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 156 of 345
Found at i:43176409 original size:14 final size:15
Alignment explanation
Indices: 43176385--43176413 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43176375 TACTAATTAC
43176385 TATATTAACCTTTAA
1 TATATTAACCTTTAA
43176400 TATA-TAACCTTTAA
1 TATATTAACCTTTAA
43176414 AACCATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATTAACCTTTAA
Found at i:43177435 original size:32 final size:32
Alignment explanation
Indices: 43177394--43177458 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
43177384 TTTTCTGCCC
43177394 CATATTTACAGATTTTATCTACCAGAGGCTTA
1 CATATTTACAGATTTTATCTACCAGAGGCTTA
43177426 CATATTTACAGATTTTATCTACCAGAGGCTTA
1 CATATTTACAGATTTTATCTACCAGAGGCTTA
43177458 C
1 C
43177459 CAATTCTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (32 bp):
CATATTTACAGATTTTATCTACCAGAGGCTTA
Found at i:43179406 original size:25 final size:25
Alignment explanation
Indices: 43179378--43179520 Score: 80
Period size: 25 Copynumber: 5.8 Consensus size: 25
43179368 CACTCTCTCA
*
43179378 AGCCATATAACAGGAAGCTCATGTG
1 AGCCATATAACAGGAAGCTCATGAG
* * * **
43179403 AGCCATGTAACAGGAGGCTTATCCG
1 AGCCATATAACAGGAAGCTCATGAG
* * * *
43179428 GGCCTTATAACAGGAAGCTCTTAAG
1 AGCCATATAACAGGAAGCTCATGAG
* *
43179453 AGCCATA-ATCAGGAAACTCATGCA-
1 AGCCATATAACAGGAAGCTCATG-AG
* * *
43179477 AGCCA-ATAACGGGTAGCTC-CGAAG
1 AGCCATATAACAGGAAGCTCATG-AG
*
43179501 AGCCATA-AATCGGGAAGCTC
1 AGCCATATAA-CAGGAAGCTC
43179521 TTGTAACAGC
Statistics
Matches: 87, Mismatches: 26, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
23 3 0.03
24 31 0.36
25 53 0.61
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATGAG
Found at i:43180863 original size:50 final size:50
Alignment explanation
Indices: 43180744--43181039 Score: 276
Period size: 50 Copynumber: 5.9 Consensus size: 50
43180734 ATTGTGAGAA
* * ** *
43180744 CACATGTGTAGTACTATGTGCAGGCTA-TAATGTGT-TTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACT-ACGTGTACCAA-ATAG-TTT-GGT
*
43180796 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGT
* * * * ***
43180846 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAA-ACTTCAAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AAATAGTTTGGT
* * * * * *
43180897 CACGTGTGTATTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGT
* * *
43180947 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAAT-TTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGT
* * * *
43180996 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
43181040 CTTCGATTAT
Statistics
Matches: 197, Mismatches: 41, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
49 43 0.22
50 75 0.38
51 40 0.20
52 36 0.18
53 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGT
Found at i:43180922 original size:101 final size:101
Alignment explanation
Indices: 43180795--43180976 Score: 310
Period size: 101 Copynumber: 1.8 Consensus size: 101
43180785 TGGTTTTAGG
* *
43180795 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
43180860 TAAGTGCAGGCTACTATGCGTACCCGAAAACTTCAA
66 TAAGTGCAGGCTACTATGCGTACCCGAAAACTTCAA
* * * *
43180896 TCACGTGTGTATTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
43180961 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
43180977 CATGTACCGA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 75 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGAAAACTTCAA
Found at i:43180984 original size:101 final size:101
Alignment explanation
Indices: 43180795--43181039 Score: 305
Period size: 101 Copynumber: 2.4 Consensus size: 101
43180785 TGGTTTTAGG
* *
43180795 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
**
43180860 TAAGTGCAGGCTACTATGCGTACCCGAAAACTTCAA
66 TAAGTGCAGGCTACTACACGTACCCGAAAACTTCAA
* * * *
43180896 TCACGTGTGTATTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
* ** ***
43180961 TAAGTGCAGGCTACTACATGTA-CCG-AATTTTTGG
66 TAAGTGCAGGCTACTACACGTACCCGAAAACTTCAA
* * * * *
43180995 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
43181040 CTTCGATTAT
Statistics
Matches: 123, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
99 42 0.34
100 3 0.02
101 78 0.63
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACACGTACCCGAAAACTTCAA
Found at i:43181069 original size:150 final size:151
Alignment explanation
Indices: 43180790--43181071 Score: 395
Period size: 150 Copynumber: 1.9 Consensus size: 151
43180780 TAAGATGGTT
* *
43180790 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGTCGCATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATAGTTTGGTCGCATGTGT
* ** * * * *
43180855 AGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTTCAATCACGTGTGTATTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCAGAAAACTTCAATCACAAGGGTAGTAATAACTGCAG
43180920 GCTACTACGTGTATCAGATGG
131 GCTACTACGTGTATCAGATGG
* *
43180941 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAAT-TTTTGGTCGCATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATAGTTTGGTCGCATGTGT
* * * * * * *
43181005 AGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCGATTATAAGGGTGGTAATATCTGCAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCAGAAAACTTCAATCACAAGGGTAGTAATAACTGCAG
43181070 GC
131 GC
43181072 AACCGCGTAT
Statistics
Matches: 113, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
150 68 0.60
151 45 0.40
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATAGTTTGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCAGAAAACTTCAATCACAAGGGTAGTAATAACTGCAG
GCTACTACGTGTATCAGATGG
Found at i:43196052 original size:42 final size:42
Alignment explanation
Indices: 43195993--43196078 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
43195983 TGCAGCAGAG
*
43195993 AAAACTCATTTCAGAGGTATAATCTTACCTGGGAAATTAGAT
1 AAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGAT
43196035 AAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGAT
1 AAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGAT
43196077 AA
1 AA
43196079 CTCAAAAAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (42 bp):
AAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGAT
Found at i:43196358 original size:506 final size:506
Alignment explanation
Indices: 43195704--43197224 Score: 2979
Period size: 506 Copynumber: 3.0 Consensus size: 506
43195694 CAATTATTGC
43195704 ATTTTGTAATAATGCCCATTATTAGGGCTTAATCTCATGCTTTGTGATAGTTTCATGTTTATAAG
1 ATTTTGTAATAATGCCCATTATTAGGGCTTAATCTCATGCTTTGTGATAGTTTCATGTTTATAAG
43195769 ATTTTAGCAAGTATAAATAGAGGATATTGTAACAAGCAAAAAGCATGAAAAAGAATGAAGTTTTT
66 ATTTTAGCAAGTATAAATAGAGGATATTGTAACAAGCAAAAAGCATGAAAAAGAATGAAGTTTTT
43195834 TTTTTTCTCTAAAAATTTCCTTTTTTCTTATCTTTCTCAACAAACTCTTTTTCTTCCGAAATTTC
131 TTTTTTCTCTAAAAATTTCCTTTTTTCTTATCTTTCTCAACAAACTCTTTTTCTTCCGAAATTTC
43195899 TCTTTCTCAACATTTTATCAGAGTAGGTTCTAAAAGATTCCTAAAAAAGAAGGGGAAACAAAACC
196 TCTTTCTCAACATTTTATCAGAGTAGGTTCTAAAAGATTCCTAAAAAAGAAGGGGAAACAAAACC
43195964 TCCCAAATCAGCCATGGCATGCAGCAGAGAAAACTCATTTCAGAGGTATAATCTTACCTGGGAAA
261 TCCCAAATCAGCCATGGCATGCAGCAGAGAAAACTCATTTCAGAGGTATAATCTTACCTGGGAAA
43196029 TTAGATAAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGATAACTCAAAAAGGTAATT
326 TTAGATAAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGATAACTCAAAAAGGTAATT
*
43196094 ACATGAGTACTCTAATTGTTAGACAAGAGAAAATCGGCATTCGGATTGTGGATTGAGGGGCATTT
391 ATATGAGTACTCTAATTGTTAGACAAGAGAAAATCGGCATTCGGATTGTGGATTGAGGGGCATTT
43196159 AACCATATGAAAGGCGATCTTGTCTAGATGAGCTGTAAATAGCTTAGGAAG
456 AACCATATGAAAGGCGATCTTGTCTAGATGAGCTGTAAATAGCTTAGGAAG
43196210 ATTTTGTAATAATGCCCATTATTAGGGCTTAATCTCATGCTTTGTGATAGTTTCATGTTTATAAG
1 ATTTTGTAATAATGCCCATTATTAGGGCTTAATCTCATGCTTTGTGATAGTTTCATGTTTATAAG
43196275 ATTTTAGCAAGTATAAATAGAGGATATTGTAACAAGCAAAAAGCATGAAAAAGAATGAAGTTTTT
66 ATTTTAGCAAGTATAAATAGAGGATATTGTAACAAGCAAAAAGCATGAAAAAGAATGAAGTTTTT
*
43196340 TTTTTCCTCTAAAAATTTCCTTTTTTCTTATCTTTCTCAACAAACTCTTTTTCTTCCGAAATTTC
131 TTTTTTCTCTAAAAATTTCCTTTTTTCTTATCTTTCTCAACAAACTCTTTTTCTTCCGAAATTTC
43196405 TCTTTCTCAACATTTTATCAGAGTAGGTTCTAAAAGATTCCTAAAAAAGAAGGGGAAACAAAACC
196 TCTTTCTCAACATTTTATCAGAGTAGGTTCTAAAAGATTCCTAAAAAAGAAGGGGAAACAAAACC
43196470 TCCCAAATCAGCCATGGCATGCAGCAGAGAAAACTCATTTCAGAGGTATAATCTTACCTGGGAAA
261 TCCCAAATCAGCCATGGCATGCAGCAGAGAAAACTCATTTCAGAGGTATAATCTTACCTGGGAAA
43196535 TTAGATAAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGATAACTCAAAAAGGTAATT
326 TTAGATAAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGATAACTCAAAAAGGTAATT
43196600 ATATGAGTACTCTAATTGTTAGACAAGAGAAAATCGGCATTCGGATTGTGGATTGAGGGGCATTT
391 ATATGAGTACTCTAATTGTTAGACAAGAGAAAATCGGCATTCGGATTGTGGATTGAGGGGCATTT
43196665 AACCATATGAAAGGCGATCTTGTCTAGATGAGCTGTAAATAGCTTAGGAAG
456 AACCATATGAAAGGCGATCTTGTCTAGATGAGCTGTAAATAGCTTAGGAAG
43196716 ATTTTGTAATAATGCCCATTATTAGGGCTTAATCTCATGCTTTGTGATAGTTTCATGTTTATAAG
1 ATTTTGTAATAATGCCCATTATTAGGGCTTAATCTCATGCTTTGTGATAGTTTCATGTTTATAAG
43196781 ATTTTAGCAAGTATAAATAGAGGATATTGTAACAAGCAAAAAGCATGAAAAAGAATGAAGTTTTT
66 ATTTTAGCAAGTATAAATAGAGGATATTGTAACAAGCAAAAAGCATGAAAAAGAATGAAGTTTTT
*
43196846 TTTTTTCTCTAAAAATTTCCTTTTTTCTTATCTTTCTCAACAAACTCTTTTTCTTCCAAAATTTC
131 TTTTTTCTCTAAAAATTTCCTTTTTTCTTATCTTTCTCAACAAACTCTTTTTCTTCCGAAATTTC
* * *
43196911 TCTTTCTCAACATTTTATTAGAGTAGGTTATAAAAGATTCCTAAACAAGAAGGGGAAACAAAACC
196 TCTTTCTCAACATTTTATCAGAGTAGGTTCTAAAAGATTCCTAAAAAAGAAGGGGAAACAAAACC
43196976 TCCCAAATCAGCCATGGCATGCAGCAGAGAAAACTCATTTCAGAGGTATAATCTTACCTGGGAAA
261 TCCCAAATCAGCCATGGCATGCAGCAGAGAAAACTCATTTCAGAGGTATAATCTTACCTGGGAAA
*
43197041 TTAGATAAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATCAGATAACTCAAAAAGGTAATT
326 TTAGATAAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGATAACTCAAAAAGGTAATT
43197106 ATATGAGTACTCTAATTGTTAGACAAGAGAAAATCGGCATTCGGATTGTGGATTGAGGGGCATTT
391 ATATGAGTACTCTAATTGTTAGACAAGAGAAAATCGGCATTCGGATTGTGGATTGAGGGGCATTT
43197171 AACCATATGAAAGGCGATCTTGTCTAGATGAGCTGTAAATAGCTTAGGAAG
456 AACCATATGAAAGGCGATCTTGTCTAGATGAGCTGTAAATAGCTTAGGAAG
43197222 ATT
1 ATT
43197225 AGCTTGAAAT
Statistics
Matches: 1007, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
506 1007 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (506 bp):
ATTTTGTAATAATGCCCATTATTAGGGCTTAATCTCATGCTTTGTGATAGTTTCATGTTTATAAG
ATTTTAGCAAGTATAAATAGAGGATATTGTAACAAGCAAAAAGCATGAAAAAGAATGAAGTTTTT
TTTTTTCTCTAAAAATTTCCTTTTTTCTTATCTTTCTCAACAAACTCTTTTTCTTCCGAAATTTC
TCTTTCTCAACATTTTATCAGAGTAGGTTCTAAAAGATTCCTAAAAAAGAAGGGGAAACAAAACC
TCCCAAATCAGCCATGGCATGCAGCAGAGAAAACTCATTTCAGAGGTATAATCTTACCTGGGAAA
TTAGATAAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGATAACTCAAAAAGGTAATT
ATATGAGTACTCTAATTGTTAGACAAGAGAAAATCGGCATTCGGATTGTGGATTGAGGGGCATTT
AACCATATGAAAGGCGATCTTGTCTAGATGAGCTGTAAATAGCTTAGGAAG
Found at i:43196558 original size:42 final size:42
Alignment explanation
Indices: 43196499--43196584 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
43196489 TGCAGCAGAG
*
43196499 AAAACTCATTTCAGAGGTATAATCTTACCTGGGAAATTAGAT
1 AAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGAT
43196541 AAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGAT
1 AAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGAT
43196583 AA
1 AA
43196585 CTCAAAAAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (42 bp):
AAAACTCATTTCAGAGGTATAATCTTAACTGGGAAATTAGAT
Found at i:43197064 original size:42 final size:42
Alignment explanation
Indices: 43197000--43197090 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
43196990 TGGCATGCAG
* *
43197000 CAGAGAAAACTCATTTCAGAGGTATAATCTTACCTGGGAAAT
1 CAGATAAAACTCATTTCAGAGGTATAATCTTAACTGGGAAAT
*
43197042 TAGATAAAACTCATTTCAGAGGTATAATCTTAACTGGGAAAT
1 CAGATAAAACTCATTTCAGAGGTATAATCTTAACTGGGAAAT
43197084 CAGATAA
1 CAGATAA
43197091 CTCAAAAAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (42 bp):
CAGATAAAACTCATTTCAGAGGTATAATCTTAACTGGGAAAT
Found at i:43198445 original size:7 final size:7
Alignment explanation
Indices: 43198402--43198444 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
43198392 AATCACTTAC
43198402 AGAAGCA
1 AGAAGCA
43198409 AGAAGCA
1 AGAAGCA
43198416 AGAAGCA
1 AGAAGCA
*
43198423 AGAAGTA
1 AGAAGCA
43198430 AGAAGCA
1 AGAAGCA
*
43198437 AAAAGCA
1 AGAAGCA
43198444 A
1 A
43198445 ACTGTAATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.60, C:0.12, G:0.26, T:0.02
Consensus pattern (7 bp):
AGAAGCA
Found at i:43202952 original size:1 final size:1
Alignment explanation
Indices: 43202948--43202993 Score: 56
Period size: 1 Copynumber: 46.0 Consensus size: 1
43202938 AAATGGAAAC
* * * *
43202948 AAAAAAAAAAAAAAAAGAAGAAAAAAAAAAGAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
43202994 GAGAGAGAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:43202971 original size:20 final size:20
Alignment explanation
Indices: 43202948--43202993 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
43202938 AAATGGAAAC
43202948 AAAAAAAAAA-AAAAAAGAAG
1 AAAAAAAAAAGAAAAAA-AAG
43202968 AAAAAAAAAAGAAAAAAAAG
1 AAAAAAAAAAGAAAAAAAAG
43202988 AAAAAA
1 AAAAAA
43202994 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAGAAAAAAAAG
Found at i:43210155 original size:27 final size:27
Alignment explanation
Indices: 43210137--43210204 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
43210127 ATAGTGAGTC
*
43210137 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCATATAATCAACT
* *
43210164 CGCACACTTAGTGCCATATGATCAAAT
1 CGCACACTTAGTGCCATATAATCAACT
43210191 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43210205 TGTACAAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCATATAATCAACT
Found at i:43212252 original size:14 final size:14
Alignment explanation
Indices: 43212233--43212261 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43212223 AAACATAATC
43212233 ACACACACACACAT
1 ACACACACACACAT
43212247 ACACACACACACAT
1 ACACACACACACAT
43212261 A
1 A
43212262 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.41, G:0.00, T:0.07
Consensus pattern (14 bp):
ACACACACACACAT
Found at i:43212264 original size:2 final size:2
Alignment explanation
Indices: 43212259--43212283 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
43212249 ACACACACAC
43212259 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
43212284 AATACCAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43217630 original size:40 final size:39
Alignment explanation
Indices: 43217524--43217650 Score: 182
Period size: 39 Copynumber: 3.2 Consensus size: 39
43217514 TTCAGTGATG
*
43217524 TATATCCGAACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
43217563 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
43217602 TATATCCTGGACTTAAGTTCCGCGGGCTACGTGCTGGAAA
1 TATATCC-GGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
43217642 TATGTCCGG
1 TATATCCGG
43217651 GCTAAAGTCC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 47 0.59
40 33 0.41
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:43217664 original size:79 final size:78
Alignment explanation
Indices: 43217524--43217668 Score: 175
Period size: 79 Copynumber: 1.8 Consensus size: 78
43217514 TTCAGTGATG
* * * **
43217524 TATATCCGAACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGAACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
43217589 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * * * *
43217602 TATATCCTGGACTTAAGTTCCGCGGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAG
1 TATATCC-GAACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAG
43217666 GCT
64 GCT
43217669 TCGAGCTGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
78 11 0.20
79 44 0.80
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (78 bp):
TATATCCGAACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:43224198 original size:39 final size:39
Alignment explanation
Indices: 43224144--43224259 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 39
43224134 TTCAGTGATG
*
43224144 TATATTCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
43224183 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
43224222 TATATCTGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
43224260 ATATGTTCGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:43224283 original size:39 final size:39
Alignment explanation
Indices: 43224151--43224295 Score: 152
Period size: 39 Copynumber: 3.7 Consensus size: 39
43224141 ATGTATATTC
** * *
43224151 GGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCC
1 GGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCT
** *
43224190 GGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCT
1 GGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCT
* * *
43224229 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGT-T
1 GGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCT
*
43224267 CGGGC-TAAAGTCCCGCAGGCT-TGTGCTGG
1 -GGACTTAAAGT-CCGCAGGCTATGTGCTGG
43224296 TAATTGGTTT
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
38 13 0.14
39 83 0.86
ACGTcount: A:0.20, C:0.21, G:0.32, T:0.27
Consensus pattern (39 bp):
GGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCT
Found at i:43224283 original size:78 final size:78
Alignment explanation
Indices: 43224151--43224300 Score: 196
Period size: 78 Copynumber: 1.9 Consensus size: 78
43224141 ATGTATATTC
* * * **
43224151 GGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTATGTGC
1 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCT-TGTGC
43224216 TGG-AATTATATCT
65 TGGTAATTATATCT
* * *
43224229 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTTCGGGC-TAAAGTCCCGCAGGCTTGTGC
1 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGCTTGTGC
43224293 TGGTAATT
65 TGGTAATT
43224301 GGTTTCAAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 12 0.19
78 50 0.81
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (78 bp):
GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTTGTGCT
GGTAATTATATCT
Found at i:43229961 original size:28 final size:28
Alignment explanation
Indices: 43229896--43229996 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
43229886 ATAGTGAATC
*
43229896 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
43229925 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
43229953 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
43229983 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43229997 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:43237103 original size:28 final size:28
Alignment explanation
Indices: 43237038--43237138 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
43237028 ATAGTGAATC
*
43237038 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
*
43237067 CTCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
43237095 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
43237125 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43237139 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.06
28 22 0.35
29 17 0.27
30 19 0.31
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:43243456 original size:34 final size:34
Alignment explanation
Indices: 43243383--43243469 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
43243373 TATACTGAAT
* *
43243383 TGGGCTAAGGCCCACACTGCTACTATTACCATAA
1 TGGGCTAAGGCCCACACTGATACTACTACCATAA
* * *
43243417 TGGGCTAAGGCCCACACTGATATTGCTACTGATAA
1 TGGGCTAAGGCCCACACTGATACTACTAC-CATAA
* *
43243452 -GGGCTTAGGCCCAGACTG
1 TGGGCTAAGGCCCACACTG
43243470 TTTACACTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 41 0.91
35 4 0.09
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATACTACTACCATAA
Found at i:43244993 original size:43 final size:43
Alignment explanation
Indices: 43244946--43245069 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 43
43244936 TTACATGTTT
*
43244946 TCATAT-ACCGATGCCAACGTCCCAAACGTGGTCTTACACAAAA
1 TCATATCA-CGATGCCAACGTCCCAAACATGGTCTTACACAAAA
* * **
43244989 TCATATCACGATGCCAATGTCCCAGACATGGTCTTACACCTAA
1 TCATATCACGATGCCAACGTCCCAAACATGGTCTTACACAAAA
* * * * *
43245032 TCACAAT-ACAATGCCAATGTCCCAGACATGGTTTTACA
1 TCA-TATCACGATGCCAACGTCCCAAACATGGTCTTACA
43245070 TGTAATCTCA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
43 68 0.96
44 3 0.04
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (43 bp):
TCATATCACGATGCCAACGTCCCAAACATGGTCTTACACAAAA
Found at i:43246537 original size:86 final size:85
Alignment explanation
Indices: 43246435--43246596 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 85
43246425 TAGGATTCCG
* * * *
43246435 ATATGTGATTTTGTGTAAGACCATGTCTGGGA-TGTTGGCATCGAT-TTGAGATTTACGTGTAAG
1 ATATATGATTTCGTGTAAGACCATGTCTGGGACAG-TGGCATCGATATT-AGA-TTACATGTAAG
*
43246498 ACCATGTCTGGGACATCGTCATC
63 ACCACGTCTGGGACATCGTCATC
* * *
43246521 ATATATGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGATTACATGTAAGACC
1 ATATATGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTAGATTACATGTAAGACC
43246586 ACGTCTGGGAC
66 ACGTCTGGGAC
43246597 GTTGGCATTG
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 23 0.35
86 40 0.61
87 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (85 bp):
ATATATGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTAGATTACATGTAAGACC
ACGTCTGGGACATCGTCATC
Found at i:43246552 original size:42 final size:43
Alignment explanation
Indices: 43246433--43246604 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
43246423 CATAGGATTC
* * *
43246433 CGATATGTGATTTTGTGTAAGACCATGTCTGGGA-TGTTGGCAT
1 CGATATATGATTTCGTGTAAGACCATGTCTGGGACAG-TGGCAT
* *
43246476 CGATTTGA-GATTTACGTGTAAGACCATGTCTGGGACA-TCGTCAT
1 CGATAT-ATGATTT-CGTGTAAGACCATGTCTGGGACAGT-GGCAT
* *
43246520 C-ATATATGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCAT
1 CGATATATGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
* * * *
43246562 CGATATTTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGATATATGATTTCGTGTAAGACCATGTCTGGGACAG-TGGCAT
43246605 TGTACGAGCT
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
42 28 0.26
43 53 0.50
44 25 0.24
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
CGATATATGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:43249675 original size:40 final size:40
Alignment explanation
Indices: 43249616--43249823 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
43249606 CAATTGAATG
* * * *
43249616 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * ** *
43249656 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
43249696 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
43249736 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
43249776 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
43249816 ATATCCGG
1 ATATCCGG
43249824 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:43249754 original size:80 final size:80
Alignment explanation
Indices: 43249617--43249823 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
43249607 AATTGAATGA
* * ** * * *
43249617 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
43249682 TTGTGCTAG-CG-AC
66 TTGTGCAAGTCGTAC
* * *
43249695 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
43249760 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
43249777 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
43249824 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 104 0.95
81 2 0.02
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:43252613 original size:31 final size:31
Alignment explanation
Indices: 43252578--43252641 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
43252568 CTTTTTCATA
*
43252578 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
43252609 TTTCAAATTTCATATTACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
43252640 TT
1 TT
43252642 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:43252737 original size:42 final size:42
Alignment explanation
Indices: 43252665--43252748 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
43252655 TGGCCCATAG
**
43252665 GCCCATTTCAATATCACATATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATATAATACCAATGAAAGAATGCAA
* *
43252707 GCCCATTTCAATATCACATGA-AATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACAT-ATAATACCAATGAAAGAATGCAA
43252749 ACCATTTGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (42 bp):
GCCCATTTCAATATCACATATAATACCAATGAAAGAATGCAA
Found at i:43252955 original size:47 final size:47
Alignment explanation
Indices: 43252895--43253136 Score: 403
Period size: 47 Copynumber: 5.1 Consensus size: 47
43252885 GGCCTTGCCT
* * *
43252895 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
43252942 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* * *
43252989 CTTTTGATAACTGGGGCGTAAGCCCTTTTAATAACTAGGGCGTAAGCC
1 CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCC
*
43253037 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
43253084 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
43253131 CTTTTG
1 CTTTTG
43253137 CACTTCCTCC
Statistics
Matches: 181, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 138 0.76
48 43 0.24
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (47 bp):
CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:43252963 original size:24 final size:24
Alignment explanation
Indices: 43252895--43253135 Score: 355
Period size: 24 Copynumber: 10.2 Consensus size: 24
43252885 GGCCTTGCCT
*
43252895 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
43252919 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
43252942 CTTTTGATCACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
43252966 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
43252989 CTTTTGATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
43253013 CTTTTAATAACTAGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
43253037 CTTTTGATCACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
43253061 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
43253084 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
43253108 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
43253131 CTTTT
1 CTTTT
43253136 GCACTTCCTC
Statistics
Matches: 194, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
23 85 0.44
24 109 0.56
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:43253032 original size:95 final size:94
Alignment explanation
Indices: 43252895--43253136 Score: 430
Period size: 95 Copynumber: 2.6 Consensus size: 94
43252885 GGCCTTGCCT
* *
43252895 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCA
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCA
43252960 TAAGCCCTTTAATAACTGGGGCATAAGCC
66 TAAGCCCTTTAATAACTGGGGCATAAGCC
* *
43252989 CTTTTGATAACTGGGGCGTAAGCCCTTTTAATAACTAGGGCGTAAGCCCTTTTGATCACTGGGGC
1 CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGC
43253054 ATAAGCCCTTTAATAACTGGGGCATAAGCC
65 ATAAGCCCTTTAATAACTGGGGCATAAGCC
*
43253084 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTG
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTG
43253137 CACTTCCTCC
Statistics
Matches: 140, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
94 48 0.34
95 92 0.66
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (94 bp):
CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCA
TAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:43253209 original size:20 final size:20
Alignment explanation
Indices: 43253181--43253231 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
43253171 GCATTTATGA
*
43253181 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
43253201 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
43253221 ACATATCATGT
1 ACATATCATGT
43253232 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:43253314 original size:25 final size:25
Alignment explanation
Indices: 43253268--43253315 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
43253258 ATATATAAAC
* * * *
43253268 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43253293 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43253316 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43254533 original size:27 final size:27
Alignment explanation
Indices: 43254471--43254548 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
43254461 GGGCATATTC
43254471 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
43254498 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
43254525 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
43254549 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:43254619 original size:27 final size:27
Alignment explanation
Indices: 43254567--43254807 Score: 184
Period size: 27 Copynumber: 8.9 Consensus size: 27
43254557 TTCATCCTAC
* * * *
43254567 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTTGGTAATTTTATAAACT
** * *
43254594 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTATAAACT
* * * *
43254621 AATGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTATAAACT
* *
43254649 CAAGGGTATTTT-GTAACTTTGTAAA-T
1 -AAGGGTATTTTGGTAATTTTATAAACT
* * *
43254675 CAGGGGTATTTTGGTAATTTTACAAATT
1 -AAGGGTATTTTGGTAATTTTATAAACT
* * * * *
43254703 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTGGTAATTTTATAAACT
43254730 AAGGGTATTTTGGTAATTTTA-AAACT
1 AAGGGTATTTTGGTAATTTTATAAACT
* *
43254756 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTATAAACT
* *
43254783 AAGGGTATTTTAGTAATTTTGTAAA
1 AAGGGTATTTTGGTAATTTTATAAA
43254808 TCGAGGGTAA
Statistics
Matches: 169, Mismatches: 39, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
26 36 0.21
27 112 0.66
28 12 0.07
29 9 0.05
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTATAAACT
Found at i:43254764 original size:53 final size:54
Alignment explanation
Indices: 43254566--43254816 Score: 183
Period size: 53 Copynumber: 4.6 Consensus size: 54
43254556 TTTCATCCTA
* * * * ***
43254566 CAAGGGTGTTTTGGTAAATCTACAAACTA-AGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTCACAAAC
* * * * ** *
43254620 CAATGGTATTTCT-ATAATTTTTAGAAAGTCA-AGGGTATTT-TGTAACTTT-GTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T-AGAGGGTATTTCGGTAA-TTTCACAAAC
* *
43254675 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAAC
* *
43254729 CAAGGGTATTTTGGTAATTTTA-AAACTAG-GGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTCACAAAC
* * ** *
43254782 TAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAATAGAGGGTA
43254817 AAACAGTAAT
Statistics
Matches: 160, Mismatches: 26, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
53 59 0.37
54 59 0.37
55 29 0.18
56 13 0.08
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAAC
Found at i:43254814 original size:27 final size:27
Alignment explanation
Indices: 43254594--43254870 Score: 152
Period size: 27 Copynumber: 10.3 Consensus size: 27
43254584 TCTACAAACT
* *
43254594 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*
43254621 AATGGTATTTCTA-TAATTTT-TAGAAAGTC
1 AAGGGTATTT-TAGTAATTTTGT--AAA-TC
*
43254650 AAGGGTATTTT-GTAACTTTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * ** *
43254676 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTGTAAATC
* ** *** *
43254703 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* *
43254730 AAGGGTATTTTGGTAA-TTT-TAAAAC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * **
43254755 TAGGGGTATTTTGGTAATTTTACAAA-C
1 -AAGGGTATTTTAGTAATTTTGTAAATC
43254782 TAAGGGTATTTTAGTAATTTTGTAAATC
1 -AAGGGTATTTTAGTAATTTTGTAAATC
* **** *
43254810 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** * *
43254837 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*
43254864 GAGGGTA
1 AAGGGTA
43254871 AAACGGTAAT
Statistics
Matches: 202, Mismatches: 37, Indels: 22
0.77 0.14 0.08
Matches are distributed among these distances:
25 4 0.02
26 30 0.15
27 142 0.70
28 15 0.07
29 11 0.05
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTGTAAATC
Found at i:43254815 original size:80 final size:79
Alignment explanation
Indices: 43254566--43254816 Score: 229
Period size: 80 Copynumber: 3.1 Consensus size: 79
43254556 TTTCATCCTA
* * * * ** ** * *
43254566 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTA-AAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
43254631 CTA-TAATTTTTAGAAAGT
65 -TAGTAATTTTT--AAA-T
* * *
43254649 CAAGGGTATTTT-GTAACTTTGTAAATC-AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
1 CAAGGGTATTTTGGTAA-TTT-TAAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATT
** ** *
43254712 TCGGTAATTTCACAAAC
64 TTAGTAATTT-TTAAAT
43254729 CAAGGGTATTTTGGTAATTTTAAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTT
1 CAAGGGTATTTTGGTAATTTTAAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTT
43254794 AGTAATTTTGTAAAT
66 AGTAATTTT-TAAAT
*
43254809 CGAGGGTA
1 CAAGGGTA
43254817 AAACAGTAAT
Statistics
Matches: 134, Mismatches: 27, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
79 5 0.04
80 67 0.50
81 7 0.05
82 38 0.28
83 15 0.11
84 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (79 bp):
CAAGGGTATTTTGGTAATTTTAAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTT
AGTAATTTTTAAAT
Found at i:43254871 original size:27 final size:27
Alignment explanation
Indices: 43254794--43255005 Score: 266
Period size: 27 Copynumber: 7.9 Consensus size: 27
43254784 AGGGTATTTT
*
43254794 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
43254821 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43254848 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43254875 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
43254902 GGTAATTCTATAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43254929 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * * *
43254956 GGTAATTATATAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43254983 AGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
43255006 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 160 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:43255005 original size:54 final size:54
Alignment explanation
Indices: 43254795--43254998 Score: 293
Period size: 54 Copynumber: 3.8 Consensus size: 54
43254785 GGGTATTTTA
* * **
43254795 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACG
* *
43254849 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACG
* * *
43254903 GTAATTCTATAAGTCGAGGGTAAAAC-GATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTGTAAATCAAGGGTAAAACG
* *
43254957 GTAATTATATAAATCGGGGGTAAAACAGTAATTCTGTAAATC
1 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC
43254999 GGGGGTACTT
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.01
54 132 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACG
Found at i:43255041 original size:27 final size:27
Alignment explanation
Indices: 43255011--43255100 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
43255001 GGGTACTTTG
*
43255011 GTAATTTTACAAGTCGAAAGTATTTCA
1 GTAATTTTACAAATCGAAAGTATTTCA
**
43255038 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAAGTATTTCA
* * * *
43255065 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-AGTATTTCA
43255092 GTAATTTTA
1 GTAATTTTA
43255101 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 2 0.04
27 52 0.96
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAAGTATTTCA
Found at i:43255107 original size:28 final size:27
Alignment explanation
Indices: 43255030--43255109 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
43255020 CAAGTCGAAA
*
43255030 GTATTTCAGTAATTTTACAAA-TCGAGG
1 GTATTTCAGTAATTTTACAAACT-AAGG
*
43255057 GTATTTCAGTATTTTTACAAACTAAGG
1 GTATTTCAGTAATTTTACAAACTAAGG
* *
43255084 GTATTTCGGTAATTTTAGTAAACTAA
1 GTATTTCAGTAATTTTA-CAAACTAA
43255110 AGTATTCTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 38 0.83
28 8 0.17
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGG
Found at i:43255114 original size:27 final size:27
Alignment explanation
Indices: 43255011--43255115 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
43255001 GGGTACTTTG
* *
43255011 GTAATTTTACAAGTCGAA-AGTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
43255038 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
43255065 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
43255092 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
43255116 CTAAACATGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.02
27 55 0.86
28 8 0.12
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:43257838 original size:31 final size:31
Alignment explanation
Indices: 43257797--43257860 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43257787 CCTTTTCATA
*
43257797 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
43257828 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
43257859 TT
1 TT
43257861 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:43257972 original size:41 final size:41
Alignment explanation
Indices: 43257886--43257973 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 41
43257876 GCCCATAGGC
* * *
43257886 CCATTTCAATATCATATATAATGCAATGAAAGAATGCAAGC
1 CCATTTCAATATCACATATAATCCAATGAAAGAATGCAAGA
* *
43257927 CCATTTCAATATCACATGA-AATACCAATGAATGTATGCAA-A
1 CCATTTCAATATCACAT-ATAAT-CCAATGAAAGAATGCAAGA
43257968 CCATTT
1 CCATTT
43257974 GGGGAGACTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 25 0.62
42 15 0.38
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (41 bp):
CCATTTCAATATCACATATAATCCAATGAAAGAATGCAAGA
Found at i:43258141 original size:23 final size:23
Alignment explanation
Indices: 43258111--43258321 Score: 293
Period size: 23 Copynumber: 9.1 Consensus size: 23
43258101 GCCTGCCTCT
*
43258111 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
43258134 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
43258157 TTTTGATCACTGGGGCATAA-CCC
1 -TTTAATAACTGGGGCATAAGCCC
43258180 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
43258202 TTTTGATAACTGGGGCGTAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
43258226 TTTTAATAACTGGGGCGTAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
43258250 TTTTGAT-ACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
43258273 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43258296 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43258319 TTT
1 TTT
43258322 TGCACTTCCT
Statistics
Matches: 170, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
21 8 0.05
22 16 0.09
23 90 0.53
24 56 0.33
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:43258250 original size:93 final size:94
Alignment explanation
Indices: 43258109--43258322 Score: 364
Period size: 93 Copynumber: 2.3 Consensus size: 94
43258099 AGGCCTGCCT
*
43258109 CTTTTAATAACTGGGGCAAAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCGTAAGCCCTTTTGAT-ACTGGGGC
43258173 ATAA-CCCTTTAATAACT-GGGCATAAGCC
65 ATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
43258201 CTTTTGATAACTGGGGCGTAAGCCCTTTTAATAACTGGGGCGTAAGCCCTTTTGATACTGGGGCA
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCGTAAGCCCTTTTGATACTGGGGCA
43258266 TAAGCCCTTTAATAACTGGGGCATAAGCC
66 TAAGCCCTTTAATAACTGGGGCATAAGCC
43258295 C-TTTAATAACTGGGGCATAAGCCCTTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTTT
43258323 GCACTTCCTC
Statistics
Matches: 114, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
92 34 0.30
93 68 0.60
94 12 0.11
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (94 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCGTAAGCCCTTTTGATACTGGGGCA
TAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:43258396 original size:20 final size:20
Alignment explanation
Indices: 43258368--43258418 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
43258358 GCATTTATGA
*
43258368 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
43258388 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
43258408 ACATATCATGT
1 ACATATCATGT
43258419 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:43258501 original size:25 final size:25
Alignment explanation
Indices: 43258455--43258502 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
43258445 ATATATAAAC
* * * *
43258455 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43258480 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43258503 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43259717 original size:27 final size:26
Alignment explanation
Indices: 43259655--43259732 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
43259645 GGGCATATTC
43259655 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
43259682 GTCACTTTATCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
43259709 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
43259733 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:43259803 original size:27 final size:27
Alignment explanation
Indices: 43259751--43259985 Score: 210
Period size: 27 Copynumber: 8.7 Consensus size: 27
43259741 TTCATCCTAC
* * *
43259751 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
** ** *
43259778 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
43259805 AATGGTATTTCT-ATAATTTTA-AAAGT
1 AAGGGTATTT-TGGTAATTTTACAAACT
* *
43259831 CAAGGGTATTTTTGTAACTTTGTA-AATC-
1 -AAGGGTATTTTGGTAA-TTT-TACAAACT
*
43259859 AGGGGTATTTTGGTAATTTTACAAA-T
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
43259885 TAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
*
43259912 AAGGGTATTTTGGTAATTTTAAAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
43259939 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
43259966 AAGGGTATTTTAGTAATTTT
1 AAGGGTATTTTGGTAATTTT
43259986 GTAAATCGAG
Statistics
Matches: 165, Mismatches: 35, Indels: 16
0.76 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 30 0.18
27 126 0.76
28 3 0.02
29 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:43259839 original size:54 final size:52
Alignment explanation
Indices: 43259750--43260026 Score: 196
Period size: 54 Copynumber: 5.2 Consensus size: 52
43259740 TTTCATCCTA
* * *
43259750 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTA-AAA-TAAGGGTATTTCAGTAATTTTGTAAAC
* * ** * *
43259804 CAATGGTATTTCT-ATAATTTTAAAAGTCAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTAAAA-T-AAGGGTATTTCAGTAATTTTGTAAAC
* * * ***
43259858 CAGGGGTATTTTGGTAATTTTACAAATTAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTA-AAATAAGGGTATTTCAGTAATTTTGTAAAC
* ** **
43259911 CAAGGGTATTTTGGTAATTTTAAAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTT-AAAA-TAAGGGTATTTCAGTAATTTTGTAAAC
* * * * *** * *
43259965 TAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTT-AAAAT-AAGGGTATTTCAGTAATTTTGTAAAC
43260019 CAAGGGTA
1 CAAGGGTA
43260027 AAATAGTAAT
Statistics
Matches: 174, Mismatches: 42, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
53 47 0.27
54 123 0.71
55 4 0.02
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (52 bp):
CAAGGGTATTTTGGTAATTTTAAAATAAGGGTATTTCAGTAATTTTGTAAAC
Found at i:43259918 original size:80 final size:81
Alignment explanation
Indices: 43259750--43259984 Score: 237
Period size: 80 Copynumber: 2.9 Consensus size: 81
43259740 TTTCATCCTA
* * * * * ** ** * *
43259750 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTAAAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
* *
43259815 CTA-TAATTTTA-AAAGT
66 C-AGTAATTTCACAAA-C
* * *
43259831 CAAGGGTATTTTTGTAACTTTGT-AAATC-AGGGGTATTTTGGTAATTTTACAAA-TTAGGGTAT
1 CAAGGGTATTTTGGTAA-TTT-TAAAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTAT
*
43259893 TTCGGTAATTTCACAAAC
64 TTCAGTAATTTCACAAAC
43259911 CAAGGGTATTTTGGTAATTTTAAAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTAAAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
*
43259976 TAGTAATTT
66 CAGTAATTT
43259985 TGTAAATCGA
Statistics
Matches: 125, Mismatches: 22, Indels: 14
0.78 0.14 0.09
Matches are distributed among these distances:
78 1 0.01
79 7 0.06
80 57 0.46
81 55 0.44
82 4 0.03
83 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTAAAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
CAGTAATTTCACAAAC
Found at i:43259945 original size:107 final size:108
Alignment explanation
Indices: 43259751--43259985 Score: 255
Period size: 107 Copynumber: 2.2 Consensus size: 108
43259741 TTCATCCTAC
* * * *** *
43259751 AAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTC
1 AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTC
* * *
43259816 TATAATTTTAAAAGTCAAGGGTATTTTTGTAACTTTGTA-AATC-
66 TATAATTTTAAAACTCAAGGGTATTTTGGTAA-TTT-TACAAACT
* * *
43259859 AGGGGTATTTTGGTAATTTTACAAA-TTAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTT-
1 AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTC
* *
43259922 TGGTAATTTTAAAAACT-AGGGGTATTTTGGTAATTTTACAAACT
66 T-ATAATTTT-AAAACTCAAGGGTATTTTGGTAATTTTACAAACT
*
43259966 AAGGGTATTTTAGTAATTTT
1 AAGGGTATTTTGGTAATTTT
43259986 GTAAATCGAG
Statistics
Matches: 106, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
105 2 0.02
106 7 0.07
107 71 0.67
108 26 0.25
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (108 bp):
AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTC
TATAATTTTAAAACTCAAGGGTATTTTGGTAATTTTACAAACT
Found at i:43259997 original size:27 final size:27
Alignment explanation
Indices: 43259778--43260053 Score: 157
Period size: 27 Copynumber: 10.3 Consensus size: 27
43259768 TCTACAAACT
* *
43259778 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* *
43259805 AATGGTATTTCTA-TAATTTT-AAAAGTC
1 AAGGGTATTT-TAGTAATTTTGTAAA-TC
* *
43259832 AAGGGTATTTTTGTAACTTTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * **
43259859 AGGGGTATTTTGGTAATTTTACAAAT-
1 AAGGGTATTTTAGTAATTTTGTAAATC
* ** *** *
43259885 TAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * *
43259912 AAGGGTATTTTGGTAATTTT-AAAAAC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * **
43259938 TAGGGGTATTTTGGTAATTTTACAAA-C
1 -AAGGGTATTTTAGTAATTTTGTAAATC
43259965 TAAGGGTATTTTAGTAATTTTGTAAATC
1 -AAGGGTATTTTAGTAATTTTGTAAATC
* **** *
43259993 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** * *
43260020 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*
43260047 GAGGGTA
1 AAGGGTA
43260054 AAACGGTAAT
Statistics
Matches: 202, Mismatches: 39, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
26 29 0.14
27 165 0.82
28 8 0.04
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.38
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTGTAAATC
Found at i:43260026 original size:81 final size:81
Alignment explanation
Indices: 43259949--43260204 Score: 241
Period size: 81 Copynumber: 3.2 Consensus size: 81
43259939 AGGGGTATTT
****
43259949 TGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTG
1 TGGTAATTTTACAAACTAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTG
*
43260014 TAAATCAAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * * * *
43260030 TAGTAATTCTATAAA-TCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCT
1 TGGTAATTTTACAAACT-AAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCT
*
43260094 GTAAGTCGAGGGTAAAA
65 GTAAATCGAGGGTAAAA
* * * * * * *
43260111 CGATAATTATGTA-AATC-AGGGGTAAAACGGTAATTATATAAATCG-GGGTAAAACAGTAATTC
1 TGGTAATT-T-TACAAACTAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTC
* ***
43260173 TGTAAATCGGGGGTACTT
64 TGTAAATCGAGGGTAAAA
43260191 TGGTAATTTTACAA
1 TGGTAATTTTACAA
43260205 GTCGAAGTAT
Statistics
Matches: 140, Mismatches: 30, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
78 2 0.01
79 3 0.02
80 36 0.26
81 95 0.68
82 2 0.01
83 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.30
Consensus pattern (81 bp):
TGGTAATTTTACAAACTAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:43260054 original size:27 final size:27
Alignment explanation
Indices: 43259977--43260187 Score: 275
Period size: 27 Copynumber: 7.9 Consensus size: 27
43259967 AGGGTATTTT
*
43259977 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
43260004 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43260031 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43260058 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
43260085 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43260112 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
43260139 GGTAATTATATAAATCG-GGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43260165 AGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
43260188 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
26 25 0.15
27 138 0.84
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:43260224 original size:26 final size:27
Alignment explanation
Indices: 43260193--43260280 Score: 92
Period size: 26 Copynumber: 3.3 Consensus size: 27
43260183 GGGTACTTTG
*
43260193 GTAATTTTACAAGTCGA-AGTATTTCA
1 GTAATTTTACAAATCGAGAGTATTTCA
*
43260219 GTAATTTTA-AAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGAGTATTTCA
* * * *
43260245 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATC-GAGAGTATTTCA
43260272 GTAATTTTA
1 GTAATTTTA
43260281 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
25 6 0.11
26 26 0.49
27 21 0.40
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGAGTATTTCA
Found at i:43260287 original size:28 final size:27
Alignment explanation
Indices: 43260211--43260289 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
43260201 ACAAGTCGAA
*
43260211 GTATTTCAGTAATTTTA-AAA-TCGAGG
1 GTATTTCAGTAATTTTACAAACT-AAGG
*
43260237 GTATTTCAGTATTTTTACAAACTAAGG
1 GTATTTCAGTAATTTTACAAACTAAGG
* *
43260264 GTATTTCGGTAATTTTAGTAAACTAA
1 GTATTTCAGTAATTTTA-CAAACTAA
43260290 AGTATTCTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
26 16 0.36
27 21 0.47
28 8 0.18
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGG
Found at i:43261865 original size:29 final size:28
Alignment explanation
Indices: 43261833--43261891 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
43261823 TTTATTTCAG
* *
43261833 AATTTAACCCTTCAATTTACATTTTTCTC
1 AATTTAACCCGT-AATTGACATTTTTCTC
* *
43261862 AATTTAATCCGTAATTGACATTTTTGTC
1 AATTTAACCCGTAATTGACATTTTTCTC
43261890 AA
1 AA
43261892 AAAATCACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.46
Consensus pattern (28 bp):
AATTTAACCCGTAATTGACATTTTTCTC
Found at i:43264652 original size:27 final size:26
Alignment explanation
Indices: 43264604--43264663 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
43264594 GCGAGGCTGC
*
43264604 CAGATATTGTGACGAAGTCACCAAATA
1 CAGATATTGTGACGAAGCCACCAAA-A
* * * *
43264631 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAAAA
43264657 CAGATAT
1 CAGATAT
43264664 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:43264667 original size:2 final size:2
Alignment explanation
Indices: 43264660--43264699 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
43264650 ACCAGAACAG
43264660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43264700 GTGGCGAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43274836 original size:32 final size:28
Alignment explanation
Indices: 43274739--43274824 Score: 99
Period size: 27 Copynumber: 3.2 Consensus size: 28
43274729 AGCATGGCTG
* * *
43274739 CCAGAACAGATA-GT-GTGACAGAGTCA
1 CCAGAACAGATATATCGTGGCAGAGCCA
*
43274765 CTAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATATCGTGGCAGAGCCA
43274793 CCAGAACAGATATAT-GTGGCAGAGCCA
1 CCAGAACAGATATATCGTGGCAGAGCCA
43274820 CCAGA
1 CCAGA
43274825 TCAAATCAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 4 0.08
27 32 0.62
28 16 0.31
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (28 bp):
CCAGAACAGATATATCGTGGCAGAGCCA
Found at i:43282516 original size:27 final size:26
Alignment explanation
Indices: 43282481--43282592 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
43282471 AGCATGGCTG
* *
43282481 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
43282507 CCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
43282535 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
43282562 CCAGATCAGATAATTGTGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
43282589 CCAG
1 CCAG
43282593 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.09
27 53 0.70
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:43282544 original size:54 final size:54
Alignment explanation
Indices: 43282481--43282592 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
43282471 AGCATGGCTG
*
43282481 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAAAGCCA
* * **
43282535 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCGTAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAAAGCCA
43282589 CCAG
1 CCAG
43282593 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAAAGCCA
Found at i:43288941 original size:44 final size:44
Alignment explanation
Indices: 43288876--43288979 Score: 145
Period size: 44 Copynumber: 2.4 Consensus size: 44
43288866 TGTTGCAGAA
* * * ** *
43288876 AAGGATTTGGCCCGGATGGGTAATTTGTTGATCTCAAATATAGG
1 AAGGATCTAGCCCGGACGGGTAATCCGTTGATCTCAAATATAAG
43288920 AAGGATCTAGCCCGGACGGGTAATCCGTTGATCTCAAATATAAG
1 AAGGATCTAGCCCGGACGGGTAATCCGTTGATCTCAAATATAAG
*
43288964 AAAGATCTAGCCCGGA
1 AAGGATCTAGCCCGGA
43288980 TAGGTGTTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (44 bp):
AAGGATCTAGCCCGGACGGGTAATCCGTTGATCTCAAATATAAG
Found at i:43296349 original size:47 final size:47
Alignment explanation
Indices: 43296291--43296607 Score: 544
Period size: 47 Copynumber: 6.7 Consensus size: 47
43296281 GTATGAGATA
* * * *
43296291 TATATATGTGATAAGGCCGAATGGCCAATGTAATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
43296338 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
43296385 TATATATGTGACAAGGCCTAATGACGGATGTGATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
43296432 TATATATGTGACAAGGCCTAATGGCGGATGTGATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
43296479 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
43296526 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
43296573 TATATATGTGACAAGGCCTAATGGCCCATGTGATG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATG
43296608 TAATATCCTG
Statistics
Matches: 259, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 259 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:43297951 original size:46 final size:46
Alignment explanation
Indices: 43297898--43298073 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43297888 TATTTGGGCA
43297898 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
43297944 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
43297991 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
43298037 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43298074 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:43298053 original size:93 final size:93
Alignment explanation
Indices: 43297894--43298065 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43297884 GGGATATTTG
* *
43297894 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43297959 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
43297987 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43298052 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
43298066 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:43301006 original size:15 final size:15
Alignment explanation
Indices: 43300986--43301054 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
43300976 GTATCTTGGG
43300986 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
43301001 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
43301016 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
43301031 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
43301046 TTTCTTTAT
1 TTTCTTTAT
43301055 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:43301055 original size:30 final size:30
Alignment explanation
Indices: 43300977--43301064 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
43300967 CATAGTATCG
* * * *
43300977 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
43301007 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
43301037 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
43301065 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:43303501 original size:46 final size:46
Alignment explanation
Indices: 43303448--43303623 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43303438 TATTTGGGCA
43303448 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
43303494 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
43303541 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
43303587 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43303624 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:43303603 original size:93 final size:93
Alignment explanation
Indices: 43303444--43303615 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43303434 GGGATATTTG
* *
43303444 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43303509 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
43303537 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43303602 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
43303616 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:43304981 original size:22 final size:22
Alignment explanation
Indices: 43304953--43305028 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
43304943 AAGTGCATAT
43304953 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * *
43304975 ATGTGATGAATG-TGAAAGTGCATA
1 ATGTGAT-AAGGCCGAATG-GC-CA
*
43304999 TATGTGATAAGGCCGAGTGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
43305022 ATGTGAT
1 ATGTGAT
43305029 GGATGTGAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 18 0.45
23 6 0.15
24 6 0.15
25 10 0.25
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:43304997 original size:47 final size:47
Alignment explanation
Indices: 43304928--43305056 Score: 222
Period size: 47 Copynumber: 2.7 Consensus size: 47
43304918 GGGGTGTTAC
43304928 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCA
*
43304975 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCA
* * *
43305022 ATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGCATATATGTGATAAG
43305057 TCCCGAAGGG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCA
Found at i:43310215 original size:37 final size:37
Alignment explanation
Indices: 43310162--43310252 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
43310152 TATAAAAGAA
43310162 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
43310199 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
43310236 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
43310253 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:43310412 original size:49 final size:49
Alignment explanation
Indices: 43310348--43310562 Score: 376
Period size: 49 Copynumber: 4.4 Consensus size: 49
43310338 TTTTACATTA
*
43310348 GCCATTAGGCTTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43310397 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
43310446 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
43310495 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
43310544 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
43310563 CATATATGTA
Statistics
Matches: 159, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 159 1.00
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:43310603 original size:14 final size:14
Alignment explanation
Indices: 43310562--43310611 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
43310552 GCCTTATCAC
43310562 ACAT-ATATGTA-T
1 ACATCATATGTATT
*
43310574 ATCATACATATTTATT
1 A-CAT-CATATGTATT
43310590 ACATCATATGTATT
1 ACATCATATGTATT
43310604 ACATCATA
1 ACATCATA
43310612 AACACATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 1 0.03
13 3 0.09
14 17 0.53
15 9 0.28
16 2 0.06
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (14 bp):
ACATCATATGTATT
Found at i:43318785 original size:42 final size:42
Alignment explanation
Indices: 43318734--43318842 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
43318724 ACAATTCGGA
*
43318734 TATACATATGGCACTTAGTGTGCGATTCAAGAA-AGCATCAGC
1 TATACATATGGCACTTAGTGTGCGATT-AAGAATAACATCAGC
* ** *
43318776 TATATATATGGCACTTAGTGTGCTG-TTTGGAATAACATCGGC
1 TATACATATGGCACTTAGTGTGC-GATTAAGAATAACATCAGC
43318818 TATACATATGGCACTTAGTGTGCGA
1 TATACATATGGCACTTAGTGTGCGA
43318843 GACCGGGATA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
41 4 0.07
42 53 0.91
43 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
TATACATATGGCACTTAGTGTGCGATTAAGAATAACATCAGC
Found at i:43319230 original size:17 final size:19
Alignment explanation
Indices: 43319187--43319236 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
43319177 AGCATGATTT
*
43319187 TATTAATCATAATATAATA
1 TATTAATCATAATATAAAA
*
43319206 TATAAATCAT-AT-TAAAA
1 TATTAATCATAATATAAAA
43319223 TATTAATCAATAAT
1 TATTAATC-ATAAT
43319237 GAACCTCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 11 0.42
18 4 0.15
19 11 0.42
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTAATCATAATATAAAA
Found at i:43324100 original size:14 final size:14
Alignment explanation
Indices: 43324081--43324110 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
43324071 ATCACCAGAC
43324081 ATGGCCATATGCGT
1 ATGGCCATATGCGT
43324095 ATGGCCATATGCGT
1 ATGGCCATATGCGT
43324109 AT
1 AT
43324111 TCATTACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (14 bp):
ATGGCCATATGCGT
Found at i:43327450 original size:17 final size:19
Alignment explanation
Indices: 43327414--43327459 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
43327404 TGATTTTATT
*
43327414 AATCATAATATAATATATA
1 AATCATAATATAAAATATA
43327433 AATCAT-AT-TAAAATATA
1 AATCATAATATAAAATATA
43327450 AATCAATAAT
1 AATC-ATAAT
43327460 GAACCTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 12 0.50
18 4 0.17
19 8 0.33
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AATCATAATATAAAATATA
Found at i:43330522 original size:40 final size:39
Alignment explanation
Indices: 43330356--43330539 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 39
43330346 TTCGAATGAT
* * *
43330356 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTACTAA
** * *
43330396 ATCCGGAATAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
43330436 ATCCGGACTAAGATCCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTACTAA
* *
43330476 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTACT-AA
*
43330517 A-CCGGGCTATGTCCGAAGGCATT
1 ATCCGGGCTAAGTCCGAAGGCATT
43330540 TGAATGTGTA
Statistics
Matches: 119, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
39 12 0.10
40 99 0.83
41 8 0.07
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:43332341 original size:29 final size:29
Alignment explanation
Indices: 43332307--43332409 Score: 82
Period size: 29 Copynumber: 3.6 Consensus size: 29
43332297 TACTCGATTT
* * *
43332307 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
43332336 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
43332365 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
43332394 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
43332410 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.23
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:43339086 original size:29 final size:28
Alignment explanation
Indices: 43339023--43339097 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
43339013 CGATTTAAGC
* *
43339023 CTGCACACACAGTGCCATACCCTTCGAG
1 CTGCACACACAGTGCCATACACTTCCAG
* *
43339051 CTCGCACACACAGTGCCATATATTTCCAG
1 CT-GCACACACAGTGCCATACACTTCCAG
**
43339080 CATGCACACTTAGTGCCA
1 C-TGCACACACAGTGCCA
43339098 ATCTCATCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 2 0.05
29 36 0.92
30 1 0.03
ACGTcount: A:0.27, C:0.36, G:0.16, T:0.21
Consensus pattern (28 bp):
CTGCACACACAGTGCCATACACTTCCAG
Found at i:43339935 original size:50 final size:50
Alignment explanation
Indices: 43339860--43339960 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
43339850 TCCCGAAACC
43339860 ACTTCCTGACTAGGGTCAATTTAGGGCTGTCACACTTGCCCTAACTTACT
1 ACTTCCTGACTAGGGTCAATTTAGGGCTGTCACACTTGCCCTAACTTACT
43339910 ACTTCCTGACTAGGGTCAATTTAGGGCTGTCACACTTGCCCTAACTTACT
1 ACTTCCTGACTAGGGTCAATTTAGGGCTGTCACACTTGCCCTAACTTACT
43339960 A
1 A
43339961 AGCATAAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.32
Consensus pattern (50 bp):
ACTTCCTGACTAGGGTCAATTTAGGGCTGTCACACTTGCCCTAACTTACT
Found at i:43344675 original size:15 final size:15
Alignment explanation
Indices: 43344655--43344684 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43344645 ACCGACTTTG
43344655 TTTCGAGTAATGAGC
1 TTTCGAGTAATGAGC
43344670 TTTCGAGTAATGAGC
1 TTTCGAGTAATGAGC
43344685 ATGATATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (15 bp):
TTTCGAGTAATGAGC
Found at i:43354271 original size:23 final size:23
Alignment explanation
Indices: 43354241--43354322 Score: 107
Period size: 23 Copynumber: 3.6 Consensus size: 23
43354231 TAAGCTGATG
43354241 AACAGTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
*
43354264 AACAGTAAGCTCTGA-CGAGCTG-
1 AACAGTAAGCTCT-ATTGAGCTGA
43354286 AACAGTAAGCTC-ATATGAGCTGA
1 AACAGTAAGCTCTAT-TGAGCTGA
43354309 GAACAGTAAGCTCT
1 -AACAGTAAGCTCT
43354323 TACGAGCTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.02
22 18 0.35
23 19 0.37
24 13 0.25
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:43354291 original size:45 final size:46
Alignment explanation
Indices: 43354239--43354332 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
43354229 CCTAAGCTGA
43354239 TGAACAGTAAGCTC-TATTGAGCTGA-AACAGTAAGCTCTGACGAGC
1 TGAACAGTAAGCTCATA-TGAGCTGAGAACAGTAAGCTCTGACGAGC
*
43354284 TGAACAGTAAGCTCATATGAGCTGAGAACAGTAAGCTCTTACGAGC
1 TGAACAGTAAGCTCATATGAGCTGAGAACAGTAAGCTCTGACGAGC
43354330 TGA
1 TGA
43354333 TATATCGATA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
45 22 0.48
46 24 0.52
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (46 bp):
TGAACAGTAAGCTCATATGAGCTGAGAACAGTAAGCTCTGACGAGC
Found at i:43354331 original size:46 final size:45
Alignment explanation
Indices: 43354239--43354332 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
43354229 CCTAAGCTGA
43354239 TGAACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTGACGAGC
1 TGAACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTGACGAGC
*
43354284 TGAACAGTAAGCTC-ATATGAGCTGAGAACAGTAAGCTCTTACGAGC
1 TGAACAGTAAGCTCTAT-TGAGCTGA-AACAGTAAGCTCTGACGAGC
43354330 TGA
1 TGA
43354333 TATATCGATA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
44 2 0.04
45 22 0.48
46 22 0.48
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (45 bp):
TGAACAGTAAGCTCTATTGAGCTGAAACAGTAAGCTCTGACGAGC
Found at i:43361113 original size:22 final size:23
Alignment explanation
Indices: 43361088--43361130 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
43361078 AAAGCTGAGG
43361088 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
43361110 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
43361131 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:43370390 original size:40 final size:40
Alignment explanation
Indices: 43370335--43370584 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
43370325 AACATTGGAA
43370335 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
43370375 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
43370415 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
43370455 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
43370495 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
43370534 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
43370575 CTATATCCGG
1 ATATATCCGG
43370585 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:43375430 original size:40 final size:40
Alignment explanation
Indices: 43375386--43375497 Score: 188
Period size: 40 Copynumber: 2.8 Consensus size: 40
43375376 CCAGCATGAT
* * *
43375386 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
43375426 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
43375466 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
43375498 CTCAATTCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:43377749 original size:49 final size:49
Alignment explanation
Indices: 43377627--43377829 Score: 297
Period size: 49 Copynumber: 4.2 Consensus size: 49
43377617 TCGGGACTTG
* * * * * * *
43377627 TCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGCCCTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
43377674 TCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
43377721 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
43377770 TCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
43377819 TCACATATATA
1 TCACATATATA
43377830 CATCTCATAC
Statistics
Matches: 144, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.01
47 42 0.29
49 101 0.70
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (49 bp):
TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:43381290 original size:40 final size:40
Alignment explanation
Indices: 43381246--43381357 Score: 188
Period size: 40 Copynumber: 2.8 Consensus size: 40
43381236 CCAGCATGAT
* * *
43381246 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
43381286 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
43381326 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
43381358 CTCAATTCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:43383612 original size:49 final size:49
Alignment explanation
Indices: 43383490--43383692 Score: 297
Period size: 49 Copynumber: 4.2 Consensus size: 49
43383480 TCGGGACTTG
* * * * * * *
43383490 TCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGCCCTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
43383537 TCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
43383584 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
43383633 TCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
43383682 TCACATATATA
1 TCACATATATA
43383693 CATCTCATAC
Statistics
Matches: 144, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.01
47 42 0.29
49 101 0.70
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (49 bp):
TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:43389060 original size:2 final size:2
Alignment explanation
Indices: 43389053--43389093 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
43389043 TGTGTTGAAA
* * *
43389053 AG AG AG AG GG AG AG AG AA AG TG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
43389094 TCATATATAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.02
Consensus pattern (2 bp):
AG
Found at i:43390553 original size:37 final size:37
Alignment explanation
Indices: 43390503--43390574 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
43390493 AACAAAACTG
43390503 TACGCTGAGTAAAACTCAGTGATATTTCTATAATCTT
1 TACGCTGAGTAAAACTCAGTGATATTTCTATAATCTT
43390540 TACGCTGAGTAAAACTCAGTGATATTTCTATAATC
1 TACGCTGAGTAAAACTCAGTGATATTTCTATAATC
43390575 CTAACATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (37 bp):
TACGCTGAGTAAAACTCAGTGATATTTCTATAATCTT
Found at i:43392012 original size:13 final size:12
Alignment explanation
Indices: 43391994--43392034 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
43391984 GCCATACGTA
43391994 TTTCTCCTTTGCT
1 TTTCTCCTTT-CT
43392007 TTTCTCTCTTTCT
1 TTTCTC-CTTTCT
43392020 TTT-T-CTTTCT
1 TTTCTCCTTTCT
43392030 TTTCT
1 TTTCT
43392035 TTTAAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.35
11 1 0.04
12 1 0.04
13 11 0.42
14 4 0.15
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (12 bp):
TTTCTCCTTTCT
Found at i:43392152 original size:19 final size:19
Alignment explanation
Indices: 43392099--43392157 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
43392089 TTATTAATTT
*
43392099 TATAACATATATACATATATA
1 TATAACATATA-ATATATA-A
* *
43392120 TATATC-T-TATTATATAA
1 TATAACATATAATATATAA
43392137 TATAACATATAATATATAA
1 TATAACATATAATATATAA
43392156 TA
1 TA
43392158 AGTTAACACA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 13 0.42
20 1 0.03
21 5 0.16
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAACATATAATATATAA
Found at i:43392626 original size:21 final size:20
Alignment explanation
Indices: 43392602--43392646 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
43392592 GAATTAATGC
*
43392602 AAATTCTATGTAATTTATGTA
1 AAATTCTATG-AATTTATATA
* *
43392623 AAATTTTATGATTTTATATA
1 AAATTCTATGAATTTATATA
43392643 AAAT
1 AAAT
43392647 AATTAAACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (20 bp):
AAATTCTATGAATTTATATA
Found at i:43395536 original size:20 final size:20
Alignment explanation
Indices: 43395513--43395555 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
43395503 CATACGGGCA
* *
43395513 TGTCCCAAACTACACGGGTG
1 TGTCCCAAACCACACGGATG
43395533 TGTCCCAAACCACACGGATG
1 TGTCCCAAACCACACGGATG
43395553 TGT
1 TGT
43395556 GACCCCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (20 bp):
TGTCCCAAACCACACGGATG
Found at i:43403652 original size:24 final size:23
Alignment explanation
Indices: 43403625--43403670 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
43403615 CCTATTACAT
43403625 GGCTCTTT-GTGAGCATTCCTGATA
1 GGCT-TTTCGTGAGC-TTCCTGATA
*
43403649 GGCTTTTCGTGAGCTTCTTGAT
1 GGCTTTTCGTGAGCTTCCTGAT
43403671 TAAAAGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.13, C:0.20, G:0.26, T:0.41
Consensus pattern (23 bp):
GGCTTTTCGTGAGCTTCCTGATA
Found at i:43405985 original size:42 final size:43
Alignment explanation
Indices: 43405874--43405988 Score: 160
Period size: 43 Copynumber: 2.7 Consensus size: 43
43405864 AAAGCTCGTA
* * *
43405874 CAATGCCAATGTCCTAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATAT
* *
43405917 CAATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAAATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATAT
* *
43405960 -GATGTCAATGTCCCAGACATGGTCTTACA
1 CAATGCCAATGTCCCAGACATGGTCTTACA
43405989 CATAATCTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
42 25 0.40
43 38 0.60
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATAT
Found at i:43407445 original size:16 final size:16
Alignment explanation
Indices: 43407424--43407457 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
43407414 AACTTGCCTG
43407424 ATGATTATGTAAAT-TT
1 ATGATTATG-AAATATT
43407440 ATGATTATGAAATATT
1 ATGATTATGAAATATT
43407456 AT
1 AT
43407458 ATAGATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (16 bp):
ATGATTATGAAATATT
Found at i:43415626 original size:27 final size:26
Alignment explanation
Indices: 43415570--43415626 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
43415560 CAACCTTAAC
* * *
43415570 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTGTACA
* *
43415596 CCTAGGGGTAAATCTGTAAATTGTCCA
1 CCTAGGGGTAAATCAGT-AATTGTACA
43415623 CCTA
1 CCTA
43415627 TAAAGTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTGTACA
Found at i:43423795 original size:17 final size:17
Alignment explanation
Indices: 43423773--43423810 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
43423763 GTGACAAAAG
43423773 TATGAGAAAGTATGCTA
1 TATGAGAAAGTATGCTA
43423790 TATGAGAAAGTATGCTA
1 TATGAGAAAGTATGCTA
43423807 TATG
1 TATG
43423811 TGCAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (17 bp):
TATGAGAAAGTATGCTA
Found at i:43424799 original size:31 final size:32
Alignment explanation
Indices: 43424756--43424857 Score: 118
Period size: 31 Copynumber: 3.1 Consensus size: 32
43424746 CCTTTTCGTA
*
43424756 TTTCATA-CTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTTCATAATACTGGGCCGAAGCCT
43424787 TTTCATGTTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCA----T-AT-TTTCATAATACTGGGCCGAAGCCT
*
43424825 TTTCATA-TTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTTCATAATACTGGGCCGAAGCCT
43424856 TT
1 TT
43424858 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
31 30 0.48
33 1 0.02
34 1 0.02
35 1 0.02
36 1 0.02
38 28 0.45
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (32 bp):
TTTCATATTTTCATAATACTGGGCCGAAGCCT
Found at i:43424839 original size:38 final size:38
Alignment explanation
Indices: 43424733--43424840 Score: 171
Period size: 38 Copynumber: 2.8 Consensus size: 38
43424723 TCAATCATGC
* * *
43424733 ACTGGGCCGTAGCCCTTTTCGTATTTCATACTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
43424772 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
43424810 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
43424841 ACTGGGCCGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
38 53 0.83
39 11 0.17
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:43425095 original size:24 final size:24
Alignment explanation
Indices: 43425049--43425143 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
43425039 GCTTTATCAT
*
43425049 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
43425074 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
43425098 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
43425121 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43425144 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:43425128 original size:47 final size:49
Alignment explanation
Indices: 43425049--43425142 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
43425039 GCTTTATCAT
*
43425049 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
43425098 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
43425143 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:43425219 original size:20 final size:20
Alignment explanation
Indices: 43425194--43425253 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
43425184 TATGATTACC
43425194 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
43425214 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
43425234 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
43425254 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:43425328 original size:25 final size:25
Alignment explanation
Indices: 43425296--43425343 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43425286 ATACATAAAC
* *
43425296 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
43425321 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
43425344 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:43431744 original size:46 final size:46
Alignment explanation
Indices: 43431671--43431779 Score: 146
Period size: 46 Copynumber: 2.4 Consensus size: 46
43431661 ATATATATAT
*
43431671 ATATACATCTCATACATATCTCACATTAGCCATTCAGCTTTACCTC
1 ATATACATCTCATACACATCTCACATTAGCCATTCAGCTTTACCTC
* * * * * *
43431717 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTC
1 ATATACATCTCATACACATCTCACATTAGCCATTCAGCTTTACCTC
*
43431763 ATATTCATCTCATACAC
1 ATATACATCTCATACAC
43431780 CACATATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.28, C:0.30, G:0.06, T:0.36
Consensus pattern (46 bp):
ATATACATCTCATACACATCTCACATTAGCCATTCAGCTTTACCTC
Found at i:43431851 original size:47 final size:47
Alignment explanation
Indices: 43431800--43432087 Score: 477
Period size: 47 Copynumber: 6.1 Consensus size: 47
43431790 CACTTCCACG
* **
43431800 TTCATCACATCGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
43431847 TTCATCACATTGGCCATTGGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
43431894 TTCATCACATTGGCCATTCAGCCTTATCACACATATGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
43431941 TTCACCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
43431988 TTAATCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
43432035 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
43432082 TTCATC
1 TTCATC
43432088 TCATAAAATC
Statistics
Matches: 222, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 222 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:43433883 original size:2 final size:2
Alignment explanation
Indices: 43433876--43433907 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
43433866 ACATTCGGCA
43433876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43433908 TAATGACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.