Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 76 of 770
Found at i:22330062 original size:40 final size:39
Alignment explanation
Indices: 22329946--22330258 Score: 152
Period size: 40 Copynumber: 7.8 Consensus size: 39
22329936 TTGAATGATA
* * **
22329946 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGG-TAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT
* *
22329986 CCGGGTAAGACCCGAAGGCATTTGTG-TGAGTTGTTATAC
1 CCGGGTAAGACCCGAAGGCATTTGTGCT-AGTGGTTATAT
* *
22330025 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGG-TAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT
* ** * * *
22330065 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT-GATGTAT
1 CCGG-GTAAGACCCGAAG-GCATTTGTGCTAGTGGTTATAT
* ** * * *
22330105 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT-GATGTAT
1 CCGG-GTAAGACCCGAAG-GCATTTGTGCTAGTGGTTATAT
* ** * * *
22330145 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT-GATGTAT
1 CCGG-GTAAGACCCGAAG-GCATTTGTGCTAGTGGTTATAT
* * * *
22330185 CCGGGCTAA-ATTCCGAAGAGCATTCGTGCTAGT-GATGTAT
1 CCGGG-TAAGA-CCCGAAG-GCATTTGTGCTAGTGGTTATAT
* ** *
22330225 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 CCGG-GTAAGACCCGAAG-GCATTTGTGCTAGTG
22330259 ATGTATCCGG
Statistics
Matches: 241, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.00
39 31 0.13
40 197 0.82
41 12 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGTAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT
Found at i:22330259 original size:40 final size:40
Alignment explanation
Indices: 22330062--22330286 Score: 405
Period size: 40 Copynumber: 5.6 Consensus size: 40
22330052 CTTGTGGTTA
22330062 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
22330102 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
22330142 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
22330182 TATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
22330222 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* * *
22330262 TATCCGGGCTAGGTCCCGAAGAGCA
1 TATCCGGACTAAGTTCCGAAGAGCA
22330287 ATCATGCTGG
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 178 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
Found at i:22333242 original size:96 final size:96
Alignment explanation
Indices: 22333133--22333368 Score: 454
Period size: 96 Copynumber: 2.5 Consensus size: 96
22333123 TGTGAAAGAG
22333133 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
*
22333198 TAATGGCCGATGTGATGAATGTGAAGGTGTA
66 TAATGGCCGATGTGATGAATGTGAAGGTATA
22333229 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
22333294 TAATGGCCGATGTGATGAATGTGAAGGTATA
66 TAATGGCCGATGTGATGAATGTGAAGGTATA
*
22333325 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
22333369 CATATGTGTG
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 138 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAGGTATA
Found at i:22333252 original size:49 final size:47
Alignment explanation
Indices: 22333123--22333368 Score: 402
Period size: 47 Copynumber: 5.1 Consensus size: 47
22333113 TGTTAAAATT
*
22333123 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
22333170 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
22333217 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGAG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
22333266 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
22333313 TGTGAAGGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAG-A-GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
22333362 TGTGAAA
1 TGTGAAA
22333369 CATATGTGTG
Statistics
Matches: 185, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
47 97 0.52
48 1 0.01
49 87 0.47
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:22333416 original size:48 final size:48
Alignment explanation
Indices: 22333360--22333559 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
22333350 CGATGTGATG
*
22333360 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
22333408 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
22333456 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
22333504 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
22333552 AATGTGAA
1 AATGTGAA
22333560 TGTTGTAACA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:22333653 original size:37 final size:37
Alignment explanation
Indices: 22333599--22333689 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
22333589 AACTTGGAAA
*
22333599 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
22333637 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
22333674 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
22333690 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:22335673 original size:40 final size:40
Alignment explanation
Indices: 22335579--22335903 Score: 142
Period size: 40 Copynumber: 8.1 Consensus size: 40
22335569 CATGAGCATT
* * * *
22335579 TGAATGATACCCGAGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAAT-ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAG
*
22335620 TGAATATATCCGGGTTAAGACCCGAAGGCATTTGTG-TGAG
1 TGAATATACCCGGGTTAAGACCCGAAGGCATTTGTGCT-AG
* * *
22335660 TTG-TTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTG
1 -TGAATATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAG
** * ** ** *
22335700 TGGTTATATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAG
1 TGAATATACCCGGGTTAAGACCCGAAG-GCATTTGTGCTAG
* * ** ** *
22335741 TG-ATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAG
1 TGAATATACCCGGGTTAAGACCCGAAG-GCATTTGTGCTAG
* * ** ** *
22335781 TG-ATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAG
1 TGAATATACCCGGGTTAAGACCCGAAG-GCATTTGTGCTAG
* * * * *
22335821 TG-ATGTATCCGGGCTAA-ATTCCGAAGAGCATTCGTGCTAG
1 TGAATATACCCGGGTTAAGA-CCCGAAG-GCATTTGTGCTAG
* * ** ** *
22335861 TG-ATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAG
1 TGAATATACCCGGGTTAAGACCCGAAG-GCATTTGTGCTAG
22335901 TGA
1 TGA
22335904 TGTATCCGGG
Statistics
Matches: 253, Mismatches: 23, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.01
40 230 0.91
41 20 0.08
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
TGAATATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAG
Found at i:22335904 original size:40 final size:40
Alignment explanation
Indices: 22335706--22335930 Score: 405
Period size: 40 Copynumber: 5.6 Consensus size: 40
22335696 CTTGTGGTTA
22335706 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
22335746 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
22335786 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
22335826 TATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
22335866 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* * *
22335906 TATCCGGGCTAGGTCCCGAAGAGCA
1 TATCCGGACTAAGTTCCGAAGAGCA
22335931 ATCATGCTGG
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 178 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
Found at i:22338930 original size:96 final size:96
Alignment explanation
Indices: 22338821--22339056 Score: 454
Period size: 96 Copynumber: 2.5 Consensus size: 96
22338811 TGTGAAAGAG
22338821 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
*
22338886 TAATGGCCGATGTGATGAATGTGAAGGTGTA
66 TAATGGCCGATGTGATGAATGTGAAGGTATA
22338917 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
22338982 TAATGGCCGATGTGATGAATGTGAAGGTATA
66 TAATGGCCGATGTGATGAATGTGAAGGTATA
*
22339013 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
22339057 CATATGTGTG
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 138 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAGGTATA
Found at i:22338940 original size:49 final size:47
Alignment explanation
Indices: 22338811--22339056 Score: 402
Period size: 47 Copynumber: 5.1 Consensus size: 47
22338801 TGTTAAAATT
*
22338811 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
22338858 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
22338905 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGAG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
22338954 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
22339001 TGTGAAGGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAG-A-GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
22339050 TGTGAAA
1 TGTGAAA
22339057 CATATGTGTG
Statistics
Matches: 185, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
47 97 0.52
48 1 0.01
49 87 0.47
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:22339104 original size:48 final size:48
Alignment explanation
Indices: 22339048--22339247 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
22339038 CGATGTGATG
*
22339048 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
22339096 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
22339144 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
22339192 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
22339240 AATGTGAA
1 AATGTGAA
22339248 TGTTGTAACA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:22339341 original size:37 final size:37
Alignment explanation
Indices: 22339287--22339377 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
22339277 AACTTGGAAA
*
22339287 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
22339325 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
22339362 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
22339378 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:22344146 original size:29 final size:29
Alignment explanation
Indices: 22344112--22344272 Score: 83
Period size: 29 Copynumber: 5.6 Consensus size: 29
22344102 TACTCGATTT
* * *
22344112 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
22344141 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
22344170 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * *** * *
22344199 TGCACACTCAGTGCCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
22344228 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
22344257 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
22344273 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 108 0.98
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:22344204 original size:58 final size:59
Alignment explanation
Indices: 22344111--22344272 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 59
22344101 ATACTCGATT
** * ** * *
22344111 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACACAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
***
22344169 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
*
22344228 T-GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCA
22344273 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
Found at i:22348830 original size:48 final size:51
Alignment explanation
Indices: 22348719--22348850 Score: 166
Period size: 48 Copynumber: 2.7 Consensus size: 51
22348709 CATCAAGTTG
* * * *
22348719 ATGCCATGGCCCAAACATGGTCTTACACT-AGC-TCTCACATATCTGTGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CACCTCACATATCTGTGCCA
*
22348769 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTC-TATA-C-GTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCACATATCTGTGCCA
*
22348817 ATGCCATGTCCCAGACATGGTCTTTCACTGACAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGACAC
22348851 ATTTCGTAGT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
48 38 0.51
49 1 0.01
50 31 0.42
51 4 0.05
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.27
Consensus pattern (51 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCACATATCTGTGCCA
Found at i:22350616 original size:46 final size:46
Alignment explanation
Indices: 22350563--22350738 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
22350553 TATTTGGGCA
22350563 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
22350609 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
22350656 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
22350702 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22350739 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:22350718 original size:93 final size:93
Alignment explanation
Indices: 22350559--22350730 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
22350549 GGGATATTTG
* *
22350559 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
22350624 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
22350652 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
22350717 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
22350731 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:22353706 original size:15 final size:15
Alignment explanation
Indices: 22353686--22353754 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
22353676 GTATCTTGGG
22353686 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
22353701 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
22353716 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
22353731 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
22353746 TTTCTTTAT
1 TTTCTTTAT
22353755 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:22353755 original size:30 final size:30
Alignment explanation
Indices: 22353677--22353764 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
22353667 CATAGTATCG
* * * *
22353677 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
22353707 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
22353737 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
22353765 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:22356313 original size:46 final size:46
Alignment explanation
Indices: 22356150--22356322 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
22356140 ATTTGGGCAT
*
22356150 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
22356194 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
22356239 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
22356287 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22356323 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 5 0.05
43 2 0.02
44 28 0.25
45 1 0.01
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:22359334 original size:42 final size:42
Alignment explanation
Indices: 22359216--22359334 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
22359206 CGTACCACTA
* * * *
22359216 CCTTATCTCAGATATGGTCTTACATGTAATCTCGTATTGATG
1 CCTTATCACAAATATGGTCTTACAAGTAATCTCATATTGATG
* * * * *
22359258 CCAATAGCACAAATATGGCCTTATAAG-AAGTCTCATATTGATT
1 CC-TTATCACAAATATGGTCTTACAAGTAA-TCTCATATTGATG
* *
22359301 CCTTATCCCAAATATGGTCTTACACGTAATCTCA
1 CCTTATCACAAATATGGTCTTACAAGTAATCTCA
22359335 ATAACCCTAA
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (42 bp):
CCTTATCACAAATATGGTCTTACAAGTAATCTCATATTGATG
Found at i:22376797 original size:30 final size:30
Alignment explanation
Indices: 22376753--22376815 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
22376743 ACTTAACAAG
22376753 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
22376783 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
22376813 CAA
1 CAA
22376816 TAGGGAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:22376870 original size:22 final size:22
Alignment explanation
Indices: 22376814--22376872 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
22376804 CAAAATTAAC
22376814 AATAGGGAGAAAATAGTAGCAA
1 AATAGGGAGAAAATAGTAGCAA
* ** *
22376836 CATA-ATAGTAAAATGGTAGCAA
1 AATAGGGAG-AAAATAGTAGCAA
22376858 AATAGGGAGAAAATA
1 AATAGGGAGAAAATA
22376873 ATAAGAAAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
21 2 0.07
22 23 0.85
23 2 0.07
ACGTcount: A:0.54, C:0.05, G:0.24, T:0.17
Consensus pattern (22 bp):
AATAGGGAGAAAATAGTAGCAA
Found at i:22378145 original size:12 final size:12
Alignment explanation
Indices: 22378130--22378159 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
22378120 TCCCTTCTTT
22378130 ACTCCCCTTTTC
1 ACTCCCCTTTTC
22378142 ACTCCCCTTTTC
1 ACTCCCCTTTTC
22378154 ACTCCC
1 ACTCCC
22378160 ATTGTCCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.53, G:0.00, T:0.37
Consensus pattern (12 bp):
ACTCCCCTTTTC
Found at i:22379534 original size:18 final size:18
Alignment explanation
Indices: 22379511--22379557 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
22379501 AACAAGTGTG
22379511 TGTAACACTGCCATTAGA
1 TGTAACACTGCCATTAGA
22379529 TGTAACACTGCCATTAGA
1 TGTAACACTGCCATTAGA
22379547 TGTAACACTGC
1 TGTAACACTGC
22379558 AAAGGCTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (18 bp):
TGTAACACTGCCATTAGA
Found at i:22381371 original size:20 final size:21
Alignment explanation
Indices: 22381348--22381387 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22381338 CCCTTGAAAC
22381348 AGGGC-ACACACCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
22381368 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACACCCGTGTGG
22381388 CCATTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACACCCGTGTGGA
Found at i:22384521 original size:13 final size:13
Alignment explanation
Indices: 22384503--22384529 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22384493 GCTCGACAGG
22384503 GACACGCCTGTGT
1 GACACGCCTGTGT
22384516 GACACGCCTGTGT
1 GACACGCCTGTGT
22384529 G
1 G
22384530 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:22387276 original size:55 final size:53
Alignment explanation
Indices: 22387146--22387286 Score: 129
Period size: 55 Copynumber: 2.6 Consensus size: 53
22387136 GAAGGCGCAC
* ** *
22387146 GCCCGTGTTGTTTTGGCAGGTTTGCCCATGGTTGCTTGGCATGGCCATGTCAT
1 GCCCGTGTTGTTTTGGCAGGTTTGCCCACGGTTGCAAGGCACGGCCATGTCAT
* ** * * * *
22387199 ACACACGTGTTAATTTGACAGGTTTGGCCACGGTTTCAAGGCACGGGCATGTTGCAT
1 GC-C-CGTGTTGTTTTGGCAGGTTTGCCCACGGTTGCAAGGCACGGCCATG-T-CAT
**
22387256 GCCCGTGTTGTTTTGGCAGGTTCACCCACGG
1 GCCCGTGTTGTTTTGGCAGGTTTGCCCACGG
22387287 CCATGTCACA
Statistics
Matches: 66, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
53 1 0.02
54 1 0.02
55 58 0.88
56 2 0.03
57 4 0.06
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.31
Consensus pattern (53 bp):
GCCCGTGTTGTTTTGGCAGGTTTGCCCACGGTTGCAAGGCACGGCCATGTCAT
Found at i:22406305 original size:39 final size:39
Alignment explanation
Indices: 22406261--22406340 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
22406251 AAACATAGGC
22406261 ATTCATGCATTGATTGTTTAAACTTTAAGGAATTAGAGA
1 ATTCATGCATTGATTGTTTAAACTTTAAGGAATTAGAGA
22406300 ATTCATGCATTGATTGTTTAAACTTTAAGGAATTAGAGA
1 ATTCATGCATTGATTGTTTAAACTTTAAGGAATTAGAGA
22406339 AT
1 AT
22406341 CAAGCATGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.39
Consensus pattern (39 bp):
ATTCATGCATTGATTGTTTAAACTTTAAGGAATTAGAGA
Found at i:22410017 original size:42 final size:42
Alignment explanation
Indices: 22409970--22410076 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
22409960 TATTGGTCTC
22409970 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
22410012 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
22410054 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
22410077 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:22410141 original size:27 final size:28
Alignment explanation
Indices: 22410084--22410153 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
22410074 AAAATTGTAC
**
22410084 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
22410112 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
22410139 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22410154 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:22417247 original size:42 final size:42
Alignment explanation
Indices: 22417200--22417306 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
22417190 TATTGGTCTC
22417200 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
22417242 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
22417284 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
22417307 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:22417371 original size:27 final size:28
Alignment explanation
Indices: 22417314--22417383 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
22417304 AAAATTGTAC
**
22417314 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
22417342 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
22417369 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22417384 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:22427162 original size:40 final size:40
Alignment explanation
Indices: 22427117--22427246 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
22427107 CGGAATACAA
22427117 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
22427157 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
22427197 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
22427237 CCGGATATAA
1 CCGGATATAA
22427247 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:22430012 original size:40 final size:40
Alignment explanation
Indices: 22429946--22430112 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
22429936 AAATTGAATG
* * *
22429946 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
22429985 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
22430025 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
22430065 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
22430105 ATATCCGG
1 ATATCCGG
22430113 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:22438475 original size:40 final size:40
Alignment explanation
Indices: 22438430--22438559 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
22438420 CGGAATACAA
22438430 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
22438470 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
22438510 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
22438550 CCGGATATAA
1 CCGGATATAA
22438560 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:22441984 original size:95 final size:95
Alignment explanation
Indices: 22441804--22441984 Score: 272
Period size: 95 Copynumber: 1.9 Consensus size: 95
22441794 TCTTCTCTAG
* * *
22441804 TTGGATATTTAACTGGACATTGGAAACCCTTATGCTCTTTTGAACTACACCAATAACATTGCACA
1 TTGGATATTTAACTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCACA
* **
22441869 AAAGGTGATATCTCAATTGTATTCACTTAA
66 AAAGGTGAAAGATCAATTGTATTCACTTAA
* *
22441899 TTGGATATTTAATTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTTCACA
1 TTGGATATTTAACTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCACA
* *
22441964 ATAGGTGAAAGATCAGTTGTA
66 AAAGGTGAAAGATCAATTGTA
22441985 CTCCTTCTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 76 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (95 bp):
TTGGATATTTAACTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCACA
AAAGGTGAAAGATCAATTGTATTCACTTAA
Found at i:22444084 original size:29 final size:29
Alignment explanation
Indices: 22443952--22444076 Score: 198
Period size: 29 Copynumber: 4.2 Consensus size: 29
22443942 GTGACGAGAT
22443952 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
22443981 TGGCACTAAGTGTGCATGCTGCTGGAAATATA
1 TGGCACTAAGTGTGCA---TGCTGGAAATATA
22444013 TGGCACTAAGTGTGCATGCTGG-AATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
22444041 TGGTACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
22444070 CGGCACT
1 TGGCACT
22444077 GGGTGTGCGA
Statistics
Matches: 89, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
28 27 0.30
29 33 0.37
32 29 0.33
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:22444182 original size:2 final size:2
Alignment explanation
Indices: 22444177--22444201 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22444167 GTGCGTACTC
22444177 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22444202 CTCCGATCGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22452768 original size:49 final size:49
Alignment explanation
Indices: 22452712--22452999 Score: 427
Period size: 49 Copynumber: 6.1 Consensus size: 49
22452702 TACATATATG
* * * *
22452712 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
22452761 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
22452810 TGTGATGAGGCCTAATGGCCGA--TG-TG-A--T-AAA-TG--TGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
22452849 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
22452898 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
22452947 TGTGATGAGGCCTAATGG-CGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
22452995 TGTGA
1 TGTGA
22453000 CCGATGTGGT
Statistics
Matches: 223, Mismatches: 6, Indels: 21
0.89 0.02 0.08
Matches are distributed among these distances:
39 28 0.13
41 4 0.02
42 5 0.02
43 2 0.01
45 2 0.01
46 5 0.02
47 4 0.02
48 35 0.16
49 138 0.62
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:22452848 original size:39 final size:39
Alignment explanation
Indices: 22452804--22452883 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
22452794 TGAAAGTGGA
22452804 TGTATATGTGATGAGGCCTAATGGCCGATGTGATAAATG
1 TGTATATGTGATGAGGCCTAATGGCCGATGTGATAAATG
*
22452843 TGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATG
1 TGTATATGTGATGAGGCCTAATGGCCGATGTGATAAATG
22452882 TG
1 TG
22452884 AAAGTGTATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.26, C:0.10, G:0.33, T:0.31
Consensus pattern (39 bp):
TGTATATGTGATGAGGCCTAATGGCCGATGTGATAAATG
Found at i:22452878 original size:137 final size:133
Alignment explanation
Indices: 22452712--22453049 Score: 484
Period size: 137 Copynumber: 2.5 Consensus size: 133
22452702 TACATATATG
* * *
22452712 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
22452777 GGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGATAAAT
65 GGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGG-CGATGTGATAAAT
22452842 GTGTATA
129 GTG-A-A
*
22452849 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
* * * *
22452914 GGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCGATGTGGTGAATG
65 GGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCGATGTGATAAATG
22452979 TGAA
130 TGAA
* * *
22452983 AGTG-TATG--TATATGTGACCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTA
1 TGTGATAGGCCTA-ATG-G-CCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTA
22453045 ATGGC
63 ATGGC
22453050 TAATAAAATT
Statistics
Matches: 185, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
130 2 0.01
131 3 0.02
132 3 0.02
133 49 0.26
134 4 0.02
135 1 0.01
136 14 0.08
137 109 0.59
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (133 bp):
TGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCGATGTGATAAATGT
GAA
Found at i:22452904 original size:88 final size:95
Alignment explanation
Indices: 22452712--22452999 Score: 396
Period size: 88 Copynumber: 3.1 Consensus size: 95
22452702 TACATATATG
* * * *
22452712 TGTGATAAGGCCGAATGGCC-AATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAA
1 TGTGATGAGGCCTAATGGCCGAGTG-G-TGAA-GTGAAAGTG-ATGTATATGTGATGAGGCCTAA
*
22452776 TGGCCGATGTGATGAATGTGAAAGTGGATGTATA
62 TGGCCGATGTGATGAATGTGAAAGTGTATGTATA
22452810 TGTGATGAGGCCTAATGGCCGA-T-GTG-A-T-AAA-TG-TGTATATGTGATGAGGCCTAATGGC
1 TGTGATGAGGCCTAATGGCCGAGTGGTGAAGTGAAAGTGATGTATATGTGATGAGGCCTAATGGC
22452868 CGATGTGATGAATGTGAAAGTGTATGTATA
66 CGATGTGATGAATGTGAAAGTGTATGTATA
22452898 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATGAGGCCTAATGGCCGA-GTGGTGAA-GTGAAAGTG-ATGTATATGTGATGAGGCCTAAT
*
22452963 GG-CGATGTGGTGAATGTGAAAGTGTATGTATA
63 GGCCGATGTGATGAATGTGAAAGTGTATGTATA
22452995 TGTGA
1 TGTGA
22453000 CCGATGTGGT
Statistics
Matches: 174, Mismatches: 5, Indels: 23
0.86 0.02 0.11
Matches are distributed among these distances:
88 75 0.43
90 3 0.02
91 6 0.03
92 2 0.01
94 2 0.01
95 5 0.03
96 3 0.02
97 34 0.20
98 43 0.25
99 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.30
Consensus pattern (95 bp):
TGTGATGAGGCCTAATGGCCGAGTGGTGAAGTGAAAGTGATGTATATGTGATGAGGCCTAATGGC
CGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:22452999 original size:18 final size:18
Alignment explanation
Indices: 22452976--22453035 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
22452966 GATGTGGTGA
22452976 ATGTGAAAGTGTATGTAT
1 ATGTGAAAGTGTATGTAT
** *
22452994 ATGTGACCGATGT-GGTGA-
1 ATGTGAAAG-TGTATGT-AT
22453012 ATGTGAAAGTGTATGTAT
1 ATGTGAAAGTGTATGTAT
22453030 ATGTGA
1 ATGTGA
22453036 TAAGGCCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 4 0.12
18 24 0.75
19 4 0.12
ACGTcount: A:0.30, C:0.03, G:0.32, T:0.35
Consensus pattern (18 bp):
ATGTGAAAGTGTATGTAT
Found at i:22453005 original size:36 final size:36
Alignment explanation
Indices: 22452965--22453035 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
22452955 GGCCTAATGG
22452965 CGATGTGGTGAATGTGAAAGTGTATGTATATGTGAC
1 CGATGTGGTGAATGTGAAAGTGTATGTATATGTGAC
22453001 CGATGTGGTGAATGTGAAAGTGTATGTATATGTGA
1 CGATGTGGTGAATGTGAAAGTGTATGTATATGTGA
22453036 TAAGGCCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.28, C:0.04, G:0.34, T:0.34
Consensus pattern (36 bp):
CGATGTGGTGAATGTGAAAGTGTATGTATATGTGAC
Found at i:22453198 original size:37 final size:37
Alignment explanation
Indices: 22453148--22453232 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
22453138 GGAATATGTT
*
22453148 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
22453185 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
22453222 CCGGGTAAGAC
1 CCGGGTAAGAC
22453233 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:22455955 original size:29 final size:29
Alignment explanation
Indices: 22455822--22455947 Score: 200
Period size: 29 Copynumber: 4.2 Consensus size: 29
22455812 GTGACGAGAT
22455822 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
22455851 TGGCACTAAGTGTGCATGCTTGCTGGAAATATA
1 TGGCACTAAGTGTGCA----TGCTGGAAATATA
22455884 TGGCACTAAGTGTGCATGCTGGAAAT-TA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
22455912 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
22455941 CGGCACT
1 TGGCACT
22455948 GGGTGTGCGA
Statistics
Matches: 91, Mismatches: 1, Indels: 10
0.89 0.01 0.10
Matches are distributed among these distances:
28 28 0.31
29 34 0.37
33 29 0.32
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:22456053 original size:2 final size:2
Alignment explanation
Indices: 22456048--22456084 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22456038 GTGCGTACTC
22456048 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22456085 CCGATCGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22460473 original size:30 final size:30
Alignment explanation
Indices: 22460438--22460503 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
22460428 TGAGGGCAGA
22460438 CCGTGTGTTACACACGGCCTAGACACATGG
1 CCGTGTGTTACACACGGCCTAGACACATGG
*
22460468 TCGTGTGTTACACACGGCCTAGACACATGG
1 CCGTGTGTTACACACGGCCTAGACACATGG
22460498 CCGTGT
1 CCGTGT
22460504 TTCTACCCGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (30 bp):
CCGTGTGTTACACACGGCCTAGACACATGG
Found at i:22461482 original size:54 final size:54
Alignment explanation
Indices: 22461418--22461553 Score: 209
Period size: 54 Copynumber: 2.5 Consensus size: 54
22461408 ATCCTTACGG
* * *
22461418 CGGGATTACCAGTCTAGGCTAAATCCCCCGTAGTATAGATTCATAGAGCAATAT
1 CGGGATTACCAGTCTAGGCTAAATCCCCCATAGTACAGACTCATAGAGCAATAT
* * *
22461472 TGGGATTACCACTCTAGGCTAAATCCCCCATAGTACAGACTCATAGAGCAATGT
1 CGGGATTACCAGTCTAGGCTAAATCCCCCATAGTACAGACTCATAGAGCAATAT
*
22461526 CGGGATTACCAGTCCAGGCTAAATCCCC
1 CGGGATTACCAGTCTAGGCTAAATCCCC
22461554 TGCAACGACA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (54 bp):
CGGGATTACCAGTCTAGGCTAAATCCCCCATAGTACAGACTCATAGAGCAATAT
Found at i:22469368 original size:54 final size:54
Alignment explanation
Indices: 22469274--22469403 Score: 190
Period size: 54 Copynumber: 2.4 Consensus size: 54
22469264 CCTTACGGCG
* * * *
22469274 GGATTATCAGTCCAGGCTAAATCCCTCGTAGTATAGACTCATAGAGCAATGTC-
1 GGATTACCAGTCCAGGCTAAATCCCCCGTAATATACACTCATAGAGCAATGTCA
22469327 GAGATTACCAGTCCAGGCTAAATCCCCCGTAATATACACTCATAGAGCAATGTCA
1 G-GATTACCAGTCCAGGCTAAATCCCCCGTAATATACACTCATAGAGCAATGTCA
* *
22469382 GGATTACCAGTCTAAGCTAAAT
1 GGATTACCAGTCCAGGCTAAAT
22469404 TCCCTGCAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.01
54 67 0.97
55 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCCGTAATATACACTCATAGAGCAATGTCA
Found at i:22479786 original size:28 final size:28
Alignment explanation
Indices: 22479725--22479822 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
22479715 TCACAAATTG
** * *
22479725 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
22479754 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
22479782 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
22479810 GCACTAAGTGTGC
1 GCACTAAGTGTGC
22479823 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:22487468 original size:28 final size:28
Alignment explanation
Indices: 22487407--22487504 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
22487397 TCACAAATTG
** * *
22487407 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
22487436 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
22487464 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
22487492 GCACTAAGTGTGC
1 GCACTAAGTGTGC
22487505 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:22489961 original size:19 final size:20
Alignment explanation
Indices: 22489934--22489974 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
22489924 GTCTCCTGTA
* *
22489934 TTTTGTAAAATTTTC-TAAG
1 TTTTCTAAAAATTTCATAAG
22489953 TTTTCTAAAAATTTCATAAG
1 TTTTCTAAAAATTTCATAAG
22489973 TT
1 TT
22489975 ATCGATTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (20 bp):
TTTTCTAAAAATTTCATAAG
Found at i:22494391 original size:15 final size:15
Alignment explanation
Indices: 22494371--22494434 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
22494361 GTATCTTGGG
22494371 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
22494386 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
22494401 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
22494416 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
22494429 TTTCTT
1 TTTCTT
22494435 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 4 0.09
15 33 0.73
16 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:22501511 original size:43 final size:43
Alignment explanation
Indices: 22501450--22501819 Score: 605
Period size: 43 Copynumber: 8.6 Consensus size: 43
22501440 CCGACATTAC
* *
22501450 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
22501493 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
22501536 GCCTACTAGGCACGAAGGCTCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
22501579 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
22501622 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
22501665 GCCTGCTAGGCACGAAGGCCCGAATATACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
22501708 GCCTGCTAGGCACGAAGGCCAGAATACACATCACCGGGACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
22501751 GCCTGCTTGGCACGAAGGCCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
22501794 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
22501820 TAATTACCAG
Statistics
Matches: 300, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 300 1.00
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:22501881 original size:38 final size:38
Alignment explanation
Indices: 22501812--22501936 Score: 133
Period size: 38 Copynumber: 3.2 Consensus size: 38
22501802 GGCACGAAGG
* * * *
22501812 CCCGAATATAATTACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAA-TACCAGCACGAAGCCTGCGGGATTTAA
* *
22501851 CCCTGATATAATACCAGCACGAAGCATGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * *
22501889 CCCGGATATTTTACTAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
22501928 GCCCGGATA
1 -CCCGGATA
22501937 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
38 50 0.69
39 14 0.19
40 8 0.11
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:22513539 original size:33 final size:33
Alignment explanation
Indices: 22513497--22513621 Score: 178
Period size: 33 Copynumber: 3.8 Consensus size: 33
22513487 TACAGTATTG
* * * * *
22513497 GTCTGGGCCTGAGCCCTATTCAATAACAGCAAA
1 GTCTGGGCCTAAGCCCTATGCAGTAACAGTACA
*
22513530 GTCTGGGCCTAAGCCTTATGCAGTAACAGTACA
1 GTCTGGGCCTAAGCCCTATGCAGTAACAGTACA
**
22513563 GTCTGGGCCTAAGCCAGATGCAGTAACAGTACA
1 GTCTGGGCCTAAGCCCTATGCAGTAACAGTACA
22513596 GTCTGGGCCTAAGCCCTATGCAGTAA
1 GTCTGGGCCTAAGCCCTATGCAGTAA
22513622 TAGTGTGGGC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.22
Consensus pattern (33 bp):
GTCTGGGCCTAAGCCCTATGCAGTAACAGTACA
Found at i:22517577 original size:25 final size:25
Alignment explanation
Indices: 22517549--22517596 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22517539 TTATACCATG
* * *
22517549 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
22517574 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
22517597 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:22517667 original size:20 final size:20
Alignment explanation
Indices: 22517642--22517698 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
22517632 AATATGGTAA
22517642 GTATGATATGCACATGAAAT
1 GTATGATATGCACATGAAAT
*
22517662 GTATGATATGCACATGATAT
1 GTATGATATGCACATGAAAT
22517682 GTATGATATGCACATGA
1 GTATGATATGCACATGA
22517699 GGTAATCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
GTATGATATGCACATGAAAT
Found at i:22517680 original size:11 final size:11
Alignment explanation
Indices: 22517644--22517698 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
22517634 TATGGTAAGT
22517644 ATGATATGCAC
1 ATGATATGCAC
* *
22517655 ATGAAATG--T
1 ATGATATGCAC
22517664 ATGATATGCAC
1 ATGATATGCAC
*
22517675 ATGATATG--T
1 ATGATATGCAC
22517684 ATGATATGCAC
1 ATGATATGCAC
22517695 ATGA
1 ATGA
22517699 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:22517776 original size:24 final size:24
Alignment explanation
Indices: 22517749--22517867 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
22517739 GAGGAAGTGA
*
22517749 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
22517773 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
22517796 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
22517820 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
22517844 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
22517868 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:22517818 original size:47 final size:48
Alignment explanation
Indices: 22517749--22517867 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
22517739 GAGGAAGTGA
22517749 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
22517796 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
22517844 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
22517868 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:22518117 original size:30 final size:31
Alignment explanation
Indices: 22518058--22518150 Score: 163
Period size: 30 Copynumber: 3.1 Consensus size: 31
22518048 CGTTTACAGT
22518058 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22518089 AAAGGCTTCGGCCCAGTAATAT-AAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
22518119 AAAGGCTT-GGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22518149 AA
1 AA
22518151 TAGAAAAGGG
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
29 12 0.20
30 26 0.43
31 22 0.37
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22524158 original size:25 final size:25
Alignment explanation
Indices: 22524130--22524177 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22524120 TTATACCATG
* * *
22524130 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
22524155 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
22524178 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:22524246 original size:20 final size:20
Alignment explanation
Indices: 22524221--22524279 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
22524211 TAAATATGGT
22524221 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
22524241 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
22524261 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
22524280 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:22524261 original size:11 final size:11
Alignment explanation
Indices: 22524225--22524279 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
22524215 TATGGTATGT
22524225 ATGATATGCAC
1 ATGATATGCAC
* *
22524236 ATGAAATG--T
1 ATGATATGCAC
22524245 ATGATATGCAC
1 ATGATATGCAC
*
22524256 ATGATATG--T
1 ATGATATGCAC
22524265 ATGATATGCAC
1 ATGATATGCAC
22524276 ATGA
1 ATGA
22524280 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:22524357 original size:24 final size:24
Alignment explanation
Indices: 22524330--22524448 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
22524320 GAGGAAGTGA
*
22524330 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
22524354 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
22524377 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
22524401 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
22524425 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
22524449 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:22524399 original size:47 final size:48
Alignment explanation
Indices: 22524330--22524448 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
22524320 GAGGAAGTGA
22524330 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
22524377 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
22524425 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
22524449 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:22524699 original size:30 final size:31
Alignment explanation
Indices: 22524640--22524732 Score: 163
Period size: 30 Copynumber: 3.1 Consensus size: 31
22524630 CGTTTACAGT
22524640 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22524671 AAAGGCTTCGGCCCAGTAATAT-AAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
22524701 AAAGGCTT-GGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22524731 AA
1 AA
22524733 TAGAAAAGGG
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
29 12 0.20
30 26 0.43
31 22 0.37
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22530828 original size:20 final size:20
Alignment explanation
Indices: 22530803--22530861 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
22530793 TAAATATGGT
22530803 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
22530823 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
22530843 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
22530862 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:22530843 original size:11 final size:11
Alignment explanation
Indices: 22530807--22530861 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
22530797 TATGGTATGT
22530807 ATGATATGCAC
1 ATGATATGCAC
* *
22530818 ATGAAATG--T
1 ATGATATGCAC
22530827 ATGATATGCAC
1 ATGATATGCAC
*
22530838 ATGATATG--T
1 ATGATATGCAC
22530847 ATGATATGCAC
1 ATGATATGCAC
22530858 ATGA
1 ATGA
22530862 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:22530939 original size:24 final size:24
Alignment explanation
Indices: 22530912--22531030 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
22530902 GAGGAAGTGA
*
22530912 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
22530936 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
22530959 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
22530983 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
22531007 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
22531031 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:22530981 original size:47 final size:48
Alignment explanation
Indices: 22530912--22531030 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
22530902 GAGGAAGTGA
22530912 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
22530959 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
22531007 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
22531031 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:22531256 original size:31 final size:31
Alignment explanation
Indices: 22531221--22531284 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
22531211 CGTTTACAGT
22531221 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
22531252 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22531283 AA
1 AA
22531285 TAAGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22537511 original size:7 final size:6
Alignment explanation
Indices: 22537477--22537515 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
22537467 GTTTAAAAAC
* * *
22537477 TTTTTA TTTTTA TTTTTA TTTTCA CTTTTA TCTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
22537516 ATCTTAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:22544938 original size:49 final size:49
Alignment explanation
Indices: 22544810--22544930 Score: 233
Period size: 49 Copynumber: 2.5 Consensus size: 49
22544800 TACATAATAG
22544810 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
22544859 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
22544908 TATGTGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
22544931 TAATGTGAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:22544980 original size:48 final size:48
Alignment explanation
Indices: 22544906--22545083 Score: 266
Period size: 48 Copynumber: 3.7 Consensus size: 48
22544896 TGAAAGTGTA
* *
22544906 TATATGTGTGATAAGGCCTAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* *
22544956 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* * *
22545004 TATATGTAGTAAAGCTGAATGGCTAATGTGAAATGTATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
*
22545052 TATATGTGGTAAAGCCGAATGGCTAACGTGAA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAA
22545084 TGTTGTAACA
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
48 107 0.92
49 1 0.01
50 8 0.07
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
Found at i:22545179 original size:37 final size:37
Alignment explanation
Indices: 22545138--22545247 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
22545128 TCTGGGTGAG
22545138 ACCCGATGACTATGTGTGGAGATTATGTCCGGGTAAA
1 ACCCGATGACTATGTGTGGAGATTATGTCCGGGTAAA
* * * * *
22545175 ACCCGATGACTACGCGTGGAGATTATGTCCGCGTGAG
1 ACCCGATGACTATGTGTGGAGATTATGTCCGGGTAAA
22545212 ACCCGATGACTATGTGTGGAGATTATGTCCGGGTAA
1 ACCCGATGACTATGTGTGGAGATTATGTCCGGGTAA
22545248 GACTTCGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
ACCCGATGACTATGTGTGGAGATTATGTCCGGGTAAA
Found at i:22551143 original size:33 final size:33
Alignment explanation
Indices: 22551010--22551139 Score: 136
Period size: 33 Copynumber: 3.9 Consensus size: 33
22551000 AACAGTGCAT
* *
22551010 ACAGTAAAGGTCTAGGCCTGAA-CCCTATTCAATA
1 ACAGTACA-GTCTAGGCCT-AAGCCCTATGCAATA
*
22551044 ACAGTACAGTCTGGGCCTAAGCCCTATGCAATA
1 ACAGTACAGTCTAGGCCTAAGCCCTATGCAATA
* * * * * *
22551077 ATAGTACAGCCTGGGCCTAAGCTCGATGCAGTA
1 ACAGTACAGTCTAGGCCTAAGCCCTATGCAATA
* *
22551110 ACCGTACCGTCTAGGCCTAAGCCCTATGCA
1 ACAGTACAGTCTAGGCCTAAGCCCTATGCA
22551140 GTAATAGTGT
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
32 2 0.03
33 71 0.89
34 7 0.09
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (33 bp):
ACAGTACAGTCTAGGCCTAAGCCCTATGCAATA
Found at i:22562238 original size:2 final size:2
Alignment explanation
Indices: 22562231--22562268 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
22562221 AGTATAGTTG
*
22562231 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22562269 TCGGCCATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22562942 original size:29 final size:29
Alignment explanation
Indices: 22562907--22562980 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
22562897 GTTGTGAGAT
* *
22562907 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
22562936 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
22562965 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
22562981 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:22571064 original size:29 final size:29
Alignment explanation
Indices: 22571029--22571102 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
22571019 GTTGTGAGAT
* *
22571029 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
22571058 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
22571087 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
22571103 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:22583743 original size:40 final size:39
Alignment explanation
Indices: 22583578--22583761 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
22583568 AAATTGAATG
* * *
22583578 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
22583618 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
22583658 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
22583698 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
22583737 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
22583762 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:22583786 original size:80 final size:81
Alignment explanation
Indices: 22583618--22583806 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
22583608 GCTGGAAATT
* * * *
22583618 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
22583683 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
22583699 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
22583762 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
22583778 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
22583807 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:22591863 original size:40 final size:39
Alignment explanation
Indices: 22591698--22591881 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
22591688 AAATTGAATG
* * *
22591698 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
22591738 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
22591778 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
22591818 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
22591857 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
22591882 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:22591906 original size:80 final size:81
Alignment explanation
Indices: 22591738--22591926 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
22591728 GCTGGAAATT
* * * *
22591738 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
22591803 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
22591819 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
22591882 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
22591898 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
22591927 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:22593685 original size:50 final size:49
Alignment explanation
Indices: 22593565--22593740 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
22593555 TGAGGTCGCA
* *** * *
22593565 TGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTGTA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTA-CC--AGACTGTAGGTCACG
* **
22593616 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACT-GT-AGGTCACG
* * *
22593666 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCACG
22593715 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
22593741 TGCTACCAGA
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 32 0.30
50 41 0.38
51 30 0.28
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCACG
Found at i:22596987 original size:20 final size:20
Alignment explanation
Indices: 22596964--22597001 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22596954 CACATCCAAA
*
22596964 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
22596984 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
22597002 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:22603383 original size:20 final size:20
Alignment explanation
Indices: 22603360--22603397 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22603350 CACATCCAAA
*
22603360 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
22603380 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
22603398 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:22607774 original size:34 final size:34
Alignment explanation
Indices: 22607724--22607797 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
22607714 AGCCCCTTTT
* *
22607724 TCAGTAATAGTAGCAGTCTGGGCCTTAGCCCGTC
1 TCAGTAACAGTAGCAGTCTAGGCCTTAGCCCGTC
* * * *
22607758 TCAGTAACAGTGGCAGTCTAGTCCTTAGCCCTTT
1 TCAGTAACAGTAGCAGTCTAGGCCTTAGCCCGTC
22607792 TCAGTA
1 TCAGTA
22607798 TATGCAACAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.30
Consensus pattern (34 bp):
TCAGTAACAGTAGCAGTCTAGGCCTTAGCCCGTC
Found at i:22609346 original size:40 final size:40
Alignment explanation
Indices: 22609269--22609476 Score: 197
Period size: 40 Copynumber: 5.2 Consensus size: 40
22609259 CGAGATTTAA
** * * *
22609269 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
* * *
22609308 CCGGATA-AGATCACTAGTATAAATGCCTTCAGGACTTAGC
1 CCGGATATAG-TCACTAGCACAAATGCCTTCGGGACTTAGC
* * ** *
22609348 CCAGATATAGTCGCTAGCACAAATGCCTTCGGGTTTTGGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
* * * *
22609388 CCGGATATAGTAACTTGCATAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGA-CTTAGC
* *
22609428 CCGGATATAGTCACTTAACACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGACTTAGC
22609469 CCGGATAT
1 CCGGATAT
22609477 CATTCGAATA
Statistics
Matches: 132, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
38 1 0.01
39 15 0.11
40 86 0.65
41 27 0.20
42 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:22609390 original size:80 final size:81
Alignment explanation
Indices: 22609292--22609476 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 81
22609282 CTCGCACAAG
* *
22609292 GCCTTCGGGTCTTAGCCCGGATA-AGATCACTAGTATAAATGCCTTCAGGA-CTTAGCCCAGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-TAACTAGCATAAATGCCTTC-GGATCTTAGCCCAGATA
* * *
22609355 TAGTCGC-TAGCACAAAT
64 TAGTCACTTAACACAAAA
* * * * *
22609372 GCCTTCGGGTTTTGGCCCGGATATAGTAACTTGCATAAATGCCTTCGGATCTTAGTCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCAGATATA
22609437 GTCACTTAACACAAAA
66 GTCACTTAACACAAAA
*
22609453 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
22609477 CATTCGAATA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 3 0.03
80 55 0.62
81 31 0.35
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCAGATATA
GTCACTTAACACAAAA
Found at i:22617409 original size:40 final size:40
Alignment explanation
Indices: 22617355--22617539 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
22617345 CTCACACAAG
* *
22617355 GCCTTCGGGTCTTAGCCCGGATAT-GATCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAG-TCACTAGCACAAAT
* *
22617395 GCCTTCGAGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
** * * * *
22617435 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
22617475 GCCTTC-GGATCTTAGTCCGGATATAGTCACTTAACACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
22617516 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
22617540 CATTCGAATA
Statistics
Matches: 119, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 88 0.74
41 26 0.22
42 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:22617453 original size:80 final size:81
Alignment explanation
Indices: 22617355--22617539 Score: 250
Period size: 80 Copynumber: 2.3 Consensus size: 81
22617345 CTCACACAAG
*
22617355 GCCTTCGGGTCTTAGCCCGGATAT-GATCACTAGCATAAATGCCTTCGAGA-CTTAGCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-TAACTAGCATAAATGCCTTCG-GATCTTAGCCCGGATA
* * *
22617418 TAGTCGC-TAGCACAAAT
64 TAGTCACTTAACACAAAA
* * * *
22617435 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAATGCCTTCGGATCTTAGTCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATATA
22617500 GTCACTTAACACAAAA
66 GTCACTTAACACAAAA
*
22617516 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
22617540 CATTCGAATA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 2 0.02
80 59 0.65
81 30 0.33
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATATA
GTCACTTAACACAAAA
Found at i:22624894 original size:40 final size:40
Alignment explanation
Indices: 22624835--22624976 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
22624825 AAATTGAATG
* * *
22624835 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
22624875 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
22624915 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
22624955 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
22624977 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:22624977 original size:40 final size:39
Alignment explanation
Indices: 22624874--22625002 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
22624864 TGCTGGAAAT
* * *
22624874 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
22624914 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
22624954 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
22624994 TATATCCGG
1 TATATCCGG
22625003 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:22644495 original size:46 final size:48
Alignment explanation
Indices: 22644445--22644619 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 48
22644435 TGAGACGAGT
*
22644445 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCTAGACGTAA
1 GCTAGTGTAAGACCATGTCTAGGACATAGCATCGGCCTCTAGATGTAA
*
22644491 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGG-CTATGAGATGT--
1 GCTAGTGTAAGACCATGTCTAGGACATAGCATCGGCCTCT-AGATGTAA
* * * *
22644535 G-TCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATGATG-ATA
1 GCT-AGTGTAAGACCATGTCTAGGACATAGCATCGGCCTCTA-GATGTA-A
* *
22644584 GCCAGTGTAAGACCATGTCTGGGACATAGCATCGGC
1 GCTAGTGTAAGACCATGTCTAGGACATAGCATCGGC
22644620 AACTTACCCC
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 10 0.09
45 15 0.14
46 46 0.42
47 6 0.05
49 32 0.29
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTAGGACATAGCATCGGCCTCTAGATGTAA
Found at i:22654939 original size:40 final size:40
Alignment explanation
Indices: 22654827--22654979 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
22654817 GGATATAGCG
* * * * ***
22654827 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
22654867 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
22654907 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
22654947 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
22654980 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:22662937 original size:39 final size:40
Alignment explanation
Indices: 22662842--22662993 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 40
22662832 GGATATAGCG
* * * * **
22662842 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGTA
* * *
22662882 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGG-A
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGTA
* *
22662921 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGTA
*
22662961 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
22662994 CATCATTCGA
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 47 0.51
41 11 0.12
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGTA
Found at i:22667538 original size:40 final size:39
Alignment explanation
Indices: 22667494--22667712 Score: 217
Period size: 40 Copynumber: 5.5 Consensus size: 39
22667484 GCTCGATTGT
* * *
22667494 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
22667534 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
22667574 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
22667614 CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCG-GTTTAGTAACTCGCACAAATGC
* * * *
22667654 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
22667695 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
22667713 ATACCATTCG
Statistics
Matches: 153, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 2 0.01
40 124 0.81
41 25 0.16
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:22667592 original size:80 final size:79
Alignment explanation
Indices: 22667494--22667714 Score: 264
Period size: 80 Copynumber: 2.7 Consensus size: 79
22667484 GCTCGATTGT
* * * * *
22667494 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
22667559 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * *
22667574 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCC-GATTTTGG
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TTTAG
22667638 TAACTCGCACAAATGC
64 TAACTCGCACAAATGC
* * * * *
22667654 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
22667715 ACCATTCGAA
Statistics
Matches: 119, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.02
80 86 0.72
81 29 0.24
82 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:22675160 original size:40 final size:40
Alignment explanation
Indices: 22675111--22675357 Score: 151
Period size: 40 Copynumber: 6.2 Consensus size: 40
22675101 TCGAATTTAA
* * *
22675111 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACA-TAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGA-ATTAGC
* * *
22675151 CCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* ** * * *
22675191 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* * * ** * * *
22675231 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* * * ** *
22675271 CC-GTTTTGGTAACTCGCACAAATGCCTTCGGGAATT-GAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAG-C
* * ** *
22675310 CCGGATTTAGTC-ACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAG-CGAC-TCGCACAATTGCCTTCGGGAATTAGC
22675351 CCGGATA
1 CCGGATA
22675358 CCATTCGAAT
Statistics
Matches: 177, Mismatches: 24, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
39 37 0.21
40 112 0.63
41 27 0.15
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
Found at i:22675236 original size:80 final size:79
Alignment explanation
Indices: 22675137--22675356 Score: 262
Period size: 80 Copynumber: 2.7 Consensus size: 79
22675127 GCTCGATTGT
* * * * *
22675137 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
22675202 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
22675217 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCC-GTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
22675281 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
22675296 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
22675357 ACCATTCGAA
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 42 0.36
80 71 0.61
81 4 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:22679303 original size:47 final size:46
Alignment explanation
Indices: 22679228--22679550 Score: 166
Period size: 47 Copynumber: 6.8 Consensus size: 46
22679218 GGGGTTATGT
22679228 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
1 GAGAG-CAGTGTAAGACCATGTCTGGGACAT-GCATCGACATTGAGAC
* *
22679276 GAGGGCTAGTGTAAGA-CGTGTCTGGGACATGCATCAGCGACATT---AC
1 GAGAGC-AGTGTAAGACCATGTCTGGGACATGCAT---CGACATTGAGAC
* ** * *
22679322 GATAGCATGTGTAAGACCATGTCCT-GGACATGGCATCGATGTAGAGAT
1 GAGAGCA-GTGTAAGACCATGT-CTGGGACAT-GCATCGACATTGAGAC
* * *
22679370 GAGTGCCAGTGTAAGA-CGTGTCTGGGACATACATCGACCTCATTGATG--
1 GAGAG-CAGTGTAAGACCATGTCTGGGACATGCATCGA---CATTGA-GAC
* *
22679418 GTAG-CCAGTGTAAGA-CATGTCTGGGACATGCATC-AGCACTT-ATAC
1 G-AGAGCAGTGTAAGACCATGTCTGGGACATGCATCGA-CA-TTGAGAC
* * * * *
22679463 ATTAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAA
1 --GAGAGC-AGTGTAAGACCATGTCTGGGACAT-GCATCGACATTGA-GAC
* * *
22679514 GATAGCTAGTGTAAGGCCATGCCTGGGACATGGCATC
1 GAGAGC-AGTGTAAGACCATGTCTGGGACAT-GCATC
22679551 AGCAACTTAA
Statistics
Matches: 213, Mismatches: 32, Indels: 59
0.70 0.11 0.19
Matches are distributed among these distances:
44 3 0.01
45 7 0.03
46 29 0.14
47 62 0.29
48 41 0.19
49 62 0.29
50 8 0.04
51 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGAGCAGTGTAAGACCATGTCTGGGACATGCATCGACATTGAGAC
Found at i:22679437 original size:94 final size:94
Alignment explanation
Indices: 22679231--22679550 Score: 281
Period size: 94 Copynumber: 3.4 Consensus size: 94
22679221 GTTATGTGAG
* *
22679231 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGAGGGCCAGTGTAAGACGTG
* *
22679296 TCTGGGACATGCATCAGCGACATTACGAT
66 TCTGGGACATACATCAGCCACATTACGAT
** * *
22679325 AG-CATGTGTAAGACCATGTCCT-GGACATGGCATCGATGTAGAGATGAGTGCCAGTGTAAGACG
1 AGCCA-GTGTAAGACCATGT-CTGGGACATGGCATCGACATAGAGACGAGGGCCAGTGTAAGACG
* * *
22679388 TGTCTGGGACATACATC-GACCTCATTGATGGT
64 TGTCTGGGACATACATCAG-CCACATT-ACGAT
* * * ** * *
22679420 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACTTATACATTAGAGCTAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACATAGAGACGAGGGCCAGTGTAAGA-C
* * * * * *
22679483 ATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
63 GTGTCTGGGACAT-ACATCAGCCAC-ATTACGAT
* * *
22679517 AGCTAGTGTAAGGCCATGCCTGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
22679551 AGCAACTTAA
Statistics
Matches: 186, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
93 10 0.05
94 84 0.45
95 34 0.18
96 15 0.08
97 22 0.12
98 16 0.09
99 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGAGGGCCAGTGTAAGACGTG
TCTGGGACATACATCAGCCACATTACGAT
Found at i:22679528 original size:97 final size:98
Alignment explanation
Indices: 22679377--22679559 Score: 239
Period size: 97 Copynumber: 1.9 Consensus size: 98
22679367 GATGAGTGCC
* * * *
22679377 AGTGTAAGACGTGTCTGGGACATACATCGACCTCATTGATGGTAGCCAGTGTAA-GACATGTCTG
1 AGTGTAAGACATGTCTGGGACATACATCGACCTCATTGAAGATAGCCAGTGTAAGGACATGCCTG
22679441 GGACAT-GCATCAGC-ACTTATACATTAGAGCT
66 GGACATGGCATCAGCAACTTATACATTAGAGCT
* * * *
22679472 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-TGAAGATAGCTAGTGTAAGGCCATGC
1 AGTGTAAGA-CATGTCTGGGACAT-ACATCGACCTC-ATTGAAGATAGCCAGTGTAAGGACATGC
22679536 CTGGGACATGGCATCAGCAACTTA
63 CTGGGACATGGCATCAGCAACTTA
22679560 ACCCATGTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
95 9 0.12
96 13 0.18
97 24 0.32
98 15 0.20
99 8 0.11
100 5 0.07
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (98 bp):
AGTGTAAGACATGTCTGGGACATACATCGACCTCATTGAAGATAGCCAGTGTAAGGACATGCCTG
GGACATGGCATCAGCAACTTATACATTAGAGCT
Found at i:22683983 original size:22 final size:21
Alignment explanation
Indices: 22683935--22683983 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
22683925 TACTTTAGCC
*
22683935 ATTTATTTTTCTTGCAATCTA
1 ATTTATTTTTATTGCAATCTA
* *
22683956 ATTTTATTTTTAATTTCATTCTA
1 A-TTTATTTTT-ATTGCAATCTA
22683979 ATTTA
1 ATTTA
22683984 CTAATTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 13 0.57
23 9 0.39
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTTATTTTTATTGCAATCTA
Found at i:22687540 original size:28 final size:28
Alignment explanation
Indices: 22687500--22687561 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
22687490 ATTTGCTAGA
*
22687500 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* * *
22687528 ATACCTCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
22687556 ATACCC
1 ATACCC
22687562 TTAGGGTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:22687732 original size:27 final size:27
Alignment explanation
Indices: 22687670--22687759 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
22687660 AGGAAGCGTC
*
22687670 CTGGTGGCTA-TGCCACAAATTATATGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
22687698 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
22687725 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
22687754 CTGGTG
1 CTGGTG
22687760 ATTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:22687770 original size:29 final size:28
Alignment explanation
Indices: 22687680--22687760 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 28
22687670 CTGGTGGCTA
* * * *
22687680 TGCCACAAATTATATGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
22687708 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
22687735 TGCCACAAAATATCTGTATCTGGTGA
1 TGCCACAAAATATCTGT-TCTGGTGA
22687761 TTCTGTCACA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 23 0.51
28 15 0.33
29 7 0.16
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:22687778 original size:55 final size:56
Alignment explanation
Indices: 22687670--22687784 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
22687660 AGGAAGCGTC
* *
22687670 CTGGTGGCTATGCCACAAATTATATGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATATGTTCTGGTGACCCTGCCACATATATCTGTAT
* ** * *
22687725 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGATTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATATGT-TCTGGTGACCCTGCCACATATATCTGTAT
22687781 CTGG
1 CTGG
22687785 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATATGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:22700109 original size:46 final size:44
Alignment explanation
Indices: 22699993--22700171 Score: 171
Period size: 46 Copynumber: 3.9 Consensus size: 44
22699983 ATTGGTGTGA
* * * * *
22699993 GCCAGTGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGAGA--CGT
*
22700041 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACGT
* * *
22700085 AAGCCAGTGTAAGACATGTTTGGGACATGCATCGG-CTACGAGATGT
1 --GCCAGTGTAAGACATGTCTGGGACATGCATTGGCCT-CGAGACGT
* *
22700131 GTCAGTGTATGACCATGTCTGGGACATGGCATTGGCCTCGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGA
22700172 TAATGATAGC
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.11
45 15 0.14
46 57 0.51
47 16 0.14
48 11 0.10
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACGT
Found at i:22700163 original size:92 final size:94
Alignment explanation
Indices: 22699992--22700216 Score: 273
Period size: 92 Copynumber: 2.4 Consensus size: 94
22699982 CATTGGTGTG
* *
22699992 AGCCAGTGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGATGAGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGTGCTAGTGTAAGACATG
22700057 TCTGGGACATGCATTGGCCTCGAGACGTA
66 TCTGGGACATGCATTGGCCTCGAGACGTA
* * *
22700086 AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-TACGAGATGTGT-C-AGTGTATGACCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGATGAGTGCTAGTGTAAGA-CA
* *
22700146 TGTCTGGGACATGGCATTGGCCTCGATA-ATGA
64 TGTCTGGGACAT-GCATTGGCCTCGAGACGT-A
* * *
22700178 TAGCCAATGTGAGGCCATGTCTGGGACATGGCATCGGCA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
22700217 ACGTGTTTCA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
90 8 0.07
91 17 0.15
92 30 0.27
93 23 0.21
94 26 0.23
95 8 0.07
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGTGCTAGTGTAAGACATG
TCTGGGACATGCATTGGCCTCGAGACGTA
Found at i:22704396 original size:19 final size:19
Alignment explanation
Indices: 22704367--22704405 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
22704357 ATGTTTTGTA
22704367 TTGAGATTTTGGA-TAAAT
1 TTGAGATTTTGGACTAAAT
22704385 TTGAGTATTTTGGACTAAAT
1 TTGAG-ATTTTGGACTAAAT
22704405 T
1 T
22704406 GTGAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (19 bp):
TTGAGATTTTGGACTAAAT
Found at i:22705004 original size:44 final size:41
Alignment explanation
Indices: 22704935--22705058 Score: 115
Period size: 44 Copynumber: 2.9 Consensus size: 41
22704925 TCAATATGTA
* * *
22704935 ATTTCGTGTAATACCACGTCTGGGACGTTGGCATCGATTTGAG
1 ATTTCATGTAAGACCATGTCTGGGACGTTGGCATCGATTT--G
* **
22704978 ATTTACATGTAAGACCATGTCTGGGACATCAGCATCGAATTTG
1 ATTT-CATGTAAGACCATGTCTGGGACGTTGGCATCG-ATTTG
** *
22705021 ATTTTGTGTAAGACCCTGTCTGGGACAG-TGGCATCGAT
1 ATTTCATGTAAGACCATGTCTGGGAC-GTTGGCATCGAT
22705059 GAGTGAATTA
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.03
42 25 0.38
43 9 0.14
44 26 0.39
45 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
ATTTCATGTAAGACCATGTCTGGGACGTTGGCATCGATTTG
Found at i:22706842 original size:35 final size:35
Alignment explanation
Indices: 22706772--22706842 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
22706762 TTCGCTTTTC
22706772 TTGATCTATATATAATCAATTTAACTTATTAAATT
1 TTGATCTATATATAATCAATTTAACTTATTAAATT
*
22706807 TTGATCTATATATAATCAATTTAACTTATTCAATT
1 TTGATCTATATATAATCAATTTAACTTATTAAATT
22706842 T
1 T
22706843 AACCCAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (35 bp):
TTGATCTATATATAATCAATTTAACTTATTAAATT
Found at i:22709651 original size:14 final size:13
Alignment explanation
Indices: 22709625--22709668 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
22709615 ATTTGAAATC
22709625 AAATTTATTATAT
1 AAATTTATTATAT
*
22709638 ATATTTATTTATAT
1 AAATTTA-TTATAT
22709652 AAATTTAATTATA-
1 AAATTT-ATTATAT
22709665 AAAT
1 AAAT
22709669 ATATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 10 0.37
14 16 0.59
15 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATTTATTATAT
Found at i:22717946 original size:14 final size:14
Alignment explanation
Indices: 22717927--22717953 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22717917 TTTTAAAAAT
22717927 GAATTGACTTTAAC
1 GAATTGACTTTAAC
22717941 GAATTGACTTTAA
1 GAATTGACTTTAA
22717954 ACATAAGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (14 bp):
GAATTGACTTTAAC
Found at i:22719022 original size:26 final size:26
Alignment explanation
Indices: 22718985--22719124 Score: 201
Period size: 26 Copynumber: 5.2 Consensus size: 26
22718975 TGATACAAAT
* *
22718985 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
22719011 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
22719037 TGATAATAGGTTAGGTTAGGTAAATGTTCCA
1 TGATAAT--G---GGTTAGGTAAATGTTTCA
22719068 TGATAATGGGTTAGGTAAA-GTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
22719093 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
22719119 TGATAA
1 TGATAA
22719125 GAATATCATG
Statistics
Matches: 104, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
25 24 0.23
26 54 0.52
28 1 0.01
29 1 0.01
31 24 0.23
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Done.