Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 140 of 345
Found at i:38192207 original size:94 final size:94
Alignment explanation
Indices: 38191981--38192214 Score: 292
Period size: 94 Copynumber: 2.5 Consensus size: 94
38191971 GATTTTATGA
* * * *
38191981 GATGAATGTGAACATGCATATATGGGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAACGTGAACATGCACATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
38192046 TGTACGTGATAAGGCCGAATGGCCAATGT
66 TATACGTGATAAGGCAGAATGGCCAATGT
* * * *
38192075 GATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAACGTGAACATGCACATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
38192140 TATATGTGATAAGGTAGAATGGCCAATGT
66 TATACGTGATAAGGCAGAATGGCCAATGT
* * * *
38192169 GATGAACGTGGAA-GTGTACATATGTGGCGAA-GCCGAATGGCTAATG
1 GATGAACGT-GAACATGCACATATGT-GAGAAGGCCGAATGGCCAATG
38192215 CGAAATATGT
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
94 118 0.95
95 6 0.05
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (94 bp):
GATGAACGTGAACATGCACATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATACGTGATAAGGCAGAATGGCCAATGT
Found at i:38192252 original size:46 final size:46
Alignment explanation
Indices: 38192198--38192416 Score: 348
Period size: 46 Copynumber: 4.8 Consensus size: 46
38192188 ATATGTGGCG
** *
38192198 AAGCCGAATGGCTAATGCGAAATATGTATGAGATAGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
*
38192244 AAGTCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
38192290 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* *
38192336 AAACCGAATGGCTAACGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* * **
38192382 AAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
38192417 TGTATATATA
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 160 1.00
ACGTcount: A:0.36, C:0.10, G:0.31, T:0.23
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
Found at i:38195094 original size:54 final size:54
Alignment explanation
Indices: 38194907--38195308 Score: 310
Period size: 55 Copynumber: 7.8 Consensus size: 54
38194897 AACTTACCAT
* * * *
38194907 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTACCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAA
* ** *
38194960 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTACCTTATAG-AACTCATCAA
* * * * *
38195015 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATGAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAA
* *
38195069 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAA
** ** *
38195115 TGCCATGTTCC-AAACATGG---T-------ATCCTTGTCTTAT-GAACTCACCAA
1 TGCCATG--CCTTGACATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAA
* * ** *
38195159 TGCCATGTCTTGACATGGTCTTACTTGGGA-CCTTTTCCTTATAGCAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTACCTTATAG-AACTCATCAA
* * * * *
38195214 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATAAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAA
*
38195268 TGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTA
38195309 CCAAATGTCA
Statistics
Matches: 280, Mismatches: 41, Indels: 55
0.74 0.11 0.15
Matches are distributed among these distances:
37 8 0.03
38 1 0.00
39 1 0.00
41 2 0.01
42 3 0.01
43 6 0.02
44 10 0.04
46 10 0.04
47 5 0.02
48 3 0.01
49 2 0.01
52 5 0.02
53 43 0.15
54 88 0.31
55 89 0.32
56 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAA
Found at i:38195272 original size:199 final size:199
Alignment explanation
Indices: 38194932--38195333 Score: 723
Period size: 199 Copynumber: 2.0 Consensus size: 199
38194922 TGGTCTTACG
*
38194932 TGGTATCCTTACCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTC
1 TGGTATCCTTACCTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGACCTTTTC
*
38194997 CTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAAC
66 CTTATAGCAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAAC
* *
38195062 TTATGAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCA
131 TTATAAATGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCA
38195127 AACA
196 AACA
** * *
38195131 TGGTATCCTTGTCTTATGAACTCACCAATGCCATGTCTTGACATGGTCTTACTTGGGACCTTTTC
1 TGGTATCCTTACCTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGACCTTTTC
38195196 CTTATAGCAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAAC
66 CTTATAGCAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAAC
*
38195261 TTATAAATGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCA
131 TTATAAATGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCA
38195326 AACA
196 AACA
38195330 TGGT
1 TGGT
38195334 CTTACATGGT
Statistics
Matches: 194, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
199 194 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (199 bp):
TGGTATCCTTACCTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGACCTTTTC
CTTATAGCAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAAC
TTATAAATGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCA
AACA
Found at i:38195332 original size:47 final size:47
Alignment explanation
Indices: 38195280--38195402 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
38195270 CCATGCCTTG
* * *
38195280 ACATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
38195327 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
*
38195374 ACATGGTCTTACATGGTAACCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTA
38195403 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
Found at i:38201341 original size:29 final size:29
Alignment explanation
Indices: 38201308--38201438 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
38201298 GTGACGAGAT
38201308 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
38201337 TGGCACTAAGTGTGCATGCTGG-AATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
38201365 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
38201394 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
38201423 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38201439 AAATCGAGTA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 27 0.31
29 59 0.69
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:38201371 original size:28 final size:29
Alignment explanation
Indices: 38201308--38201379 Score: 128
Period size: 28 Copynumber: 2.5 Consensus size: 29
38201298 GTGACGAGAT
*
38201308 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
38201337 TGGCACTAAGTGTGCATGCTGG-AATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
38201365 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
38201380 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:38203602 original size:46 final size:44
Alignment explanation
Indices: 38203486--38203612 Score: 130
Period size: 46 Copynumber: 2.8 Consensus size: 44
38203476 GGGATAGTAT
* *
38203486 GCCGATGCCATGTCCCGGACATGGTCTTACACTAGCTTAACTCGTA
1 GCCGATG-CACGTCCCAGACAT-GTCTTACACTAGCTTAACTCGTA
* * *
38203532 GCCGATGCATGTCCCGGACATGTCTTACACTGGCTTACATCTCG-A
1 GCCGATGCACGTCCCAGACATGTCTTACACTAGCTTA-A-CTCGTA
* * *
38203577 GGCTGATGCACGTCTCAGACATGTCTTACGCTAGCT
1 -GCCGATGCACGTCCCAGACATGTCTTACACTAGCT
38203613 CTTGTCTCAC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
44 15 0.21
45 16 0.23
46 40 0.56
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (44 bp):
GCCGATGCACGTCCCAGACATGTCTTACACTAGCTTAACTCGTA
Found at i:38207012 original size:27 final size:27
Alignment explanation
Indices: 38206971--38207024 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
38206961 TGTCATGTGA
* *
38206971 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
38206998 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
38207025 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:38207349 original size:49 final size:50
Alignment explanation
Indices: 38207269--38207515 Score: 300
Period size: 49 Copynumber: 5.0 Consensus size: 50
38207259 ATCTATTATG
* * *
38207269 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
38207319 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
38207369 CGATCACATGTGTAGTACTAAGTGCAGCCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* **
38207419 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
38207469 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
38207516 CCTTGTCTAC
Statistics
Matches: 165, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 82 0.50
50 45 0.27
51 38 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:38207466 original size:101 final size:98
Alignment explanation
Indices: 38207272--38207515 Score: 308
Period size: 100 Copynumber: 2.5 Consensus size: 98
38207262 TATTATGAGG
* * * *
38207272 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
*
38207337 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* * ** *
38207372 TCACATGTGTAGTACTAAGTGCAGCCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* ** *
38207437 TAAGTGCAGGCTACTACGTGTACTGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* * *
38207471 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
38207516 CCTTGTCTAC
Statistics
Matches: 122, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
99 39 0.32
100 42 0.34
101 41 0.34
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:38207544 original size:150 final size:150
Alignment explanation
Indices: 38207269--38207545 Score: 443
Period size: 150 Copynumber: 1.8 Consensus size: 150
38207259 ATCTATTATG
*
38207269 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
* * * *
38207334 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAGTGCAGCCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGTGTAGAAATAAGTGCAGCCT
38207399 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
*
38207419 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
*
38207484 ACTAAGTGCAGGCTACTATGCGTACCAGATAACCTT-G-TCTACAAGTGT-GAAAATATGTGCAG
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAA-CTTCGATC-ACAAGTGTAG-AAATAAGTGCAG
38207546 GCAACTGAGT
Statistics
Matches: 117, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
149 3 0.03
150 111 0.95
151 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGTGTAGAAATAAGTGCAGCCT
ACTACGTGTATCAGATGGTT
Found at i:38211354 original size:3 final size:3
Alignment explanation
Indices: 38211346--38211408 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
38211336 TATATGTCAT
38211346 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
38211394 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
38211409 GAAAGTAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:38213069 original size:21 final size:21
Alignment explanation
Indices: 38213045--38213084 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
38213035 ATTCGGTGGA
38213045 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
38213066 TCAGCTCTTATGAGCTTCT
1 TCAGCTCTTATGAGCTTCT
38213085 ATTGACGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTGT
Found at i:38215038 original size:48 final size:48
Alignment explanation
Indices: 38214953--38215225 Score: 212
Period size: 48 Copynumber: 5.8 Consensus size: 48
38214943 TGGTTAATGA
* *
38214953 GATCCCGTGTAAGACCATGTCTGGGACAT-GCAATCGGCATCAAGATGT
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATTCGGCATC-AGATGT
* * * *
38215001 GATCCCGTATAAGACCATATCAGGGATATGGC-TTCGGCATC-GTTGAAT
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATTCGGCATCAGATG--T
** * * *
38215049 GATTTCGTATAAAACCATGTCTGGGACATGGCATT--G--TTA-A-GA
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATTCGGCATCAGATGT
* *
38215091 GATCCCGTATAAGACCATGTCTGGGACATGGCA-TCGACATCAGTATGA
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATTCGGCATCAG-ATGT
* * * * *
38215139 GATCCCATGTAAGACCATATCTGGGATATGGCATT-TGCATC-GATGT
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATTCGGCATCAGATGT
* * *
38215185 GAGGTCCTGTATAAGACCATGGCTAGGACATGGCA-TCGGCA
1 GA--TCCCGTATAAGACCATGTCTGGGACATGGCATTCGGCA
38215226 CCAATATGAG
Statistics
Matches: 174, Mismatches: 35, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
41 1 0.01
42 30 0.17
44 1 0.01
45 3 0.02
46 8 0.05
47 4 0.02
48 122 0.70
49 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (48 bp):
GATCCCGTATAAGACCATGTCTGGGACATGGCATTCGGCATCAGATGT
Found at i:38215156 original size:90 final size:91
Alignment explanation
Indices: 38214949--38215173 Score: 224
Period size: 90 Copynumber: 2.4 Consensus size: 91
38214939 ACCATGGTTA
*
38214949 ATGAGATCCCGTGTAAGACCATGTCTGGGACAT-GCAATCGGCATCAAGATGTGATCCCGTATAA
1 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGC-AT-TG-ATCAAGA--TGATCCCGTATAA
* * *
38215013 GACCATATCAGGGATATGGCTTCGGCATCGT
61 GACCATATCAGGGACATGGCATCGACATCGT
** * * *
38215044 -TGAATGATTTCGTATAAAACCATGTCTGGGACATGGCATTG-TTAAGA-GATCCCGTATAAGAC
1 ATG-A-GATCCCGTGTAAGACCATGTCTGGGACATGGCATTGATCAAGATGATCCCGTATAAGAC
* *
38215106 CATGTCTGGGACATGGCATCGACATCAGT
64 CATATCAGGGACATGGCATCGACATC-GT
* * *
38215135 ATGAGATCCCATGTAAGACCATATCTGGGATATGGCATT
1 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATT
38215174 TGCATCGATG
Statistics
Matches: 107, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
90 64 0.60
91 3 0.03
92 2 0.02
93 5 0.05
94 2 0.02
95 2 0.02
96 27 0.25
97 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (91 bp):
ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATTGATCAAGATGATCCCGTATAAGACCA
TATCAGGGACATGGCATCGACATCGT
Found at i:38215204 original size:138 final size:138
Alignment explanation
Indices: 38214945--38215220 Score: 346
Period size: 138 Copynumber: 2.0 Consensus size: 138
38214935 TGACACCATG
* * * *
38214945 GTTAATGAGATCCCGTGTAAGACCATGTCTGGGACATGCAATCGGCATCAAGATGTGATCCCGTA
1 GTTAATGAGATCCCGTATAAGACCATGTCTGGGACATGCAATCGACATCAAGATGAGATCCCATA
* * * * *
38215010 TAAGACCATATCAGGGATATGGCTTCGGCATCGTTGAATGATTTCGTATAAAACCATGTCTGGGA
66 TAAGACCATATCAGGGATATGGCTTCGGCATCGATG-ATGAGTCCGTATAAAACCATGGCTAGGA
38215075 CATGGCATT
130 CATGGCATT
38215084 GTTAA-GAGATCCCGTATAAGACCATGTCTGGGACATGGC-ATCGACATC-AGTATGAGATCCCA
1 GTTAATGAGATCCCGTATAAGACCATGTCTGGGACAT-GCAATCGACATCAAG-ATGAGATCCCA
* * * *
38215146 TGTAAGACCATATCTGGGATATGGCATT-TGCATCGATG-TGAGGTCCTGTATAAGACCATGGCT
64 TATAAGACCATATCAGGGATATGGC-TTCGGCATCGATGATGA-GTCC-GTATAAAACCATGGCT
38215209 AGGACATGGCAT
126 AGGACATGGCAT
38215221 CGGCACCAAT
Statistics
Matches: 119, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
136 3 0.03
137 4 0.03
138 103 0.87
139 9 0.08
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (138 bp):
GTTAATGAGATCCCGTATAAGACCATGTCTGGGACATGCAATCGACATCAAGATGAGATCCCATA
TAAGACCATATCAGGGATATGGCTTCGGCATCGATGATGAGTCCGTATAAAACCATGGCTAGGAC
ATGGCATT
Found at i:38217780 original size:37 final size:37
Alignment explanation
Indices: 38217727--38217817 Score: 146
Period size: 37 Copynumber: 2.4 Consensus size: 37
38217717 TATAAAAGAA
38217727 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
* *
38217764 GTCTTACCCGGTCATAATCTCCACATGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
38217801 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
38217818 TTCCAAGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 45 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:38217977 original size:49 final size:49
Alignment explanation
Indices: 38217913--38218274 Score: 589
Period size: 49 Copynumber: 7.4 Consensus size: 49
38217903 TTTTACATTA
*
38217913 GCCATTAGGCTTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
38217962 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
38218011 GCCATTAGGCCTCATCACATATAAATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * *
38218060 GCCATTAGGCCTCATCACATATACATCCACATTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
38218109 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
38218158 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
38218207 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
38218256 GCCATTCGGCTTTATCACA
1 GCCATTAGGCCTTATCACA
38218275 CATATATGTA
Statistics
Matches: 293, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 293 1.00
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:38224792 original size:48 final size:48
Alignment explanation
Indices: 38224739--38224917 Score: 187
Period size: 48 Copynumber: 3.7 Consensus size: 48
38224729 GTGTGAGTAT
* * *
38224739 TGAGATCCCATATAAGACCATTTCTAGGATATGGCATCGGCATCAATA
1 TGAGATCCCATATAAGACCATGTCTGGGACATGGCATCGGCATCAATA
* * * * * * * *
38224787 GGAGATCCCATGTAAGACCATATTTGGGATATGCCATTGGCATTAATA
1 TGAGATCCCATATAAGACCATGTCTGGGACATGGCATCGGCATCAATA
* * * * *
38224835 TGAGGTCCCACATAAGACCATGTCTGGGACATAGCATCGGCACCATTA
1 TGAGATCCCATATAAGACCATGTCTGGGACATGGCATCGGCATCAATA
** *
38224883 TGAGATTTCATGTAAGACCATGTCTGGGACATGGC
1 TGAGATCCCATATAAGACCATGTCTGGGACATGGC
38224918 TTTGATATAA
Statistics
Matches: 104, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 104 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (48 bp):
TGAGATCCCATATAAGACCATGTCTGGGACATGGCATCGGCATCAATA
Found at i:38224947 original size:42 final size:41
Alignment explanation
Indices: 38224881--38225115 Score: 192
Period size: 42 Copynumber: 5.6 Consensus size: 41
38224871 TCGGCACCAT
* *
38224881 TATGAGATTTCATGTAAGACCATGTCTGGGACATGGCTTTGA
1 TATGATATTTCCTGTAAGACCATGTCTGGGACATGGC-TTGA
* *
38224923 TATAATATTTCCTGTAAGATCATGTCTGGGACATGGCATTGA
1 TATGATATTTCCTGTAAGACCATGTCTGGGACATGGC-TTGA
* * *
38224965 TACGATA-TTCCGTGTAAGACCATAG-CTGGG-CTATTGGCATCA
1 TATGATATTTCC-TGTAAGACCAT-GTCTGGGAC-A-TGGCTTGA
* * * *
38225007 GTATGATATTACGTGTAAGACCATGTCTGGGACATGGCATCGT
1 -TATGATATTTCCTGTAAGACCATGTCTGGGACATGGC-TTGA
* *
38225050 TATGAGATTTCGTGTAAGACCATAG-CTGGG-CTATTGGCTTCGA
1 TATGATATTTCCTGTAAGACCAT-GTCTGGGAC-A-TGGCTT-GA
* *
38225093 TATGATATTACATGTAAGACCAT
1 TATGATATTTCCTGTAAGACCAT
38225116 ATTCGAGATA
Statistics
Matches: 156, Mismatches: 24, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
41 6 0.04
42 93 0.60
43 54 0.35
44 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (41 bp):
TATGATATTTCCTGTAAGACCATGTCTGGGACATGGCTTGA
Found at i:38225016 original size:43 final size:43
Alignment explanation
Indices: 38224956--38225116 Score: 195
Period size: 43 Copynumber: 3.8 Consensus size: 43
38224946 GTCTGGGACA
* * *
38224956 TGGCATTGATACGATATTCCGTGTAAGACCATAGCTGGGCTAT
1 TGGCATCGATATGATATTACGTGTAAGACCATAGCTGGGCTAT
38224999 TGGCATC-AGTATGATATTACGTGTAAGACCAT-GTCTGGGAC-A-
1 TGGCATCGA-TATGATATTACGTGTAAGACCATAG-CTGGG-CTAT
* * *
38225041 TGGCATCGTTATGAGATTTCGTGTAAGACCATAGCTGGGCTAT
1 TGGCATCGATATGATATTACGTGTAAGACCATAGCTGGGCTAT
* *
38225084 TGGCTTCGATATGATATTACATGTAAGACCATA
1 TGGCATCGATATGATATTACGTGTAAGACCATA
38225117 TTCGAGATAT
Statistics
Matches: 100, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 36 0.36
43 62 0.62
44 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TGGCATCGATATGATATTACGTGTAAGACCATAGCTGGGCTAT
Found at i:38225131 original size:85 final size:85
Alignment explanation
Indices: 38224847--38225115 Score: 303
Period size: 85 Copynumber: 3.1 Consensus size: 85
38224837 AGGTCCCACA
* *
38224847 TAAGACCATGTCTGGGACATAGCATCGGCACCATTATGAGATTTCATGTAAGACCAT-GTCTGGG
1 TAAGACCATGTCTGGGACATGGCATC-G-----TTATGAGATTTCGTGTAAGACCATAG-CTGGG
* * * *
38224911 AC-A-TGGCTTTGATATAATATTTCCTG
59 -CTATTGGCTTCGATATGATATTACATG
* * * * * *
38224937 TAAGATCATGTCTGGGACATGGCATTGATACGATATTCCGTGTAAGACCATAGCTGGGCTATTGG
1 TAAGACCATGTCTGGGACATGGCATCGTTATGAGATTTCGTGTAAGACCATAGCTGGGCTATTGG
* *
38225002 CATC-AGTATGATATTACGTG
66 CTTCGA-TATGATATTACATG
38225022 TAAGACCATGTCTGGGACATGGCATCGTTATGAGATTTCGTGTAAGACCATAGCTGGGCTATTGG
1 TAAGACCATGTCTGGGACATGGCATCGTTATGAGATTTCGTGTAAGACCATAGCTGGGCTATTGG
38225087 CTTCGATATGATATTACATG
66 CTTCGATATGATATTACATG
38225107 TAAGACCAT
1 TAAGACCAT
38225116 ATTCGAGATA
Statistics
Matches: 153, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
83 1 0.01
84 26 0.17
85 101 0.66
86 1 0.01
89 1 0.01
90 23 0.15
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (85 bp):
TAAGACCATGTCTGGGACATGGCATCGTTATGAGATTTCGTGTAAGACCATAGCTGGGCTATTGG
CTTCGATATGATATTACATG
Found at i:38228188 original size:47 final size:47
Alignment explanation
Indices: 38228067--38228188 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
38228057 GCATTGGCAC
* * *
38228067 TAAGACAAGGATACCATGTAAGACCATATTTGGAACCTGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
*
38228114 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
* *
38228161 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
38228189 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
Found at i:38228371 original size:108 final size:108
Alignment explanation
Indices: 38228175--38228471 Score: 468
Period size: 108 Copynumber: 2.7 Consensus size: 108
38228165 ATAAGGATAT
* * * *
38228175 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACC
** * *
38228240 ATGTCAAGACATGATATTTATGAGTTACTACAAGGCAAAGGTCC
65 ATGTCAAGACATGGCATTGATGAGTTACTACAAGGAAAAGGTCC
* * *
38228284 TATGTAAGACCATTCTAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
*
38228349 TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
66 TGTCAAGACATGGCATTGATGAGTTACTACAAGGAAAAGGTCC
*
38228392 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
38228457 TGTCAAGACATGGCA
66 TGTCAAGACATGGCA
38228472 ATGGTAAGTT
Statistics
Matches: 172, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
108 139 0.81
109 33 0.19
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTACTACAAGGAAAAGGTCC
Found at i:38228483 original size:53 final size:54
Alignment explanation
Indices: 38228167--38228471 Score: 352
Period size: 55 Copynumber: 5.6 Consensus size: 54
38228157 TTGGTAAGAT
* * * *
38228167 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* * ** * *
38228221 AAGGAAATCATGTAAGACCATGTCAAGACATGATATTTATGAGTTACTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* *
38228276 AAAGG-T-CCTATGTAAGACCAT-TCTAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACC-ATGTAAGACCATGTC-AAGACATGGCATTGATGAGTTCTATAAGGC
*
38228329 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* * * *
38228385 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*
38228437 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
38228472 ATGGTAAGTT
Statistics
Matches: 212, Mismatches: 28, Indels: 23
0.81 0.11 0.09
Matches are distributed among these distances:
52 8 0.04
53 70 0.33
54 48 0.23
55 78 0.37
56 8 0.04
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:38232066 original size:27 final size:26
Alignment explanation
Indices: 38232036--38232300 Score: 305
Period size: 27 Copynumber: 9.8 Consensus size: 26
38232026 ATTACCAAAG
*
38232036 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
38232063 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
38232090 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
38232117 TACTCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* *
38232144 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
* *
38232171 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
38232198 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
* * * *
38232225 TACCGTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* *
38232252 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
38232279 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
38232301 AGAAATACCC
Statistics
Matches: 208, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.01
27 203 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (26 bp):
TACCCTCGATTTACAGAATTACGTTT
Found at i:38232083 original size:54 final size:54
Alignment explanation
Indices: 38232036--38232300 Score: 359
Period size: 54 Copynumber: 4.9 Consensus size: 54
38232026 ATTACCAAAG
* * * * *
38232036 TACCCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
*
38232090 TACCCTCGATTTACAAAATTACCGTTTTACTCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * *
38232144 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * * *
38232198 TACCCTCGATTTACAAAATTATCGTTTTACCGTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * ** *
38232252 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC
38232301 AGAAATACCC
Statistics
Matches: 186, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 186 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
Found at i:38232083 original size:81 final size:81
Alignment explanation
Indices: 38231982--38232167 Score: 185
Period size: 81 Copynumber: 2.3 Consensus size: 81
38231972 AATACTGAAA
*** * * **
38231982 TACCCTCGATTTGTTAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
38232047 TACAGAATTA-TCGTTT
66 TACAGAATTACT-GTTT
* *** * **** * *
38232063 TACCCTCGATTTACATAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACTCTCGATT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
38232128 TACAGAATTACTGTTT
66 TACAGAATTACTGTTT
*
38232144 TACCCTCGATTTATAAAATTACCG
1 TACCCTCGATTTACAAAATTACCG
38232168 TTTTACCCTT
Statistics
Matches: 84, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
81 83 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
TACAGAATTACTGTTT
Found at i:38232168 original size:81 final size:81
Alignment explanation
Indices: 38232036--38232328 Score: 365
Period size: 81 Copynumber: 3.6 Consensus size: 81
38232026 ATTACCAAAG
* * * * * *
38232036 TACCCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTTGATT
* *
38232101 TACAAAATTACCGTTT
66 TACAGAATTACTGTTT
* * *
38232117 TACTCTCGATTTACAGAATTA-CTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGAT
1 TACCCTCGATTTACAAAATTATC-GTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTTGAT
*
38232181 TTATAGAATTACTGTTT
65 TTACAGAATTACTGTTT
* * **
38232198 TACCCTCGATTTACAAAATTATCGTTTTACCGTCAATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTTGATT
*
38232263 TACAGAATTACTATTT
66 TACAGAATTACTGTTT
*** *
38232279 TACCCTCGATTTACAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACC
1 TACCCTCGATTTACAAAATTATC-GTTTTACCCTCAATTTATAAAATTACC
38232329 AAAATACCCC
Statistics
Matches: 185, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.01
81 182 0.98
82 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTTGATT
TACAGAATTACTGTTT
Found at i:38232337 original size:81 final size:80
Alignment explanation
Indices: 38232090--38232428 Score: 252
Period size: 81 Copynumber: 4.2 Consensus size: 80
38232080 ATTACCGTTT
* * * * * *** *
38232090 TACCCTCGATTTACAAAATTACCGTTTTACTCTCGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-GAAATACCCTCAATT
****
38232155 TATAAAATTACCGTTT
65 TATAAAATTACCAAAA
* ** *** *
38232171 TACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCAATT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTA-CGAAATACCCTCAATT
* * ***
38232236 TATAGAATTACTATTT
65 TATAAAATTACCAAAA
*
38232252 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-GAAATACCCTCAATT
*
38232317 TGTAAAATTACCAAAA
65 TATAAAATTACCAAAA
* * *** * ***
38232333 TACCCCTAGTTTGTA-A-AATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCTCA
1 TA-CCCTTGATT-TACAGAATTACCATTTTACC-CTCGATTTACAAAATTA-CGAAATACCCTCA
*
38232395 ATTTGTAAAATTACCAAAA
62 ATTTATAAAATTACCAAAA
*
38232414 TACCCCTGATTTACA
1 TACCCTTGATTTACA
38232429 AAGTTACAGA
Statistics
Matches: 215, Mismatches: 36, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
79 2 0.01
80 8 0.04
81 191 0.89
82 12 0.06
83 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (80 bp):
TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACGAAATACCCTCAATTT
ATAAAATTACCAAAA
Found at i:38232508 original size:27 final size:27
Alignment explanation
Indices: 38231936--38232504 Score: 166
Period size: 27 Copynumber: 21.0 Consensus size: 27
38231926 AATACTTTAG
*
38231936 TTTACTAAAATTACCGAAATACCCTTAGT
1 TTTAC-AAAATTACCGAAATACCCTT-GA
* *
38231965 TTGTA-AAAA-TACTGAAATACCCTCGA
1 TT-TACAAAATTACCGAAATACCCTTGA
*** *
38231991 TTTGTTAAATTACTGAAATA-CCTTCGA
1 TTTACAAAATTACCGAAATACCCTT-GA
* ** **
38232018 CTTGTAAAATTACC-AAAGTACCCCCGA
1 TTTACAAAATTACCGAAA-TACCCTTGA
* * *** *
38232045 TTTACAGAATTATCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *** *
38232072 TTTACATAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
*** * *
38232099 TTTACAAAATTACCGTTTTACTCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *** *
38232126 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* ***
38232153 TTTATAAAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * * *** *
38232180 TTTATAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *** * **
38232207 TTTACAAAATTATCGTTTTACCGTCAA
1 TTTACAAAATTACCGAAATACCCTTGA
* * * **
38232234 TTTATAGAATTA-CTATTTTACCCTTGA
1 TTTACAAAATTACCGA-AATACCCTTGA
* * ** *
38232261 TTTACAGAATTA-CTATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTTGA
* **
38232288 TTTACAAAATTACAGAAATACCCTCAA
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
38232315 TTTGTAAAATTACCAAAATACCCCT-A
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
38232341 GTTTGTAAAATTACCAAAATACCAC-TGG
1 -TTTACAAAATTACCGAAATACC-CTTGA
*** **
38232369 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
38232396 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *
38232423 TTTACAAAGTTACAGAAATACCCTTGA
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
38232450 CTTT-CTAAAAATTATAGAAATACCATTGG
1 -TTTAC--AAAATTACCGAAATACCCTTGA
*
38232479 TTTACAAAATTACTGAAATACCCTTG
1 TTTACAAAATTACCGAAATACCCTTG
38232505 GTTTGTAGAT
Statistics
Matches: 438, Mismatches: 85, Indels: 36
0.78 0.15 0.06
Matches are distributed among these distances:
25 1 0.00
26 15 0.03
27 385 0.88
28 14 0.03
29 21 0.05
30 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTTGA
Found at i:38232592 original size:27 final size:27
Alignment explanation
Indices: 38232561--38232653 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
38232551 TACCCCTATT
*
38232561 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
38232588 GGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
38232615 AGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
38232642 TGGTAAAATGAC
1 AGGTAAAATGAC
38232654 GAATATGCCC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:38233913 original size:9 final size:9
Alignment explanation
Indices: 38233901--38233957 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
38233891 TTTGATAAAC
38233901 ATGATATGT
1 ATGATATGT
*
38233910 ATGATATGCAC
1 ATGATATG--T
*
38233921 ATGACATGT
1 ATGATATGT
*
38233930 ATGATATGCAC
1 ATGATATG--T
38233941 ATGATATGT
1 ATGATATGT
38233950 ATGATATG
1 ATGATATG
38233958 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:38233924 original size:20 final size:20
Alignment explanation
Indices: 38233899--38233961 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
38233889 ATTTTGATAA
38233899 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38233919 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
38233939 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38233959 ACA
1 ACA
38233962 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38234074 original size:24 final size:23
Alignment explanation
Indices: 38234016--38234182 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
38234006 GAGGAAGTGA
38234016 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
38234039 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
38234062 CAAAAGGGATTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
38234086 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
38234110 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
38234133 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
38234158 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
38234182 A
1 A
38234183 TGATAAAGCA
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
23 43 0.34
24 74 0.58
25 11 0.09
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:38234085 original size:47 final size:47
Alignment explanation
Indices: 38234016--38234182 Score: 221
Period size: 47 Copynumber: 3.5 Consensus size: 47
38234006 GAGGAAGTGA
*
38234016 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
38234062 CAAAAGGGATTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
38234110 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
38234158 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
38234183 TGATAAAGCA
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
47 63 0.59
48 31 0.29
49 12 0.11
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:38234132 original size:71 final size:71
Alignment explanation
Indices: 38234016--38234181 Score: 253
Period size: 71 Copynumber: 2.3 Consensus size: 71
38234006 GAGGAAGTGA
* *
38234016 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGATTATGCCCCA
38234081 GTTATC
66 GTTATC
* *
38234087 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGATTATGCCCCA
*
38234152 GTTATT
66 GTTATC
*
38234158 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
38234182 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 76 0.87
72 11 0.13
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGATTATGCCCCA
GTTATC
Found at i:38234409 original size:31 final size:31
Alignment explanation
Indices: 38234374--38234454 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
38234364 CGTTTACAGT
*
38234374 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
38234405 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38234436 AAAGGGCTAT-GGCCCAGTA
1 AAA-GGCT-TCGGCCCAGTA
38234455 CATGTTTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 31 0.70
32 12 0.27
33 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38236670 original size:21 final size:22
Alignment explanation
Indices: 38236644--38236685 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
38236634 GTGTATTTTG
38236644 ATGTTTAATGGTAGA-AAACAT
1 ATGTTTAATGGTAGATAAACAT
*
38236665 ATGTTTAATGTTAGATAAACA
1 ATGTTTAATGGTAGATAAACA
38236686 ATATTTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (22 bp):
ATGTTTAATGGTAGATAAACAT
Found at i:38236692 original size:21 final size:21
Alignment explanation
Indices: 38236647--38236692 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
38236637 TATTTTGATG
*
38236647 TTTAATGGTAGAAAACATATG
1 TTTAATGGTAGAAAACATATA
*
38236668 TTTAATGTTAGATAAACA-ATA
1 TTTAATGGTAGA-AAACATATA
38236689 TTTA
1 TTTA
38236693 CAAAGTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (21 bp):
TTTAATGGTAGAAAACATATA
Found at i:38238756 original size:20 final size:20
Alignment explanation
Indices: 38238727--38238816 Score: 153
Period size: 20 Copynumber: 4.5 Consensus size: 20
38238717 CACGGCCTGC
*
38238727 CCACACGGGCGTGTCTCAAA
1 CCACACGGGCGTGTCCCAAA
*
38238747 CCACATGGGCGTGTCCCAAA
1 CCACACGGGCGTGTCCCAAA
*
38238767 CCACATGGGCGTGTCCCAAA
1 CCACACGGGCGTGTCCCAAA
38238787 CCACACGGGCGTGTCCCAAA
1 CCACACGGGCGTGTCCCAAA
38238807 CCACACGGGC
1 CCACACGGGC
38238817 TTGTGACCCC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.24, C:0.38, G:0.26, T:0.12
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAA
Found at i:38243746 original size:26 final size:26
Alignment explanation
Indices: 38243717--38243824 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
38243707 TGGTACAAAT
38243717 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
38243743 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38243769 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38243795 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38243821 TGAT
1 TGAT
38243825 GGGCATTTCA
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:38249564 original size:25 final size:25
Alignment explanation
Indices: 38249536--38249583 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
38249526 CGTGGAAGAA
38249536 AATTCTTAGATTTGGTTGCAAAGCC
1 AATTCTTAGATTTGGTTGCAAAGCC
38249561 AATTCTTAGATTTGGTTGCAAAG
1 AATTCTTAGATTTGGTTGCAAAG
38249584 TCAAGTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (25 bp):
AATTCTTAGATTTGGTTGCAAAGCC
Found at i:38258365 original size:207 final size:207
Alignment explanation
Indices: 38258010--38258426 Score: 834
Period size: 207 Copynumber: 2.0 Consensus size: 207
38258000 AAATATAACA
38258010 TAGCATAATCTACTCCTAAATTTGCGAGTTACATGCTGCAAGTTGAGTAGAATGCAACTGATGTT
1 TAGCATAATCTACTCCTAAATTTGCGAGTTACATGCTGCAAGTTGAGTAGAATGCAACTGATGTT
38258075 CAAGAGTAAAACTTAGCTATTTCTTCTTTCTAACTATTTTGGCAAGACTTCTCCAAATTCGGGGA
66 CAAGAGTAAAACTTAGCTATTTCTTCTTTCTAACTATTTTGGCAAGACTTCTCCAAATTCGGGGA
38258140 AGAGAAATCAATATATGAAACAGTCCAACTTTTGCTTTCAATATTTATTGGAACACCATATTCTT
131 AGAGAAATCAATATATGAAACAGTCCAACTTTTGCTTTCAATATTTATTGGAACACCATATTCTT
38258205 GTCCGTCATAGT
196 GTCCGTCATAGT
38258217 TAGCATAATCTACTCCTAAATTTGCGAGTTACATGCTGCAAGTTGAGTAGAATGCAACTGATGTT
1 TAGCATAATCTACTCCTAAATTTGCGAGTTACATGCTGCAAGTTGAGTAGAATGCAACTGATGTT
38258282 CAAGAGTAAAACTTAGCTATTTCTTCTTTCTAACTATTTTGGCAAGACTTCTCCAAATTCGGGGA
66 CAAGAGTAAAACTTAGCTATTTCTTCTTTCTAACTATTTTGGCAAGACTTCTCCAAATTCGGGGA
38258347 AGAGAAATCAATATATGAAACAGTCCAACTTTTGCTTTCAATATTTATTGGAACACCATATTCTT
131 AGAGAAATCAATATATGAAACAGTCCAACTTTTGCTTTCAATATTTATTGGAACACCATATTCTT
38258412 GTCCGTCATAGT
196 GTCCGTCATAGT
38258424 TAG
1 TAG
38258427 GAAAAACTTA
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 210 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (207 bp):
TAGCATAATCTACTCCTAAATTTGCGAGTTACATGCTGCAAGTTGAGTAGAATGCAACTGATGTT
CAAGAGTAAAACTTAGCTATTTCTTCTTTCTAACTATTTTGGCAAGACTTCTCCAAATTCGGGGA
AGAGAAATCAATATATGAAACAGTCCAACTTTTGCTTTCAATATTTATTGGAACACCATATTCTT
GTCCGTCATAGT
Found at i:38263020 original size:13 final size:13
Alignment explanation
Indices: 38263002--38263028 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38262992 AGTCTCTTTG
38263002 TTTTGTTGTTTTT
1 TTTTGTTGTTTTT
38263015 TTTTGTTGTTTTT
1 TTTTGTTGTTTTT
38263028 T
1 T
38263029 CCTTTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTTTGTTGTTTTT
Found at i:38265053 original size:34 final size:34
Alignment explanation
Indices: 38265015--38265084 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
38265005 ACAACTTTTA
* *
38265015 TAAAAGGTGTTAGCATGAAAACACCTAAAAGGAC
1 TAAAAGGTGTTAGCATAAAAACACATAAAAGGAC
*
38265049 TAAAAGGTGTTAGCATAAAAACATATAAAAGGAC
1 TAAAAGGTGTTAGCATAAAAACACATAAAAGGAC
38265083 TA
1 TA
38265085 TTTTGCATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.20
Consensus pattern (34 bp):
TAAAAGGTGTTAGCATAAAAACACATAAAAGGAC
Found at i:38265756 original size:46 final size:46
Alignment explanation
Indices: 38265626--38265797 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 46
38265616 ATGAGAGCTT
* * *
38265626 GTGTAAGACCATGTCTAGGACATGACATTGGC-ATCGAGACGAGTGCTA
1 GTGTAAGA-CATGTCTAGGACATG-CATCGGCTA-CGAGACGAGAGCCA
** * *
38265674 GTGTAAGACATGTCCGGGACATGCATCGGTTTCGAGACGTA-AGCCA
1 GTGTAAGACATGTCTAGGACATGCATCGGCTACGAGACG-AGAGCCA
* * * *
38265720 GTGTAAGACATGTCTAGGACATGCATCAGCTACGAGATGATAGTCA
1 GTGTAAGACATGTCTAGGACATGCATCGGCTACGAGACGAGAGCCA
* * *
38265766 GTGTAACACCATGTCTGGGATATGGCATCGGC
1 GTGTAAGA-CATGTCTAGGACAT-GCATCGGC
38265798 ACCCTACCCC
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 59 0.58
47 26 0.26
48 15 0.15
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GTGTAAGACATGTCTAGGACATGCATCGGCTACGAGACGAGAGCCA
Found at i:38265780 original size:93 final size:95
Alignment explanation
Indices: 38265626--38265796 Score: 210
Period size: 93 Copynumber: 1.8 Consensus size: 95
38265616 ATGAGAGCTT
** *
38265626 GTGTAAGACCATGTCTAGGACATGACATTGGCATCGAGACGAGTGCTAGTGTAAGACATGTCCGG
1 GTGTAAGACCATGTCTAGGACATGACATCAGCATCGAGACGAGTGCTAGTGTAACACATGTCCGG
38265691 GACAT-GCATCGGTTTCGAGACGTAAGCCA
66 GACATGGCATCGGTTTCGAGACGTAAGCCA
*
38265720 GTGTAAGA-CATGTCTAGGACATG-CATCAGC-TACGAGATGA-TAG-TCAGTGTAACACCATGT
1 GTGTAAGACCATGTCTAGGACATGACATCAGCAT-CGAGACGAGT-GCT-AGTGTAACA-CATGT
* *
38265780 CTGGGATATGGCATCGG
62 CCGGGACATGGCATCGG
38265797 CACCCTACCC
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
91 3 0.05
92 21 0.32
93 27 0.41
94 15 0.23
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (95 bp):
GTGTAAGACCATGTCTAGGACATGACATCAGCATCGAGACGAGTGCTAGTGTAACACATGTCCGG
GACATGGCATCGGTTTCGAGACGTAAGCCA
Found at i:38268538 original size:50 final size:51
Alignment explanation
Indices: 38268461--38268589 Score: 215
Period size: 50 Copynumber: 2.5 Consensus size: 51
38268451 GACCATGGCA
*
38268461 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
38268512 A-AAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
38268562 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
38268590 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:38268603 original size:31 final size:31
Alignment explanation
Indices: 38268565--38268713 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
38268555 ACAAATGACA
38268565 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
38268596 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
38268627 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
38268658 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
38268689 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
38268714 AAGTGACAAG
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 109 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:38268888 original size:42 final size:43
Alignment explanation
Indices: 38268825--38268939 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 43
38268815 TATGTGATTC
* *
38268825 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
* *
38268867 GTGTAAGACCATAGCTAGGCTATGGCAT-TATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
*
38268909 GTGTAAGACCATAG-TTGAGCTATGGCATCGA
1 GTGTAAGACCATAGCTAG-GCTATGGCATCGA
38268940 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 3 0.05
42 60 0.94
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
Found at i:38273501 original size:23 final size:23
Alignment explanation
Indices: 38273475--38273548 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
38273465 GAATGGCAAA
38273475 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
* * **
38273498 TGTG-TGCTAAGGCCG-A-ATGGCAAA
1 TGTGATG--AATG-TGAACAT-GCATT
38273522 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
38273545 TGTG
1 TGTG
38273549 TGCTAAGGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 17 0.47
24 13 0.36
25 3 0.08
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (23 bp):
TGTGATGAATGTGAACATGCATT
Found at i:38273508 original size:47 final size:47
Alignment explanation
Indices: 38273458--38273718 Score: 414
Period size: 47 Copynumber: 5.6 Consensus size: 47
38273448 AAGTGTGTAC
* *
38273458 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
* *
38273505 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
*
38273552 TAAGGCCGAATGGCCAATGTGATGAGTGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
* * * * * *
38273599 TAAGACCGAATGGCTAATGTGATGAATGTGAATATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
*
38273646 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
38273693 TAAGGCCGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
38273719 CGTAGAAGTG
Statistics
Matches: 199, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 199 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
Found at i:38273631 original size:22 final size:22
Alignment explanation
Indices: 38273606--38273677 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
38273596 TGATAAGACC
38273606 GAATGGCTAATGTGATGAATGT
1 GAATGGCTAATGTGATGAATGT
** * *
38273628 GAATATGTATATATGTGAT-AAGGCC
1 G-A-ATGGCTA-ATGTGATGAATG-T
*
38273653 GAATGGCCAATGTGATGAATGT
1 GAATGGCTAATGTGATGAATGT
38273675 GAA
1 GAA
38273678 CATGCATATG
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
22 11 0.31
23 8 0.22
24 9 0.25
25 8 0.22
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (22 bp):
GAATGGCTAATGTGATGAATGT
Found at i:38273715 original size:22 final size:22
Alignment explanation
Indices: 38273640--38273715 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
38273630 ATATGTATAT
38273640 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
38273662 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
38273684 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
38273709 ATGTGAT
1 ATGTGAT
38273716 GAACGTAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:38273748 original size:94 final size:95
Alignment explanation
Indices: 38273458--38273752 Score: 411
Period size: 94 Copynumber: 3.1 Consensus size: 95
38273448 AAGTGTGTAC
* *
38273458 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAAAT
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCAAAT
* *
38273523 GTGATGAATGTGAACATGCAT-T-TGTGTGC
66 GTGATGAATGTGAACATGTATATATGTG-GA
* * *
38273552 TAAGGCCGAATGGCCAATGTGATGAGTGTGAACATGCATTTGTGTGATAAGACCGAATGGCTAAT
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCAAAT
*
38273617 GTGATGAATGTGAATATGTATATATGT-GA
66 GTGATGAATGTGAACATGTATATATGTGGA
* *
38273646 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAAT
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCAAAT
* * *
38273711 GTGATGAACGTAGAA-GTGTATATATGTGGG
66 GTGATGAATGT-GAACATGTATATATGTGGA
*
38273741 GAA-GCCGAATGG
1 TAAGGCCGAATGG
38273753 TTAATGCGAA
Statistics
Matches: 181, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
94 171 0.94
95 7 0.04
96 3 0.02
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (95 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCAAAT
GTGATGAATGTGAACATGTATATATGTGGA
Found at i:38273792 original size:46 final size:46
Alignment explanation
Indices: 38273732--38273822 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
38273722 AGAAGTGTAT
* * * *
38273732 ATATGTGGGGAAGCCGAATGGTTAATGCGA-AATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAA-ATGTATGAGATGG
* *
38273778 ATATGTGGTAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATG
38273823 TGTATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 36 0.95
47 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.33, T:0.26
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATGG
Found at i:38275317 original size:40 final size:40
Alignment explanation
Indices: 38275262--38275657 Score: 681
Period size: 40 Copynumber: 9.9 Consensus size: 40
38275252 AAGTTCAGTA
* * *
38275262 TGATATATTCGGGCTAAGTCCCGAAAAGCATTCGTGCTGG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
38275302 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
38275342 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
38275382 TGATATATCC-GGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
38275421 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
38275461 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCCTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
38275501 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
38275541 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* * *
38275581 TGATGTATTCGGGCTAAGTCCCGAAAAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
38275621 TGATATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCT
1 TGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
38275658 GGAATCATGA
Statistics
Matches: 340, Mismatches: 14, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
39 51 0.15
40 289 0.85
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
Found at i:38275701 original size:28 final size:28
Alignment explanation
Indices: 38275669--38275796 Score: 141
Period size: 28 Copynumber: 4.5 Consensus size: 28
38275659 GAATCATGAG
* * *
38275669 GCACTGTGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTTCAATCGA
* * * * *
38275697 GCACTATGTGTGCCAGATCAGT-AGTTGA
1 GCACTATGTGTGCGAGTTC-TTCAATCGA
38275725 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTTCAATCGA
*
38275754 GCACTATGTGTGCGAGTTCTTTAATCGA
1 GCACTATGTGTGCGAGTTCTTCAATCGA
*
38275782 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
38275797 AATCAGTCAG
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
28 61 0.73
29 22 0.27
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTCAATCGA
Found at i:38277794 original size:47 final size:47
Alignment explanation
Indices: 38277744--38278004 Score: 414
Period size: 47 Copynumber: 5.6 Consensus size: 47
38277734 AAGTGTGTAC
* *
38277744 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
* * *
38277791 TAAGGCCGAATGGCAAATATGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
*
38277838 TAAGGCCGAATGGCCAATGTGATGAGTGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
* * * * *
38277885 TAAGACCGAATGGCCAATGTGATGAATGTGAATATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
*
38277932 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
38277979 TAAGGCCGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
38278005 CGTGGAAGTG
Statistics
Matches: 199, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 199 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
Found at i:38278001 original size:22 final size:22
Alignment explanation
Indices: 38277926--38278001 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
38277916 ATATGTATAT
38277926 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
38277948 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
38277970 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
38277995 ATGTGAT
1 ATGTGAT
38278002 GAACGTGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:38278034 original size:94 final size:95
Alignment explanation
Indices: 38277744--38278047 Score: 411
Period size: 94 Copynumber: 3.2 Consensus size: 95
38277734 AAGTGTGTAC
* * *
38277744 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAAAT
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCAAT
* * *
38277809 ATGATGAATGTGAACATGCAT-T-TGTGTGC
66 GTGATGAATGTGAACATGTATATATGTG-GA
* *
38277838 TAAGGCCGAATGGCCAATGTGATGAGTGTGAACATGCATTTGTGTGATAAGACCGAATGGCCAAT
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCAAT
*
38277903 GTGATGAATGTGAATATGTATATATGT-GA
66 GTGATGAATGTGAACATGTATATATGTGGA
*
38277932 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAAT
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCAAT
* * *
38277997 GTGATGAACGTGGAA-GTGTATATATGTGGG
66 GTGATGAATGT-GAACATGTATATATGTGGA
* **
38278027 GAA-GCCGAATGGTTAATGTGA
1 TAAGGCCGAATGGCCAATGTGA
38278048 AATGTGTATG
Statistics
Matches: 188, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
94 178 0.95
95 7 0.04
96 3 0.02
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (95 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCAAT
GTGATGAATGTGAACATGTATATATGTGGA
Found at i:38278090 original size:46 final size:48
Alignment explanation
Indices: 38278028--38278117 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 48
38278018 ATATGTGGGG
* * *
38278028 AAGCCGAATGGTTAATGTGA-AATGTGTATGAGATG-G-ATATATGGTA
1 AAGCCAAATGGCTAATGTGAGAA-ATGTATGAGATGTGTATATATGGTA
38278074 AAGCCAAATGGCTAATGTGAGAAATGTATGAGATGTGTATATAT
1 AAGCCAAATGGCTAATGTGAGAAATGTATGAGATGTGTATATAT
38278118 ATATTGTGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 29 0.76
47 3 0.08
48 6 0.16
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.30
Consensus pattern (48 bp):
AAGCCAAATGGCTAATGTGAGAAATGTATGAGATGTGTATATATGGTA
Found at i:38287145 original size:46 final size:46
Alignment explanation
Indices: 38287070--38287394 Score: 409
Period size: 46 Copynumber: 7.0 Consensus size: 46
38287060 TTATCTTTGA
* * * * * **
38287070 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACCCATTTTC-TGC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** *
38287116 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * ** ***
38287162 CACGTTGCCATGGTATCTTTCAACCATGGTTTTATTCATTTCCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATAT
*
38287209 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
38287255 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
38287301 CAGGTTGCCATGGTATCTTTCAACAATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
38287347 TAGGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
38287393 CA
1 CA
38287395 AAGAGCACAC
Statistics
Matches: 251, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 206 0.82
47 41 0.16
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:38291817 original size:29 final size:29
Alignment explanation
Indices: 38291710--38291810 Score: 168
Period size: 29 Copynumber: 3.5 Consensus size: 29
38291700 TAGGTCACTA
38291710 AACTTTAATTTATTACGTTTTGGTCATTG
1 AACTTTAATTTATTACGTTTTGGTCATTG
*
38291739 AACTTTAATTTATT-CGTTTTGATCATTG
1 AACTTTAATTTATTACGTTTTGGTCATTG
* *
38291767 GACTTTAATTTATTACCTTTTGGTCATTG
1 AACTTTAATTTATTACGTTTTGGTCATTG
38291796 AACTTTAATTTATTA
1 AACTTTAATTTATTA
38291811 TATTTTGATC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 26 0.39
29 40 0.61
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (29 bp):
AACTTTAATTTATTACGTTTTGGTCATTG
Found at i:38298511 original size:29 final size:29
Alignment explanation
Indices: 38298477--38298608 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
38298467 TACTCGATTT
** * *
38298477 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
38298506 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
38298535 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
38298564 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38298593 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38298609 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:38306252 original size:29 final size:29
Alignment explanation
Indices: 38306218--38306349 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
38306208 TACTCGATTT
** * *
38306218 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
38306247 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
38306276 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
38306305 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38306334 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38306350 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:38308331 original size:46 final size:44
Alignment explanation
Indices: 38308264--38308440 Score: 187
Period size: 46 Copynumber: 3.9 Consensus size: 44
38308254 TGTAACCCGC
38308264 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGAGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGA-TTCGCAT
* *
38308310 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATTCGC-A--T
* * * *
38308356 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCAT
* *
38308403 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAT
38308441 GCTCAACCAT
Statistics
Matches: 111, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 5 0.05
46 64 0.58
47 30 0.27
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (44 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
Found at i:38308383 original size:93 final size:93
Alignment explanation
Indices: 38308271--38308442 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
38308261 CGCCCATAAG
*
38308271 CGAACTCGGACTCAACTCAACGAGCTCAGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
38308335 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
* *
38308364 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
38308429 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
38308443 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 3 0.04
93 71 0.96
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:38314725 original size:30 final size:31
Alignment explanation
Indices: 38314689--38314751 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
38314679 GTTACGAAAC
38314689 TCGAAATCAAGATCCGTAAATTTT-CCTGAA
1 TCGAAATCAAGATCCGTAAATTTTCCCTGAA
38314719 TCGAAATCAAGATCCGTAAATTTTCCCTGAA
1 TCGAAATCAAGATCCGTAAATTTTCCCTGAA
38314750 TC
1 TC
38314752 TAGACTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (31 bp):
TCGAAATCAAGATCCGTAAATTTTCCCTGAA
Found at i:38315922 original size:45 final size:46
Alignment explanation
Indices: 38315858--38316032 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
38315848 TGTAACCCGC
*
38315858 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
38315903 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
38315953 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
38315996 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
38316033 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 36 0.32
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:38316023 original size:93 final size:92
Alignment explanation
Indices: 38315865--38316035 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
38315855 CGCCCATAAG
*
38315865 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38315930 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
38315957 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38316022 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
38316036 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 28 0.37
93 48 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:38318343 original size:3 final size:3
Alignment explanation
Indices: 38318331--38318385 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
38318321 GCATCTCCAT
* * * *
38318331 TTC TTC -TC TTC TTT TTC TTC TTC -TC CTC TTC TTA TTC TTC CTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
38318377 -TC TTC TTC T
1 TTC TTC TTC T
38318386 ACTATTTTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
2 6 0.14
3 36 0.86
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:38318353 original size:17 final size:17
Alignment explanation
Indices: 38318331--38318377 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
38318321 GCATCTCCAT
* *
38318331 TTCTTCTCTTCTTTTTC
1 TTCTTCTCTTCTTCTTA
*
38318348 TTCTTCTCCTCTTCTTA
1 TTCTTCTCTTCTTCTTA
38318365 TTCTTCCTCTTCT
1 TTCTT-CTCTTCT
38318378 CTTCTTCTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (17 bp):
TTCTTCTCTTCTTCTTA
Found at i:38318359 original size:20 final size:20
Alignment explanation
Indices: 38318331--38318383 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
38318321 GCATCTCCAT
*
38318331 TTCTTCTCTTCTTTTTCTTC
1 TTCTTCTCTTCTTATTCTTC
*
38318351 TTCTCCTCTTCTTATTCTTC
1 TTCTTCTCTTCTTATTCTTC
*
38318371 CTCTTCTCTTCTT
1 TTCTTCTCTTCTT
38318384 CTACTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTCTCTTCTTATTCTTC
Found at i:38318699 original size:16 final size:16
Alignment explanation
Indices: 38318678--38318726 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
38318668 ACGCGTCTCC
38318678 CTCTTTTCTTT-TTCTT
1 CTCTTTTCTTTCTT-TT
*
38318694 CTCTTTCCTTTCTTTT
1 CTCTTTTCTTTCTTTT
* *
38318710 CTCTCTTCTTTATTTT
1 CTCTTTTCTTTCTTTT
38318726 C
1 C
38318727 CCTATCCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 26 0.93
17 2 0.07
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (16 bp):
CTCTTTTCTTTCTTTT
Found at i:38319422 original size:15 final size:15
Alignment explanation
Indices: 38319392--38319430 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
38319382 AGAAGGAAAA
38319392 AAAAAAAGAAACAAAGG
1 AAAAAAA-AAACAAA-G
38319409 AAAAAAAAAA-AAAG
1 AAAAAAAAAACAAAG
38319423 AAAAAAAA
1 AAAAAAAA
38319431 GTCAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.41
15 3 0.14
16 3 0.14
17 7 0.32
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAG
Found at i:38322868 original size:27 final size:27
Alignment explanation
Indices: 38322838--38322891 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
38322828 TTTCTAATTA
* * *
38322838 AATTCAATTTTAATCCTTTTTATATTT
1 AATTCAATTTAAATACTTTATATATTT
* *
38322865 AATTTACTTTAAATACTTTATATATTT
1 AATTCAATTTAAATACTTTATATATTT
38322892 TTTTAAATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.57
Consensus pattern (27 bp):
AATTCAATTTAAATACTTTATATATTT
Found at i:38322948 original size:16 final size:16
Alignment explanation
Indices: 38322918--38322950 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38322908 TATATTACTA
38322918 TTATTATCCATTATTT
1 TTATTATCCATTATTT
38322934 TTATTAT-CATATATTT
1 TTATTATCCAT-TATTT
38322950 T
1 T
38322951 ATCTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTATCCATTATTT
Found at i:38322987 original size:14 final size:14
Alignment explanation
Indices: 38322932--38323006 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
38322922 TATCCATTAT
*
38322932 TTTTATTATCATATA
1 TTTTATT-TTATATA
* *
38322947 TTTTATCTATAAATTA
1 TTTTAT-TTTATA-TA
* *
38322963 TATTATATTATATA
1 TTTTATTTTATATA
38322977 TTTTATTTTATATA
1 TTTTATTTTATATA
*
38322991 -TTT-CTTTATATA
1 TTTTATTTTATATA
38323003 TTTT
1 TTTT
38323007 TTATAAAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
12 8 0.17
13 6 0.13
14 14 0.30
15 11 0.23
16 8 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTATTTTATATA
Found at i:38322998 original size:12 final size:11
Alignment explanation
Indices: 38322982--38323011 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
38322972 ATATATTTTA
38322982 TTTTATATATT
1 TTTTATATATT
38322993 TCTTTATATATT
1 T-TTTATATATT
38323005 TTTTATA
1 TTTTATA
38323012 AAATTGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATATATT
Found at i:38323029 original size:20 final size:21
Alignment explanation
Indices: 38323001--38323040 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38322991 TTTCTTTATA
*
38323001 TATTTTTTA-TAAAATTGTAT
1 TATTATTTACTAAAATTGTAT
*
38323021 TATTATTTACTAAATTTGTA
1 TATTATTTACTAAAATTGTA
38323041 AATGGCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (21 bp):
TATTATTTACTAAAATTGTAT
Found at i:38323380 original size:18 final size:18
Alignment explanation
Indices: 38323357--38323391 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
38323347 TATTATATTT
38323357 ATACTATATTTTTATTAC
1 ATACTATATTTTTATTAC
38323375 ATACTATATTTTTATTA
1 ATACTATATTTTTATTA
38323392 TTCAATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (18 bp):
ATACTATATTTTTATTAC
Found at i:38323524 original size:16 final size:15
Alignment explanation
Indices: 38323501--38323560 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
38323491 GCAAAATACT
38323501 TATTATATTTTTATTA
1 TATTATA-TTTTATTA
* *
38323517 TTTTATATTATATT-
1 TATTATATTTTATTA
*
38323531 TCTTATATTTTATTCA
1 TATTATATTTTATT-A
38323547 TATTATATTATTAT
1 TATTATATT-TTAT
38323561 ACATAACTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 12 0.33
15 6 0.17
16 14 0.39
17 4 0.11
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTATATTTTATTA
Found at i:38323525 original size:21 final size:22
Alignment explanation
Indices: 38323501--38323560 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
38323491 GCAAAATACT
38323501 TATTATATTT-TTATTATTTTA
1 TATTATATTTATTATTATTTTA
*
38323522 TATTATATTTCTTA-TATTTTA
1 TATTATATTTATTATTATTTTA
*
38323543 T-TCATATTATATTATTAT
1 TATTATATT-TATTATTAT
38323561 ACATAACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 6 0.18
21 22 0.65
22 6 0.18
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTATATTTATTATTATTTTA
Found at i:38323554 original size:5 final size:5
Alignment explanation
Indices: 38323501--38323557 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
38323491 GCAAAATACT
* * * *
38323501 TATTA TATTTT TATTA TTTTA TATTA TATT- TCTTA TATTT TATTCA TATTA
1 TATTA TA-TTA TATTA TATTA TATTA TATTA TATTA TATTA TATT-A TATTA
38323552 TATTA T
1 TATTA T
38323558 TATACATAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
4 3 0.07
5 30 0.73
6 8 0.20
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (5 bp):
TATTA
Found at i:38331187 original size:48 final size:48
Alignment explanation
Indices: 38331129--38331406 Score: 466
Period size: 48 Copynumber: 5.8 Consensus size: 48
38331119 ATATACACAC
*
38331129 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
38331177 ATCTCATACATATTTCACACTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
38331225 ATCTCATATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
38331275 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
38331323 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
38331371 ATCTCATACATATTTCACATTAGCCACTCGGCTTTA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTA
38331407 TTTCACATTA
Statistics
Matches: 221, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
48 175 0.79
50 46 0.21
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:38331246 original size:98 final size:96
Alignment explanation
Indices: 38331129--38331406 Score: 475
Period size: 98 Copynumber: 2.9 Consensus size: 96
38331119 ATATACACAC
*
38331129 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
38331194 CACTAGCCATTCGGCTTTGCCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
38331225 ATCTCATATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
38331290 CACATTAGCCATTCGGCTTTACCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
* *
38331323 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
38331388 CATTAGCCACTCGGCTTTA
66 CATTAGCCATTCGGCTTTA
38331407 TTTCACATTA
Statistics
Matches: 172, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
96 80 0.47
98 92 0.53
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (96 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACAT
Found at i:38331413 original size:24 final size:24
Alignment explanation
Indices: 38331381--38331430 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
38331371 ATCTCATACA
*
38331381 TATTTCACATTAGCCACTCGGCTT
1 TATTTCACATTAGCCACTCGACTT
*
38331405 TATTTCACATTAGCCATTCGACTT
1 TATTTCACATTAGCCACTCGACTT
38331429 TA
1 TA
38331431 CCACATATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (24 bp):
TATTTCACATTAGCCACTCGACTT
Found at i:38331414 original size:72 final size:72
Alignment explanation
Indices: 38331333--38331478 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 72
38331323 ATCTCATACA
*
38331333 TATTTCACATTAGCCACTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCAC
1 TATTTCACATTAGCCACTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCAC
38331398 TCGGCTT
66 TCGGCTT
* * *
38331405 TATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATGTTTCACATTAGCCAT
1 TATTTCACATTAGCCACTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCAC
38331470 TCGGCTT
66 TCGGCTT
38331477 TA
1 TA
38331479 CCACATATAC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.36
Consensus pattern (72 bp):
TATTTCACATTAGCCACTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCAC
TCGGCTT
Found at i:38331414 original size:146 final size:145
Alignment explanation
Indices: 38331129--38331406 Score: 468
Period size: 146 Copynumber: 1.9 Consensus size: 145
38331119 ATATACACAC
*
38331129 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * * *
38331194 CACTAGCCATTCGGCTTTGCCACATATACATATCTCATATATATATTTCACACTAGCCATTCGGC
66 CACTAGCCACTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACACTAGCCACTCGGC
38331259 TTTACCACATATACAT
130 TTTACCACATATACAT
*
38331275 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
38331340 CATTAGCCACTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATTAGCCACTCGGCT
66 CACTAGCCACTCGGCTTTACCACATATACATATCTCAATACATATTTCACACTAGCCACTCGGCT
38331404 TTA
131 TTA
38331407 TTTCACATTA
Statistics
Matches: 124, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
144 28 0.23
146 96 0.77
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (145 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCACTCGGCTTTACCACATATACATATCTCAATACATATTTCACACTAGCCACTCGGCT
TTACCACATATACAT
Found at i:38331459 original size:48 final size:48
Alignment explanation
Indices: 38331405--38331636 Score: 428
Period size: 48 Copynumber: 4.8 Consensus size: 48
38331395 CACTCGGCTT
*
38331405 TATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
*
38331453 TGTTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
*
38331501 TGTTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
*
38331549 TATTCCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
38331597 TATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
38331637 ATATTTATCT
Statistics
Matches: 179, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 179 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
Found at i:38331498 original size:120 final size:120
Alignment explanation
Indices: 38331285--38331526 Score: 439
Period size: 120 Copynumber: 2.0 Consensus size: 120
38331275 ATCTCATACA
*
38331285 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCAC
1 TATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCAC
38331350 TCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCACTCGGCTT
66 TCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCACTCGGCTT
* *
38331405 TATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATGTTTCACATTAGCCAT
1 TATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCAC
* *
38331470 TCGGCTTTACCACATATACATATCTCATACATGTTTCACATTAGCCATTCGGCTT
66 TCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCACTCGGCTT
38331525 TA
1 TA
38331527 CCACATATAC
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (120 bp):
TATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCAC
TCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCACTCGGCTT
Found at i:38331515 original size:168 final size:168
Alignment explanation
Indices: 38331237--38331574 Score: 613
Period size: 168 Copynumber: 2.0 Consensus size: 168
38331227 CTCATATATA
*
38331237 TATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCAT
1 TATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCAT
38331302 TCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCACTCGGCTTTACCACATAT
66 TCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCACTCGGCTTTACCACATAT
*
38331367 ACATATCTCATACATATTTCACATTAGCCACTCGGCTT
131 ACATATCTCATACATATTCCACATTAGCCACTCGGCTT
* *
38331405 TATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATGTTTCACATTAGCCAT
1 TATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCAT
* *
38331470 TCGGCTTTACCACATATACATATCTCATACATGTTTCACATTAGCCATTCGGCTTTACCACATAT
66 TCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCACTCGGCTTTACCACATAT
*
38331535 ACATATCTCATACATATTCCACATTAGCCATTCGGCTT
131 ACATATCTCATACATATTCCACATTAGCCACTCGGCTT
38331573 TA
1 TA
38331575 CCACATATAC
Statistics
Matches: 163, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
168 163 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (168 bp):
TATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCAT
TCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCACTCGGCTTTACCACATAT
ACATATCTCATACATATTCCACATTAGCCACTCGGCTT
Found at i:38331563 original size:216 final size:217
Alignment explanation
Indices: 38331187--38331622 Score: 766
Period size: 216 Copynumber: 2.0 Consensus size: 217
38331177 ATCTCATACA
* * *
38331187 TATTTCACACTAGCCATTCGGCTTTGCCACATATACATATCTCATATATATATTTCACACTAGCC
1 TATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCA-ATACATATTTCACACTAGCC
38331252 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
65 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
*
38331317 ATACATATCTCATACATATTTCACATTAGCCACTCGGCTTTACCACATATACATATCTCATACAT
130 ATACATATCTCATACATATTCCACATTAGCCACTCGGCTTTACCACATATACATATCTCATACAT
38331382 ATTTCACATTAGCCACTCGGCTT
195 ATTTCACATTAGCCACTCGGCTT
* * *
38331405 TATTTCACATTAGCCATTCGACTTTACCACATATACATATCTC-ATACATGTTTCACATTAGCCA
1 TATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCAATACATATTTCACACTAGCCA
*
38331469 TTCGGCTTTACCACATATACATATCTCATACATGTTTCACATTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
*
38331534 TACATATCTCATACATATTCCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
131 TACATATCTCATACATATTCCACATTAGCCACTCGGCTTTACCACATATACATATCTCATACATA
*
38331599 TTTCACATTAGCCATTCGGCTT
196 TTTCACATTAGCCACTCGGCTT
38331621 TA
1 TA
38331623 CCACATATAC
Statistics
Matches: 208, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
216 168 0.81
218 40 0.19
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (217 bp):
TATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCAATACATATTTCACACTAGCCA
TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
TACATATCTCATACATATTCCACATTAGCCACTCGGCTTTACCACATATACATATCTCATACATA
TTTCACATTAGCCACTCGGCTT
Found at i:38340379 original size:2 final size:2
Alignment explanation
Indices: 38340366--38340395 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
38340356 CGGCTCTAGC
*
38340366 AT AT AC 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
38340396 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:38341200 original size:40 final size:40
Alignment explanation
Indices: 38341104--38341322 Score: 260
Period size: 40 Copynumber: 5.5 Consensus size: 40
38341094 CGAATGGTAT
* * * *
38341104 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
38341145 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
38341185 CCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
38341225 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
38341265 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
38341305 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
38341323 ACAATCGAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
40 131 0.84
41 25 0.16
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:38341318 original size:120 final size:121
Alignment explanation
Indices: 38341104--38341322 Score: 316
Period size: 120 Copynumber: 1.8 Consensus size: 121
38341094 CGAATGGTAT
* *
38341104 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* * *
38341169 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACCAAAA
66 GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACCAAAA
* * *
38341225 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * *
38341288 TGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
65 TGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
38341323 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
119 1 0.01
120 59 0.69
121 26 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACCAAAA
Found at i:38341343 original size:40 final size:40
Alignment explanation
Indices: 38341265--38341348 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
38341255 GTTACTAAAT
* * *
38341265 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
38341305 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
38341345 CCGG
1 CCGG
38341349 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:38341347 original size:80 final size:80
Alignment explanation
Indices: 38341102--38341348 Score: 181
Period size: 80 Copynumber: 3.1 Consensus size: 80
38341092 TTCGAATGGT
** * * * * * * *
38341102 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGG-TCAATTCCCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTACGAA-TCACCAAAACCGGGCT-AAGTCCCGAAGACA
* * * * *
38341166 TTTGTGCGAGTTACCAA
64 ATCGAGCGAGTCACTAA
* * * * * * * *
38341183 AACCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTACGAATCACCAAAACCGGGCTAAGTCCCGAAGACAAT
* * *
38341248 TGTGCGAGTTACTAA
66 CGAGCGAGTCACTAA
* * * * *
38341263 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAAT
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTACGAATCACCAAAACCGGGCTAAGTCCCGAAGACAAT
* *
38341328 CGAGCGAGTCGCTAT
66 CGAGCGAGTCACTAA
38341343 ATCCGG
1 ATCCGG
38341349 TTAAATTCCG
Statistics
Matches: 136, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
80 108 0.79
81 28 0.21
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCAATTGTACGAATCACCAAAACCGGGCTAAGTCCCGAAGACAAT
CGAGCGAGTCACTAA
Found at i:38343174 original size:206 final size:206
Alignment explanation
Indices: 38342809--38343360 Score: 910
Period size: 206 Copynumber: 2.7 Consensus size: 206
38342799 GCAGATCTGG
* *
38342809 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACCAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
38342874 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
38342939 AGAGCAGATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTT
38343004 CAGATGATTAGA
195 CAGATGATTAGA
38343016 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCT
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGA-CATAGCT
* * *
38343080 GATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTTTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
*
38343145 AGAACAAATCGAAGTTTGGCGTTTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTT
*
38343210 TAGATGATTAGA
195 CAGATGATTAGA
* * * *
38343222 CTGAAGCATATCCAAGATGGTTTGGTATCCTTGTGTTTACAA-CAAGCAAATCGAAGACATAGCT
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAA-CAAATCGAAGACATAGCT
* **
38343286 GATTTGGTTTTCGTGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
38343351 AGAACAAATC
130 AGAACAAATC
38343361 AAAAAAGCAG
Statistics
Matches: 322, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
205 3 0.01
206 311 0.97
207 8 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
AGATGATTAGA
Found at i:38343817 original size:59 final size:59
Alignment explanation
Indices: 38343749--38343866 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
38343739 TACACCCAGA
38343749 CCCAAAAAATAAATGAGGCCCAAGTGGCCCAATTTGTTAAACAGAAAGCAGAGAGACCT
1 CCCAAAAAATAAATGAGGCCCAAGTGGCCCAATTTGTTAAACAGAAAGCAGAGAGACCT
38343808 CCCAAAAAATAAATGAGGCCCAAGTGGCCCAATTTGTTAAACAGAAAGCAGAGAGACCT
1 CCCAAAAAATAAATGAGGCCCAAGTGGCCCAATTTGTTAAACAGAAAGCAGAGAGACCT
38343867 AGGGTTTCAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.15
Consensus pattern (59 bp):
CCCAAAAAATAAATGAGGCCCAAGTGGCCCAATTTGTTAAACAGAAAGCAGAGAGACCT
Found at i:38344983 original size:28 final size:28
Alignment explanation
Indices: 38344952--38345007 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
38344942 TTTCTAATTA
* * *
38344952 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
38344980 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
38345008 TTAAATATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:38345062 original size:16 final size:16
Alignment explanation
Indices: 38345032--38345064 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38345022 TATATTACTA
38345032 TTATTATCCATTATTT
1 TTATTATCCATTATTT
38345048 TTATTAT-CATATATTT
1 TTATTATCCAT-TATTT
38345064 T
1 T
38345065 ATCTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTATCCATTATTT
Found at i:38345101 original size:14 final size:14
Alignment explanation
Indices: 38345046--38345120 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
38345036 TATCCATTAT
*
38345046 TTTTATTATCATATA
1 TTTTATT-TTATATA
* *
38345061 TTTTATCTATAAATTA
1 TTTTAT-TTTATA-TA
* *
38345077 TATTATATTATATA
1 TTTTATTTTATATA
38345091 TTTTATTTTATATA
1 TTTTATTTTATATA
*
38345105 -TTT-CTTTATATA
1 TTTTATTTTATATA
38345117 TTTT
1 TTTT
38345121 TTATAAAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
12 8 0.17
13 6 0.13
14 14 0.30
15 11 0.23
16 8 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTATTTTATATA
Found at i:38345112 original size:12 final size:11
Alignment explanation
Indices: 38345096--38345125 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
38345086 ATATATTTTA
38345096 TTTTATATATT
1 TTTTATATATT
38345107 TCTTTATATATT
1 T-TTTATATATT
38345119 TTTTATA
1 TTTTATA
38345126 AAATTGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATATATT
Found at i:38345143 original size:20 final size:21
Alignment explanation
Indices: 38345115--38345154 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38345105 TTTCTTTATA
*
38345115 TATTTTTTA-TAAAATTGTAT
1 TATTATTTACTAAAATTGTAT
*
38345135 TATTATTTACTAAATTTGTA
1 TATTATTTACTAAAATTGTA
38345155 AATGGCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (21 bp):
TATTATTTACTAAAATTGTAT
Found at i:38345495 original size:18 final size:18
Alignment explanation
Indices: 38345469--38345509 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
38345459 TACCATATTA
*
38345469 TATTTCATACTATATTTT
1 TATTACATACTATATTTT
38345487 TATTACATACTATATTTT
1 TATTACATACTATATTTT
38345505 TATTA
1 TATTA
38345510 TTCAATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTACATACTATATTTT
Found at i:38345640 original size:21 final size:22
Alignment explanation
Indices: 38345616--38345676 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
38345606 GCAAAATACT
38345616 TATTATATTT-TTATTATTTTA
1 TATTATATTTCTTATTATTTTA
38345637 TATTATATTTCCTTA-TATTTTA
1 TATTATATTT-CTTATTATTTTA
* *
38345659 T-TCATATTATATTATTAT
1 TATTATATT-TCTTATTAT
38345677 ACATAACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 19 0.56
22 12 0.35
23 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATATTTCTTATTATTTTA
Found at i:38345762 original size:12 final size:12
Alignment explanation
Indices: 38345747--38345787 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
38345737 CACTTTATTT
38345747 TATATTTTAATA
1 TATATTTTAATA
* * *
38345759 TATATTATATTT
1 TATATTTTAATA
38345771 TATATTTTAATA
1 TATATTTTAATA
38345783 TATAT
1 TATAT
38345788 AATATTATGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATTTTAATA
Found at i:38345769 original size:24 final size:24
Alignment explanation
Indices: 38345742--38345793 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
38345732 TTACTCACTT
*
38345742 TATTTTATATTTTAATATATATTA
1 TATTTTATATTTTAATATATATAA
38345766 TATTTTATATTTTAATATATATAA
1 TATTTTATATTTTAATATATATAA
38345790 TATT
1 TATT
38345794 ATGTCGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTTATATTTTAATATATATAA
Found at i:38350838 original size:16 final size:17
Alignment explanation
Indices: 38350801--38350842 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
38350791 TCCAAAACAT
*
38350801 TATTAAAAATGATAGAA
1 TATTAAAAATGATACAA
38350818 -A-TAAAAAT-ATACAA
1 TATTAAAAATGATACAA
38350832 TATTAAAAATG
1 TATTAAAAATG
38350843 CTAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
14 5 0.24
15 8 0.38
16 8 0.38
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (17 bp):
TATTAAAAATGATACAA
Found at i:38353243 original size:27 final size:27
Alignment explanation
Indices: 38353213--38353275 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
38353203 CTCAACTTGT
38353213 AAAATTACCAAAGTACCCTC-GATTTAC
1 AAAATTACCAAAGTACCCTCAG-TTTAC
***
38353240 AAAATTACCATTTTACCCTCAGTTTAC
1 AAAATTACCAAAGTACCCTCAGTTTAC
38353267 AAAATTACC
1 AAAATTACC
38353276 GTTTTACCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCTCAGTTTAC
Found at i:38353280 original size:27 final size:27
Alignment explanation
Indices: 38353226--38353290 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
38353216 ATTACCAAAG
38353226 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
38353253 TACCCTC-AGTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCATTT
38353280 TACCCTCGATT
1 TACCCTCGATT
38353291 GTGAAATTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
26 1 0.03
27 33 0.94
28 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.06, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:38353352 original size:27 final size:27
Alignment explanation
Indices: 38353322--38353391 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
38353312 TGTAGGATAG
**
38353322 AATTACCAAAATACCAC-TGGTTTG-AGA
1 AATTACCAAAATACC-CTTAATTTGTA-A
*
38353349 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAA
38353376 AATTACCAAAATACCC
1 AATTACCAAAATACCC
38353392 CTGATTAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 35 0.95
28 1 0.03
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAATTTGTAA
Found at i:38354385 original size:42 final size:42
Alignment explanation
Indices: 38354338--38354429 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
38354328 TGGCCCTTAG
* * **
38354338 GCCCATTTCAATATCACATGTAAT-GTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACT-AATAAATGTATGCAA
38354380 GCCCATTTCAATATCACATGAAATACTAATAAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACTAATAAATGTATGCAA
38354422 GCCCATTT
1 GCCCATTT
38354430 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACTAATAAATGTATGCAA
Found at i:38354646 original size:25 final size:26
Alignment explanation
Indices: 38354577--38354646 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
38354567 CTCTTTTAGT
*
38354577 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTCTGATA
* *
38354602 AACTGGGGCAGAGCCTTTTTC-GGTA
1 AACTGGGGCAGAGCCCTTTTCTGATA
*
38354627 AACTGGGGTAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
38354647 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAGAGCCCTTTTCTGATA
Found at i:38355506 original size:27 final size:27
Alignment explanation
Indices: 38355445--38355508 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
38355435 GGCGTATTCA
*
38355445 TCATTTTACCATACAAGGGTTTTACGG
1 TCATTTTACCATACAAGGGCTTTACGG
* * *
38355472 TCACTTTACCCTACAGGGGCTTTACGG
1 TCATTTTACCATACAAGGGCTTTACGG
*
38355499 TCTTTTTACC
1 TCATTTTACC
38355509 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGCTTTACGG
Found at i:38355676 original size:27 final size:28
Alignment explanation
Indices: 38355626--38355682 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
38355616 AAAAAGTCAA
**
38355626 GGGTATTTCTGTAATTTTGTAAATT-AG
1 GGGTATTTCTGTAATTTTACAAATTGAG
38355653 GGGTATTT-TGGTAATTTTACAAATTGAG
1 GGGTATTTCT-GTAATTTTACAAATTGAG
38355681 GG
1 GG
38355683 TGTCTCGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.04
27 21 0.81
28 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.44
Consensus pattern (28 bp):
GGGTATTTCTGTAATTTTACAAATTGAG
Done.