234764082 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
234763996 GAATTAATAT
* *
234764006 TTTTGGTTGTATTTTTATGTTAAATTTGCTG
1 TTTTGGTTGCATTTTTATATTAAATTTGCTG
* * *
234764037 TTTTGGCTGCA-TTTTATATTATATTTGTTG
1 TTTTGGTTGCATTTTTATATTAAATTTGCTG
*
234764067 TATTTGGTTGGATTTT
1 T-TTTGGTTGCATTTT
234764083 AATGCAGGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 17 0.46
31 17 0.46
32 3 0.08
ACGTcount: A:0.16, C:0.04, G:0.19, T:0.61
Consensus pattern (31 bp):
TTTTGGTTGCATTTTTATATTAAATTTGCTG
Found at i:234764083 original size:31 final size:30
Alignment explanation
Indices: 234764006--234764083 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
234763996 GAATTAATAT
* *
234764006 TTTTGGTTGTATTTTTATGTTAAATTTGCTG
1 TTTTGGTTGCA-TTTTATATTAAATTTGCTG
* * *
234764037 TTTTGGCTGCATTTTATATTATATTTGTTG
1 TTTTGGTTGCATTTTATATTAAATTTGCTG
*
234764067 TATTTGGTTGGATTTTA
1 T-TTTGGTTGCATTTTA
234764084 ATGCAGGAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 17 0.44
31 22 0.56
ACGTcount: A:0.17, C:0.04, G:0.19, T:0.60
Consensus pattern (30 bp):
TTTTGGTTGCATTTTATATTAAATTTGCTG
Found at i:234764267 original size:43 final size:42
Alignment explanation
Indices: 234764154--234764445 Score: 480
Period size: 43 Copynumber: 6.8 Consensus size: 42
234764144 TTGTAAAAAG
234764154 CGCCGCTAAAAGCCTTTGACGCTTTTAGCGGCGCTTTCCCACAAA
1 CGCCGCTAAAAGCC-TTGAC-C-TTTAGCGGCGCTTTCCCACAAA
234764199 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTCCCACAAA
*
234764241 TGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGC-TTTCCCACAAA
*
234764285 CGCCGCTAAAAGCCCTTGACCTTTAGCGGCGCTTTTCCACAAA
1 CGCCGCTAAAAG-CCTTGACCTTTAGCGGCGCTTTCCCACAAA
234764328 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGC-TTTCCCACAAA
234764371 CGCCGCTAAAAGCC-TGACCTTTTAGCGGCGC-TTCCCACAAA
1 CGCCGCTAAAAGCCTTGACC-TTTAGCGGCGCTTTCCCACAAA
234764412 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTT
234764446 TTTCCAATAA
Statistics
Matches: 236, Mismatches: 4, Indels: 17
0.92 0.02 0.07
Matches are distributed among these distances:
41 35 0.15
42 59 0.25
43 87 0.37
44 41 0.17
45 14 0.06
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTCCCACAAA
Found at i:234765552 original size:43 final size:43
Alignment explanation
Indices: 234765457--234765774 Score: 386
Period size: 43 Copynumber: 7.4 Consensus size: 43
234765447 NNNNNNNNNN
* *
234765457 ACGTAATCACATATCGATGCCACTATCCC-GACAAGGTCTTAC
1 ACGTAATCACATATCGATGCCAATATCCCAGACATGGTCTTAC
* * * *
234765499 ACGTAATCACATATCGATGTCAATGTCCTAAACATGGTCTTAC
1 ACGTAATCACATATCGATGCCAATATCCCAGACATGGTCTTAC
* * *
234765542 ACGTAATCACATATTGATGCCAACATCCCAGACGTGGTCTTAC
1 ACGTAATCACATATCGATGCCAATATCCCAGACATGGTCTTAC
* * * * * *
234765585 ATGTAATCACATATCGATGCCACTATCCTAGATAAGGTCTTAT
1 ACGTAATCACATATCGATGCCAATATCCCAGACATGGTCTTAC
* * * *
234765628 ACGTAATCACATGTTGATGCCAACATCCCAGACGTGGTCTTAC
1 ACGTAATCACATATCGATGCCAATATCCCAGACATGGTCTTAC
* * * * *
234765671 ACATAATCATATATCGATGCCACTATCCTAGACAAGGTCTTAC
1 ACGTAATCACATATCGATGCCAATATCCCAGACATGGTCTTAC
* * *
234765714 ACATAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTAC
1 ACGTAATCACATATCGATGCCAATATCCCAGACATGGTCTTAC
234765757 ACGTAATCACATATCGAT
1 ACGTAATCACATATCGAT
234765775 ATCACATATC
Statistics
Matches: 227, Mismatches: 48, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
42 25 0.11
43 202 0.89
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ACGTAATCACATATCGATGCCAATATCCCAGACATGGTCTTAC
Found at i:234765603 original size:86 final size:86
Alignment explanation
Indices: 234765457--234765774 Score: 451
Period size: 86 Copynumber: 3.7 Consensus size: 86
234765447 NNNNNNNNNN
** *
234765457 ACGTAATCACATATCGATGCC-ACTATCCC-GACAAGGTCTTACACGTAATCACATATCGATGTC
1 ACGTAATCACATATCGATGCCAAC-ATCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
* * * *
234765520 AATGTCCTAAACATGGTCTTAC
65 ACTATCCTAGACAAGGTCTTAC
* *
234765542 ACGTAATCACATATTGATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCA
1 ACGTAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCA
* *
234765607 CTATCCTAGATAAGGTCTTAT
66 CTATCCTAGACAAGGTCTTAC
* * * *
234765628 ACGTAATCACATGTTGATGCCAACATCCCAGACGTGGTCTTACACATAATCATATATCGATGCCA
1 ACGTAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCA
234765693 CTATCCTAGACAAGGTCTTAC
66 CTATCCTAGACAAGGTCTTAC
* **
234765714 ACATAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGTAATCACATATCGAT
1 ACGTAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCGAT
234765775 ATCACATATC
Statistics
Matches: 207, Mismatches: 24, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
85 25 0.12
86 182 0.88
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (86 bp):
ACGTAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCA
CTATCCTAGACAAGGTCTTAC
Found at i:234768194 original size:27 final size:27
Alignment explanation
Indices: 234768164--234768225 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
234768154 TTTAAAACCC
234768164 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTCTT
*
234768191 TA-GGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGGTAATTTTGCTCTT
234768218 TAGGGGTA
1 TAGGGGTA
234768226 ATTTCGTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.12
27 24 0.75
28 4 0.12
ACGTcount: A:0.19, C:0.10, G:0.27, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGGTAATTTTGCTCTT
Found at i:234769874 original size:20 final size:20
Alignment explanation
Indices: 234769851--234769888 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
234769841 CACATCCAAA
*
234769851 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
234769871 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
234769889 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:234774051 original size:28 final size:28
Alignment explanation
Indices: 234774005--234774073 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
234773995 TTTAAAACCC
*
234774005 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
234774032 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
234774060 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
234774074 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:234775720 original size:20 final size:20
Alignment explanation
Indices: 234775697--234775734 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
234775687 CACATCCAAA
*
234775697 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
234775717 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
234775735 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:234776342 original size:7 final size:6
Alignment explanation
Indices: 234776306--234776339 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
234776296 ACGGGTTAAT
234776306 AAATAA AAATAA AAATAA AAATAA ATAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA A-AATAA AAA
234776340 ATAGGCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:234776756 original size:64 final size:65
Alignment explanation
Indices: 234776649--234776778 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 65
234776639 CCCCTAGGGT
* *
234776649 TAAGGTTGACCTGATTGCATGTTTGACTATTACTATTTACTGCATGCCGTGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
* *
234776714 TAAGGTTGA-CTGAATGCATGTTTGACTGTTACTATTTGCTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
234776778 T
1 T
234776779 GCATGGGACT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 52 0.85
65 9 0.15
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:234778819 original size:28 final size:28
Alignment explanation
Indices: 234778750--234778850 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
234778740 GACAAGATTG
* * * *
234778750 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
234778780 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
234778808 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
234778837 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
234778851 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:234778844 original size:29 final size:28
Alignment explanation
Indices: 234778779--234778850 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
234778769 AAAATTGTAC
*
234778779 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
234778807 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
234778836 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
234778851 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:234786708 original size:39 final size:40
Alignment explanation
Indices: 234786663--234786786 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
234786653 ACTAGGATCT
*
234786663 GAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-CCC
1 GAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTCCC
* * * * *
234786702 GAAGGCATTTGTGCAAATTACTAAACCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTCCC
* * **
234786742 GAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTTCGTCCC
1 GAAGGCATTCGTGCGAGTTAATA-AACCCGGGCTAAGTCCC
234786782 GAAGG
1 GAAGG
234786787 TATTTGAGCG
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
39 30 0.43
40 38 0.54
41 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
GAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTCCC
Found at i:234786749 original size:40 final size:39
Alignment explanation
Indices: 234786663--234786755 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 39
234786653 ACTAGGATCT
* * *
234786663 GAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCC
1 GAAGGCATTCGTGCAAATTAATAAACCCGGGCTAAGCCC
* * *
234786702 GAAGGCATTTGTGCAAATTACTAAACCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCAAATTAATAAACCCGGGCTAAG-CCC
234786742 GAAGGCATTCGTGC
1 GAAGGCATTCGTGC
234786756 GAGTCACTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 30 0.65
40 16 0.35
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
GAAGGCATTCGTGCAAATTAATAAACCCGGGCTAAGCCC
Found at i:234786772 original size:40 final size:40
Alignment explanation
Indices: 234786663--234786800 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 40
234786653 ACTAGGATCT
* * * *
234786663 GAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-CCC
1 GAAGGCATTCGTGCGAGTCACTAAACCCGGGTTAAGTCCC
* * * *
234786702 GAAGGCATTTGTGCAAATTACTAAACCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGAGTCACTAAACCCGGGTTAAGTCCC
*
234786742 GAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTT-CGTCCC
1 GAAGGCATTCGTGCGAGTCACTA-AACCCGGG-TTAAGTCCC
* * *
234786782 GAAGGTATTTGAGCGAGTC
1 GAAGGCATTCGTGCGAGTC
234786801 GTTATATCCG
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 30 0.37
40 48 0.59
41 4 0.05
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
GAAGGCATTCGTGCGAGTCACTAAACCCGGGTTAAGTCCC
Found at i:234796017 original size:41 final size:41
Alignment explanation
Indices: 234795972--234796089 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
234795962 TGAAAGATAA
234795972 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
234796013 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
234796043 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
234796084 ATGTAG
1 ATGTAG
234796090 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:234796028 original size:71 final size:71
Alignment explanation
Indices: 234795940--234796103 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
234795930 GAGATGTATC
234795940 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
234796005 AGGACA
66 AGGACA
234796011 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
234796076 AGGACA
66 AGGACA
234796082 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
234796104 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:234797473 original size:27 final size:27
Alignment explanation
Indices: 234797433--234797508 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
234797423 CCCATAGGGT
234797433 AAAATGACTGTTTTGCCCTTATGAGAC
1 AAAATGACTGTTTTGCCCTTATGAGAC
* * *
234797460 AAAATGACTATTTTGCCCTTGTGAGGC
1 AAAATGACTGTTTTGCCCTTATGAGAC
234797487 AAAATGACTGTTTTGCCCTTAT
1 AAAATGACTGTTTTGCCCTTAT
234797509 ATGGTAAGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
AAAATGACTGTTTTGCCCTTATGAGAC
Found at i:234797528 original size:54 final size:56
Alignment explanation
Indices: 234797433--234797539 Score: 130
Period size: 54 Copynumber: 1.9 Consensus size: 56
234797423 CCCATAGGGT
*
234797433 AAAATGACTGTTTTGCCCTTATGAGACAAAATGACTATTTT-GCCCT-TGTGAGGC
1 AAAATGACTGTTTTGCCCTTATGAGACAAAATAACTATTTTGGCCCTATGTGAGGC
** ** *
234797487 AAAATGACTGTTTTGCCCTTAT-ATGGTAAGGTAACTGTTTTGGCCCTATGTGA
1 AAAATGACTGTTTTGCCCTTATGA-GACAAAATAACTATTTTGGCCCTATGTGA
234797540 TGTATGTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.75
55 5 0.11
56 5 0.11
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (56 bp):
AAAATGACTGTTTTGCCCTTATGAGACAAAATAACTATTTTGGCCCTATGTGAGGC
Found at i:234797990 original size:34 final size:35
Alignment explanation
Indices: 234797932--234798009 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 35
234797922 AGATGGGCCT
234797932 AGGCCCAGACTGTTTACTGATACTAAAATAGGCTA
1 AGGCCCAGACTGTTTACTGATACTAAAATAGGCTA
* * * * *
234797967 AGGCCTAGACTG-TTACTGTTACTAACATGGGCTT
1 AGGCCCAGACTGTTTACTGATACTAAAATAGGCTA
234798001 AGGCCCAGA
1 AGGCCCAGA
234798010 ATGTATTTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 26 0.70
35 11 0.30
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (35 bp):
AGGCCCAGACTGTTTACTGATACTAAAATAGGCTA
Found at i:234798122 original size:69 final size:69
Alignment explanation
Indices: 234798011--234798148 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
234798001 AGGCCCAGAA
*
234798011 TGTATTTACTCTCTGTATGTTCGACTATTTGTTTATTATCGGGATTACACATTGAGTTTTCGTAA
1 TGTATTTACTCTCTGTATGTTCGACTATTTGTTTATTATCGGGATTACACACTGAGTTTTCGTAA
234798076 ACTC
66 ACTC
234798080 TGTATTTACTCTCTGTATGTTCGACTATTTGTTTATTATCGGGATTACACACTGAGTTTTCGTAA
1 TGTATTTACTCTCTGTATGTTCGACTATTTGTTTATTATCGGGATTACACACTGAGTTTTCGTAA
234798145 ACTC
66 ACTC
234798149 ACCCAACTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.46
Consensus pattern (69 bp):
TGTATTTACTCTCTGTATGTTCGACTATTTGTTTATTATCGGGATTACACACTGAGTTTTCGTAA
ACTC
Found at i:234798938 original size:42 final size:42
Alignment explanation
Indices: 234798830--234798996 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 42
234798820 CGATATGTGT
* * * **
234798830 TTTCGTGTAAGACCACGTCTGGGACATTGAAATTG-ACTTATGA
1 TTTCATGTAAGACCACGTCTAGGACGTTGGCATTGTA-TT-TGA
*
234798873 TTTACATGTAAGACCACGCCTAGGACGTTGGCATTGTATTTGA
1 TTT-CATGTAAGACCACGTCTAGGACGTTGGCATTGTATTTGA
** *
234798916 TTTCATGTAAGACCTTGTCTAGGACAG-TGGCATCGATATTTGA
1 TTTCATGTAAGACCACGTCTAGGAC-GTTGGCATTG-TATTTGA
* *
234798959 TTACATGTAAGACCACATCTAGGACGTTGGCATTGTAT
1 TTTCATGTAAGACCACGTCTAGGACGTTGGCATTGTAT
234798997 GAGCTTTCCG
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
42 30 0.29
43 45 0.43
44 28 0.27
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
TTTCATGTAAGACCACGTCTAGGACGTTGGCATTGTATTTGA
Found at i:234806585 original size:30 final size:30
Alignment explanation
Indices: 234806530--234806660 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
234806520 ATAGTGAATC
*
234806530 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
234806559 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
234806589 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
234806617 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
234806647 CGCACACTTAGTGC
1 CGCACACTTAGTGC
234806661 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:234806640 original size:58 final size:58
Alignment explanation
Indices: 234806529--234806660 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
234806519 TATAGTGAAT
* * * * *
234806529 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
234806588 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
234806646 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
234806661 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:234814520 original size:30 final size:30
Alignment explanation
Indices: 234814465--234814595 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
234814455 ATAGTGAATC
*
234814465 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
234814494 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
234814524 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
234814552 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
234814582 CGCACACTTAGTGC
1 CGCACACTTAGTGC
234814596 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:234814575 original size:58 final size:58
Alignment explanation
Indices: 234814464--234814595 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
234814454 TATAGTGAAT
* * * * *
234814464 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
234814523 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
234814581 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
234814596 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:234823673 original size:40 final size:39
Alignment explanation
Indices: 234823514--234823675 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
234823504 TGTGAATGAA
*
234823514 TGTGCGAATTGTGATATCCGGGCTAAG-CCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
234823552 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
234823591 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* **
234823630 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
234823670 TGTGCG
1 TGTGCG
234823676 GGTTACCATA
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 27 0.24
39 71 0.62
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:234826530 original size:39 final size:38
Alignment explanation
Indices: 234826424--234826530 Score: 126
Period size: 40 Copynumber: 2.7 Consensus size: 38
234826414 ATCACGATTT
** *
234826424 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAG-ACCACTA
234826464 GCACGAATGCCTTCGGGTCTTAGCCCGGATTAG-CCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGA-TAGACCACTA
*
234826503 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
234826531 TTATAATTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.03
39 27 0.45
40 28 0.47
41 3 0.05
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGACCACTA
Found at i:234830794 original size:40 final size:40
Alignment explanation
Indices: 234830749--234830878 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
234830739 CGGAATACAA
234830749 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
234830789 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
234830829 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
234830869 CCGGATATAA
1 CCGGATATAA
234830879 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:234830893 original size:40 final size:40
Alignment explanation
Indices: 234830749--234830912 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
234830739 CGGAATACAA
* **
234830749 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
234830789 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
234830829 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
234830869 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
234830909 CCGG
1 CCGG
234830913 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:234834919 original size:66 final size:68
Alignment explanation
Indices: 234834843--234835029 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
234834833 TAGTACCACT
*
234834843 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
234834905 CACG
65 CACG
234834909 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
234834974 ATCACG
63 ATCACG
234834980 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
234835030 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:234834954 original size:71 final size:71
Alignment explanation
Indices: 234834866--234835029 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
234834856 CGATTTGTCT
234834866 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
234834931 CTTTCA
66 CTTTCA
234834937 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
234835002 CTTTCA
66 CTTTCA
234835008 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
234835030 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:234835067 original size:71 final size:70
Alignment explanation
Indices: 234834866--234835063 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
234834856 CGATTTGTCT
* * *
234834866 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
234834931 CTTTCA
65 CTTTCA
* * *
234834937 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
234835002 CTTTCA
65 CTTTCA
* *
234835008 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
234835064 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Done.