Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 46 of 444
Found at i:11216477 original size:19 final size:19
Alignment explanation
Indices: 11216455--11216518 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
11216445 TGTTTAAATA
11216455 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
* *
11216474 AATTAAAT--AATATTTAAATA
1 AATT-AATCCAA-A-TTATATT
11216494 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
11216513 AATTAA
1 AATTAA
11216519 AATAAGATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 2 0.06
19 19 0.53
20 13 0.36
21 2 0.06
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTAATCCAAATTATATT
Found at i:11216522 original size:68 final size:67
Alignment explanation
Indices: 11216396--11216523 Score: 154
Period size: 68 Copynumber: 1.9 Consensus size: 67
11216386 ACATGGAAAA
* * *
11216396 AAATTATTTTAATTAAATAATATTTATAAAAATTATATTAATTTAATAATGTTTAAATAAATTAA
1 AAATTATATTAATTAAATAATATTTATAAAAATTATATAAATTTAATAA-GTTAAAATAAATTAA
11216461 TCC
65 TCC
*
11216464 AAATTATATTAATTAAATAATATTTA-AATAAATTA-ATCCAAATTATATTAA-TTAAAATAA
1 AAATTATATTAATTAAATAATATTTATAA-AAATTATAT--AAATT-TAATAAGTTAAAATAA
11216524 GATTGAACCT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
67 4 0.08
68 39 0.75
69 4 0.08
70 5 0.10
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (67 bp):
AAATTATATTAATTAAATAATATTTATAAAAATTATATAAATTTAATAAGTTAAAATAAATTAAT
CC
Found at i:11218512 original size:6 final size:6
Alignment explanation
Indices: 11218503--11218528 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11218493 GAGAGAAGAG
11218503 GCAGAC GCAGAC GCAGAC GCAGAC GC
1 GCAGAC GCAGAC GCAGAC GCAGAC GC
11218529 TGCTAGGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.35, G:0.35, T:0.00
Consensus pattern (6 bp):
GCAGAC
Found at i:11218792 original size:38 final size:43
Alignment explanation
Indices: 11218718--11218802 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 43
11218708 TCTTTGGGGG
*
11218718 AAATTATAGGGGATTTTTGAAATCAGGGTTTGGAAGTAAA-GGA
1 AAATTATAGGGGATTTTTGAAATCA-GGTATGGAAGTAAAGGGA
*
11218761 AAATTTTAGGGGATTTTTGAAA-CA-G-AT-GAAGTAAAGGGA
1 AAATTATAGGGGATTTTTGAAATCAGGTATGGAAGTAAAGGGA
11218800 AAA
1 AAA
11218803 GTAATCGGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
38 8 0.21
39 7 0.18
40 1 0.03
42 2 0.05
43 21 0.54
ACGTcount: A:0.41, C:0.02, G:0.28, T:0.28
Consensus pattern (43 bp):
AAATTATAGGGGATTTTTGAAATCAGGTATGGAAGTAAAGGGA
Found at i:11219237 original size:188 final size:187
Alignment explanation
Indices: 11218941--11219300 Score: 410
Period size: 188 Copynumber: 1.9 Consensus size: 187
11218931 ACGACGCAGT
* * * * * * *
11218941 TTTTGCAAACTGTTAATAGATTTTTGTGGCGTTTCTGGTGAAAACGCCGGTATTTCACACCTTTT
1 TTTTGCAAACTATTAATAGATGTTTGTGACGTTTCTAGTGAAAACGCCGGTAATTCAAACCTGTT
* * *
11219006 ATGGCGTTTATAAAAGCACCACTAATAAAAGCCTATAAAACGACGA-CGTTTTGA-A-ATCTCTT
66 ACGACGTTTATAAAAGCACCACTAATAAAAGCATATAAAACGAC-ACCGTTTT-ACATAT-TCTT
* *
11219068 -TAAATGCTTT-GTGGCGTTTTTCTAAAAAGCGCCACTAATAACAAGGTTATAACGACACCG
128 ATAAATG-TTTCGTGGCATTTTT-GAAAAAGCGCCACTAATAACAAGGTTATAACGACACCG
* *
11219128 TTTTGCAATCTATTAATAGATGTTTGTGATGTTTTCTAGTGAAAACGCCGGTAATTCAAACCTGT
1 TTTTGCAAACTATTAATAGATGTTTGTGACG-TTTCTAGTGAAAACGCCGGTAATTCAAACCTGT
* * * *
11219193 TGCGACGTTTATAGAAGCGCCACTAATAACAATG-ATGT-AAACGACACCGTTTTACATATTCTT
65 TACGACGTTTATAAAAGCACCACTAATAA-AA-GCATATAAAACGACACCGTTTTACATATTCTT
* *
11219256 AATATATGTTTCGTGGCATTTTTGGAAAAGCGCCACTAATAACAA
128 -ATAAATGTTTCGTGGCATTTTTGAAAAAGCGCCACTAATAACAA
11219301 AGCTTCAAAA
Statistics
Matches: 144, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
187 28 0.19
188 71 0.49
189 29 0.20
190 16 0.11
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (187 bp):
TTTTGCAAACTATTAATAGATGTTTGTGACGTTTCTAGTGAAAACGCCGGTAATTCAAACCTGTT
ACGACGTTTATAAAAGCACCACTAATAAAAGCATATAAAACGACACCGTTTTACATATTCTTATA
AATGTTTCGTGGCATTTTTGAAAAAGCGCCACTAATAACAAGGTTATAACGACACCG
Found at i:11219418 original size:3 final size:3
Alignment explanation
Indices: 11219412--11219507 Score: 192
Period size: 3 Copynumber: 32.0 Consensus size: 3
11219402 TTTTTTTCTC
11219412 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11219460 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11219508 CATGATTAAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11219875 original size:21 final size:21
Alignment explanation
Indices: 11219849--11219902 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
11219839 AGTTTAAGGT
*
11219849 TTTATGGTTTTGGATTTAGGG
1 TTTATGGTTTTAGATTTAGGG
*
11219870 TTTATGGTTTAAGATTTAGGG
1 TTTATGGTTTTAGATTTAGGG
*
11219891 TTTATAGTTTTA
1 TTTATGGTTTTA
11219903 AGTTTTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (21 bp):
TTTATGGTTTTAGATTTAGGG
Found at i:11220038 original size:21 final size:21
Alignment explanation
Indices: 11219997--11220056 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
11219987 CTATTAGGGT
* * *
11219997 TTTATGGTTTAGGATTCAAGG
1 TTTATAGTTTAGGGTTTAAGG
*
11220018 TTTAATA-TTTTGGGTTTAAGG
1 TTT-ATAGTTTAGGGTTTAAGG
11220039 TTTATAGTTTAGGGTTTA
1 TTTATAGTTTAGGGTTTA
11220057 CGATTAGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 3 0.09
21 27 0.84
22 2 0.06
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.50
Consensus pattern (21 bp):
TTTATAGTTTAGGGTTTAAGG
Found at i:11221075 original size:40 final size:39
Alignment explanation
Indices: 11221026--11221127 Score: 107
Period size: 40 Copynumber: 2.6 Consensus size: 39
11221016 GCATTCTAAA
* *
11221026 AAACACCGCTAATACTCGATATATAGCGTCGTTTATCTAC
1 AAACGCCGCTAATACTCGATATATAGCGGCGTTTAT-TAC
* * * * *
11221066 AAACGCCGCTAATACTCAATCTATTGCGGCGTTTCTTAG
1 AAACGCCGCTAATACTCGATATATAGCGGCGTTTATTAC
11221105 AAAGCGCCGCTAATGA-TCGATAT
1 AAA-CGCCGCTAAT-ACTCGATAT
11221128 TTGGTGGCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
39 5 0.10
40 45 0.88
41 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (39 bp):
AAACGCCGCTAATACTCGATATATAGCGGCGTTTATTAC
Found at i:11222698 original size:2 final size:2
Alignment explanation
Indices: 11222691--11222742 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
11222681 ATTAACTTAT
*
11222691 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11222733 TA TA TA TA TA
1 TA TA TA TA TA
11222743 AATTAAAAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11223977 original size:47 final size:47
Alignment explanation
Indices: 11223918--11224024 Score: 151
Period size: 47 Copynumber: 2.3 Consensus size: 47
11223908 CTGTTACCGT
*
11223918 TACTGTTACTGTTTCAGATTTGTTCCGACGAGGTACTCTGTGTACCA
1 TACTGTTACTGTTCCAGATTTGTTCCGACGAGGTACTCTGTGTACCA
* * * *
11223965 TACTGTTACTGTTCCGGATTTGTTCTGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCAGATTTGTTCCGACGAGGTACTCTGTGTACCA
* *
11224012 TGCTGTTTCTGTT
1 TACTGTTACTGTT
11224025 ACTGTTATTG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (47 bp):
TACTGTTACTGTTCCAGATTTGTTCCGACGAGGTACTCTGTGTACCA
Found at i:11224204 original size:18 final size:18
Alignment explanation
Indices: 11224151--11224223 Score: 74
Period size: 18 Copynumber: 4.0 Consensus size: 18
11224141 AAAGATCGAC
*
11224151 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
11224170 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
* *
11224188 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
* *
11224206 TGTTACTGGATAACTGAT
1 TGTTACTGAATAATTGAT
11224224 CAATTGATTG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 32 0.74
19 11 0.26
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:11224228 original size:26 final size:26
Alignment explanation
Indices: 11224199--11224248 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
11224189 TTTACTGAAT
* *
11224199 AATTGACTGTTACTGGATAACTGATC
1 AATTGACTGATACTGAATAACTGATC
*
11224225 AATTGATTGATACTGAATAACTGA
1 AATTGACTGATACTGAATAACTGA
11224249 CTATTACTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (26 bp):
AATTGACTGATACTGAATAACTGATC
Found at i:11225405 original size:15 final size:17
Alignment explanation
Indices: 11225387--11225418 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
11225377 TAGCATAATT
11225387 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
11225402 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
11225419 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:11227208 original size:12 final size:12
Alignment explanation
Indices: 11227191--11227232 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
11227181 GGCAAAGAAC
11227191 AAAGAAGAAAAG
1 AAAGAAGAAAAG
*
11227203 AAAGAAGAAAAA
1 AAAGAAGAAAAG
11227215 AAACGAA-AAAAG
1 AAA-GAAGAAAAG
11227227 -AAGAAG
1 AAAGAAG
11227233 TAGAGGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.12
11 2 0.08
12 18 0.69
13 3 0.12
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAAAG
Found at i:11234901 original size:13 final size:13
Alignment explanation
Indices: 11234885--11234909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11234875 TTAAATTAGT
11234885 TAATTAGTTTAAA
1 TAATTAGTTTAAA
11234898 TAATTAGTTTAA
1 TAATTAGTTTAA
11234910 TAAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:11236060 original size:27 final size:28
Alignment explanation
Indices: 11236030--11236129 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
11236020 TTTAGTTTAC
11236030 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
11236057 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
11236084 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
11236111 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
11236130 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:11236129 original size:54 final size:54
Alignment explanation
Indices: 11236030--11236136 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
11236020 TTTAGTTTAC
* * *
11236030 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
11236084 TAAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
11236137 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:11236147 original size:54 final size:53
Alignment explanation
Indices: 11236032--11236148 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 53
11236022 TAGTTTACTA
* * * **
11236032 AAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTGT
1 AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTAC
* *
11236085 AAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTTAC
1 AAA-TTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTTAC
11236139 AGAATTACCG
1 A-AATTACCG
11236149 TTTTACCCCT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
53 11 0.21
54 40 0.75
55 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (53 bp):
AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTAC
Found at i:11236155 original size:27 final size:27
Alignment explanation
Indices: 11236125--11236308 Score: 210
Period size: 27 Copynumber: 6.8 Consensus size: 27
11236115 ATTACCAAAG
*
11236125 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
11236152 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
11236179 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
11236206 TACCCTCGACTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
11236233 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
11236260 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
11236287 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
11236309 TAAAATACCC
Statistics
Matches: 138, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 136 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:11236317 original size:27 final size:27
Alignment explanation
Indices: 11236233--11236508 Score: 121
Period size: 27 Copynumber: 10.1 Consensus size: 27
11236223 ATTATCATTT
* * ****
11236233 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
11236260 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
11236287 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * ** *
11236314 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
11236341 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* * *** **
11236368 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
11236395 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
11236422 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
11236449 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
11236478 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
11236505 TACC
1 TACC
11236509 TTTGGTTTGT
Statistics
Matches: 203, Mismatches: 35, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
26 2 0.01
27 175 0.86
28 7 0.03
29 19 0.09
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:11236318 original size:54 final size:54
Alignment explanation
Indices: 11236206--11236321 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
11236196 ATTATCGTTT
* * * ****
11236206 TACCCTCGACTTACAGAATTATCATTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGACTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACTAAAA
*
11236260 TACCCTTGATTTACAGAATTA-CTATTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGACTTACAGAATTATC-ATTTTACCCTCGATTTACAAAATTACTAAAA
11236314 TACCCTTG
1 TACCCTTG
11236322 GTTTGTAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 52 0.98
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTTGACTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:11236334 original size:54 final size:54
Alignment explanation
Indices: 11236222--11236426 Score: 162
Period size: 54 Copynumber: 3.8 Consensus size: 54
11236212 CGACTTACAG
* * **** * ** *
11236222 AATTATCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAG
1 AATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
* *
11236276 AATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAA
1 AATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
*** * * * *
11236330 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGA
1 AATTACCATTTTACCCTCGA-TTTATAAAATTACTAAAATACCCTTGGTTTGTAA
** * * *
11236384 AATTACCGA-AATACCCTCAATTTGTAAAATTACCAAAATACCC
1 AATTACC-ATTTTACCCTCGATTTATAAAATTACTAAAATACCC
11236427 CTGATTTACA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.02
54 121 0.96
55 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
Found at i:11236334 original size:81 final size:81
Alignment explanation
Indices: 11236168--11236336 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
11236158 TAATTTACAT
* * * ***
11236168 AATTACCGTTTTACCCCTGATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTATCATTT
1 AATTACCGTTTTACCCCTGATTTACAGAATTATCATTTTACCCTCGACTTACAAAATTATCAAAA
*
11236233 TACCCTCGATTTATAG
66 TACCCTCGATTTATAA
* * *
11236249 AATTACTGTTTTACCCTTGATTTACAGAATTA-CTATTTTACCCTCGATTTACAAAATTA-CTAA
1 AATTACCGTTTTACCCCTGATTTACAGAATTATC-ATTTTACCCTCGACTTACAAAATTATC-AA
* * *
11236312 AATACCCTTGGTTTGTAA
64 AATACCCTCGATTTATAA
11236330 AATTACC
1 AATTACC
11236337 AAAATACCCC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
80 2 0.03
81 70 0.97
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
AATTACCGTTTTACCCCTGATTTACAGAATTATCATTTTACCCTCGACTTACAAAATTATCAAAA
TACCCTCGATTTATAA
Found at i:11236449 original size:54 final size:53
Alignment explanation
Indices: 11236287--11236508 Score: 182
Period size: 54 Copynumber: 4.1 Consensus size: 53
11236277 ATTACTATTT
* ** *
11236287 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGG-TT-TACAAATTA-CAGAAA
* ** *
11236341 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTT-ACAAATTACAGAAA
* *
11236395 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAA-TTACAGAAA
* * * * * *
11236449 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCAATTTGT-AAAATTACCA-AAATACCCTTGGTTTAC-AAATTACAGAAA
11236505 TACC
1 TACC
11236509 TTTGGTTTGT
Statistics
Matches: 137, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 7 0.05
54 85 0.62
55 8 0.06
56 33 0.24
57 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAATTACAGAAA
Found at i:11236513 original size:27 final size:27
Alignment explanation
Indices: 11236300--11236517 Score: 163
Period size: 27 Copynumber: 8.0 Consensus size: 27
11236290 CCTCGATTTA
*
11236300 CAAAATTACTAAAATACCCTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
* * *
11236327 TAAAATTACCAAAATACCCCTAGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
*
11236354 TAAAATTACCAAAATACCCTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
** * ***
11236381 TGAAATTACCGAAATACCCTCAATTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
* * * *
11236408 TAAAATTACCAAAATACCCCTGATTTA
1 CAAAATTACCAAAATACCCTTGGTTTG
* *
11236435 CAAAGTTA-CAGAAATACCCTTGACTTT-
1 CAAAATTACCA-AAATACCCTTG-GTTTG
* * *
11236462 CTAAAAATTA-TAGAAATACCATTGGTTTA
1 C--AAAATTACCA-AAATACCCTTGGTTTG
** *
11236491 CAAAATTACTGAAATACCTTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
11236518 TTGATTTACC
Statistics
Matches: 157, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 129 0.82
28 7 0.04
29 19 0.12
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCTTGGTTTG
Found at i:11236634 original size:27 final size:27
Alignment explanation
Indices: 11236557--11236634 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
11236547 AAATGACTAA
* *
11236557 AATACCCCTAAAAGGTAAAAAGACCGT
1 AATACCCCTATAAGGTAAAATGACCGT
* * *
11236584 AA-AGCCCTTATAGGGTAAAGTGACCGT
1 AATA-CCCCTATAAGGTAAAATGACCGT
*
11236611 AATACCCCTATATGGTAAAATGAC
1 AATACCCCTATAAGGTAAAATGAC
11236635 GAATATGCCC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (27 bp):
AATACCCCTATAAGGTAAAATGACCGT
Found at i:11237902 original size:20 final size:20
Alignment explanation
Indices: 11237877--11237927 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
11237867 ATTTTGATAA
*
11237877 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
11237897 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
11237917 ACATGAGATGT
1 ACATGACATGT
11237928 TCATAAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:11238004 original size:23 final size:23
Alignment explanation
Indices: 11237974--11238139 Score: 260
Period size: 23 Copynumber: 7.1 Consensus size: 23
11237964 AGGAAGTGCA
11237974 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
11237997 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
11238020 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
11238044 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
11238067 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
11238091 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
11238114 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
11238137 AAA
1 AAA
11238140 AGAGGCAAGG
Statistics
Matches: 130, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
23 88 0.68
24 42 0.32
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:11238066 original size:47 final size:47
Alignment explanation
Indices: 11237974--11238141 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
11237964 AGGAAGTGCA
* *
11237974 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
11238020 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
11238067 AAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
11238114 AAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAGGGCTTATGCCCCAGTTATCAAAAG
11238142 AGGCAAGGCC
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 22 0.19
47 92 0.81
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:11238118 original size:70 final size:70
Alignment explanation
Indices: 11237972--11238139 Score: 266
Period size: 70 Copynumber: 2.4 Consensus size: 70
11237962 GGAGGAAGTG
* * *
11237972 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATGATAAAAGGGCTTACGCCCCA
11238037 GTTAT
66 GTTAT
*
11238042 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATGAT-AAAAGGGCTTACGCCCC
11238107 AGTTAT
65 AGTTAT
* *
11238113 -TAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
11238140 AGAGGCAAGG
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
70 70 0.77
71 21 0.23
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (70 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATGATAAAAGGGCTTACGCCCCA
GTTAT
Found at i:11238344 original size:42 final size:42
Alignment explanation
Indices: 11238281--11238372 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
11238271 TAGTCTCCCC
* **
11238281 AAATGGGTTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTAT-ATGTGATATTG
* *
11238323 AAATGGGCTTGCATTCTTTCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
11238365 AAATGGGC
1 AAATGGGC
11238373 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
Found at i:11244315 original size:6 final size:6
Alignment explanation
Indices: 11244300--11244352 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
11244290 TCCTCTTATC
* * *
11244300 TTTTTA TTTCTA TTTCTA TTTTTA TTTTTA TTTTTA TTTTTA TGTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
11244348 TTTTT
1 TTTTT
11244353 CGTTATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:11247240 original size:13 final size:13
Alignment explanation
Indices: 11247224--11247248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11247214 TTAAATTAGT
11247224 TAATTAGTTTAAA
1 TAATTAGTTTAAA
11247237 TAATTAGTTTAA
1 TAATTAGTTTAA
11247249 TAAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:11247770 original size:47 final size:47
Alignment explanation
Indices: 11247717--11247869 Score: 137
Period size: 47 Copynumber: 3.2 Consensus size: 47
11247707 TATTACGTTG
* *
11247717 TGGATAAACCATTGGTTAAGCAGATGACTGTCGACTAAAATACATTA
1 TGGATAAACCACTAGTTAAGCAGATGACTGTCGACTAAAATACATTA
* * * * *
11247764 TGGATAAACCACTAG-TAGATCAAATGATCTGTCAACTAGATTACATTA
1 TGGATAAACCACTAGTTA-AGCAGATGA-CTGTCGACTAAAATACATTA
** ** * * ** *
11247812 TAAATAAACCACTAGTCGAGCAGATGGCTGTTGACTAAAATATGTTG
1 TGGATAAACCACTAGTTAAGCAGATGACTGTCGACTAAAATACATTA
11247859 TGGATAAACCA
1 TGGATAAACCA
11247870 TTGGTCGAGT
Statistics
Matches: 80, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
46 2 0.03
47 42 0.52
48 36 0.45
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (47 bp):
TGGATAAACCACTAGTTAAGCAGATGACTGTCGACTAAAATACATTA
Found at i:11249250 original size:16 final size:15
Alignment explanation
Indices: 11249225--11249254 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11249215 CGCCCCAAAA
11249225 TTTTAATTTTGACAT
1 TTTTAATTTTGACAT
11249240 TTTTGAATTTTGACA
1 TTTT-AATTTTGACA
11249255 CAACTAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (15 bp):
TTTTAATTTTGACAT
Found at i:11255090 original size:14 final size:14
Alignment explanation
Indices: 11255073--11255123 Score: 84
Period size: 15 Copynumber: 3.5 Consensus size: 14
11255063 AAAAGAGCAA
11255073 AAAAAAATTCCAGC
1 AAAAAAATTCCAGC
11255087 AAAAAAATTCCAGC
1 AAAAAAATTCCAGC
11255101 AAAAAAAATTCCCAGC
1 -AAAAAAATT-CCAGC
11255117 AAAAAAA
1 AAAAAAA
11255124 AAACCAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
14 14 0.40
15 16 0.46
16 5 0.14
ACGTcount: A:0.63, C:0.20, G:0.06, T:0.12
Consensus pattern (14 bp):
AAAAAAATTCCAGC
Found at i:11255090 original size:15 final size:15
Alignment explanation
Indices: 11255072--11255124 Score: 90
Period size: 14 Copynumber: 3.5 Consensus size: 15
11255062 AAAAAGAGCA
11255072 AAAAAAAATTCCAGC
1 AAAAAAAATTCCAGC
11255087 -AAAAAAATTCCAGC
1 AAAAAAAATTCCAGC
11255101 AAAAAAAATTCCCAGC
1 AAAAAAAATT-CCAGC
11255117 AAAAAAAA
1 AAAAAAAA
11255125 AACCAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
14 14 0.39
15 9 0.25
16 13 0.36
ACGTcount: A:0.64, C:0.19, G:0.06, T:0.11
Consensus pattern (15 bp):
AAAAAAAATTCCAGC
Found at i:11255679 original size:13 final size:14
Alignment explanation
Indices: 11255663--11255691 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11255653 TTTTATTTGT
11255663 AATTGGTC-TAAAA
1 AATTGGTCATAAAA
11255676 AATTGGTCATAAAA
1 AATTGGTCATAAAA
11255690 AA
1 AA
11255692 AATAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
AATTGGTCATAAAA
Found at i:11255703 original size:16 final size:16
Alignment explanation
Indices: 11255684--11255718 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
11255674 AAAATTGGTC
11255684 ATAAAAAAAATAAAAA
1 ATAAAAAAAATAAAAA
*
11255700 ATAAAAACAATAAAAA
1 ATAAAAAAAATAAAAA
11255716 ATA
1 ATA
11255719 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (16 bp):
ATAAAAAAAATAAAAA
Found at i:11258543 original size:24 final size:24
Alignment explanation
Indices: 11258516--11258565 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11258506 TTTATTTCTT
11258516 TTGCATT-CATTCCATACATTTGCA
1 TTGCATTGCATTCCAT-CATTTGCA
*
11258540 TTGCATTGCATTGCATCATTTGCA
1 TTGCATTGCATTCCATCATTTGCA
11258564 TT
1 TT
11258566 AAACTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (24 bp):
TTGCATTGCATTCCATCATTTGCA
Found at i:11266101 original size:74 final size:73
Alignment explanation
Indices: 11265908--11266510 Score: 733
Period size: 72 Copynumber: 8.0 Consensus size: 73
11265898 TTTATTTATG
* *
11265908 TTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
11265973 ATTTCTGT
66 ATTTCTGT
* *
11265981 TTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
11266045 ATTTCTGCT
66 ATTTCTG-T
**
11266054 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
11266119 ATTTCTGT
66 ATTTCTGT
* *
11266127 TCAATTTATGTTTTTCAAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
1 T---TTCA--------AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
*
11266192 AGGTATTTTCAATTTTTGT
55 AGGTATTTTCAATTTCTGT
*
11266211 TTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
11266275 ATTTCTGTT
66 ATTTCTG-T
* *
11266284 TTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTT
1 TTTC---AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
* *
11266349 TCAATTTTTAT
63 TCAATTTCTGT
** * * *
11266360 CTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
1 -TTTC----AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAT
11266425 TTTCAATTTCTGT
61 TTTCAATTTCTGT
* * *** * **
11266438 TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTT
11266503 TCAATTTC
63 TCAATTTC
11266511 CATTTTTCAA
Statistics
Matches: 476, Mismatches: 32, Indels: 41
0.87 0.06 0.07
Matches are distributed among these distances:
72 129 0.27
73 16 0.03
74 104 0.22
76 26 0.05
77 69 0.14
78 65 0.14
81 2 0.00
84 65 0.14
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (73 bp):
TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
ATTTCTGT
Found at i:11266183 original size:84 final size:85
Alignment explanation
Indices: 11266041--11266211 Score: 281
Period size: 84 Copynumber: 2.0 Consensus size: 85
11266031 TTGAGGTATT
* * **
11266041 TTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTCAATTTATGCTTTTCAAAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
11266106 TGAGGTATTTTCAATTTCTG
66 TGAGGTATTTTCAATTTCTG
*
11266126 TTCAATTTATGTTTTTC-AAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTCAATTTATGCTTTTCAAAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
*
11266190 TGAGGTATTTTCAATTTTTG
66 TGAGGTATTTTCAATTTCTG
11266210 TT
1 TT
11266212 TTCAAAATTC
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 65 0.81
85 15 0.19
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (85 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTATTTTCAATTTCTG
Found at i:11266419 original size:78 final size:78
Alignment explanation
Indices: 11266143--11267637 Score: 811
Period size: 78 Copynumber: 18.4 Consensus size: 78
11266133 TATGTTTTTC
* ** * *
11266143 AAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACGTTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTT
*
11266207 TTGT-TTTC----
66 TTATCTTTCAAAA
* ** * *
11266215 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACGTTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTT
* * *
11266279 CTGTTTTTCAAAA
66 TTATCTTTCAAAA
** * *
11266292 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACATGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTT
11266356 TTATCTTTCAAAAA
66 TTATCTTTC-AAAA
*
11266370 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTT
* * *
11266434 CTGT-TGTC--AA
66 TTATCTTTCAAAA
* * *
11266444 AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTATTTTCAA-T
* **
11266509 TCCATTTTTCAATTTCTGCCTTTCAA
64 T---TTTATC---TT-T--C--AAAA
* * * *
11266535 AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CACACGCTGAGGTATTTTCA
*
11266599 ATTTTCTGTCTTTC--AA
62 ATTTT-TATCTTTCAAAA
* * *
11266615 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GCACACGCTGAGGTA--TTTTCAA
* *
11266680 TTTATATTTTTC--AA
63 TTTTTATCTTTCAAAA
* * * * * *
11266694 AAAAATCAACTCACATTGCGAGATGTGAGTTGGGTCTCGGGTCACATG-TCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCT-GAGGTATTTTC--A
* **
11266758 ATCTATTTTCAATTTTTGTTCGTCAA
62 A--T-TTTT--A--TCT-TTC-AAAA
* * *
11266784 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTAAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CACACGCTGAGGTATTTTCAAT
*
11266848 TTCTGT-TC-GTC----
64 TT-T-TATCTTTCAAAA
* * * * *
11266859 AAAAATCAACTCATATTGTC-AGAGGTGAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTCAAA
1 AAAAATCAACTCATATTG-CGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTATTTTC-AA
**
11266923 TTCTGTTTTTAATTTCTATTTTTCAAA
63 -----TTTTT-A--TC---TTTCAAAA
* ** * * * *
11266950 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGGCCACATGCCGAGGTCTTTTTAAA
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGT-ATTTTCAA
**
11267015 TTCTGTTTTTAATTTCTATTTTTCAAA
63 -----TTTTT-A--TC---TTTCAAAA
* *
11267042 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAA
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CACACGCTGAGGTATTTTCAA
*
11267106 TTTCTGT-TC-GTC----
63 TTT-T-TATCTTTCAAAA
* * * * * * *
11267118 AAAAATCAACTCATATTGTGAGAGATGAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTATTTTC-AA-
**
11267183 TCTGTTTTTAATTTCTATTTTTCAAA
63 ----TTTTT-A--TC---TTTCAAAA
* * *
11267209 AAAAGATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTTTAA
1 AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTA-TTTTCAA
*
11267274 TTTCTT-TTTTTCAAAAA
63 TTT-TTATCTTTC-AAAA
* * * * * *
11267291 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGGCTCGGGTCACGCGCCGAGGTATTTTTTAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTA-TTTTCAAT
* * *
11267356 TTCTGTTTTTC--AA
64 TTTTATCTTTCAAAA
* ** * *
11267369 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAATCACGCACTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACACGCTGAGGTATTTTCAATT
* * *
11267434 TCTGTTTTTCAAAAA
65 TTTATCTTTC-AAAA
* * * *
11267449 AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCGGGTCACACGCCGAGGTATTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTA-TTTTCAAT
* * *
11267514 TTCTGTTTTTCAAAA
64 TTTTATCTTTCAAAA
*
11267529 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTATTTTCAATT
***
11267594 TTT-TGGCTTT--TTT
65 TTTAT--CTTTCAAAA
11267607 AAAAATCAACTCATAATT-CGAGAGGTGAGTT
1 AAAAATCAACTCAT-ATTGCGAGAGGTGAGTT
11267638 AAACTTCGAG
Statistics
Matches: 1177, Mismatches: 137, Indels: 212
0.77 0.09 0.14
Matches are distributed among these distances:
72 65 0.06
73 4 0.00
74 41 0.03
75 97 0.08
76 30 0.03
77 95 0.08
78 189 0.16
79 71 0.06
80 127 0.11
81 93 0.08
82 11 0.01
83 4 0.00
84 6 0.01
85 3 0.00
86 9 0.01
87 13 0.01
88 5 0.00
89 4 0.00
90 53 0.05
91 19 0.02
92 177 0.15
93 61 0.05
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTT
TTATCTTTCAAAA
Found at i:11266615 original size:80 final size:79
Alignment explanation
Indices: 11266514--11267594 Score: 748
Period size: 92 Copynumber: 13.1 Consensus size: 79
11266504 CAATTTCCAT
** *
11266514 TTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
* *
11266579 CACGCGCTGAGCTA
66 CACACGCTGAGGTA
* *
11266593 TTTTCAATTTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAG
1 TTTTCAA-TTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GG
* *
11266655 ATCACACACTGAGGTA
64 CTCACACGCTGAGGTA
* * * * * * *
11266671 TTTTTTCAATTTATATTTTTC--AAAAAAATCAACTCACATTGCGAGATGTGAGTTGGGTCTCGG
1 --TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
* *
11266734 GTCACATG-TCGAGGTA
64 CTCACACGCT-GAGGTA
* ** *
11266750 TTTTCAAAATCTATTTTCAATTTTTGTTCGTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTT
1 TTTTC---A---A-TTTC--TGTTT-TTC-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
11266815 GAGCCTTGGCTCACACGCTAAGGTA
55 GAGCCTTGGCTCACACGCTGAGGTA
** * *
11266840 TTTTCAATTTCTGTTCGTC----AAAAATCAACTCATATTGTC-AGAGGTGAGTTGAGTCTCGGG
1 TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTG-CGAGAGGTGAGTTGAGCCT-TGG
* * *
11266900 C-CACATGCCGAGGTC
64 CTCACACGCTGAGGTA
*
11266915 TTTTCAAATTCTGTTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
1 TTTTCAATTTCTG---TT--TTTC-A------AA-AAAAAATCAACTCATATTGCGAGAGGTGAG
* * * *
11266980 TTGAGTCTTGGGC-CACATGCCGAGGTC
53 TTGAGCCTT-GGCTCACACGCTGAGGTA
* * *
11267007 TTTTTAAATTCTGTTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGTGAGAGGTGAG
1 TTTTCAATTTCTG---TT--TTTC-A------AA-AAAAAATCAACTCATATTGCGAGAGGTGAG
11267072 TTGAGCCTTGGCTCACACGCTGAGGTA
53 TTGAGCCTTGGCTCACACGCTGAGGTA
** * * * *
11267099 TTTTCAATTTCTGTTCGTC----AAAAATCAACTCATATTGTGAGAGATGAGTTGAGTCTCGGGC
1 TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGC
* * *
11267160 -CACATGCCGAGGTC
65 TCACACGCTGAGGTA
* *
11267174 TTTTCAAATTCTGTTTTTAATTTCTATTTTTCAAAAAAAGATCAACTCATATTGTGAGAGGTGAG
1 TTTTCAATTTCTG---TT--TTTC-A------AAAAAAA-ATCAACTCATATTGCGAGAGGTGAG
* *
11267239 TTGAGCCTCAGG-TCACACGCCGAGGTA
53 TTGAGCCT-TGGCTCACACGCTGAGGTA
* * * * *
11267266 TTTTTTAATTTCTTTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGGCTCGG
1 -TTTTCAATTTCTGTTTTTC-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
* * *
11267331 GTCACGCGCCGAGGTA
64 CTCACACGCTGAGGTA
* * ****
11267347 TTTTTTAATTTCTGTTTTTC--AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAA
1 -TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
* *
11267410 TCACGCACTGAGGTA
65 TCACACGCTGAGGTA
* * * *
11267425 TTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCGGG
1 TTTTCAATTTCTGTTTTTC-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
*
11267490 TCACACGCCGAGGTA
65 TCACACGCTGAGGTA
* *
11267505 TTTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG
1 -TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGG
11267570 -TCACACGCTGAGGTA
64 CTCACACGCTGAGGTA
11267585 TTTTCAATTT
1 TTTTCAATTT
11267595 TTTGGCTTTT
Statistics
Matches: 835, Mismatches: 99, Indels: 136
0.78 0.09 0.13
Matches are distributed among these distances:
75 114 0.14
76 7 0.01
77 26 0.03
78 103 0.12
79 71 0.09
80 130 0.16
81 87 0.10
82 7 0.01
83 5 0.01
84 4 0.00
86 4 0.00
87 6 0.01
88 5 0.01
89 2 0.00
90 54 0.06
91 9 0.01
92 191 0.23
93 10 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (79 bp):
TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
CACACGCTGAGGTA
Found at i:11266671 original size:171 final size:169
Alignment explanation
Indices: 11266346--11266693 Score: 468
Period size: 171 Copynumber: 2.0 Consensus size: 169
11266336 TGCTGAGGTA
* *
11266346 TTTTCAATTTTTATCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 TTTTCAATTTCTACCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
11266411 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTG
66 ACACGCTGAGCTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTG
* * *
11266476 AGCCTCAGGTCACACGCCGAGGTA-TTTTCAATTTCCAT
131 AGCCTCAGATCACACACCGAGGTATTTTTCAATTTACAT
* * *
11266514 TTTTCAATTTCTGCCTTTC-AAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGG
1 TTTTCAATTTCTACCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * * *
11266577 CTCACGCGCTGAGCTATTTTCAATTTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTG
66 ---ACACGCTGAGCTAATTTCAA-TTTCTGT-TGTCAAAAAAATCAACTCATATTGCGAGAGGCG
* * *
11266642 AGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATAT
126 AGTTGAGCCTCAGATCACACACCGAGGTA-TTTTTCAATTTACAT
11266687 TTTTCAA
1 TTTTCAA
11266694 AAAAATCAAC
Statistics
Matches: 156, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
166 2 0.01
167 40 0.26
168 16 0.10
169 17 0.11
170 7 0.04
171 55 0.35
173 19 0.12
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (169 bp):
TTTTCAATTTCTACCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACGCTGAGCTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTG
AGCCTCAGATCACACACCGAGGTATTTTTCAATTTACAT
Found at i:11266810 original size:169 final size:165
Alignment explanation
Indices: 11266590--11266984 Score: 481
Period size: 165 Copynumber: 2.4 Consensus size: 165
11266580 ACGCGCTGAG
11266590 CTATTTTCAATTTTCTG-TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTC
1 CTATTTTCAATTTT-TGTTC-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-
* **
11266653 AGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTG-CGAGA
63 AGATCACACACTAAGGTA--TTTTCAATTTATATTCGTC--AAAAATCAACTCACATTGTC-AGA
* * * *
11266717 TGTGAGTTGGGTCTCGGGTCACATGTCGAGGTATTTTCAAAAT
123 GGTGAGTTGAGTCTCGGGCCACATGCCGAGGTATTTTCAAAAT
* * * *
11266760 CTATTTTCAATTTTTGTTCGTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGC
1 CTATTTTCAATTTTTGTTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGA
* * * *
11266825 TCACACGCTAAGGTATTTTCAATTTCTGTTCGTCAAAAATCAACTCATATTGTCAGAGGTGAGTT
66 TCACACACTAAGGTATTTTCAATTTATATTCGTCAAAAATCAACTCACATTGTCAGAGGTGAGTT
* *
11266890 GAGTCTCGGGCCACATGCCGAGGTCTTTTCAAATT
131 GAGTCTCGGGCCACATGCCGAGGTATTTTCAAAAT
* * * * *
11266925 CTGTTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 CTATTTTCAATTTTTGTTCTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
11266985 TCTTGGGCCA
Statistics
Matches: 196, Mismatches: 24, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
165 73 0.37
166 1 0.01
167 50 0.26
169 53 0.27
170 19 0.10
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (165 bp):
CTATTTTCAATTTTTGTTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGA
TCACACACTAAGGTATTTTCAATTTATATTCGTCAAAAATCAACTCACATTGTCAGAGGTGAGTT
GAGTCTCGGGCCACATGCCGAGGTATTTTCAAAAT
Found at i:11266919 original size:75 final size:76
Alignment explanation
Indices: 11266761--11266929 Score: 218
Period size: 75 Copynumber: 2.2 Consensus size: 76
11266751 TTTCAAAATC
* *
11266761 TATTTTCAATTTTTGTTCGTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCT
1 TATTTTCAATTTCTGTTCGTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTGGGCT
*
11266826 CACACGCTAAGG
65 CACACGCCAAGG
*
11266838 TATTTTCAATTTCTGTTCGTC-AAAAATCAACTCATATTGTC-AGAGGTGAGTTGAGTCTCGGGC
1 TATTTTCAATTTCTGTTCGTCAAAAAATCAACTCATATTG-CAAGAGGTGAGTTGAGCCT-GGGC
* *
11266901 -CACATGCCGAGG
64 TCACACGCCAAGG
* *
11266913 TCTTTTCAAATTCTGTT
1 TATTTTCAATTTCTGTT
11266930 TTTAATTTCT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
75 58 0.71
76 4 0.05
77 20 0.24
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (76 bp):
TATTTTCAATTTCTGTTCGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTGGGCTC
ACACGCCAAGG
Found at i:11267124 original size:167 final size:156
Alignment explanation
Indices: 11267020--11267637 Score: 699
Period size: 158 Copynumber: 3.8 Consensus size: 156
11267010 TTAAATTCTG
* *
11267020 TTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT-TGGC
1 TTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
** *
11267084 TCACACGCTGAGGTATTTTCAATTTCTGTTCGTC-AAAAATCAACTCATATTGTGAGAGATGAGT
65 TCACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGT
*
11267148 TGAGTCTCGGGCCACATGCCGAGGTCTTTTCAAATTCT
130 TGAGTCTCGGGCCACACGCCGAGG-----T---A---T
* *
11267186 GTTTTTAATTTCTATTTTTCAAAAAAAGATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG
1 -TTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * *
11267251 TCACACGCCGAGGTATTTTTTAATTTCTTTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGA
65 TCACACGCTGAGGTA-TTTTCAATTTCTGTTTTTC----AAAAAATCAACTCATATTGCGAGAGA
* * *
11267316 TGAGTTGAGGCTCGGGTCACGCGCCGAGGTAT
125 TGAGTTGAGTCTCGGGCCACACGCCGAGGTAT
* * **
11267348 TTTTTAATTTCTGTTTTTC--AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAAT
1 TTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
* *
11267411 CACGCACTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATG
66 CACACGCTGAGGTATTTTCAATTTCTGTTTTTC----AAAAAATCAACTCATATTGCGAGAGATG
** *
11267476 AGTTGAACCTCGGGTCACACGCCGAGGTAT
127 AGTTGAGTCTCGGGCCACACGCCGAGGTAT
* * *
11267506 TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGT
1 TTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
* * *
11267571 CACACGCTGAGGTATTTTCAATTTTTTGGCTTTTT-TAAAAATCAACTCATAATT-CGAGAGGTG
66 CACACGCTGAGGTATTTTCAA-TTTCT-G-TTTTTCAAAAAATCAACTCAT-ATTGCGAGAGATG
11267634 AGTT
127 AGTT
11267638 AAACTTCGAG
Statistics
Matches: 402, Mismatches: 36, Indels: 35
0.85 0.08 0.07
Matches are distributed among these distances:
158 120 0.30
159 53 0.13
160 59 0.15
161 22 0.05
162 2 0.00
163 5 0.01
165 1 0.00
167 73 0.18
168 18 0.04
173 49 0.12
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (156 bp):
TTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
CACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTT
GAGTCTCGGGCCACACGCCGAGGTAT
Found at i:11267149 original size:259 final size:247
Alignment explanation
Indices: 11266782--11267594 Score: 1008
Period size: 259 Copynumber: 3.3 Consensus size: 247
11266772 TTTGTTCGTC
* *
11266782 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTAAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAA
*
11266847 TTTCTGTTCGTCAAAAATCAACTCATATTGTCAGAGGTGAGTTGAGTCTCGGGCCACATGCCGAG
66 TTTCTGTTCGTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCGGGCCACATGCCGAG
11266912 GTCTTTTCAAATTCTGTTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGT
131 GTCTTTTCAAATTCTGTTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGT
* * * * * *
11266977 GAGTTGAGTCTTGGGCCACATGCCGAGGTCTTTTTAAATTCTGTTTTTAATTTCTATTTTTCAA
196 GAGTTGAGCCTCGGGTCACACGCCGAGG------T--A---T-TTTTCAATTTCTGTTTTTCAA
*
11267041 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAA
*
11267106 TTTCTGTTCGTCAAAAATCAACTCATATTGTGAGAGATGAGTTGAGTCTCGGGCCACATGCCGAG
66 TTTCTGTTCGTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCGGGCCACATGCCGAG
* *
11267171 GTCTTTTCAAATTCTGTTTTTAATTTCTATTTTTCAAAAAAAGATCAACTCATATTGTGAGAGGT
131 GTCTTTTCAAATTCTGTTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGT
* * *
11267236 GAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTTTAATTTCTTTTTTTCAAA
196 GAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTC-AA
* * * * * * *
11267289 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGGCTCGGGTCACGCGCCGAGGTATTTTTTA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTA-TTTTCA
** ** * ****
11267354 ATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAATCAC--GCA
65 ATTTCTGTTCGTC--AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCGGGCCACATGC-
* *
11267417 CTGAGGTATTTTCAATTTCTG---TT--TTTC-A------AAAAAAAAATCAACTCATATTGCGA
127 C-GAGGTCTTTTCAAATTCTGTTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGA
* *
11267470 GAGATGAGTTGAACCTCGGGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAA
191 GAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAA
* *
11267527 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG-TCACACGCTGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCA
11267591 ATTT
65 ATTT
11267595 TTTGGCTTTT
Statistics
Matches: 500, Mismatches: 47, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
237 9 0.02
238 51 0.10
239 75 0.15
245 1 0.00
246 4 0.01
247 18 0.04
248 56 0.11
249 18 0.04
250 1 0.00
251 55 0.11
253 1 0.00
259 211 0.42
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (247 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAA
TTTCTGTTCGTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCGGGCCACATGCCGAG
GTCTTTTCAAATTCTGTTTTTAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGT
GAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAA
Found at i:11267172 original size:75 final size:75
Alignment explanation
Indices: 11267043--11267188 Score: 213
Period size: 75 Copynumber: 1.9 Consensus size: 75
11267033 TTTTTCAAAA
* * * *
11267043 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTGGGCTCACACGCCGAGGTATTTTCAAAT
11267108 TCTGTTCGTC
66 TCTGTTCGTC
* * *
11267118 AAAAATCAACTCATATTGTGAGAGATGAGTTGAGTCTCGGGC-CACATGCCGAGGTCTTTTCAAA
1 AAAAATCAACTCATATTGTGAGAGATGAGTTGAGCCT-GGGCTCACACGCCGAGGTATTTTCAAA
11267182 TTCTGTT
65 TTCTGTT
11267189 TTTAATTTCT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
75 60 0.95
76 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (75 bp):
AAAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTGGGCTCACACGCCGAGGTATTTTCAAAT
TCTGTTCGTC
Found at i:11267261 original size:92 final size:90
Alignment explanation
Indices: 11267118--11267365 Score: 273
Period size: 81 Copynumber: 2.8 Consensus size: 90
11267108 TCTGTTCGTC
* * *
11267118 AAAAATCAACTCATATTGTGAGAGATGAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTCAAAT
1 AAAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTCGGGTCACACGCCGAGGT-TTTT-AAAT
11267183 TCTGTTTTTAATTTCTATTTTTCAAAA
64 TCTGTTTTTAATTTCTATTTTTCAAAA
* * *
11267210 AAAGATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGG----T--A---
1 AAAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTCGGGTCACACGCCGAGGTTTTTAAATTC
*
11267266 T-TTTTTAATTTCTTTTTTTCAAAAA
66 TGTTTTTAATTTCTATTTTTC-AAAA
* * * *
11267291 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGGCTCGGGTCACGCGCCGAGGTATTTTTTAAT
1 AAAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTCGGGTCACACGCCGAGG---TTTTTAAA
11267356 TTCTGTTTTT
63 TTCTGTTTTT
11267366 CAAAAAAATC
Statistics
Matches: 128, Mismatches: 14, Indels: 26
0.76 0.08 0.15
Matches are distributed among these distances:
80 18 0.14
81 53 0.41
84 1 0.01
87 1 0.01
88 1 0.01
92 48 0.38
93 1 0.01
94 5 0.04
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (90 bp):
AAAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTCGGGTCACACGCCGAGGTTTTTAAATTC
TGTTTTTAATTTCTATTTTTCAAAA
Found at i:11267299 original size:81 final size:80
Alignment explanation
Indices: 11267187--11267588 Score: 576
Period size: 80 Copynumber: 5.0 Consensus size: 80
11267177 TCAAATTCTG
* * *
11267187 TTTTTAATTTCTATTTTTCAAAAAAAGATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGT
1 TTTTTAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
11267252 CACACGCCGAGGTAT
66 CACACGCCGAGGTAT
* * * *
11267267 TTTTTAATTTCTTTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGGCTCGGG
1 TTTTTAATTTCTGTTTTTC-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
11267332 TCACGCGCCGAGGTAT
65 TCACACGCCGAGGTAT
* **
11267348 TTTTTAATTTCTGTTTTTC--AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAAT
1 TTTTTAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
* * *
11267411 CACGCACTGAGGTA-
66 CACACGCCGAGGTAT
* * * *
11267425 TTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCGGG
1 TTTTTAATTTCTGTTTTTC-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
11267490 TCACACGCCGAGGTAT
65 TCACACGCCGAGGTAT
* *
11267506 TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGT
1 TTTTTAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
*
11267571 CACACGCTGAGGTAT
66 CACACGCCGAGGTAT
11267586 TTT
1 TTT
11267589 CAATTTTTTG
Statistics
Matches: 286, Mismatches: 31, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
77 18 0.06
78 50 0.17
80 126 0.44
81 92 0.32
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (80 bp):
TTTTTAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
CACACGCCGAGGTAT
Found at i:11267611 original size:81 final size:79
Alignment explanation
Indices: 11267187--11267639 Score: 519
Period size: 80 Copynumber: 5.7 Consensus size: 79
11267177 TCAAATTCTG
* * * *
11267187 TTTTT-AATTTCTATTTTTCAAAAAAAGATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG
1 TTTTTCAATTTCTGTTTTT-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG
11267251 TCACACGCCGAGGTA
65 TCACACGCCGAGGTA
* * * * * *
11267266 TTTTTTAATTTCTTTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGGCTCGG
1 TTTTTCAATTTCTGTTTTT--AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
*
11267331 GTCACGCGCCGAGGTA
64 GTCACACGCCGAGGTA
* * * * **
11267347 TTTTTTAATTTCTGTTTTT-CAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAAT
1 TTTTTCAATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGT
* * *
11267411 CACGCACTGAGGTA
66 CACACGCCGAGGTA
* *
11267425 -TTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAA-CCTCG
1 TTTTTCAATTTCTGTTTTT--AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTCA
11267488 GGTCACACGCCGAGGTA
63 GGTCACACGCCGAGGTA
11267505 TTTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG
1 TTTTTCAATTTCTGTTTTT-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG
*
11267570 TCACACGCTGAGGTA
65 TCACACGCCGAGGTA
* *
11267585 -TTTTCAATTTTTTGGCTTTTT---TAAAAATCAACTCATAATT-CGAGAGGTGAGTTAA
1 TTTTTCAA-TTTCT-G-TTTTTAAAAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTAA
11267640 ACTTCGAGTA
Statistics
Matches: 327, Mismatches: 35, Indels: 25
0.84 0.09 0.06
Matches are distributed among these distances:
77 17 0.05
78 79 0.24
79 17 0.05
80 117 0.36
81 92 0.28
82 5 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (79 bp):
TTTTTCAATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGT
CACACGCCGAGGTA
Found at i:11267667 original size:238 final size:238
Alignment explanation
Indices: 11267187--11267684 Score: 650
Period size: 238 Copynumber: 2.1 Consensus size: 238
11267177 TCAAATTCTG
* * * * * *
11267187 TTTTTAATTTCTATTTTTC-AAAAAAAGATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG
1 TTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAGG
* *
11267251 TCACACGCCGAGGTATTTTTTAATTTCTTTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGA
66 TCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGA
* * * * *
11267316 TGAGTTGAGGCTCGGGTCACGCGCCGAGGTATTTTTTAATTTCTGTTTTTCAAAAAAATCAACTC
131 TGAGTTAAGCCTCAGGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTT-AAAAAAATCAACTC
* * * *
11267381 ATATTACGAGAGGTGAGTTGAGCCTCAAATCACGCACTGAGGTA
195 ATATTACGAGAGGTGAGTTAAACCTCAAATCACGCACCGAGCTA
*
11267425 TTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCGGG
1 TTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAGG
*
11267490 TCACACGCCGAGGTATTTTTCAATTTCTGTTTTTC-AAAAAAAAATCAACTCATATTGCGAGAGG
66 TCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGA
* * *
11267554 TGAGTTAAGCCTCAGGTCACACGCTGAGGTA-TTTTCAATTTTTTGGCTTTTT-TAAAAATCAAC
131 TGAGTTAAGCCTCAGGTCACACGCCGAGGTATTTTTCAA-TTTCT-G-TTTTTAAAAAAATCAAC
* * *
11267617 TCATAATT-CGAGAGGTGAGTTAAACTTCGAGT-A-GCATCCCGAGCTA
193 TCAT-ATTACGAGAGGTGAGTTAAACCTCAAATCACGCA--CCGAGCTA
11267663 TTTTCAATTTCTTGTTTTTCAA
1 TTTTCAATTTC-TGTTTTTCAA
11267685 TAAAGAATAA
Statistics
Matches: 227, Mismatches: 25, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
236 3 0.01
237 7 0.03
238 125 0.55
239 87 0.38
240 5 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (238 bp):
TTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAGG
TCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGA
TGAGTTAAGCCTCAGGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTAAAAAAATCAACTCA
TATTACGAGAGGTGAGTTAAACCTCAAATCACGCACCGAGCTA
Found at i:11268179 original size:16 final size:16
Alignment explanation
Indices: 11268160--11268200 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
11268150 AAAAAGAGCA
11268160 AAAAAAAAATTCCAAC
1 AAAAAAAAATTCCAAC
* *
11268176 AAAAAAAATTTCCAGC
1 AAAAAAAAATTCCAAC
11268192 AAAAAAAAA
1 AAAAAAAAA
11268201 ACCAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.71, C:0.15, G:0.02, T:0.12
Consensus pattern (16 bp):
AAAAAAAAATTCCAAC
Found at i:11268759 original size:16 final size:16
Alignment explanation
Indices: 11268738--11268771 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
11268728 TTTTATTTGT
11268738 AATTGGTC-TAAACAAA
1 AATTGGTCTTAAA-AAA
11268754 AATTGGTCTTAAAAAA
1 AATTGGTCTTAAAAAA
11268770 AA
1 AA
11268772 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (16 bp):
AATTGGTCTTAAAAAA
Found at i:11268771 original size:17 final size:16
Alignment explanation
Indices: 11268738--11268772 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
11268728 TTTTATTTGT
*
11268738 AATTGGTCTAAACAAA
1 AATTGGTCTAAAAAAA
11268754 AATTGGTCTTAAAAAAA
1 AATTGGTC-TAAAAAAA
11268771 AA
1 AA
11268773 AAAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (16 bp):
AATTGGTCTAAAAAAA
Found at i:11269035 original size:17 final size:17
Alignment explanation
Indices: 11269005--11269037 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11268995 CTATATTATA
11269005 TACATATATATATTTTG
1 TACATATATATATTTTG
11269022 TACATATCAT-TATTTT
1 TACATAT-ATATATTTT
11269038 ATATTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (17 bp):
TACATATATATATTTTG
Found at i:11270601 original size:30 final size:29
Alignment explanation
Indices: 11270567--11270637 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
11270557 TTTGGGATAT
* *
11270567 ATGGCATGTATAGGAGTTTGGTCATTTGAA
1 ATGGCTTGTAAAGG-GTTTGGTCATTTGAA
* *
11270597 ATGGCTTGTAAATGTTTTGGTCATTTGAA
1 ATGGCTTGTAAAGGGTTTGGTCATTTGAA
11270626 ATGGCTTGTAAA
1 ATGGCTTGTAAA
11270638 TGTTAAGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 26 0.70
30 11 0.30
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.39
Consensus pattern (29 bp):
ATGGCTTGTAAAGGGTTTGGTCATTTGAA
Found at i:11270616 original size:29 final size:29
Alignment explanation
Indices: 11270583--11270641 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
11270573 TGTATAGGAG
11270583 TTTGGTCATTTGAAATGGCTTGTAAATGT
1 TTTGGTCATTTGAAATGGCTTGTAAATGT
11270612 TTTGGTCATTTGAAATGGCTTGTAAATGT
1 TTTGGTCATTTGAAATGGCTTGTAAATGT
11270641 T
1 T
11270642 AAGTATTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.46
Consensus pattern (29 bp):
TTTGGTCATTTGAAATGGCTTGTAAATGT
Found at i:11274246 original size:3 final size:3
Alignment explanation
Indices: 11274238--11274286 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
11274228 GTGTGTTACA
11274238 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11274286 A
1 A
11274287 AGAAGCCTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:11275231 original size:22 final size:20
Alignment explanation
Indices: 11275183--11275234 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
11275173 CCATTCCTCT
*
11275183 TTATTAAATAAAAAACAATA
1 TTATTAAAAAAAAAACAATA
*
11275203 CT-TTAAAAAAACAAACATATA
1 TTATTAAAAAAA-AAACA-ATA
11275224 TTATTAAAAAA
1 TTATTAAAAAA
11275235 TTCTACCGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 8 0.31
20 6 0.23
21 4 0.15
22 8 0.31
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
TTATTAAAAAAAAAACAATA
Found at i:11279083 original size:52 final size:52
Alignment explanation
Indices: 11279021--11279123 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
11279011 TGCTTCAATT
11279021 AAGTTATTTTAAAATATATATAAACATACCAATATTCAAATTTAAATTTCCC
1 AAGTTATTTTAAAATATATATAAACATACCAATATTCAAATTTAAATTTCCC
11279073 AAGTTATTTTAAAATATATATAAACATACCAATATTCAAATTTAAATTTCC
1 AAGTTATTTTAAAATATATATAAACATACCAATATTCAAATTTAAATTTCC
11279124 GCAATAGTCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.39
Consensus pattern (52 bp):
AAGTTATTTTAAAATATATATAAACATACCAATATTCAAATTTAAATTTCCC
Found at i:11280250 original size:27 final size:27
Alignment explanation
Indices: 11280219--11280351 Score: 180
Period size: 27 Copynumber: 4.9 Consensus size: 27
11280209 TTGCCAGAAT
* *
11280219 AGATA-ATGTGACAGAGTCACCAGATAC
1 AGATATATGTGGCAGAGCCACCAGAT-C
*
11280246 AGATA-ATCGTGGCAGAGCCACCAGAAC
1 AGATATAT-GTGGCAGAGCCACCAGATC
11280273 AGATATATGTGGCAGAGCCACCAGATC
1 AGATATATGTGGCAGAGCCACCAGATC
*
11280300 AGATATTTGTGGCAGAGCCACCAGATC
1 AGATATATGTGGCAGAGCCACCAGATC
* *
11280327 AGATATTTGTGGCATAGCCACCAGA
1 AGATATATGTGGCAGAGCCACCAGA
11280352 ACGCTTCCTC
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
27 81 0.83
28 17 0.17
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
AGATATATGTGGCAGAGCCACCAGATC
Found at i:11282000 original size:26 final size:26
Alignment explanation
Indices: 11281964--11282073 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
11281954 CATGAAATTC
11281964 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11281990 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11282016 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
11282042 TTATCATGGAACGTTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11282068 TTATCA
1 TTATCA
11282074 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11284747 original size:17 final size:18
Alignment explanation
Indices: 11284727--11284762 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11284717 TTTTTATAAC
11284727 ATTTATAA-TTTTTTATG
1 ATTTATAATTTTTTTATG
*
11284744 ATTTTTAATTTTTTTATG
1 ATTTATAATTTTTTTATG
11284762 A
1 A
11284763 AAAATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
ATTTATAATTTTTTTATG
Found at i:11285218 original size:26 final size:26
Alignment explanation
Indices: 11285189--11285296 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
11285179 TGATACAAAT
11285189 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11285215 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11285241 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11285267 TGATAATGGTTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11285293 TGAT
1 TGAT
11285297 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11286631 original size:19 final size:19
Alignment explanation
Indices: 11286607--11286653 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
11286597 TTTGGGCTTA
11286607 ATGGGCCAAAATTGGAATG
1 ATGGGCCAAAATTGGAATG
11286626 ATGGGCCAAAATTGGAATG
1 ATGGGCCAAAATTGGAATG
*
11286645 ATAGGCCAA
1 ATGGGCCAA
11286654 CGGGCCCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (19 bp):
ATGGGCCAAAATTGGAATG
Found at i:11288504 original size:12 final size:12
Alignment explanation
Indices: 11288487--11288526 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
11288477 ACTCGGGGAA
*
11288487 GAGGCCGTAGTC
1 GAGGCCGTGGTC
11288499 GAGGCCGTGGTC
1 GAGGCCGTGGTC
*
11288511 GAGGCAGTGGTC
1 GAGGCCGTGGTC
11288523 GAGG
1 GAGG
11288527 TCGAGGTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.15, C:0.20, G:0.50, T:0.15
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:11293437 original size:26 final size:26
Alignment explanation
Indices: 11293408--11293515 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
11293398 TGATACAAAT
11293408 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11293434 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11293460 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11293486 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11293512 TGAT
1 TGAT
11293516 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11293658 original size:12 final size:12
Alignment explanation
Indices: 11293641--11293671 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
11293631 AGTTAGAGAA
11293641 GAGAAAGAAGAG
1 GAGAAAGAAGAG
11293653 GAGAAAGAAGAG
1 GAGAAAGAAGAG
11293665 GAGAAAG
1 GAGAAAG
11293672 CTCTTGAATG
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:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
GAGAAAGAAGAG
Found at i:11296461 original size:13 final size:13
Alignment explanation
Indices: 11296443--11296468 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11296433 GCTTCAAAAC
11296443 AAAATTTTTATTT
1 AAAATTTTTATTT
11296456 AAAATTTTTATTT
1 AAAATTTTTATTT
11296469 TCTAATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AAAATTTTTATTT
Found at i:11296619 original size:20 final size:20
Alignment explanation
Indices: 11296573--11296634 Score: 90
Period size: 19 Copynumber: 3.1 Consensus size: 20
11296563 TAAACTAATA
* *
11296573 TTTGATATTCTCTTATATTT
1 TTTGATATTTTCTCATATTT
11296593 TTT-ATATTTTCTCATATTT
1 TTTGATATTTTCTCATATTT
11296612 TTTGATATTTTCTCATAATTT
1 TTTGATATTTTCTCAT-ATTT
11296633 TT
1 TT
11296635 AATAATTGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 17 0.45
20 15 0.39
21 6 0.16
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTGATATTTTCTCATATTT
Found at i:11296632 original size:11 final size:10
Alignment explanation
Indices: 11296577--11296633 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
11296567 CTAATATTTG
* *
11296577 ATATTCTCTT
1 ATATTTTCTC
*
11296587 ATATTTT-TT
1 ATATTTTCTC
11296596 ATATTTTCTC
1 ATATTTTCTC
* *
11296606 ATATTTTTTG
1 ATATTTTCTC
11296616 ATATTTTCTC
1 ATATTTTCTC
11296626 ATAATTTT
1 AT-ATTTT
11296634 TAATAATTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
9 9 0.23
10 25 0.64
11 5 0.13
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.65
Consensus pattern (10 bp):
ATATTTTCTC
Found at i:11296882 original size:2 final size:2
Alignment explanation
Indices: 11296875--11296910 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11296865 CAAAACTTAA
11296875 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11296911 CAAGTCAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11297098 original size:27 final size:27
Alignment explanation
Indices: 11297067--11297153 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
11297057 TATATAAATT
11297067 TCTAAAAAATATAAAAACTGTTTTATG
1 TCTAAAAAATATAAAAACTGTTTTATG
* * * * ** *
11297094 TCTAAAACCCATCTAAATA-T-ATAAATT
1 TCTAAAA--AATATAAAAACTGTTTTATG
11297121 TCT-AAAAATATAAAAACTGTTTTATG
1 TCTAAAAAATATAAAAACTGTTTTATG
11297147 TCTAAAA
1 TCTAAAA
11297154 TGAACTTGAT
Statistics
Matches: 41, Mismatches: 14, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
24 7 0.17
25 1 0.02
26 9 0.22
27 16 0.39
28 1 0.02
29 7 0.17
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (27 bp):
TCTAAAAAATATAAAAACTGTTTTATG
Found at i:11297134 original size:53 final size:54
Alignment explanation
Indices: 11297044--11297153 Score: 213
Period size: 53 Copynumber: 2.1 Consensus size: 54
11297034 ATCCTACCCT
11297044 AAACCCATCTAAATATATAAATTTCTAAAAAATATAAAAACTGTTTTATGTCTA
1 AAACCCATCTAAATATATAAATTTCTAAAAAATATAAAAACTGTTTTATGTCTA
11297098 AAACCCATCTAAATATATAAATTTCT-AAAAATATAAAAACTGTTTTATGTCTA
1 AAACCCATCTAAATATATAAATTTCTAAAAAATATAAAAACTGTTTTATGTCTA
11297151 AAA
1 AAA
11297154 TGAACTTGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 30 0.54
54 26 0.46
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (54 bp):
AAACCCATCTAAATATATAAATTTCTAAAAAATATAAAAACTGTTTTATGTCTA
Found at i:11300264 original size:3 final size:3
Alignment explanation
Indices: 11300256--11300310 Score: 94
Period size: 3 Copynumber: 18.3 Consensus size: 3
11300246 ATTTTATTTT
11300256 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11300303 TATA TTA T
1 T-TA TTA T
11300311 AATAGCTGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:11305142 original size:30 final size:30
Alignment explanation
Indices: 11305108--11305168 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11305098 AGATTTAGAG
11305108 ACTGTTTCCCCTGTGCAGCAGCAAGAAATT
1 ACTGTTTCCCCTGTGCAGCAGCAAGAAATT
11305138 ACTGTTTCCCCTGTGCAGCAGCAAGAAATT
1 ACTGTTTCCCCTGTGCAGCAGCAAGAAATT
11305168 A
1 A
11305169 GCCCGATCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (30 bp):
ACTGTTTCCCCTGTGCAGCAGCAAGAAATT
Found at i:11316494 original size:47 final size:47
Alignment explanation
Indices: 11316374--11316504 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
11316364 GTGCGAATAA
* * * *
11316374 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTCAGAGAGGAGT
1 TACCTTAATTTGGCTACGGGCCATGGTATAGGTA-CTCAGAGAGAACT
* * * *
11316422 TATCTTAATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATAACT
1 TACCTTAATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAACT
11316469 TACCTTAATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTAATTTGGCTACGGGCCATGGTATAGGTACT
11316505 TATCGATTGT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 42 0.57
48 32 0.43
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (47 bp):
TACCTTAATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAACT
Found at i:11317082 original size:117 final size:117
Alignment explanation
Indices: 11316876--11317109 Score: 414
Period size: 117 Copynumber: 2.0 Consensus size: 117
11316866 ACTATCAAAC
*
11316876 ACCTAAGTTGGTACTTTTGAGTTGTGTATATATGGTATATGGCATGTACAGGCTAGTTGTGATAC
1 ACCTAAGTTGGTACTTTTGAGTTGTGTATATATGGTATATGGCATGTACAGGCTACTTGTGATAC
* * *
11316941 TTTGGTTGTGAGTATAGCCATGAGAGTTGGCTTGTAAATGTATATGTTTGTT
66 ATTGGTTGCGAATATAGCCATGAGAGTTGGCTTGTAAATGTATATGTTTGTT
* *
11316993 ACCTAAGTTGGTACTTTTGAGTTGTGTATATATGGTATATGGTATGTATAGGCTACTTGTGATAC
1 ACCTAAGTTGGTACTTTTGAGTTGTGTATATATGGTATATGGCATGTACAGGCTACTTGTGATAC
11317058 ATTGGTTGCGAATATAGCCATGAGAGTTGGCTTGTAAATGTATATGTTTGTT
66 ATTGGTTGCGAATATAGCCATGAGAGTTGGCTTGTAAATGTATATGTTTGTT
11317110 TTGTATTAAT
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 111 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (117 bp):
ACCTAAGTTGGTACTTTTGAGTTGTGTATATATGGTATATGGCATGTACAGGCTACTTGTGATAC
ATTGGTTGCGAATATAGCCATGAGAGTTGGCTTGTAAATGTATATGTTTGTT
Found at i:11321799 original size:7 final size:7
Alignment explanation
Indices: 11321787--11321834 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
11321777 AGATTAGCAC
11321787 TCTAAAA
1 TCTAAAA
11321794 TCTAAAA
1 TCTAAAA
11321801 TCTAAAA
1 TCTAAAA
11321808 TCTAAAA
1 TCTAAAA
*
11321815 TCCAAAA
1 TCTAAAA
11321822 TCTAAAA
1 TCTAAAA
11321829 TCTAAA
1 TCTAAA
11321835 CCAACTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (7 bp):
TCTAAAA
Found at i:11326434 original size:22 final size:22
Alignment explanation
Indices: 11326409--11326456 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
11326399 CAAATTATTT
11326409 TTTTTGGTTAAAAATATCATTC
1 TTTTTGGTTAAAAATATCATTC
11326431 TTTTTGGTTAAAAATATCATTC
1 TTTTTGGTTAAAAATATCATTC
11326453 TTTT
1 TTTT
11326457 ATATTGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.54
Consensus pattern (22 bp):
TTTTTGGTTAAAAATATCATTC
Found at i:11327827 original size:21 final size:22
Alignment explanation
Indices: 11327773--11327829 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
11327763 CATATTTGAG
*
11327773 ATTTTTGATA-ATTTTATCTCA
1 ATTTTTAATATATTTTATCTCA
*
11327794 ATTTGTAAT-TATTTTAAT-TC-
1 ATTTTTAATATATTTT-ATCTCA
11327814 ATTTTTAATATATTTT
1 ATTTTTAATATATTTT
11327830 TCAAGTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 8 0.27
21 20 0.67
22 2 0.07
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (22 bp):
ATTTTTAATATATTTTATCTCA
Found at i:11331773 original size:18 final size:17
Alignment explanation
Indices: 11331746--11331789 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
11331736 AACAGAACAT
11331746 AAAAGTCCATACAAAAG
1 AAAAGTCCATACAAAAG
*
11331763 AAAAGGTCCATACAAGAG
1 AAAA-GTCCATACAAAAG
*
11331781 AAAAATCCA
1 AAAAGTCCA
11331790 GAACCTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.57, C:0.18, G:0.14, T:0.11
Consensus pattern (17 bp):
AAAAGTCCATACAAAAG
Found at i:11337291 original size:20 final size:20
Alignment explanation
Indices: 11337266--11337304 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11337256 CAGCAAACAC
11337266 GGTCGTGTGATAGTCAAGTA
1 GGTCGTGTGATAGTCAAGTA
*
11337286 GGTCGTGTGATGGTCAAGT
1 GGTCGTGTGATAGTCAAGT
11337305 CGGCCATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.38, T:0.31
Consensus pattern (20 bp):
GGTCGTGTGATAGTCAAGTA
Found at i:11337314 original size:20 final size:20
Alignment explanation
Indices: 11337271--11337314 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
11337261 AACACGGTCG
* *
11337271 TGTGATAGTCAAGTAGGTCG
1 TGTGATAGTCAAGTAGGCCA
* *
11337291 TGTGATGGTCAAGTCGGCCA
1 TGTGATAGTCAAGTAGGCCA
11337311 TGTG
1 TGTG
11337315 TGAGACACGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.14, G:0.36, T:0.30
Consensus pattern (20 bp):
TGTGATAGTCAAGTAGGCCA
Found at i:11338266 original size:24 final size:23
Alignment explanation
Indices: 11338221--11338266 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11338211 TATGGGTATT
*
11338221 TAATTTTTAATTATATTCTGGAG
1 TAATTTTTAATTAAATTCTGGAG
* *
11338244 TAATTTTTTATGTAAATTGTGGA
1 TAATTTTTAAT-TAAATTCTGGA
11338267 CTTTATGGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.52
Consensus pattern (23 bp):
TAATTTTTAATTAAATTCTGGAG
Found at i:11348252 original size:17 final size:17
Alignment explanation
Indices: 11348195--11348253 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
11348185 TTTAATATAC
*
11348195 AATATATAATAACA-AAA
1 AATATAT-ATAAAATAAA
*
11348212 AAT-TATAAAAGAATAATA
1 AATATATATAA-AATAA-A
*
11348230 ATTATATATAAAATAAA
1 AATATATATAAAATAAA
11348247 AATATAT
1 AATATAT
11348254 TGGTTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 3 0.09
16 4 0.12
17 12 0.36
18 8 0.24
19 6 0.18
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AATATATATAAAATAAA
Found at i:11348371 original size:4 final size:4
Alignment explanation
Indices: 11348362--11348394 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
11348352 AATAATGCAT
11348362 AATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA A
11348395 TAATGAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:11348511 original size:16 final size:16
Alignment explanation
Indices: 11348464--11348511 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
11348454 TTTTAAAATT
11348464 ATAAATAATATAAT-G
1 ATAAATAATATAATAG
* *
11348479 ---AATAATATAAAAC
1 ATAAATAATATAATAG
11348492 ATAAATAATATAATAG
1 ATAAATAATATAATAG
11348508 ATAA
1 ATAA
11348512 TATACGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
12 10 0.40
16 15 0.60
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (16 bp):
ATAAATAATATAATAG
Found at i:11348527 original size:28 final size:28
Alignment explanation
Indices: 11348457--11348529 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
11348447 TTACAAATTT
11348457 TAAAATTATAAATAATATAATGAATAATA
1 TAAAA-TATAAATAATATAATGAATAATA
*
11348486 TAAAACATAAATAATATAAT-AGATAATA
1 TAAAATATAAATAATATAATGA-ATAATA
** *
11348514 TACGATATATATAATA
1 TAAAATATAAATAATA
11348530 AAAAACTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 1 0.03
28 32 0.84
29 5 0.13
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (28 bp):
TAAAATATAAATAATATAATGAATAATA
Found at i:11348541 original size:15 final size:14
Alignment explanation
Indices: 11348520--11348608 Score: 62
Period size: 14 Copynumber: 6.6 Consensus size: 14
11348510 AATATACGAT
11348520 ATATATAATAAAAA
1 ATATATAATAAAAA
**
11348534 ACTATATAATAAGTA
1 A-TATATAATAAAAA
11348549 ATATATAAT--AAA
1 ATATATAATAAAAA
*
11348561 ATA-AAAAT-AAAA
1 ATATATAATAAAAA
**
11348573 A-ATATAATAAATG
1 ATATATAATAAAAA
* *
11348586 TTATATAATAAAAT
1 ATATATAATAAAAA
11348600 ATAATATAA
1 AT-ATATAA
11348609 ATATATAGGA
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
11 5 0.09
12 12 0.21
13 2 0.04
14 20 0.35
15 18 0.32
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (14 bp):
ATATATAATAAAAA
Found at i:11348557 original size:7 final size:7
Alignment explanation
Indices: 11348471--11348615 Score: 54
Period size: 7 Copynumber: 20.7 Consensus size: 7
11348461 ATTATAAATA
11348471 ATATAAT
1 ATATAAT
11348478 GA-ATAAT
1 -ATATAAT
* *
11348485 ATAAAAC
1 ATATAAT
11348492 ATA-AAT
1 ATATAAT
11348498 AATATAAT
1 -ATATAAT
*
11348506 AGATAAT
1 ATATAAT
*
11348513 ATACGATAT
1 ATA-TA-AT
11348522 ATATAAT
1 ATATAAT
* *
11348529 AAAAAACT
1 ATATAA-T
11348537 ATATAAT
1 ATATAAT
11348544 A-AGTAAT
1 ATA-TAAT
11348551 ATATAAT
1 ATATAAT
11348558 A-A-AAT
1 ATATAAT
*
11348563 A-AAAAT
1 ATATAAT
* *
11348569 AAAAAAT
1 ATATAAT
11348576 ATAATAA-
1 AT-ATAAT
* *
11348583 ATGTTAT
1 ATATAAT
*
11348590 ATAATAAA
1 AT-ATAAT
11348598 ATATAAT
1 ATATAAT
11348605 ATA-AAT
1 ATATAAT
11348611 ATATA
1 ATATA
11348616 GGAAAATAAT
Statistics
Matches: 104, Mismatches: 19, Indels: 29
0.68 0.12 0.19
Matches are distributed among these distances:
5 5 0.05
6 17 0.16
7 58 0.56
8 19 0.18
9 5 0.05
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (7 bp):
ATATAAT
Found at i:11348615 original size:37 final size:37
Alignment explanation
Indices: 11348464--11348635 Score: 125
Period size: 38 Copynumber: 4.5 Consensus size: 37
11348454 TTTTAAAATT
* * *
11348464 ATAAATAATATAATGAATAATATAAAACATAAATAATATA
1 ATAAATAATAT-AT-AATAAAATATAATATAAAT-ATATA
* ** * *
11348504 ATAGATAATATACGAT-ATATATAATAAAAAACTATATA
1 ATAAATAATATATAATAAAATATAAT-ATAAA-TATATA
* * *
11348542 ATAAGTAATATATAATAAAATA-AAAATAAAAAATATA
1 ATAAATAATATATAATAAAATATAATAT-AAATATATA
**
11348579 ATAAATGTTATATAATAAAATATAATATAAATATATA
1 ATAAATAATATATAATAAAATATAATATAAATATATA
*
11348616 GGA-AAATAATATATGATAAA
1 --ATAAATAATATATAATAAA
11348636 TAATTGTTTT
Statistics
Matches: 103, Mismatches: 22, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
37 40 0.39
38 46 0.45
39 7 0.07
40 10 0.10
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (37 bp):
ATAAATAATATATAATAAAATATAATATAAATATATA
Found at i:11348683 original size:24 final size:24
Alignment explanation
Indices: 11348620--11348709 Score: 62
Period size: 24 Copynumber: 3.6 Consensus size: 24
11348610 TATATAGGAA
*
11348620 AATAATATATGATAAATAATTGTTTTTT
1 AATAATA-AT-ATAAAT-ATAG-TTTTT
11348648 ATATAA-ATATATAAATAGTA-TTTTT
1 A-ATAATA-ATATAAATA-TAGTTTTT
**
11348673 AATAATAATATATGTATAGTTTTT
1 AATAATAATATAAATATAGTTTTT
11348697 AA-AATAA-ATAAAT
1 AATAATAATATAAAT
11348710 TATATATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
22 4 0.08
23 7 0.13
24 18 0.34
25 7 0.13
26 1 0.02
27 7 0.13
28 5 0.09
29 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
AATAATAATATAAATATAGTTTTT
Found at i:11348691 original size:26 final size:23
Alignment explanation
Indices: 11348653--11348703 Score: 57
Period size: 26 Copynumber: 2.1 Consensus size: 23
11348643 TTTTTATATA
11348653 AATATATAAATAGTATTTTTAATAAT
1 AATATATAAATAG--TTTTTAA-AAT
**
11348679 AATATATGTATAGTTTTTAAAAT
1 AATATATAAATAGTTTTTAAAAT
11348702 AA
1 AA
11348704 ATAAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 7 0.30
26 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
AATATATAAATAGTTTTTAAAAT
Found at i:11351502 original size:4 final size:4
Alignment explanation
Indices: 11351493--11351524 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
11351483 TTACTTGAGG
11351493 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
11351525 AAATAGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:11356197 original size:12 final size:12
Alignment explanation
Indices: 11356180--11356219 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
11356170 ACGATAATTC
11356180 TAAAAAAATTAT
1 TAAAAAAATTAT
11356192 TAAAAAAATTAT
1 TAAAAAAATTAT
* *
11356204 TTAAAAATTTA-
1 TAAAAAAATTAT
11356215 TAAAA
1 TAAAA
11356220 TTATTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAAAAAATTAT
Found at i:11362894 original size:37 final size:37
Alignment explanation
Indices: 11362851--11362927 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
11362841 TATTATATCA
11362851 TTTTCGTTGATGATTTTACAAGAATGTACTGGATTTG
1 TTTTCGTTGATGATTTTACAAGAATGTACTGGATTTG
11362888 TTTTCGTTGATGATTTTACAAGAATGTACTGGATTTG
1 TTTTCGTTGATGATTTTACAAGAATGTACTGGATTTG
11362925 TTT
1 TTT
11362928 CTTGAAATTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.48
Consensus pattern (37 bp):
TTTTCGTTGATGATTTTACAAGAATGTACTGGATTTG
Found at i:11370997 original size:22 final size:21
Alignment explanation
Indices: 11370967--11371032 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
11370957 TACAAATTAA
11370967 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
11370989 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
11371010 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
11371029 ATCT
1 ATCT
11371033 AAGATTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:11371019 original size:19 final size:19
Alignment explanation
Indices: 11370984--11371045 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
11370974 AGATTACAAG
11370984 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
11371005 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
11371024 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
11371043 ATC
1 ATC
11371046 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
20 1 0.02
21 8 0.20
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:11371802 original size:206 final size:205
Alignment explanation
Indices: 11371449--11371884 Score: 710
Period size: 206 Copynumber: 2.1 Consensus size: 205
11371439 CTGTTTTCTA
*
11371449 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGCGAAAACAAATCAACT
1 ACAATACAGAGATGCCAAATCAGCTTAGATTTGCTTCATCGTAAGCACGCGAAAACAAATCAACT
* *
11371514 ATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCTAA
66 ATGTCTTCGATTTGCTCCTTGTAAGCACAAGAATACCAAACCATCTTGGATCTGCTTCAGTATAA
* * * *
11371579 TCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCAAATATGTAGACGCCAAACTTCAAT
131 ACATCTGAAGGTTAGATCTACTATGTGTCTACCCTCCGTCAAATATGGAGACGCCAAACTTCAAT
11371644 TTGTTCTCAG
196 TTGTTCTCAG
* * **
11371654 ACAATACAGAGATGCCAAATCAGCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCGGC
1 ACAATACAGAGATGCCAAATCAGCTTAGATTTGCTTCATCGTAAGCACGCGAAA-ACAAATCAAC
* * *
11371719 TATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATA
65 TATGTCTTCGATTTGCTCCTTGTAAGCACAAGAATACCAAACCATCTTGGATCTGCTTCAGTATA
* *
11371784 AACATCTGAAGGTTAGATCTACTATGTGTCTACTCTCCGTCAAATATGGAGACGCCAAACTTCGA
130 AACATCTGAAGGTTAGATCTACTATGTGTCTACCCTCCGTCAAATATGGAGACGCCAAACTTCAA
*
11371849 TTTGTTCTCTG
195 TTTGTTCTCAG
11371860 ACAATACAGAGATGCCAAATCAGCT
1 ACAATACAGAGATGCCAAATCAGCT
11371885 ATGTCTTCGA
Statistics
Matches: 213, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
205 52 0.24
206 161 0.76
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (205 bp):
ACAATACAGAGATGCCAAATCAGCTTAGATTTGCTTCATCGTAAGCACGCGAAAACAAATCAACT
ATGTCTTCGATTTGCTCCTTGTAAGCACAAGAATACCAAACCATCTTGGATCTGCTTCAGTATAA
ACATCTGAAGGTTAGATCTACTATGTGTCTACCCTCCGTCAAATATGGAGACGCCAAACTTCAAT
TTGTTCTCAG
Found at i:11371987 original size:165 final size:165
Alignment explanation
Indices: 11371708--11372044 Score: 602
Period size: 165 Copynumber: 2.0 Consensus size: 165
11371698 GCACGTGAAA
* *
11371708 GCCAAATCGGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCT
1 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCACCTTGGATCT
* **
11371773 GCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTACTCTCCGTCAAATATGGAGACG
66 GCTTCAGTATAAACATATGAAGGCCAGATCTACTATGTGTCTACTCTCCGTCAAATATGGAGACG
11371838 CCAAACTTCGATTTGTTCTCTGACAATACAGAGAT
131 CCAAACTTCGATTTGTTCTCTGACAATACAGAGAT
*
11371873 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCT
1 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCACCTTGGATCT
* *
11371938 GCTTCAGTATAAACATATGAAGGCCAGATCTACTATGTGTCTGCTCTCCGTCGAATATGGAGACG
66 GCTTCAGTATAAACATATGAAGGCCAGATCTACTATGTGTCTACTCTCCGTCAAATATGGAGACG
11372003 CCAAACTTCGATTTGTTCTCTGACAATACAGAGAT
131 CCAAACTTCGATTTGTTCTCTGACAATACAGAGAT
11372038 GCCAAAT
1 GCCAAAT
11372045 TATTTTAGAT
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
165 164 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (165 bp):
GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCACCTTGGATCT
GCTTCAGTATAAACATATGAAGGCCAGATCTACTATGTGTCTACTCTCCGTCAAATATGGAGACG
CCAAACTTCGATTTGTTCTCTGACAATACAGAGAT
Found at i:11372157 original size:44 final size:44
Alignment explanation
Indices: 11372078--11372571 Score: 380
Period size: 44 Copynumber: 11.2 Consensus size: 44
11372068 AACCATGAAA
* * * *
11372078 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGAT
1 GCCAAATCTGCTA--TCTTCGACTTGTTCCCTATAAACACAAGGAT
* *
11372124 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAAGGAT
** * * * *
11372168 GCC--ATGCTGAAATCTTTGA-TCTGCTTCGCTGTAAGCAC-AGGAAT
1 GCCAAAT-CTGCTATCTTCGACT-TG-TTCCCTATAAACACAAGG-AT
* * * *
11372212 GTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAAGGAT
* * *
11372256 GCCAAATCTGTTATCTTCAACTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAAGGAT
** ** * * * *
11372300 GCC--ATGCTGAAATCTTCGATCTACTTCGCTGTAAGCACAAGAAT
1 GCCAAAT-CTGCTATCTTCGA-CTTGTTCCCTATAAACACAAGGAT
* * * * *
11372344 GTCAGATCTGCTATCTTTGATTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAAGGAT
* *
11372388 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAAGGAT
* ** *
11372432 GCCATA-CTGAAATCTTCAACTTGTTCCCTATAAACACAAGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAAGGAT
** * * *
11372475 GCC--ATGCTGAAATCTTCGA-TCTGCTTCGCTGTAAGCACAA-GAGT
1 GCCAAAT-CTGCTATCTTCGACT-TG-TTCCCTATAAACACAAGGA-T
* * * *
11372519 GTCAGATCTGCTATCTTCGATTTGTTTCCTATAAACACAAGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAAGGAT
11372563 GCCAAATCT
1 GCCAAATCT
11372572 TGTTTCTTTG
Statistics
Matches: 356, Mismatches: 71, Indels: 44
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.00
42 6 0.02
43 76 0.21
44 214 0.60
45 39 0.11
46 20 0.06
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAAGGAT
Found at i:11372257 original size:132 final size:132
Alignment explanation
Indices: 11372093--11372448 Score: 631
Period size: 132 Copynumber: 2.7 Consensus size: 132
11372083 ATCAGCTATG
* * *
11372093 TCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * *
11372158 ACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
66 ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGC
11372223 TA
131 TA
*
11372225 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGTTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
11372290 ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGC
66 ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGC
11372355 TA
131 TA
*
11372357 TCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
*
11372422 ACACAGGGATGCCATACTGAAATCTTC
66 ACACAGGGATGCCATGCTGAAATCTTC
11372449 AACTTGTTCC
Statistics
Matches: 214, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 214 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (132 bp):
TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGC
TA
Found at i:11372509 original size:175 final size:176
Alignment explanation
Indices: 11372179--11372571 Score: 608
Period size: 175 Copynumber: 2.2 Consensus size: 176
11372169 CCATGCTGAA
* * * * * * * * *
11372179 ATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATTTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
** *
11372244 AAACACAGGGATGCCAAATCTGTTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
65 AAACACAGGGATGCCAAATCTGAAATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTG
11372309 AAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGCT
130 AAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGCT
11372356 ATCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
1 ATCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
*
11372421 AACACAGGGATGCCATA-CTGAAATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGA
66 AACACAGGGATGCCAAATCTGAAATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGA
* *
11372485 AATCTTCGATCTGCTTCGCTGTAAGCACAAGAGTGTCAGATCTGCT
131 AATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGCT
* * *
11372531 ATCTTCGATTTGTTTCCTATAAACACAAGGATGCCAAATCT
1 ATCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
11372572 TGTTTCTTTG
Statistics
Matches: 198, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
175 126 0.64
176 61 0.31
177 11 0.06
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (176 bp):
ATCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
AACACAGGGATGCCAAATCTGAAATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGA
AATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGCT
Found at i:11373442 original size:14 final size:14
Alignment explanation
Indices: 11373423--11373464 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
11373413 TTGGCCTCTC
11373423 CATTTTTCTTTTTT
1 CATTTTTCTTTTTT
11373437 CATTTTTCTCTTTTT
1 CATTTTTCT-TTTTT
*
11373452 --TTTTTTTTTTTT
1 CATTTTTCTTTTTT
11373464 C
1 C
11373465 CCTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 5 0.20
13 6 0.24
14 9 0.36
15 5 0.20
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (14 bp):
CATTTTTCTTTTTT
Found at i:11373455 original size:19 final size:20
Alignment explanation
Indices: 11373439--11373493 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
11373429 TCTTTTTTCA
11373439 TTTTTCTCTTTTTTTTT-TTT
1 TTTTTC-CTTTTTTTTTCTTT
*
11373459 TTTTTCCCTTTTTTTTCTTT
1 TTTTTCCTTTTTTTTTCTTT
11373479 TTTTTCCTTTTTTTT
1 TTTTTCCTTTTTTTT
11373494 GAAATAGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.28
20 23 0.72
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTCCTTTTTTTTTCTTT
Found at i:11373456 original size:20 final size:18
Alignment explanation
Indices: 11373425--11373493 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 18
11373415 GGCCTCTCCA
11373425 TTTTTCTTTTTTCATTTTTCTC
1 TTTTT-TTTTTT--TTTTTC-C
11373447 TTTTTTTTTTTTTTTTTCCC
1 -TTTTTTTTTTTTTTTT-CC
11373467 TTTTTTTTCTTTTTTTTCC
1 TTTTTTTT-TTTTTTTTCC
11373486 TTTTTTTT
1 TTTTTTTT
11373494 GAAATAGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
19 18 0.41
20 14 0.32
21 1 0.02
22 6 0.14
23 5 0.11
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTTCC
Found at i:11379155 original size:22 final size:21
Alignment explanation
Indices: 11379125--11379190 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
11379115 TACAAATTAA
11379125 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
11379147 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
11379168 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
11379187 ATCT
1 ATCT
11379191 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:11379177 original size:19 final size:19
Alignment explanation
Indices: 11379142--11379228 Score: 142
Period size: 19 Copynumber: 4.6 Consensus size: 19
11379132 AGATTACAAG
11379142 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
11379163 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
11379182 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
11379199 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
11379218 ATCATATCTAA
1 ATCATATCTAA
11379229 TGTAGCAACG
Statistics
Matches: 64, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.27
19 38 0.59
20 1 0.02
21 8 0.12
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:11379184 original size:14 final size:15
Alignment explanation
Indices: 11379164--11379220 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
11379154 AGATTGCATA
11379164 TCATATCTAAGATTG
1 TCATATCTAAGATTG
11379179 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
11379198 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
11379215 -CATATC
1 TCATATC
11379221 ATATCTAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:11379206 original size:36 final size:37
Alignment explanation
Indices: 11379142--11379228 Score: 140
Period size: 36 Copynumber: 2.3 Consensus size: 37
11379132 AGATTACAAG
11379142 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
11379182 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
11379218 ATCATATCTAA
1 ATCATATCTAA
11379229 TGTAGCAACG
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
36 31 0.66
38 7 0.15
39 1 0.02
40 8 0.17
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:11379827 original size:16 final size:15
Alignment explanation
Indices: 11379806--11379853 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
11379796 GATGTGAATA
11379806 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
11379822 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
11379837 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
11379853 A
1 A
11379854 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:11379829 original size:24 final size:24
Alignment explanation
Indices: 11379802--11379857 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
11379792 GAATGATGTG
*
11379802 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
11379826 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
11379850 AATAATAA
1 AATAATAA
11379858 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:11379836 original size:8 final size:8
Alignment explanation
Indices: 11379802--11379853 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
11379792 GAATGATGTG
*
11379802 AATAATAA
1 AATATTAA
11379810 AATATATAA
1 AATAT-TAA
11379819 AATA-TAA
1 AATATTAA
11379826 AATATTAA
1 AATATTAA
*
11379834 AATATCAA
1 AATATTAA
*
11379842 AATATTAG
1 AATATTAA
11379850 AATA
1 AATA
11379854 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:11380064 original size:22 final size:24
Alignment explanation
Indices: 11380004--11380068 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
11379994 CGTGATAATA
*
11380004 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
11380029 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
11380052 TT-GAAATATATACATAA
1 TTAAAAATATATACATAA
11380069 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:11380151 original size:27 final size:28
Alignment explanation
Indices: 11380085--11380177 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 28
11380075 ATGTAGAAAA
*
11380085 AAAATATATATACATATATAA-AATATAGT
1 AAAATATATATACATA-A-AATAGTATAGT
*
11380114 ATTAAAGATATATACATAAAATAGTATAG-
1 A--AAATATATATACATAAAATAGTATAGT
* * * *
11380143 AAAATATATATACGTAATATAGAAT-TT
1 AAAATATATATACATAAAATAGTATAGT
11380170 AAAATATA
1 AAAATATA
11380178 CCTAATATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
27 28 0.53
29 4 0.08
30 7 0.13
31 14 0.26
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.33
Consensus pattern (28 bp):
AAAATATATATACATAAAATAGTATAGT
Done.