Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 43 of 250
Found at i:13189783 original size:27 final size:29
Alignment explanation
Indices: 13189744--13189798 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
13189734 ACAAAAACAC
*
13189744 AAAAATCCAT-AAAATTAGAAAAAATTTAG
1 AAAAATCCATAAAAAATA-AAAAAATTTAG
13189773 AAAAAT-C-TAAAAAATAAAAAAATTTA
1 AAAAATCCATAAAAAATAAAAAAATTTA
13189799 TAGAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 11 0.46
28 7 0.29
29 6 0.25
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.24
Consensus pattern (29 bp):
AAAAATCCATAAAAAATAAAAAAATTTAG
Found at i:13193857 original size:22 final size:23
Alignment explanation
Indices: 13193832--13193877 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
13193822 CAACCAAATC
13193832 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
13193854 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
13193877 A
1 A
13193878 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:13193883 original size:23 final size:23
Alignment explanation
Indices: 13193839--13193883 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13193829 ATCAATTCAA
*
13193839 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
13193862 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
13193884 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:13197610 original size:20 final size:20
Alignment explanation
Indices: 13197571--13197610 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13197561 TTAAATTCTA
*
13197571 AAAGACAAATACAAACAAAT
1 AAAGACAAATAAAAACAAAT
* *
13197591 AAAGATAAATAAAAATAAAT
1 AAAGACAAATAAAAACAAAT
13197611 CCTAAATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAGACAAATAAAAACAAAT
Found at i:13214917 original size:28 final size:28
Alignment explanation
Indices: 13214835--13214924 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
13214825 TGAGCGTGAC
13214835 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
13214864 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
*
13214893 TATTAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
13214921 TATA
1 TATA
13214925 CAGGTATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 20 0.36
29 35 0.64
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:13222810 original size:44 final size:42
Alignment explanation
Indices: 13222747--13222905 Score: 155
Period size: 42 Copynumber: 3.7 Consensus size: 42
13222737 TATGTGTTAT
*
13222747 CGTGTAAGAACACGTCTGGGACGTTGGCATCGATTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT--GATTTA
* *
13222791 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGATTTA
* * * *
13222833 TGTGTAAGACC-CTATCTGGGATAG-TGGCATCGATATT-TTATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGAT-TTGAT-TTA
*
13222876 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
13222906 TGTACGAGCC
Statistics
Matches: 94, Mismatches: 13, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
41 3 0.03
42 30 0.32
43 27 0.29
44 30 0.32
45 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTTA
Found at i:13222851 original size:42 final size:42
Alignment explanation
Indices: 13222746--13222905 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 42
13222736 ATATGTGTTA
* *
13222746 TCGTGTAAGAACAC-GTCTGGGACGTTGGCATCG-ATTTGAGATT
1 TCGTGTAAG-ACCCTGTCTGGGACATTGGCATCGTATTT--GATT
*
13222789 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATT
* * * * *
13222832 TTGTGTAAGACCCTATCTGGGATAGTGGCATCGATATTTTATT
1 TCGTGTAAGACCCTGTCTGGGACATTGGCATCG-TATTTGATT
* * *
13222875 ACATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 TCGTGTAAGACC-CTGTCTGGGACATTGGCAT
13222906 TGTACGAGCC
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 27 0.28
43 38 0.40
44 27 0.28
45 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATT
Found at i:13228367 original size:17 final size:18
Alignment explanation
Indices: 13228340--13228373 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13228330 AATTAAATAT
13228340 ATGCATATTAATTTATTA
1 ATGCATATTAATTTATTA
13228358 ATGC-TATTAATTTATT
1 ATGCATATTAATTTATT
13228374 TAAACAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
ATGCATATTAATTTATTA
Found at i:13228568 original size:25 final size:22
Alignment explanation
Indices: 13228540--13228598 Score: 55
Period size: 25 Copynumber: 2.4 Consensus size: 22
13228530 ATCCTAACTC
*
13228540 TATAATAAGTTGATAATAATTAATA
1 TATAATAA-TGGAT-ATAATT-ATA
13228565 TATATTATAATGGATATAATTATA
1 TATA--ATAATGGATATAATTATA
13228589 TATTAATAAT
1 TA-TAATAAT
13228599 TATTATCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
23 5 0.17
24 5 0.17
25 12 0.40
26 4 0.13
27 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
TATAATAATGGATATAATTATA
Found at i:13229037 original size:13 final size:13
Alignment explanation
Indices: 13229019--13229043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13229009 ATGAACGAAA
13229019 TTTGATTCTGTTG
1 TTTGATTCTGTTG
13229032 TTTGATTCTGTT
1 TTTGATTCTGTT
13229044 CAGTCTTATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (13 bp):
TTTGATTCTGTTG
Found at i:13232215 original size:39 final size:41
Alignment explanation
Indices: 13232161--13232377 Score: 285
Period size: 39 Copynumber: 5.6 Consensus size: 41
13232151 AACCCAAGTA
* *
13232161 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
13232200 CCTTCGGGTCTTAG-CCGGATATAGTC-ACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
13232239 CCTTC-GGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
13232278 CCTTC-GGACTTAGCCCGG-TATAGTCAA-TAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
13232316 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
13232355 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
13232378 CATCCGAATA
Statistics
Matches: 159, Mismatches: 12, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
38 26 0.16
39 119 0.75
40 14 0.09
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:13232375 original size:117 final size:117
Alignment explanation
Indices: 13232161--13232377 Score: 316
Period size: 117 Copynumber: 1.9 Consensus size: 117
13232151 AACCCAAGTA
* * *
13232161 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCGGATATAGTC
1 CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAGTC
13232226 ACTAGCACAAAAGCCTTCGGACTTAGCCCGGATATAGCAACTCGCACAAACG
66 ACTAGCACAAAAGCCTTCGGACTTAGCCCGGATATAGCAACTCGCACAAACG
*
13232278 CCTTC-GGACTTAGCCCGG-TATAGTCAA-TAGCACAACTGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAG-CCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAG-CCGGATATA
* *
13232340 GTCACTAGCAC-CATGCCTTCGGGACTTAGCCCGGATAT
63 GTCACTAGCACAAAAGCCTTC-GGACTTAGCCCGGATAT
13232378 CATCCGAATA
Statistics
Matches: 90, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
116 41 0.46
117 49 0.54
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (117 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAGTC
ACTAGCACAAAAGCCTTCGGACTTAGCCCGGATATAGCAACTCGCACAAACG
Found at i:13240673 original size:39 final size:41
Alignment explanation
Indices: 13240619--13240836 Score: 276
Period size: 40 Copynumber: 5.6 Consensus size: 41
13240609 AACCCAAGTA
* * *
13240619 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
13240658 CCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
13240698 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
13240738 CCTTC-GGACTTAG-CCGG-TATAGTCAA-TAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
13240775 CCTTCGGGACTTAGCCCGGTTATAGTC-ACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
13240814 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
13240837 CATCCAAATA
Statistics
Matches: 157, Mismatches: 14, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
37 18 0.11
38 15 0.10
39 50 0.32
40 73 0.46
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:13240785 original size:77 final size:79
Alignment explanation
Indices: 13240619--13240836 Score: 284
Period size: 77 Copynumber: 2.8 Consensus size: 79
13240609 AACCCAAGTA
* * *
13240619 CCTTCGGGATTTAG-CCAGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAG-CCGGATATAG
*
13240683 TCACTAGCACAAAAG
65 TCAATAGCACAAAAG
*
13240698 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAACGCCTTC-GGACTTAGCCGG-TATAGT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
**
13240761 CAATAGCACAACTG
66 CAATAGCACAAAAG
* * *
13240775 CCTTCGGGACTTAGCCCGGTTATAGTC-ACTAGCAC-CATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAG-CCGGATAT
13240837 CATCCAAATA
Statistics
Matches: 123, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
76 7 0.06
77 56 0.46
78 9 0.07
79 23 0.19
80 28 0.23
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
CAATAGCACAAAAG
Found at i:13252620 original size:28 final size:28
Alignment explanation
Indices: 13252544--13252662 Score: 159
Period size: 28 Copynumber: 4.3 Consensus size: 28
13252534 TGGGAAGTAG
*
13252544 TTGGCCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
13252572 TTGGGCCT-ATGGGCCATATGAATTTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
13252599 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
** * * *
13252627 TTGGGCCTGATGGAACATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
13252655 TTGGGCCT
1 TTGGGCCT
13252663 AAAGGGGCCA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 25 0.31
28 55 0.69
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.29
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:13253009 original size:27 final size:27
Alignment explanation
Indices: 13252978--13253185 Score: 245
Period size: 27 Copynumber: 7.7 Consensus size: 27
13252968 TAATGAAGAG
*
13252978 AAAATTACCGAAATACCCTCGATTTGT
1 AAAATTACCGAAACACCCTCGATTTGT
* * * *
13253005 GAAATTATCGGAACACCCTCGATTTGA
1 AAAATTACCGAAACACCCTCGATTTGT
* *
13253032 AAAATTACTGAAACACCCTCAATTTGT
1 AAAATTACCGAAACACCCTCGATTTGT
** *
13253059 AAAATTATTGAAACACCCTCGATTTTT
1 AAAATTACCGAAACACCCTCGATTTGT
* * *
13253086 AAAATTACTGAAATACCCTCGATCTGT
1 AAAATTACCGAAACACCCTCGATTTGT
* **
13253113 AAAATTACCTAAATGCCCTCGATTTGT
1 AAAATTACCGAAACACCCTCGATTTGT
*
13253140 AAAATTACCGAAACACCCCCGATTTGT
1 AAAATTACCGAAACACCCTCGATTTGT
* *
13253167 AAAATTATCGAAATACCCT
1 AAAATTACCGAAACACCCT
13253186 TGTAGTGTAA
Statistics
Matches: 152, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.29
Consensus pattern (27 bp):
AAAATTACCGAAACACCCTCGATTTGT
Found at i:13253237 original size:27 final size:27
Alignment explanation
Indices: 13253164--13253225 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
13253154 ACCCCCGATT
*
13253164 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCATTGTAG
*
13253191 TGTAAAATTATTGAAATACCATTGTAG
1 TGTAAAATTATCGAAATACCATTGTAG
13253218 TGTAAAAT
1 TGTAAAAT
13253226 GACCGACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCATTGTAG
Found at i:13257897 original size:41 final size:41
Alignment explanation
Indices: 13257852--13257941 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
13257842 AGTTAATTAT
* * *
13257852 CCCCTATTTGTACTTC-AGTACCATTGAATTGCACATCCGTG
1 CCCCTATTTGTACTTCGA-TACCATTAAATTGCACATACGAG
*
13257893 CCCCTGTTTGTACTTCGATACCATTAAATTGCACATACGAG
1 CCCCTATTTGTACTTCGATACCATTAAATTGCACATACGAG
13257934 -CCCTATTT
1 CCCCTATTT
13257942 ACACTTCGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 7 0.16
41 35 0.81
42 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.34
Consensus pattern (41 bp):
CCCCTATTTGTACTTCGATACCATTAAATTGCACATACGAG
Found at i:13266933 original size:56 final size:57
Alignment explanation
Indices: 13266854--13266990 Score: 213
Period size: 56 Copynumber: 2.4 Consensus size: 57
13266844 ATCGTATTAC
* * *
13266854 AGGATTACCAGTCCAGGCTAAATCCTTTATGTAACGTATGCTTAGAAGAGCTTAATT
1 AGGATTACCAGTCCAGGCTAAATCATTTATGTAACGTATGCTTAGAAGAACTCAATT
**
13266911 AGGATTACCA-TTTAGGCTAAATCATTTATGTAACGTATGCTTAGAAGAACTCAATT
1 AGGATTACCAGTCCAGGCTAAATCATTTATGTAACGTATGCTTAGAAGAACTCAATT
*
13266967 AGGATTACTAGTCCAGGCTAAATC
1 AGGATTACCAGTCCAGGCTAAATC
13266991 CCAATTGTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 50 0.70
57 21 0.30
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCATTTATGTAACGTATGCTTAGAAGAACTCAATT
Found at i:13269071 original size:24 final size:24
Alignment explanation
Indices: 13269035--13269115 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
13269025 TTGGAGGCCT
* *
13269035 AGCCTCTTTTAATAACTGGGGAAAA
1 AGCC-CTTTTAATAACTGGGGCATA
13269060 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13269084 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13269107 AGCCCTTTT
1 AGCCCTTTT
13269116 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
23 23 0.43
24 26 0.49
25 4 0.08
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:13269096 original size:23 final size:23
Alignment explanation
Indices: 13269042--13269114 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
13269032 CCTAGCCTCT
* *
13269042 TTTAATAACTGGGGAAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
13269065 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
13269089 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
13269112 TTT
1 TTT
13269115 TGCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:13269200 original size:19 final size:20
Alignment explanation
Indices: 13269165--13269228 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
13269155 ATGAATACAC
13269165 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
13269185 CATGTGCATA-CATACATGT
1 CATGTGCATATCATACATAT
* *
13269204 CATGTGTATATCATACATAC
1 CATGTGCATATCATACATAT
13269224 CATGT
1 CATGT
13269229 TTATCAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 17 0.44
20 22 0.56
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:13273768 original size:31 final size:31
Alignment explanation
Indices: 13273722--13273798 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
13273712 AACATGTACT
*
13273722 GGGCCGTAGCCCTTTTCATATTTCATAACACG
1 GGGCCGAAG-CCTTTTCATATTTCATAACACG
** *
13273754 GGGCCGAAGCCTTTTCATATTTCATATTACT
1 GGGCCGAAGCCTTTTCATATTTCATAACACG
13273785 GGGCCGAAGCCTTT
1 GGGCCGAAGCCTTT
13273799 ACTGTAAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 33 0.80
32 8 0.20
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (31 bp):
GGGCCGAAGCCTTTTCATATTTCATAACACG
Found at i:13274056 original size:23 final size:24
Alignment explanation
Indices: 13274006--13274108 Score: 167
Period size: 23 Copynumber: 4.4 Consensus size: 24
13273996 CTAGAGGCCT
*
13274006 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
13274031 AGCCCTTTTAATAACT-GGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13274054 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13274077 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13274100 AGCCCTTTT
1 AGCCCTTTT
13274109 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
22 10 0.13
23 46 0.61
24 15 0.20
25 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:13274183 original size:20 final size:20
Alignment explanation
Indices: 13274158--13274222 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
13274148 ATGAATACAC
13274158 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
13274178 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
13274198 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
13274218 CATGT
1 CATGT
13274223 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:13274189 original size:11 final size:11
Alignment explanation
Indices: 13274158--13274211 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
13274148 ATGAATACAC
13274158 CATGTGCATAT
1 CATGTGCATAT
*
13274169 CA--TACATAT
1 CATGTGCATAT
13274178 CATGTGCATAT
1 CATGTGCATAT
* *
13274189 CA--TACATGT
1 CATGTGCATAT
13274198 CATGTGCATAT
1 CATGTGCATAT
13274209 CAT
1 CAT
13274212 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:13274301 original size:25 final size:25
Alignment explanation
Indices: 13274258--13274306 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
13274248 CATATTTAAA
* * *
13274258 ACCTAGGGGTATAATGGTCATTTTT
1 ACCTAGGGGCAAAACGGTCATTTTT
13274283 ACCTAGGGGCAAAACGGTCATTTT
1 ACCTAGGGGCAAAACGGTCATTTT
13274307 CATATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (25 bp):
ACCTAGGGGCAAAACGGTCATTTTT
Found at i:13276746 original size:19 final size:18
Alignment explanation
Indices: 13276709--13276752 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
13276699 ATACTTACAG
13276709 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
13276726 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
13276745 TACTAATT
1 TAATAATT
13276753 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:13282769 original size:42 final size:42
Alignment explanation
Indices: 13282715--13282836 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 42
13282705 TTAGGGTTAT
*
13282715 TGAGATTACGTGTAAGACCATATCTGGGATATGGTATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
13282757 TGAGACTT-CGTGTAAGACCATAGCT-GGACTATTGGCATGGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGA-TA-TGGCATCGATA
*
13282800 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
13282837 TGGTACGGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
41 3 0.04
42 31 0.44
43 33 0.47
44 3 0.04
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:13284807 original size:24 final size:24
Alignment explanation
Indices: 13284775--13284860 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 24
13284765 TATAACTGAA
* *
13284775 GGCATAGCCTCTTTTAAT-AGCTGG
1 GGCAAAGCC-CTTTTAATAAACTGG
*
13284799 GGCAAAGCCCTTTTTGATAAACTGG
1 GGCAAAGCCC-TTTTAATAAACTGG
** *
13284824 GGCAAAGCCCTTTTCGGTAAACTAG
1 GGCAAAGCCCTTTT-AATAAACTGG
13284849 GGCAAAGCCCTT
1 GGCAAAGCCCTT
13284861 GTGCAGTTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.02
24 18 0.33
25 35 0.65
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (24 bp):
GGCAAAGCCCTTTTAATAAACTGG
Found at i:13284827 original size:25 final size:25
Alignment explanation
Indices: 13284795--13284860 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
13284785 CTTTTAATAG
*
13284795 CTGGGGCAAAGCCCTTTTTGATAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
*
13284820 CTGGGGCAAAGCCCTTTTCGGTAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
*
13284845 CTAGGGCAAAGCCCTT
1 CTGGGGCAAAGCCCTT
13284861 GTGCAGTTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
CTGGGGCAAAGCCCTTTTCGATAAA
Found at i:13284940 original size:20 final size:21
Alignment explanation
Indices: 13284915--13284958 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
13284905 GAATACATCT
*
13284915 TGTGCATATCATA-CATATCA
1 TGTGCATATCATATCAAATCA
13284935 TGTGCATATCATATCAAATCA
1 TGTGCATATCATATCAAATCA
13284956 TGT
1 TGT
13284959 ATATCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
TGTGCATATCATATCAAATCA
Found at i:13292409 original size:31 final size:31
Alignment explanation
Indices: 13292333--13292413 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 31
13292323 CAGTCTCAAC
13292333 ATATACTGGGCCGAAGCC-TTTCATTAAACG
1 ATATACTGGGCCGAAGCCTTTTCATTAAACG
* ***
13292363 AT-TACTGGGCTGAAGCCTTTTCA-TAATTT
1 ATATACTGGGCCGAAGCCTTTTCATTAAACG
13292392 ATATCACTGGGCCGAAGCCTTT
1 ATAT-ACTGGGCCGAAGCCTTT
13292414 ACTGTAAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 19 0.44
30 8 0.19
31 16 0.37
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (31 bp):
ATATACTGGGCCGAAGCCTTTTCATTAAACG
Found at i:13305382 original size:33 final size:30
Alignment explanation
Indices: 13305285--13305398 Score: 92
Period size: 33 Copynumber: 3.7 Consensus size: 30
13305275 TGTTAAAATT
* *
13305285 ATAATAATA-A-AGATAA-AGATAAACAAC
1 ATAATAATATATATATAATAGATAAATAAC
* *
13305312 ATAATAAATAATATATGATAAAATATAAATAA-
1 ATAAT-AAT-ATATAT-ATAATAGATAAATAAC
13305344 ATAATAGATAGTATATATAATAGATAACATAAC
1 ATAATA-ATA-TATATATAATAGATAA-ATAAC
13305377 ATAATAATATAAATATATAATA
1 ATAATAATAT--ATATATAATA
13305399 AAATAATATA
Statistics
Matches: 70, Mismatches: 5, Indels: 18
0.75 0.05 0.19
Matches are distributed among these distances:
27 5 0.07
28 3 0.04
29 1 0.01
30 1 0.01
31 13 0.19
32 23 0.33
33 24 0.34
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (30 bp):
ATAATAATATATATATAATAGATAAATAAC
Found at i:13305388 original size:13 final size:12
Alignment explanation
Indices: 13305315--13305406 Score: 54
Period size: 13 Copynumber: 7.8 Consensus size: 12
13305305 AAACAACATA
13305315 ATAAATAAT-AT
1 ATAAATAATAAT
*
13305326 AT-GATAA-AAT
1 ATAAATAATAAT
13305336 ATAAAT-A-AAT
1 ATAAATAATAAT
* *
13305346 AATAGATAGT-AT
1 -ATAAATAATAAT
*
13305358 ATATAATAGATAAC
1 ATA-AATA-ATAAT
13305372 ATAACATAATAAT
1 ATAA-ATAATAAT
13305385 ATAAATATATAAT
1 ATAAATA-ATAAT
13305398 A-AAATAATA
1 ATAAATAATA
13305407 TACGATAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
10 12 0.19
11 15 0.24
12 13 0.21
13 16 0.25
14 7 0.11
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:13305398 original size:16 final size:16
Alignment explanation
Indices: 13305312--13305408 Score: 62
Period size: 16 Copynumber: 6.1 Consensus size: 16
13305302 GATAAACAAC
13305312 ATAATAA-ATAATATAT
1 ATAATAATATAA-ATAT
*
13305328 GATAA-AATATAAATAA
1 -ATAATAATATAAATAT
13305344 ATAATAGATAGT--ATAT
1 ATAATA-ATA-TAAATAT
* *
13305360 ATAATAGATA-ACATAAC
1 ATAATA-ATATAAAT-AT
13305377 ATAATAATATAAATAT
1 ATAATAATATAAATAT
*
13305393 ATAATAAAAT-AATAT
1 ATAATAATATAAATAT
13305408 A
1 A
13305409 CGATAAATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
15 10 0.15
16 34 0.52
17 21 0.32
18 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (16 bp):
ATAATAATATAAATAT
Found at i:13305468 original size:16 final size:16
Alignment explanation
Indices: 13305447--13305491 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
13305437 TGTTTATAGC
*
13305447 AAAATAAATAATATTT
1 AAAATAAATAAAATTT
13305463 AAAATAAA-AAAATTT
1 AAAATAAATAAAATTT
*
13305478 AGAAATATATAAAA
1 A-AAATAAATAAAA
13305492 ATGGATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 14 0.56
17 4 0.16
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAATAAATAAAATTT
Found at i:13306774 original size:17 final size:17
Alignment explanation
Indices: 13306752--13306784 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13306742 TAAATGGACT
*
13306752 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
13306769 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
13306785 TAATTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:13307055 original size:80 final size:79
Alignment explanation
Indices: 13306931--13307113 Score: 217
Period size: 80 Copynumber: 2.3 Consensus size: 79
13306921 CTCCCCGTTG
* * ** * *
13306931 AATACAGAGACGCCCAAATCATCTTGAATTAGCCTTGATGAAGATCAGATCTACTAATGTCTTCG
1 AATACAGAGATGCCCAAATCATCTTGAATTAGCCTCGACAAAGATCAGATCTACT-ATATCTTCA
* *
13306996 ATTTGC-TCTCTGTCC
65 ATTTACTTC-CTGTCA
* * * * *
13307011 ATTACAGAGATGCCCAAATTATCTTGGATTTGCCTCGACAAAGATCAGATCTGCTATATCTTCAA
1 AATACAGAGATGCCCAAATCATCTTGAATTAGCCTCGACAAAGATCAGATCTACTATATCTTCAA
13307076 TTTACTTCCTGTCA
66 TTTACTTCCTGTCA
13307090 AATACAGAGATG-CCAAATCATCTT
1 AATACAGAGATGCCCAAATCATCTT
13307114 CTTGGTTTTG
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 11 0.13
79 28 0.32
80 48 0.55
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (79 bp):
AATACAGAGATGCCCAAATCATCTTGAATTAGCCTCGACAAAGATCAGATCTACTATATCTTCAA
TTTACTTCCTGTCA
Found at i:13307269 original size:44 final size:41
Alignment explanation
Indices: 13307083--13307498 Score: 155
Period size: 44 Copynumber: 9.9 Consensus size: 41
13307073 CAATTTACTT
* * *
13307083 CCTGTCAAATAC-AGAGATGCCAAATCATCTTCTTGGTTTTGCTA
1 CCTGTCAAATACGA-AGATGCC-AA--ATCTTCTTGGATCTGCTC
* * **
13307127 CCGGTCGAATACGGGGATGCCAAATCTGTCATCTTGGATCTGCTC
1 CCTGTCAAATACGAAGATGCCAAATC--T--TCTTGGATCTGCTC
** ** * * *
13307172 CCCATCAAATACGGGGATACCAAATCTGCTTCTTGGATTTACT-
1 CCTGTCAAATACGAAGATGCCAAA--T-CTTCTTGGATCTGCTC
*
13307215 CCTCATCAAATACGAAGATGCCAAATCTTCTTGGATCTGCTC
1 CCT-GTCAAATACGAAGATGCCAAATCTTCTTGGATCTGCTC
* * ** *
13307257 CCTG----ATGCCAA-AT--C--TGCTTCTTGGATTTGCTC
1 CCTGTCAAATACGAAGATGCCAAATCTTCTTGGATCTGCTC
* *
13307289 -CTCGTAAAATACGAAGATGCCAAATCATCTTGGATCTGCTC
1 CCT-GTCAAATACGAAGATGCCAAATCTTCTTGGATCTGCTC
* * * *
13307330 CCTTTCGAATACGGAGATGCCAAATCTGCTTCTTGGATTTGCT-
1 CCTGTCAAATACGAAGATGCCAAA--T-CTTCTTGGATCTGCTC
* *
13307373 CCTCATCAAATACGAAGATGCCAAATCTACTATCTTCGATCTGCTC
1 CCT-GTCAAATACGAAGATGCCAAA--T-CT-TCTTGGATCTGCTC
* * * *
13307419 TCTGAC-AATAC-AGAGACGCCAAATCTGCTACCTTCGATCTGCTC
1 CCTGTCAAATACGA-AGATGCCAAATCT--T--CTTGGATCTGCTC
* * *
13307463 TCTGACAATATA--AAGATGCCAAATCATCTTGGATCT
1 CCTGTCAA-ATACGAAGATGCCAAATCTTCTTGGATCT
13307499 ACTTCAGCGT
Statistics
Matches: 288, Mismatches: 51, Indels: 70
0.70 0.12 0.17
Matches are distributed among these distances:
31 2 0.01
32 16 0.06
34 1 0.00
36 7 0.02
37 7 0.02
39 1 0.00
40 8 0.03
41 49 0.17
42 9 0.03
43 10 0.03
44 125 0.43
45 45 0.16
46 6 0.02
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (41 bp):
CCTGTCAAATACGAAGATGCCAAATCTTCTTGGATCTGCTC
Found at i:13307310 original size:73 final size:77
Alignment explanation
Indices: 13307191--13307400 Score: 284
Period size: 73 Copynumber: 2.7 Consensus size: 77
13307181 TACGGGGATA
*
13307191 CCAAATCTGCTTCTTGGATTTACTCCTCATCAAATACGAAGATGCCAAATCTTCTTGGATCTGCT
1 CCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCTTCTTGGATCTGCT
13307256 -CC-C-T-GATG
66 CCCTCATAGATG
* * *
13307264 CCAAATCTGCTTCTTGGATTTGCTCCTCGTAAAATACGAAGATGCCAAATCATCTTGGATCTGCT
1 CCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCTTCTTGGATCTGCT
13307329 CCCTTTCGAATACGGAGATG
66 CCC--TC--AT----AGATG
13307349 CCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCT
1 CCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCT
13307401 ACTATCTTCG
Statistics
Matches: 118, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
73 61 0.52
74 2 0.02
77 1 0.01
80 1 0.01
85 53 0.45
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (77 bp):
CCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCTTCTTGGATCTGCT
CCCTCATAGATG
Found at i:13319561 original size:16 final size:16
Alignment explanation
Indices: 13319508--13319604 Score: 83
Period size: 16 Copynumber: 5.9 Consensus size: 16
13319498 GATAAACAAC
13319508 ATAATAAATAATATAT
1 ATAATAAATAATATAT
*
13319524 GATAA-AATATAA-ATAA
1 -ATAATAA-ATAATATAT
*
13319540 ATAATAGATAATATAT
1 ATAATAAATAATATAT
* * *
13319556 ATAATAGATAACATAAC
1 ATAATAAATAATAT-AT
13319573 ATAATAATATAA-ATAT
1 ATAATAA-ATAATATAT
13319589 ATAATAAAATAATATA
1 ATAAT-AAATAATATA
13319605 CGATAAATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
15 8 0.12
16 32 0.48
17 22 0.33
18 4 0.06
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAATAAATAATATAT
Found at i:13319561 original size:29 final size:29
Alignment explanation
Indices: 13319481--13319600 Score: 95
Period size: 33 Copynumber: 4.0 Consensus size: 29
13319471 TGTTAAAATT
* * *
13319481 ATAATAATAA-AGATA-AAGATAAACAAC
1 ATAATAATAATATATATAATATAAATAAC
13319508 ATAATAAATAATATATGATAAAATATAAATAA-
1 ATAAT-AATAATATAT-AT--AATATAAATAAC
13319540 ATAATAGATAATATATATAATAGATAACATAAC
1 ATAATA-ATAATATATATAAT--ATAA-ATAAC
*
13319573 ATAATAATATAAATATATAATA-AAATAA
1 ATAATAATA-ATATATATAATATAAATAA
13319601 TATACGATAA
Statistics
Matches: 77, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
27 5 0.06
28 5 0.06
29 10 0.13
30 3 0.04
31 8 0.10
32 21 0.27
33 25 0.32
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (29 bp):
ATAATAATAATATATATAATATAAATAAC
Found at i:13319584 original size:13 final size:12
Alignment explanation
Indices: 13319511--13319602 Score: 63
Period size: 13 Copynumber: 7.8 Consensus size: 12
13319501 AAACAACATA
13319511 ATAAATAAT-AT
1 ATAAATAATAAT
*
13319522 AT-GATAA-AAT
1 ATAAATAATAAT
13319532 ATAAAT-A-AAT
1 ATAAATAATAAT
*
13319542 AATAGATAAT-AT
1 -ATAAATAATAAT
*
13319554 ATATAATAGATAAC
1 ATA-AATA-ATAAT
13319568 ATAACATAATAAT
1 ATAA-ATAATAAT
13319581 ATAAATATATAAT
1 ATAAATA-ATAAT
13319594 A-AAATAATA
1 ATAAATAATA
13319603 TACGATAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
10 12 0.18
11 15 0.23
12 14 0.22
13 17 0.26
14 7 0.11
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:13319610 original size:60 final size:62
Alignment explanation
Indices: 13319476--13319600 Score: 146
Period size: 65 Copynumber: 2.0 Consensus size: 62
13319466 ACAAGTGTTA
*
13319476 AAATTATA-ATAATAAAGATAAAGATAAACAACATAATAAATAATATATGATAAAATATAAAT
1 AAATAATAGATAATAAAGATAAAGATAAACAACATAATAAATAATATATGAT-AAATATAAAT
* * * *
13319538 AAATAATAGATAATATATATAATAGATAACATAACATAATAATATAAATATATAATAAA-ATAA
1 AAATAATAGATAATAAAGATAA-AGATAA-ACAACATAATAA-AT-AATATATGATAAATATAA
13319601 TATACGATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
62 7 0.13
63 11 0.21
64 6 0.11
65 15 0.28
66 5 0.09
67 9 0.17
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (62 bp):
AAATAATAGATAATAAAGATAAAGATAAACAACATAATAAATAATATATGATAAATATAAAT
Found at i:13319674 original size:25 final size:22
Alignment explanation
Indices: 13319641--13319702 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 22
13319631 AATGTTTATA
13319641 TTAAAATAAATAATATATAAAATAT
1 TTAAAATAAATAA-ATA-AAAA-AT
13319666 TTAAAATAAATAAATAAAAAAT
1 TTAAAATAAATAAATAAAAAAT
*
13319688 TTAGAAATATATAAA
1 TTA-AAATAAATAAA
13319703 AATGGATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
22 5 0.14
23 14 0.40
24 3 0.09
25 13 0.37
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
TTAAAATAAATAAATAAAAAAT
Found at i:13320999 original size:17 final size:17
Alignment explanation
Indices: 13320977--13321009 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13320967 TAAATGGACT
*
13320977 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
13320994 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
13321010 AATTTTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:13337576 original size:47 final size:47
Alignment explanation
Indices: 13337513--13337925 Score: 729
Period size: 47 Copynumber: 8.7 Consensus size: 47
13337503 ATGATAGTAT
13337513 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
13337560 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
13337607 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
13337654 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
13337701 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
13337748 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
13337795 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
13337844 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-A
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
13337892 GGTCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GG-CCTAATGGCCGATGTGATGAATGTGA-AAGT
13337926 CCCGAAGGGC
Statistics
Matches: 356, Mismatches: 6, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
47 264 0.74
48 2 0.01
49 86 0.24
50 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:13337579 original size:22 final size:23
Alignment explanation
Indices: 13337551--13337725 Score: 70
Period size: 22 Copynumber: 7.5 Consensus size: 23
13337541 AAGTGTATAT
13337551 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
13337573 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
13337598 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
13337620 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
*
13337645 ATGTGAT-AAGGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
13337667 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
13337692 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
13337714 ATGTGATGAATG
1 ATGTGATGAATG
13337726 TGAAAGTGTA
Statistics
Matches: 99, Mismatches: 44, Indels: 19
0.61 0.27 0.12
Matches are distributed among these distances:
22 28 0.28
23 27 0.27
24 23 0.23
25 21 0.21
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGCCTAATGGCCG
Found at i:13338099 original size:37 final size:37
Alignment explanation
Indices: 13338044--13338121 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
13338034 CGAGCTCTAT
* * *
13338044 AGACCCGATGACTACGTGTGGGGATTTTGTCCGGGTA
1 AGACCCGATAACTACGTGTGGAGATTATGTCCGGGTA
*
13338081 AGACCCGATAACTTCGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATAACTACGTGTGGAGATTATGTCCGGGTA
13338118 AGAC
1 AGAC
13338122 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
AGACCCGATAACTACGTGTGGAGATTATGTCCGGGTA
Found at i:13340151 original size:14 final size:13
Alignment explanation
Indices: 13340132--13340166 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
13340122 CTCTTCTCTC
13340132 TTTTTTTGTTGTTT
1 TTTTTTTGTT-TTT
13340146 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
13340159 TTTGTTTT
1 TTT-TTTT
13340167 TTGATTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (13 bp):
TTTTTTTGTTTTT
Found at i:13349774 original size:28 final size:28
Alignment explanation
Indices: 13349726--13349816 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
13349716 GTGACAAAGT
*
13349726 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
* *
13349755 CACCAGAACAGATAATTTGTGGCTGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
13349783 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
13349811 CACCAG
1 CACCAG
13349817 GATGCTTCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:13349965 original size:28 final size:28
Alignment explanation
Indices: 13349922--13349986 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
13349912 AAATTAACCC
13349922 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
13349950 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
13349978 TAGGGGTAT
1 TAGGGGTAT
13349987 TTTAGTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:13357643 original size:28 final size:28
Alignment explanation
Indices: 13357595--13357675 Score: 135
Period size: 28 Copynumber: 2.9 Consensus size: 28
13357585 GTGACAGAGT
* *
13357595 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGGGC
13357624 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
13357652 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGATAATTTGTGGCA
13357676 TAGCCACTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 43 0.86
29 7 0.14
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGGGC
Found at i:13357834 original size:28 final size:28
Alignment explanation
Indices: 13357791--13357855 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
13357781 AAATTAACCC
13357791 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
13357819 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
13357847 TAGGGGTAT
1 TAGGGGTAT
13357856 TCTAGTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:13361961 original size:21 final size:22
Alignment explanation
Indices: 13361928--13361971 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13361918 ATAAGATAAT
*
13361928 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
13361950 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
13361971 A
1 A
13361972 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:13362149 original size:13 final size:13
Alignment explanation
Indices: 13362085--13362159 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 13
13362075 AATATCAATT
13362085 TAATATGAAAATAA
1 TAATATG-AAATAA
*
13362099 TAATGTGAGTAATAA
1 TAATATGA--AATAA
* *
13362114 TATACATGAAAAAA
1 TA-ATATGAAATAA
13362128 TATATAATAGATAATAA
1 TA-AT-AT-GA-AATAA
13362145 TAATATGAAATAA
1 TAATATGAAATAA
13362158 TA
1 TA
13362160 TATTGTTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
13 8 0.16
14 16 0.33
15 11 0.22
16 8 0.16
17 6 0.12
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.31
Consensus pattern (13 bp):
TAATATGAAATAA
Found at i:13362189 original size:8 final size:8
Alignment explanation
Indices: 13362176--13362342 Score: 59
Period size: 8 Copynumber: 20.9 Consensus size: 8
13362166 TAAAATGTAA
13362176 AATAATAT
1 AATAATAT
13362184 AATAATAT
1 AATAATAT
13362192 -ATAA-AT
1 AATAATAT
13362198 ATATAA-AT
1 A-ATAATAT
* *
13362206 ATTATGTGAT
1 AATA-AT-AT
*
13362216 AAAAATAT
1 AATAATAT
13362224 GATATAATA-
1 -A-ATAATAT
13362233 AATAATA-
1 AATAATAT
*
13362240 AGTAATGAT
1 AATAAT-AT
** *
13362249 ATATGTTAA
1 A-ATAATAT
13362258 AAT-ATAT
1 AATAATAT
*
13362265 ATTAATAT
1 AATAATAT
* *
13362273 TATAATAG
1 AATAATAT
*
13362281 AAAAATAT
1 AATAATAT
13362289 GAAGTAATAT
1 -AA-TAATAT
13362299 AAT-ATAAT
1 AATAAT-AT
13362307 AA-AATAT
1 AATAATAT
13362314 AAGTAA-AT
1 AA-TAATAT
13362322 AATAATAT
1 AATAATAT
13362330 AA-AATAT
1 AATAATAT
13362337 -ATAATA
1 AATAATA
13362343 CATATATAAA
Statistics
Matches: 119, Mismatches: 21, Indels: 39
0.66 0.12 0.22
Matches are distributed among these distances:
6 3 0.03
7 39 0.33
8 50 0.42
9 11 0.09
10 16 0.13
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (8 bp):
AATAATAT
Found at i:13362195 original size:10 final size:10
Alignment explanation
Indices: 13362126--13362362 Score: 61
Period size: 10 Copynumber: 22.8 Consensus size: 10
13362116 TACATGAAAA
13362126 AATATATAAT
1 AATATATAAT
13362136 AGATA-ATAAT
1 A-ATATATAAT
13362146 AATATGA-AAT
1 AATAT-ATAAT
**
13362156 AATATATTGTT
1 AATATA-TAAT
* *
13362167 AAAATGTAA-
1 AATATATAAT
13362176 AATAATATAAT
1 AAT-ATATAAT
13362187 AATATAT-A-
1 AATATATAAT
13362195 AATATATAAAT
1 AATATAT-AAT
* *
13362206 ATTATGTGATAAA
1 A--ATAT-ATAAT
13362219 AATATGAT-AT
1 AATAT-ATAAT
*
13362229 AATAAATAAT
1 AATATATAAT
*
13362239 AAGTA-ATGAT
1 AA-TATATAAT
*
13362249 -ATATGTTAA-
1 AATAT-ATAAT
*
13362258 AATATATATT
1 AATATATAAT
13362268 AATATTATAAT
1 AATA-TATAAT
* *
13362279 AGAAAAAT-AT
1 A-ATATATAAT
13362289 GAAGTA-AT-AT
1 -AA-TATATAAT
13362299 AATATAATAA-
1 AATAT-ATAAT
13362309 AATATAAGTAAAT
1 AATAT-A-T-AAT
13362322 AATAATATAA-
1 AAT-ATATAAT
13362332 AATATATAAT
1 AATATATAAT
13362342 ACATATATAAAGT
1 A-ATATAT-AA-T
13362355 AATATATA
1 AATATATA
13362363 TACAATTTAA
Statistics
Matches: 171, Mismatches: 22, Indels: 67
0.66 0.08 0.26
Matches are distributed among these distances:
8 11 0.06
9 20 0.12
10 69 0.40
11 42 0.25
12 13 0.08
13 12 0.07
14 4 0.02
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (10 bp):
AATATATAAT
Found at i:13362207 original size:6 final size:7
Alignment explanation
Indices: 13362126--13362362 Score: 58
Period size: 7 Copynumber: 34.1 Consensus size: 7
13362116 TACATGAAAA
13362126 AATATAT
1 AATATAT
*
13362133 AATAGAT
1 AATATAT
13362140 AATA-AT
1 AATATAT
13362146 AATATGA-
1 AATAT-AT
13362153 AATAATAT
1 AAT-ATAT
* *
13362161 ATTGT-T
1 AATATAT
* *
13362167 AAAATGT
1 AATATAT
13362174 AA-A-AT
1 AATATAT
13362179 AATATAAT
1 AATAT-AT
13362187 AATATAT
1 AATATAT
13362194 AAATATAT
1 -AATATAT
13362202 AA-ATAT
1 AATATAT
* *
13362208 TATGTGAT
1 AATAT-AT
*
13362216 AA-AAAT
1 AATATAT
13362222 -ATGATAT
1 AAT-ATAT
*
13362229 AATAAAT
1 AATATAT
13362236 AATA-AGT
1 AATATA-T
13362243 AATGATAT
1 AAT-ATAT
*
13362251 -ATGT-T
1 AATATAT
*
13362256 AAAATAT
1 AATATAT
13362263 -ATAT-T
1 AATATAT
13362268 AATATTAT
1 AATA-TAT
*
13362276 AATAGA-
1 AATATAT
*
13362282 AAAATAT
1 AATATAT
13362289 GAAGTAATAT
1 -AA-T-ATAT
13362299 AATATAAT
1 AATAT-AT
*
13362307 AAAATAT
1 AATATAT
*
13362314 AA-GTA-
1 AATATAT
13362319 AATA-AT
1 AATATAT
*
13362325 AATATAA
1 AATATAT
13362332 AATATAT
1 AATATAT
*
13362339 AATACAT
1 AATATAT
*
13362346 ATATAAAGT
1 A-ATATA-T
13362355 AATATAT
1 AATATAT
13362362 A
1 A
13362363 TACAATTTAA
Statistics
Matches: 168, Mismatches: 30, Indels: 64
0.64 0.11 0.24
Matches are distributed among these distances:
5 9 0.05
6 38 0.23
7 64 0.38
8 48 0.29
9 5 0.03
10 4 0.02
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (7 bp):
AATATAT
Found at i:13362284 original size:25 final size:25
Alignment explanation
Indices: 13362256--13362364 Score: 70
Period size: 25 Copynumber: 4.4 Consensus size: 25
13362246 GATATATGTT
*
13362256 AAAATATATATTAATATTATAATAG
1 AAAATATATAGTAATATTATAATAG
13362281 AAAA-ATATGAAGTAATATAATATAAT--
1 AAAATATAT--AGTAATAT--TATAATAG
* *
13362307 AAAATATA-AGTAA-ATAATAATAT
1 AAAATATATAGTAATATTATAATAG
*
13362330 AAAATATATAATACATA-TATAA-AG
1 AAAATATATAGTA-ATATTATAATAG
*
13362354 TAATATATATA
1 -AAAATATATA
13362365 CAATTTAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
21 5 0.07
23 10 0.15
24 13 0.19
25 18 0.27
26 12 0.18
27 3 0.04
28 6 0.09
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.34
Consensus pattern (25 bp):
AAAATATATAGTAATATTATAATAG
Found at i:13362303 original size:5 final size:5
Alignment explanation
Indices: 13362293--13362364 Score: 53
Period size: 5 Copynumber: 14.4 Consensus size: 5
13362283 AAATATGAAG
* *
13362293 TAATA TAATA TAATA AAATA TAAGTA -AATAA TAATA TAAAA T-ATA TAATA
1 TAATA TAATA TAATA TAATA TAA-TA TAAT-A TAATA TAATA TAATA TAATA
*
13362343 CATATA TAA-A GTAATA T-ATA TA
1 TA-ATA TAATA -TAATA TAATA TA
13362365 CAATTTAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
4 9 0.17
5 34 0.64
6 10 0.19
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:13362373 original size:21 final size:23
Alignment explanation
Indices: 13362332--13362378 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
13362322 AATAATATAA
*
13362332 AATATATAATACATATATAAAGT
1 AATATATAATACATATATAAAAT
*
13362355 AATATAT-ATACA-ATTTAAAAT
1 AATATATAATACATATATAAAAT
13362376 AAT
1 AAT
13362379 TTTAAAAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 5 0.23
23 7 0.32
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
AATATATAATACATATATAAAAT
Found at i:13375087 original size:64 final size:64
Alignment explanation
Indices: 13374986--13375113 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
13374976 ACACGAACTT
*
13374986 ACCTCGACACTTTTTCGTGTATGAAAATCTGTTAATCCAACACATTTTCTTTTCCTCGATCTAA
1 ACCTCGACACTTGTTCGTGTATGAAAATCTGTTAATCCAACACATTTTCTTTTCCTCGATCTAA
13375050 ACCTCGACACTTGTTCGTGTATGAAAATCTGTTAATCCAACACATTTTCTTTTCCTCGATCTAA
1 ACCTCGACACTTGTTCGTGTATGAAAATCTGTTAATCCAACACATTTTCTTTTCCTCGATCTAA
13375114 CTCTTTATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (64 bp):
ACCTCGACACTTGTTCGTGTATGAAAATCTGTTAATCCAACACATTTTCTTTTCCTCGATCTAA
Found at i:13377698 original size:32 final size:32
Alignment explanation
Indices: 13377652--13377724 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
13377642 GACTAGATGA
*
13377652 GGCCATGTGATACACACGAGCTCGACCAATTG
1 GGCCATGTGATACACACGAGCTAGACCAATTG
* * *
13377684 GGCCGTGTGATACACACGTGTTAGACCAATTG
1 GGCCATGTGATACACACGAGCTAGACCAATTG
*
13377716 GGTCATGTG
1 GGCCATGTG
13377725 GGCCAAACGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (32 bp):
GGCCATGTGATACACACGAGCTAGACCAATTG
Found at i:13384950 original size:17 final size:18
Alignment explanation
Indices: 13384928--13384961 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13384918 AACTTGGGCC
13384928 GTGTGGG-CCACACGGGT
1 GTGTGGGCCCACACGGGT
13384945 GTGTGGGCCCACACGGG
1 GTGTGGGCCCACACGGG
13384962 CATGCCACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.12, C:0.26, G:0.47, T:0.15
Consensus pattern (18 bp):
GTGTGGGCCCACACGGGT
Found at i:13390659 original size:43 final size:43
Alignment explanation
Indices: 13390585--13390706 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
13390575 CTAAATTCAT
* * * *
13390585 TCACCGATATTAT-GCCTGTTAGGCTCGAAGCCCGATATTAAC
1 TCACCGGTATTATAGCCTGCTAGGCTCAAAGCCCGATATTAAA
* *
13390627 TCACCGGTATTATAGCCTGCTAGGCTTAAAGCCTGATATTAAA
1 TCACCGGTATTATAGCCTGCTAGGCTCAAAGCCCGATATTAAA
* *
13390670 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA
1 TCACCGGTATTATAGCCTGCTAGGCTC-AAAGCCCGA
13390707 ATAGCACTGT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 12 0.18
43 49 0.72
44 7 0.10
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (43 bp):
TCACCGGTATTATAGCCTGCTAGGCTCAAAGCCCGATATTAAA
Found at i:13398586 original size:43 final size:43
Alignment explanation
Indices: 13398539--13398622 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
13398529 GCCACGCTCG
* *
13398539 AAGCCCGATATTAACTCACCGACATTATAGCCTGCTAGGCTTA
1 AAGCCCGATATTAAATCACCGACATTACAGCCTGCTAGGCTTA
*
13398582 AAGCCCGATATTAAATCACCGGCATTACAGCCTGCTAGGCT
1 AAGCCCGATATTAAATCACCGACATTACAGCCTGCTAGGCT
13398623 CGAAGGCTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
AAGCCCGATATTAAATCACCGACATTACAGCCTGCTAGGCTTA
Found at i:13408693 original size:18 final size:18
Alignment explanation
Indices: 13408670--13408707 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
13408660 TATGCATAAG
13408670 TCTGCATTTAATTTACTA
1 TCTGCATTTAATTTACTA
13408688 TCTGCATTTAATTTACTA
1 TCTGCATTTAATTTACTA
13408706 TC
1 TC
13408708 ACTAGCCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.50
Consensus pattern (18 bp):
TCTGCATTTAATTTACTA
Found at i:13417752 original size:48 final size:48
Alignment explanation
Indices: 13417696--13418027 Score: 342
Period size: 48 Copynumber: 6.9 Consensus size: 48
13417686 ATATTGATGC
* *
13417696 CGATGCCATATCCTAGATATGCTCTTACACTAGCTCCCATAATAATGT
1 CGATGCCATATCCTAGATATGGTCTTACACTAGCTCTCATAATAATGT
* * * *
13417744 CGATGCCATACCCTAGATATGGTCTTACATTGGCTCACATAATAATGT
1 CGATGCCATATCCTAGATATGGTCTTACACTAGCTCTCATAATAATGT
* * *
13417792 CGATGCCATATCCTAGATATGGTCTTACACTGGCTCACATCATAATGT
1 CGATGCCATATCCTAGATATGGTCTTACACTAGCTCTCATAATAATGT
* * * * *
13417840 CGATGCCATGTCCCAGACATGGCCTTACACTAGCTCTCATAATAATGC
1 CGATGCCATATCCTAGATATGGTCTTACACTAGCTCTCATAATAATGT
* * * * *
13417888 CAATGCCATATCCCAAATATGGTCTTACACTGGCTCTCATAATAATGC
1 CGATGCCATATCCTAGATATGGTCTTACACTAGCTCTCATAATAATGT
* * * * ** *
13417936 CAATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATACATCGGTGC
1 CGATGCCAT-ATCCTAGATATGGTCTTACACTAGCTCTCATA-AT-AATGT
* * * * * *
13417986 CGATACCATGTCCCAGACATGGTCTTACACTGGCTCGCATAA
1 CGATGCCATATCCTAGATATGGTCTTACACTAGCTCTCATAA
13418028 CAGCAGTGTC
Statistics
Matches: 247, Mismatches: 33, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
48 204 0.83
49 9 0.04
50 34 0.14
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (48 bp):
CGATGCCATATCCTAGATATGGTCTTACACTAGCTCTCATAATAATGT
Found at i:13417847 original size:96 final size:96
Alignment explanation
Indices: 13417683--13418027 Score: 377
Period size: 96 Copynumber: 3.6 Consensus size: 96
13417673 GGAAATCTTA
* * * * *
13417683 CACATATTGATGCCGATGCCATATCCTAGATATGCTCTTACACTAGCTCCCATAATAATGTCGAT
1 CACATAATAATGCCGATGCCATATCCTAGATATGGTCTTACACTGGCTCACATAATAATGTCGAT
* * * *
13417748 GCCAT-ACCCTAGATATGGTCTTACATTGGCT
66 GCCATGACCC-AGACATGGCCTTACACTAGCT
* *
13417779 CACATAATAATGTCGATGCCATATCCTAGATATGGTCTTACACTGGCTCACATCATAATGTCGAT
1 CACATAATAATGCCGATGCCATATCCTAGATATGGTCTTACACTGGCTCACATAATAATGTCGAT
*
13417844 GCCATGTCCCAGACATGGCCTTACACTAGCT
66 GCCATGACCCAGACATGGCCTTACACTAGCT
* * * * * * *
13417875 CTCATAATAATGCCAATGCCATATCCCAAATATGGTCTTACACTGGCTCTCATAATAATGCCAAT
1 CACATAATAATGCCGATGCCATATCCTAGATATGGTCTTACACTGGCTCACATAATAATGTCGAT
** * *
13417940 GCCATGTTCCAAACATGGTCTTACACTAGCT
66 GCCATGACCCAGACATGGCCTTACACTAGCT
* ** * * * * *
13417971 CTCATACATCGGTGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCGCATAA
1 CACATA-AT-AATGCCGATGCCATATCCTAGATATGGTCTTACACTGGCTCACATAA
13418028 CAGCAGTGTC
Statistics
Matches: 214, Mismatches: 32, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
96 170 0.79
97 5 0.02
98 39 0.18
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (96 bp):
CACATAATAATGCCGATGCCATATCCTAGATATGGTCTTACACTGGCTCACATAATAATGTCGAT
GCCATGACCCAGACATGGCCTTACACTAGCT
Found at i:13417943 original size:144 final size:146
Alignment explanation
Indices: 13417692--13418027 Score: 403
Period size: 144 Copynumber: 2.3 Consensus size: 146
13417682 ACACATATTG
* * * * *
13417692 ATGCCGATGCCATATCCTAGATAT-GCTCTTACACTAGCTCCCATAATAATGTCGATGCCATACC
1 ATGCCGATGCCATGTCCCAGACATGGC-CTTACACTAGCTCCCATAATAATGCCAATGCCATACC
* * * * * *
13417756 CTAGATATGGTCTTACATTGGCTCACATAATAATGTCGATGCCAT-ATCCTAGATATGGTCTTAC
65 CTAAATATGGTCTTACACTGGCTCACATAATAATGCCAATGCCATGATCC-AAACATGGTCTTAC
*
13417820 ACTGGCTCACAT-CAT-A
129 ACTAGCTCACATACATCA
* *
13417836 ATGTCGATGCCATGTCCCAGACATGGCCTTACACTAGCTCTCATAATAATGCCAATGCCATATCC
1 ATGCCGATGCCATGTCCCAGACATGGCCTTACACTAGCTCCCATAATAATGCCAATGCCATA-CC
* *
13417901 C-AAATATGGTCTTACACTGGCTCTCATAATAATGCCAATGCCATGTTCCAAACATGGTCTTACA
65 CTAAATATGGTCTTACACTGGCTCACATAATAATGCCAATGCCATGATCCAAACATGGTCTTACA
* *
13417965 CTAGCTCTCATACATCG
130 CTAGCTCACATACATCA
* * * * *
13417982 GTGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCGCATAA
1 ATGCCGATGCCATGTCCCAGACATGGCCTTACACTAGCTCCCATAA
13418028 CAGCAGTGTC
Statistics
Matches: 163, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
144 112 0.69
145 11 0.07
146 40 0.25
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (146 bp):
ATGCCGATGCCATGTCCCAGACATGGCCTTACACTAGCTCCCATAATAATGCCAATGCCATACCC
TAAATATGGTCTTACACTGGCTCACATAATAATGCCAATGCCATGATCCAAACATGGTCTTACAC
TAGCTCACATACATCA
Found at i:13425286 original size:27 final size:27
Alignment explanation
Indices: 13425178--13425485 Score: 346
Period size: 27 Copynumber: 11.6 Consensus size: 27
13425168 TTAGTTTACC
*
13425178 AAATTACTGAAATACTCC-C-AGTTGTA
1 AAATTACTGAAATAC-CCTCGATTTGTA
* *
13425204 AAATTAC-CAAAGTACCC-CGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* *
13425230 AAATTACCGAAATACCATCG--TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
13425255 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
13425282 AAATTACCGAAATACCCTCAATTTGCA
1 AAATTACTGAAATACCCTCGATTTGTA
13425309 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
13425336 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
13425363 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
13425390 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
13425417 AAATTA-TCAAAATACCCTC-AGTTTGCA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
13425444 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
13425471 AAATTACTGAAATAC
1 AAATTACTGAAATAC
13425486 TCCTGTAAGA
Statistics
Matches: 240, Mismatches: 30, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
25 27 0.11
26 30 0.12
27 177 0.74
28 6 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:13425527 original size:27 final size:27
Alignment explanation
Indices: 13425497--13425666 Score: 223
Period size: 27 Copynumber: 6.3 Consensus size: 27
13425487 CCTGTAAGAT
*
13425497 AGAATTACCATTTTACCCTTGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
13425524 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
13425551 AGAATTACCATTTTACCATCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
13425578 AGAATTACCATTTTATCTTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * * *
13425605 AGAATTATCGTCTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
13425632 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
13425659 AAAATTAC
1 AGAATTAC
13425667 TGAAATATCA
Statistics
Matches: 122, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:13425643 original size:81 final size:81
Alignment explanation
Indices: 13425495--13425666 Score: 283
Period size: 81 Copynumber: 2.1 Consensus size: 81
13425485 CTCCTGTAAG
*
13425495 ATAGAATTACCATTTTACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACC
1 ATAGAATTACCATTTTACCCTTGATTTACAGAATTATCGTCTTACCCTCGATTTATAGAATTACC
13425560 ATTTTACCATCGATTT
66 ATTTTACCATCGATTT
*
13425576 ATAGAATTACCATTTTA-TCTTCGATTTACAGAATTATCGTCTTACCCTCGATTTATAGAATTAC
1 ATAGAATTACCATTTTACCCTT-GATTTACAGAATTATCGTCTTACCCTCGATTTATAGAATTAC
*
13425640 CATTTTACCCTCGATTT
65 CATTTTACCATCGATTT
* *
13425657 ACAAAATTAC
1 ATAGAATTAC
13425667 TGAAATATCA
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
80 3 0.04
81 82 0.96
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (81 bp):
ATAGAATTACCATTTTACCCTTGATTTACAGAATTATCGTCTTACCCTCGATTTATAGAATTACC
ATTTTACCATCGATTT
Found at i:13425706 original size:81 final size:81
Alignment explanation
Indices: 13425537--13425722 Score: 187
Period size: 81 Copynumber: 2.3 Consensus size: 81
13425527 ATTATCGTTT
* * **
13425537 TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTATAGAATTACCATTTTATCTTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTACAAAATTACCATAATATCTTCGATT
* * ****
13425602 TACAGAATTATCGTCT
66 TACAAAATTACCAAAA
* * *
13425618 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGA-AATATCATT-GG
1 TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTACAAAATTAC-CATAATATC-TTCGA
13425681 TTTACAAAATTACCAAAA
64 TTTACAAAATTACCAAAA
* ** *
13425699 TATCCTCGATCAATAAAATTACCA
1 TACCCTCGATTTATAGAATTACCA
13425723 AAATACCCCT
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
81 83 0.97
82 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTACAAAATTACCATAATATCTTCGATT
TACAAAATTACCAAAA
Found at i:13425742 original size:27 final size:27
Alignment explanation
Indices: 13425686--13425783 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
13425676 ATTGGTTTAC
* ***
13425686 AAAATTACCAAAATA-TCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
13425713 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
13425740 AAAA-TACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
13425766 GAAATTATCGAAATACCC
1 AAAATTACCAAAATACCC
13425784 TTGTAGGGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 24 0.40
27 33 0.55
28 3 0.05
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:13425784 original size:26 final size:26
Alignment explanation
Indices: 13425714--13425783 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
13425704 TCGATCAATA
*
13425714 AAATTACCAAAATACCCCTGGTTTGT
1 AAATTACCAAAATACCCCTGATTTGT
*
13425740 AAAATACCAAAATACCCCTGATTTGT
1 AAATTACCAAAATACCCCTGATTTGT
* *
13425766 GAAATTATCGAAATACCC
1 -AAATTACCAAAATACCC
13425784 TTGTAGGGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 24 0.63
27 14 0.37
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (26 bp):
AAATTACCAAAATACCCCTGATTTGT
Found at i:13425798 original size:27 final size:27
Alignment explanation
Indices: 13425768--13426096 Score: 464
Period size: 27 Copynumber: 12.3 Consensus size: 27
13425758 TGATTTGTGA
* *
13425768 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13425795 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
13425822 AATTACTGGAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13425849 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13425876 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
13425903 AATTATCGTAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
13425930 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
13425957 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13425984 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
13426011 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
13426038 AATTACTAAAATACCCCTGTAAGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
13426065 AATTACCGAGATA-CCTTGTGGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
13426090 AATTACC
1 AATTACC
13426097 ATTTTACCCC
Statistics
Matches: 273, Mismatches: 29, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
25 7 0.03
26 8 0.03
27 258 0.95
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:13426551 original size:31 final size:31
Alignment explanation
Indices: 13426505--13426585 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
13426495 TTGCATTCAC
13426505 ATTCTGATTTTTGATTCTGTTACCTGATACTA
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTA
*
13426537 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
* *
13426568 ATTTTGATTATGATTCTG
1 ATTCTGATTTTGATTCTG
13426586 ATTCTAGTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 39 0.85
32 7 0.15
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTA
Found at i:13426589 original size:6 final size:6
Alignment explanation
Indices: 13426505--13426599 Score: 52
Period size: 6 Copynumber: 15.3 Consensus size: 6
13426495 TTGCATTCAC
* * * *
13426505 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
13426555 -TTACCTG ATACTG ATTTTG ATTATG ATTCTG ATTCT- AGTTCTG AT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
13426600 AATGTTTCTT
Statistics
Matches: 67, Mismatches: 13, Indels: 18
0.68 0.13 0.18
Matches are distributed among these distances:
5 5 0.07
6 48 0.72
7 12 0.18
8 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:13441568 original size:28 final size:27
Alignment explanation
Indices: 13441511--13441662 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
13441501 TAAATTGTGC
*
13441511 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
13441538 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
13441566 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
13441593 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
13441621 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
13441648 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13441663 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:13441575 original size:55 final size:55
Alignment explanation
Indices: 13441511--13441662 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
13441501 TAAATTGTGC
*
13441511 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
13441566 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
13441621 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
13441663 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:13449572 original size:28 final size:27
Alignment explanation
Indices: 13449515--13449666 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
13449505 TAAATTGTGC
*
13449515 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
13449542 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
13449570 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
13449597 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
13449625 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
13449652 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13449667 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:13449579 original size:55 final size:55
Alignment explanation
Indices: 13449515--13449666 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
13449505 TAAATTGTGC
*
13449515 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
13449570 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
13449625 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
13449667 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:13456652 original size:18 final size:19
Alignment explanation
Indices: 13456629--13456669 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
13456619 TTACATCAAC
13456629 ATTTTAATCAGAAT-AAAT
1 ATTTTAATCAGAATAAAAT
*
13456647 ATTTTAATCGGAATAAAAT
1 ATTTTAATCAGAATAAAAT
13456666 ATTT
1 ATTT
13456670 GGACTAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (19 bp):
ATTTTAATCAGAATAAAAT
Found at i:13457490 original size:21 final size:21
Alignment explanation
Indices: 13457465--13457506 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13457455 GTTTTAGCTA
* *
13457465 TTTGAATTGGTTAATAATATT
1 TTTGAACTCGTTAATAATATT
13457486 TTTGAACTCGTTAATAATATT
1 TTTGAACTCGTTAATAATATT
13457507 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (21 bp):
TTTGAACTCGTTAATAATATT
Found at i:13467215 original size:19 final size:19
Alignment explanation
Indices: 13467179--13467217 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13467169 TTTTCATCAT
* *
13467179 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
13467198 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
13467217 A
1 A
13467218 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:13467706 original size:27 final size:28
Alignment explanation
Indices: 13467649--13467718 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
13467639 GTGACAGAGT
** *
13467649 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTACGTGGCAGGGC
13467678 CACCAGAACAGATA-TACGTGGCAGGGC
1 CACCAGAACAGATATTACGTGGCAGGGC
13467705 CACCAGAACAGATA
1 CACCAGAACAGATA
13467719 ATTTGTGGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 24 0.63
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGGCAGGGC
Found at i:13467735 original size:28 final size:27
Alignment explanation
Indices: 13467649--13467738 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
13467639 GTGACAGAGT
*
13467649 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
13467678 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
13467705 CACCAGAACAGATAATTTGTGGTATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
13467733 CACCAG
1 CACCAG
13467739 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:13467891 original size:28 final size:28
Alignment explanation
Indices: 13467844--13467908 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
13467834 AAATTAACCC
* *
13467844 TAGGGGTATAAATGTCATTTTTCATACA
1 TAGGGGTATAAATGTAATTTTGCATACA
13467872 TAGGGGTAT-AATGGTAATTTTGCATACA
1 TAGGGGTATAAAT-GTAATTTTGCATACA
13467900 TAGGGGTAT
1 TAGGGGTAT
13467909 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 3 0.09
28 31 0.91
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (28 bp):
TAGGGGTATAAATGTAATTTTGCATACA
Found at i:13476123 original size:16 final size:16
Alignment explanation
Indices: 13476102--13476133 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13476092 AATCTATATT
13476102 TATTATAAATTTTTTA
1 TATTATAAATTTTTTA
*
13476118 TATTATTAATTTTTTA
1 TATTATAAATTTTTTA
13476134 GATAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTATAAATTTTTTA
Found at i:13477342 original size:22 final size:22
Alignment explanation
Indices: 13477301--13477342 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13477291 TAATTTCCTC
*
13477301 ATTTAATTTTGAAATTAATTTT
1 ATTTAATTTTGAAATAAATTTT
**
13477323 ATTTAATTTTGGTATAAATT
1 ATTTAATTTTGAAATAAATT
13477343 CTTTTAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
ATTTAATTTTGAAATAAATTTT
Found at i:13490625 original size:14 final size:15
Alignment explanation
Indices: 13490594--13490642 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
13490584 ACTAGAAGAA
13490594 AAAGAAAAAAGGAAG
1 AAAGAAAAAAGGAAG
* *
13490609 AAAG-AAAATGGAGG
1 AAAGAAAAAAGGAAG
*
13490623 AAA-AAGAAAGGAAG
1 AAAGAAAAAAGGAAG
13490637 -AAGAAA
1 AAAGAAA
13490643 TCGGCACCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
13 2 0.08
14 20 0.77
15 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAAGGAAG
Found at i:13497270 original size:20 final size:20
Alignment explanation
Indices: 13497245--13497313 Score: 138
Period size: 20 Copynumber: 3.5 Consensus size: 20
13497235 GGAACTAAGG
13497245 AAATTTTTCGTAAAATTTCA
1 AAATTTTTCGTAAAATTTCA
13497265 AAATTTTTCGTAAAATTTCA
1 AAATTTTTCGTAAAATTTCA
13497285 AAATTTTTCGTAAAATTTCA
1 AAATTTTTCGTAAAATTTCA
13497305 AAATTTTTC
1 AAATTTTTC
13497314 CAAGGTACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.46
Consensus pattern (20 bp):
AAATTTTTCGTAAAATTTCA
Found at i:13502764 original size:15 final size:15
Alignment explanation
Indices: 13502746--13502789 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
13502736 GAAGCCCAGA
13502746 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
13502761 ATAAAGAATTCCATG
1 ATAAAGAAATCCAAG
*
13502776 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
13502790 TTTACAGTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13512113 original size:40 final size:40
Alignment explanation
Indices: 13512076--13512301 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
13512066 GCTACTCGTT
* *
13512076 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
13512116 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
13512156 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACACGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
13512196 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * **
13512236 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAACA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
13512277 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
13512302 CATCATTCAA
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 150 0.90
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:13512285 original size:120 final size:120
Alignment explanation
Indices: 13512076--13512301 Score: 280
Period size: 120 Copynumber: 1.9 Consensus size: 120
13512066 GCTACTCGTT
13512076 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
* **
13512141 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACACGCA
66 ATATAGTAACTAACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACACGCA
* * * **
13512196 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGTACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* * * *
13512258 CGGATATGGTCACCTAACACAAA-GCCTTCGGGACTTAGCCCGGA
63 CAGATATAGT-AACTAACACAAATGCCTTCGGGACTTAACCCGGA
13512302 CATCATTCAA
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
119 6 0.07
120 73 0.81
121 11 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACACGCA
Found at i:13519395 original size:40 final size:39
Alignment explanation
Indices: 13519351--13519575 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 39
13519341 TCTACTCGTT
*
13519351 CAAATGCCTTCGGGACGTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
* *
13519391 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTTTAGTAACTCGCA
*
13519431 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* * * *
13519471 CAAATGCCTTC-AGATCTTAGTCCAGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAG-CCCGGTTTAGTAACTCGCA
* * * * *
13519511 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGT-AACTCGCA
*
13519552 CAAA-GCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
13519576 ACATCATTCA
Statistics
Matches: 158, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 5 0.03
40 135 0.85
41 18 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:13519570 original size:80 final size:80
Alignment explanation
Indices: 13519344--13519573 Score: 277
Period size: 80 Copynumber: 2.9 Consensus size: 80
13519334 GGATATATCT
* * * *
13519344 ACTCGTTCAAATGCCTTCGGGACGTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTGGGACTT
*
13519409 AACCCAGATTTAGTA
66 AGCCCAGATTTAGTA
* * * **
13519424 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCC-TTCAGATCT
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTGGGA-CT
*
13519488 TAGTCCAGATTTAGTA
65 TAGCCCAGATTTAGTA
* * * *
13519504 ACTCGTACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCACAAA-GCCTTTGGGAC
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AACTCGCACAAATGCCTTTGGGAC
13519567 TTAGCCC
64 TTAGCCC
13519574 GGACATCATT
Statistics
Matches: 125, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
79 6 0.05
80 105 0.84
81 14 0.11
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (80 bp):
ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTGGGACTT
AGCCCAGATTTAGTA
Found at i:13526906 original size:50 final size:50
Alignment explanation
Indices: 13526829--13526926 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
13526819 TAATTTTGCC
*
13526829 GGATTAGGGTGAAACCTAATAAGGGAATCCATAAATCGAGTTAATGCACT
1 GGATTAGGGTGAAACCTAATAAAGGAATCCATAAATCGAGTTAATGCACT
13526879 GGATTAGGGTGAAACCTAATAAAGGAATCCATAAATCGAGTTAATGCA
1 GGATTAGGGTGAAACCTAATAAAGGAATCCATAAATCGAGTTAATGCA
13526927 ACACTAGGGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (50 bp):
GGATTAGGGTGAAACCTAATAAAGGAATCCATAAATCGAGTTAATGCACT
Found at i:13536229 original size:19 final size:18
Alignment explanation
Indices: 13536195--13536230 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13536185 GGTTTCTAAA
*
13536195 AAATGGAAATTGAAATGG
1 AAATGAAAATTGAAATGG
13536213 AAATGAAAATGTGAAATG
1 AAATGAAAAT-TGAAATG
13536231 ATCCATTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (18 bp):
AAATGAAAATTGAAATGG
Found at i:13542411 original size:21 final size:20
Alignment explanation
Indices: 13542387--13542426 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13542377 GTCGAAATGG
13542387 CCACACGGACGTGTTGCCCTT
1 CCACACGGACGTG-TGCCCTT
* *
13542408 CCACATGGGCGTGTGCCCT
1 CCACACGGACGTGTGCCCT
13542427 GTTTCAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACGGACGTGTGCCCTT
Found at i:13551618 original size:51 final size:52
Alignment explanation
Indices: 13551541--13551643 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 52
13551531 CCATAAAAGT
13551541 TCATTCAATTCAAAACCATTTATTCACATACATATCATCCCTTATATGGGCC
1 TCATTCAATTCAAAACCATTTATTCACATACATATCATCCCTTATATGGGCC
* *
13551593 TCATTCAATTC-AAACCATTTATTCACATGCATATCGTCCCTTATATGGGCC
1 TCATTCAATTCAAAACCATTTATTCACATACATATCATCCCTTATATGGGCC
13551644 CACGAGGCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 38 0.78
52 11 0.22
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (52 bp):
TCATTCAATTCAAAACCATTTATTCACATACATATCATCCCTTATATGGGCC
Found at i:13554045 original size:20 final size:20
Alignment explanation
Indices: 13554010--13554047 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13554000 CGTTTCTCTA
13554010 ACCATAAACATGCAAAATCT
1 ACCATAAACATGCAAAATCT
13554030 ACCATTAAACAT-CAAAAT
1 ACCA-TAAACATGCAAAAT
13554048 ACAAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.53, C:0.24, G:0.03, T:0.21
Consensus pattern (20 bp):
ACCATAAACATGCAAAATCT
Found at i:13558384 original size:25 final size:25
Alignment explanation
Indices: 13558343--13558410 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
13558333 AGCTGTAAAC
*
13558343 GGTAAGCTCCT-CTGAGCTGAATAAT
1 GGTAAGCTCATAC-GAGCTGAATAAT
* * *
13558368 GGTAGGCTCATACGAGCTGAGTATT
1 GGTAAGCTCATACGAGCTGAATAAT
*
13558393 GGTAAGCTCATACAAGCT
1 GGTAAGCTCATACGAGCT
13558411 AAAATTAGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (25 bp):
GGTAAGCTCATACGAGCTGAATAAT
Found at i:13561834 original size:40 final size:40
Alignment explanation
Indices: 13561790--13561991 Score: 293
Period size: 40 Copynumber: 5.0 Consensus size: 40
13561780 CAGGATTTAA
*
13561790 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
**
13561830 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13561870 CCGGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
13561910 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13561950 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
13561990 CC
1 CC
13561992 CGTTATCATC
Statistics
Matches: 149, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 147 0.99
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:13565264 original size:43 final size:43
Alignment explanation
Indices: 13565196--13565279 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
13565186 GTTACATGAA
* * * *
13565196 TCGCATCCATTATGAACTCGGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATAAAATCGAACCTCTCAACGAGCTCGGATGC
13565239 TCGCATCCATAATAAAATCGAACCTCTCAACGAGCTCGGAT
1 TCGCATCCATAATAAAATCGAACCTCTCAACGAGCTCGGAT
13565280 ACCACATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATAAAATCGAACCTCTCAACGAGCTCGGATGC
Found at i:13570659 original size:15 final size:15
Alignment explanation
Indices: 13570640--13570684 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
13570630 AACTAGGATT
*
13570640 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
13570655 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
13570670 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
13570685 CAATATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.56, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:13570660 original size:30 final size:30
Alignment explanation
Indices: 13570626--13570684 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13570616 ATAGATAACA
* * * *
13570626 AGAAAACTAGGATTAAGAAGTCCAAGATAG
1 AGAAAACCAAGATAAAGAAATCCAAGATAG
*
13570656 AGAAATCCAAGATAAAGAAATCCAAGATA
1 AGAAAACCAAGATAAAGAAATCCAAGATA
13570685 CAATATCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.19, T:0.15
Consensus pattern (30 bp):
AGAAAACCAAGATAAAGAAATCCAAGATAG
Found at i:13574697 original size:43 final size:43
Alignment explanation
Indices: 13574627--13574709 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
13574617 ACATGAATCG
* * * *
13574627 CATCCATTATGAACTCGAACCTTTCAACGAGCTCGGATGCTCT
1 CATCCATAATGAACTCGAACATCTCAACAAGCTCGGATGCTCT
* * *
13574670 CATCCATAATGAACTTGGACATCTCAACAAGCTTGGATGC
1 CATCCATAATGAACTCGAACATCTCAACAAGCTCGGATGC
13574710 CACATATATC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (43 bp):
CATCCATAATGAACTCGAACATCTCAACAAGCTCGGATGCTCT
Found at i:13575890 original size:30 final size:30
Alignment explanation
Indices: 13575832--13575890 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
13575822 ATTTTCGAGC
**
13575832 CTAGGGGCAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
* *
13575862 CTAGGGGCAACATGGTCGTTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
13575891 ATTTGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:13576407 original size:46 final size:45
Alignment explanation
Indices: 13576234--13576452 Score: 244
Period size: 46 Copynumber: 4.7 Consensus size: 45
13576224 TGTCTGAGCT
* * *
13576234 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA-AGCC
* * *
13576280 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC-AAGTACT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAAG--CC
*
13576328 AGTGTAAGACATGTCTGGGACATGCATCTGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCC
13576374 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCC
* * *
13576420 AGTGTAAGATCATATTTGGGATATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
13576453 ACAGATATGC
Statistics
Matches: 150, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
46 79 0.53
47 40 0.27
48 30 0.20
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAAGCC
Found at i:13580771 original size:30 final size:30
Alignment explanation
Indices: 13580686--13580774 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
13580676 GACCCAACAT
* * * * * *
13580686 AGGGTATGAAAGGTAAATGTAAATGGTTAT
1 AGGGTATGATATGTAAATATGAATGATTAC
*
13580716 AGGGTATGATATGT--ATTTGAAAATGATTAC
1 AGGGTATGATATGTAAATATG--AATGATTAC
13580746 AGGGTATGATATGTAAATATGAATGATTA
1 AGGGTATGATATGTAAATATGAATGATTA
13580775 TATGGTTGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
28 3 0.06
30 41 0.85
32 4 0.08
ACGTcount: A:0.39, C:0.01, G:0.26, T:0.34
Consensus pattern (30 bp):
AGGGTATGATATGTAAATATGAATGATTAC
Found at i:13584003 original size:26 final size:26
Alignment explanation
Indices: 13583967--13584031 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
13583957 ATCAATGCTT
*
13583967 ATAAGAGCTGTGGAATGGGTCTACTC
1 ATAAGAGCTGTGGAATGGGCCTACTC
13583993 ATAAGAGCTGTGGAATGGGCCTACTC
1 ATAAGAGCTGTGGAATGGGCCTACTC
*
13584019 ATACGAGCTGTGG
1 ATAAGAGCTGTGG
13584032 CCAGAATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (26 bp):
ATAAGAGCTGTGGAATGGGCCTACTC
Found at i:13595906 original size:15 final size:15
Alignment explanation
Indices: 13595886--13595916 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13595876 GTTAAATGTT
13595886 TAAGTTTTGTAACAG
1 TAAGTTTTGTAACAG
13595901 TAAGTTTTGTAACAG
1 TAAGTTTTGTAACAG
13595916 T
1 T
13595917 CGATATCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (15 bp):
TAAGTTTTGTAACAG
Found at i:13596152 original size:5 final size:5
Alignment explanation
Indices: 13596142--13596171 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
13596132 GTGTTCTAAC
13596142 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
13596172 GCATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:13596798 original size:27 final size:27
Alignment explanation
Indices: 13596760--13596823 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
13596750 TGTTAGAATT
13596760 AGGAGAAATAAGGTTTTTGGATGTAAC
1 AGGAGAAATAAGGTTTTTGGATGTAAC
13596787 AGGAGAAATAAGGTTTTTGGATGTAAC
1 AGGAGAAATAAGGTTTTTGGATGTAAC
*
13596814 AGGACAAATA
1 AGGAGAAATA
13596824 GAAGCTAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.41, C:0.05, G:0.28, T:0.27
Consensus pattern (27 bp):
AGGAGAAATAAGGTTTTTGGATGTAAC
Found at i:13599954 original size:40 final size:40
Alignment explanation
Indices: 13599872--13600092 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
13599862 TATTCGGATG
* *
13599872 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
13599911 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* *
13599951 ATATCCGGGCTAAGTCCCGAAGGC-GTTTGGGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTA-TTGACT
** *
13599991 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* * * *
13600031 ATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
* *
13600071 ATATCC-GGCAAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
13600093 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 41 0.26
40 114 0.71
41 5 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:13600012 original size:80 final size:79
Alignment explanation
Indices: 13599872--13600092 Score: 295
Period size: 80 Copynumber: 2.8 Consensus size: 79
13599862 TATTCGGATG
* *
13599872 ATATCCGGGCTAAGTCCCGAAGGC-ATGGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGG-GCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGC
*
13599935 AGTTGTGCTATTGACT
64 AGTTGTGCTAGTGACT
*
13599951 ATATCCGGGCTAAGTCCCGAAGGCGTTTGGGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGGGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
*
13600016 TTTGTGCTAGTGACT
65 GTTGTGCTAGTGACT
* ** * *
13600031 ATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATATCC-GGCAAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGGGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
13600093 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 38 0.30
80 85 0.66
81 5 0.04
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGGGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAG
TTGTGCTAGTGACT
Done.