Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 77 of 145
Found at i:26064127 original size:28 final size:28
Alignment explanation
Indices: 26064094--26064147 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
26064084 CATACTGATA
26064094 CTGTATTGGGATT-AGGCCCACACTGTTT
1 CTGTATTGGG-TTAAGGCCCACACTGTTT
26064122 CTGTATTGGGTTAAGGCCCACACTGT
1 CTGTATTGGGTTAAGGCCCACACTGT
26064148 ATTGTTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (28 bp):
CTGTATTGGGTTAAGGCCCACACTGTTT
Found at i:26064780 original size:21 final size:21
Alignment explanation
Indices: 26064731--26064780 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
26064721 TTACAACACG
* * * *
26064731 GGCGTGTAAAGTTTGCGCATA
1 GGCGTGTGAAGCTTACGCACA
26064752 GGCGTGTGAAGCTTACGCACA
1 GGCGTGTGAAGCTTACGCACA
26064773 GGCGTGTG
1 GGCGTGTG
26064781 GGCCACCACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.24
Consensus pattern (21 bp):
GGCGTGTGAAGCTTACGCACA
Found at i:26066580 original size:14 final size:13
Alignment explanation
Indices: 26066552--26066576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26066542 TATCTTCTTG
26066552 AATTATCTCAAAT
1 AATTATCTCAAAT
26066565 AATTATCTCAAA
1 AATTATCTCAAA
26066577 ATAAAGTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTATCTCAAAT
Found at i:26067382 original size:38 final size:38
Alignment explanation
Indices: 26067340--26067461 Score: 244
Period size: 38 Copynumber: 3.2 Consensus size: 38
26067330 TGAGTTTACG
26067340 TAAAAAAAGAAGAAGTTAAATTCAAGTATTCAATTGGA
1 TAAAAAAAGAAGAAGTTAAATTCAAGTATTCAATTGGA
26067378 TAAAAAAAGAAGAAGTTAAATTCAAGTATTCAATTGGA
1 TAAAAAAAGAAGAAGTTAAATTCAAGTATTCAATTGGA
26067416 TAAAAAAAGAAGAAGTTAAATTCAAGTATTCAATTGGA
1 TAAAAAAAGAAGAAGTTAAATTCAAGTATTCAATTGGA
26067454 TAAAAAAA
1 TAAAAAAA
26067462 AGGTTAGATG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 84 1.00
ACGTcount: A:0.55, C:0.05, G:0.15, T:0.25
Consensus pattern (38 bp):
TAAAAAAAGAAGAAGTTAAATTCAAGTATTCAATTGGA
Found at i:26068058 original size:18 final size:18
Alignment explanation
Indices: 26068017--26068078 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 18
26068007 TAAAGAAATA
**
26068017 AAAAAATATTAAAGAGTTGC
1 AAAAAATATTAAA-A-TTAT
26068037 AAAAAATATTAAAATTAT
1 AAAAAATATTAAAATTAT
26068055 --AAAATACTTAAAAATTAT
1 AAAAAATA-TT-AAAATTAT
26068073 AAAAAA
1 AAAAAA
26068079 ATAATCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 6 0.17
17 2 0.06
18 10 0.28
19 1 0.03
20 17 0.47
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAAAATATTAAAATTAT
Found at i:26068778 original size:18 final size:17
Alignment explanation
Indices: 26068745--26068777 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26068735 TGTTTAACAA
26068745 TATTTTTATTTTAAAAG
1 TATTTTTATTTTAAAAG
26068762 TATTTTT-TTTTCAAAA
1 TATTTTTATTTT-AAAA
26068778 ACGCATCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTTTTATTTTAAAAG
Found at i:26069098 original size:5 final size:5
Alignment explanation
Indices: 26069088--26069114 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
26069078 ATAACTTCTT
26069088 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
26069115 GGGAGTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:26081988 original size:41 final size:41
Alignment explanation
Indices: 26081897--26082071 Score: 118
Period size: 41 Copynumber: 4.3 Consensus size: 41
26081887 CTGGAGTGTT
* * * *
26081897 AACAGGGGCACGCATGTGCTATTCAAGGGTGCCAAAGTACA
1 AACAGGGGCACGCATGTGCAATCCAAGGGTACCAAAGCACA
* ** *
26081938 AACATGGGCACGCATGTGCAATCCAAGGGTACTGAAGCATA
1 AACAGGGGCACGCATGTGCAATCCAAGGGTACCAAAGCACA
* ** * ** *
26081979 AATAGGGGCACATATGTGCTAT-TTAGGGTACCAAAGTACA
1 AACAGGGGCACGCATGTGCAATCCAAGGGTACCAAAGCACA
* * * * ** * *
26082019 AACAGTGGCACGTATCTACAATTTAAGGGTATCAAAGTACA
1 AACAGGGGCACGCATGTGCAATCCAAGGGTACCAAAGCACA
* *
26082060 AATAGAGGCACG
1 AACAGGGGCACG
26082072 TTGGTACAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 2
0.77 0.21 0.01
Matches are distributed among these distances:
40 28 0.27
41 76 0.73
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (41 bp):
AACAGGGGCACGCATGTGCAATCCAAGGGTACCAAAGCACA
Found at i:26082047 original size:81 final size:82
Alignment explanation
Indices: 26081900--26082049 Score: 196
Period size: 81 Copynumber: 1.8 Consensus size: 82
26081890 GAGTGTTAAC
* * * *
26081900 AGGGGCACGCATGTGCTATTCAAGGGTGCCAAAGTACAAACATGGGCACGCATGTGCAATCCAAG
1 AGGGGCACACATGTGCTATTCAAGGGTACCAAAGTACAAACATGGGCACGCATCTACAATCCAAG
26081965 GGTACTGAAGCATAAAT
66 GGTACTGAAGCATAAAT
* * * **
26081982 AGGGGCACATATGTGCTATT-TAGGGTACCAAAGTACAAACA-GTGGCACGTATCTACAATTTAA
1 AGGGGCACACATGTGCTATTCAAGGGTACCAAAGTACAAACATG-GGCACGCATCTACAATCCAA
26082045 GGGTA
65 GGGTA
26082050 TCAAAGTACA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.02
81 39 0.67
82 18 0.31
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (82 bp):
AGGGGCACACATGTGCTATTCAAGGGTACCAAAGTACAAACATGGGCACGCATCTACAATCCAAG
GGTACTGAAGCATAAAT
Found at i:26082063 original size:81 final size:82
Alignment explanation
Indices: 26081900--26082070 Score: 186
Period size: 81 Copynumber: 2.1 Consensus size: 82
26081890 GAGTGTTAAC
* * * *
26081900 AGGGGCACGCATGTGCTATTCAAGGGTGCCAAAGTACAAACATGGGCACGCATGTGCAATCCAAG
1 AGGGGCACACATGTGCTATTCAAGGGTACCAAAGTACAAACATGGGCACGCATCTACAATCCAAG
* *
26081965 GGTACTGAAGCATAAAT
66 GGTACTAAAGCACAAAT
* * * **
26081982 AGGGGCACATATGTGCTATT-TAGGGTACCAAAGTACAAACA-GTGGCACGTATCTACAATTTAA
1 AGGGGCACACATGTGCTATTCAAGGGTACCAAAGTACAAACATG-GGCACGCATCTACAATCCAA
*
26082045 GGGTA-TCAAAGTACAAAT
65 GGGTACT-AAAGCACAAAT
*
26082063 AGAGGCAC
1 AGGGGCAC
26082071 GTTGGTACAA
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
80 2 0.03
81 54 0.73
82 18 0.24
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (82 bp):
AGGGGCACACATGTGCTATTCAAGGGTACCAAAGTACAAACATGGGCACGCATCTACAATCCAAG
GGTACTAAAGCACAAAT
Found at i:26093422 original size:39 final size:39
Alignment explanation
Indices: 26093368--26093458 Score: 155
Period size: 39 Copynumber: 2.3 Consensus size: 39
26093358 TCAACTTCTA
* *
26093368 ACAAAACATGCCACAATTATGACAATTAACACTTTCATC
1 ACAAAACATGCCACAATTATGACAACTAACACTTCCATC
*
26093407 ACAAAACATGCCACAATTATGACCACTAACACTTCCATC
1 ACAAAACATGCCACAATTATGACAACTAACACTTCCATC
26093446 ACAAAACATGCCA
1 ACAAAACATGCCA
26093459 TTTGAGCCAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.44, C:0.30, G:0.05, T:0.21
Consensus pattern (39 bp):
ACAAAACATGCCACAATTATGACAACTAACACTTCCATC
Found at i:26105578 original size:27 final size:27
Alignment explanation
Indices: 26105487--26105600 Score: 104
Period size: 27 Copynumber: 4.3 Consensus size: 27
26105477 GTCAAGAAAG
* * *
26105487 TAAACATGGGGTAGTTCACTGGGACAA
1 TAAACACGGGGTAGTTCACCGGGATAA
* * *
26105514 TTAACAC-GGGTAGTCCACCAGGATAA
1 TAAACACGGGGTAGTTCACCGGGATAA
* *
26105540 TAAACACAGGGTAGTTTACCGGGATAA
1 TAAACACGGGGTAGTTCACCGGGATAA
* * ***
26105567 GAAACACGGGGTAGCTCGTTGGGATAA
1 TAAACACGGGGTAGTTCACCGGGATAA
26105594 TAAACAC
1 TAAACAC
26105601 AAAGATGTCT
Statistics
Matches: 68, Mismatches: 18, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
26 21 0.31
27 47 0.69
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (27 bp):
TAAACACGGGGTAGTTCACCGGGATAA
Found at i:26108304 original size:29 final size:29
Alignment explanation
Indices: 26108258--26108315 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
26108248 CATATTTGGC
26108258 TAGGAAGCTCATCGGAGACCTATCAAACT
1 TAGGAAGCTCATCGGAGACCTATCAAACT
*
26108287 TAGGAAGCTCATCTGAGACCTATCAAACT
1 TAGGAAGCTCATCGGAGACCTATCAAACT
26108316 ATCCAACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (29 bp):
TAGGAAGCTCATCGGAGACCTATCAAACT
Found at i:26111139 original size:21 final size:22
Alignment explanation
Indices: 26111109--26111149 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
26111099 GAACCTACAG
26111109 AGTTGAAAGAGTTGA-AAATGT
1 AGTTGAAAGAGTTGACAAATGT
* *
26111130 AGTTGCAAGATTTGACAAAT
1 AGTTGAAAGAGTTGACAAAT
26111150 AAGGGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (22 bp):
AGTTGAAAGAGTTGACAAATGT
Found at i:26115957 original size:38 final size:38
Alignment explanation
Indices: 26115915--26115997 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
26115905 TGTTTAGGTA
26115915 TGCTTGATTTATGTGTTTGAGGTGCCTATATTGCATAT
1 TGCTTGATTTATGTGTTTGAGGTGCCTATATTGCATAT
26115953 TGCTTGATTTATGTGTTTGAGGTGCCTATATTGCATAT
1 TGCTTGATTTATGTGTTTGAGGTGCCTATATTGCATAT
*
26115991 TGGTTGA
1 TGCTTGA
26115998 ATAGTTAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.18, C:0.10, G:0.25, T:0.47
Consensus pattern (38 bp):
TGCTTGATTTATGTGTTTGAGGTGCCTATATTGCATAT
Found at i:26124209 original size:16 final size:15
Alignment explanation
Indices: 26124175--26124212 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
26124165 TTCTTAAATA
*
26124175 TTTTAA-TTACTTAG
1 TTTTAATTTAATTAG
26124189 TTTTAATTTAATTATG
1 TTTTAATTTAATTA-G
26124205 TTTTAATT
1 TTTTAATT
26124213 CCTACAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (15 bp):
TTTTAATTTAATTAG
Found at i:26124847 original size:26 final size:26
Alignment explanation
Indices: 26124809--26124859 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
26124799 TTATCCAGCT
*
26124809 CAAGGCTCTTCGTGCACACCAATGGA
1 CAAGGCTCATCGTGCACACCAATGGA
* *
26124835 CAAGGCTCATCGTGCGCATCAATGG
1 CAAGGCTCATCGTGCACACCAATGG
26124860 TCACAACACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.20
Consensus pattern (26 bp):
CAAGGCTCATCGTGCACACCAATGGA
Found at i:26126290 original size:28 final size:29
Alignment explanation
Indices: 26126242--26126319 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 29
26126232 GTGGTGTACA
** *
26126242 AAGTCCGCCAAAAACTATCTTAAGT-GGG
1 AAGTCCGCCAAGGACTGTCTTAAGTAGGG
*
26126270 AAGTCCGCCAAGGACTGTCTTATGTAGGG
1 AAGTCCGCCAAGGACTGTCTTAAGTAGGG
* *
26126299 -AGTCCGACAAGGATTGTCTTA
1 AAGTCCGCCAAGGACTGTCTTA
26126320 CGCGAGGAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 40 0.93
29 3 0.07
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (29 bp):
AAGTCCGCCAAGGACTGTCTTAAGTAGGG
Found at i:26126328 original size:28 final size:28
Alignment explanation
Indices: 26126271--26126330 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
26126261 TTAAGTGGGA
* * *
26126271 AGTCCGCCAAGGACTGTCTTATGTAGGG
1 AGTCCGACAAGGACTGTCTTACGGAGGG
*
26126299 AGTCCGACAAGGATTGTCTTACGCGA-GG
1 AGTCCGACAAGGACTGTCTTACG-GAGGG
26126327 AGTC
1 AGTC
26126331 TACCAAAGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (28 bp):
AGTCCGACAAGGACTGTCTTACGGAGGG
Found at i:26126442 original size:23 final size:23
Alignment explanation
Indices: 26126414--26126480 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
26126404 TATGGATGGA
* *
26126414 AAGTCCA-CCAAGGACTATTTGGG
1 AAGTCCATCCAA-GACTATCTAGG
26126437 AAGTCCATCCAAGACTATCTAGG
1 AAGTCCATCCAAGACTATCTAGG
*
26126460 AAGTCCATTCAAGACTATCTA
1 AAGTCCATCCAAGACTATCTA
26126481 AGGGAGGGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 36 0.90
24 4 0.10
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (23 bp):
AAGTCCATCCAAGACTATCTAGG
Found at i:26145798 original size:25 final size:24
Alignment explanation
Indices: 26145739--26145802 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
26145729 TGATATTCAA
** *
26145739 CTTGTATGAGTTTACCGTTTACAG
1 CTTGTATGAGCATACCGTTCACAG
* * *
26145763 CTCGTAAGAGCATACCGATTCAGAG
1 CTTGTATGAGCATACCG-TTCACAG
26145788 CTTGTATGAGCATAC
1 CTTGTATGAGCATAC
26145803 ATATACAGGA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
CTTGTATGAGCATACCGTTCACAG
Found at i:26148407 original size:21 final size:21
Alignment explanation
Indices: 26148383--26148424 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
26148373 TTGAGGACTA
26148383 AGTTGATAGATTTGATCGTAT
1 AGTTGATAGATTTGATCGTAT
26148404 AGTTGATAGATTTGATCGTAT
1 AGTTGATAGATTTGATCGTAT
26148425 TTTGTACCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.43
Consensus pattern (21 bp):
AGTTGATAGATTTGATCGTAT
Found at i:26148734 original size:50 final size:50
Alignment explanation
Indices: 26148639--26148823 Score: 156
Period size: 50 Copynumber: 3.6 Consensus size: 50
26148629 AGATCCCATG
* *
26148639 TAAGACCATGTCTGGGACATGGAATTGGCATTACTGAGGTTATGAGAGGTCCCACG
1 TAAGACCATGTCTGGGACATGGCATTGGC---ACTGA-G--ATGAGAGGTCCCACA
* * * *
26148695 TATGGCCATGTCTGGGATATGGCATTGGCACTGAGATGAGAGGTCCCCCA
1 TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCCACA
* * * * **
26148745 TAAGACCATGTCAGGGACATGGCATGGGCACCGATATGAGAACTCCCATC-
1 TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCCA-CA
* * * *
26148795 CAAGACCATATTTGGGATATGGCATTGGC
1 TAAGACCATGTCTGGGACATGGCATTGGC
26148824 CGTACAGGAA
Statistics
Matches: 106, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
50 74 0.70
51 1 0.01
52 1 0.01
53 5 0.05
56 25 0.24
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCCACA
Found at i:26149105 original size:20 final size:20
Alignment explanation
Indices: 26149080--26149128 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
26149070 TGAGTTATTT
26149080 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
26149100 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
26149120 AAG-AAGCAA
1 AAGTAAGCAA
26149129 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:26166746 original size:20 final size:20
Alignment explanation
Indices: 26166710--26166786 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
26166700 CGAGGATCCG
* * *
26166710 AAGTGCAAACAGTGGCAAGA
1 AAGTGCAATCAGGGGCATGA
*
26166730 AAGTACAATCAGGGGCACTG-
1 AAGTGCAATCAGGGGCA-TGA
*
26166750 AAGTGCAATAAGGGGCATGA
1 AAGTGCAATCAGGGGCATGA
26166770 AAGTGCAATCAGGGGCA
1 AAGTGCAATCAGGGGCA
26166787 CCAGAGTGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.04
20 45 0.94
21 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.32, T:0.13
Consensus pattern (20 bp):
AAGTGCAATCAGGGGCATGA
Found at i:26166794 original size:20 final size:19
Alignment explanation
Indices: 26166735--26166807 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
26166725 CAAGAAAGTA
*
26166735 CAATCAGGGGCACTGAAGTG
1 CAATCAGGGGCACAG-AGTG
* * *
26166755 CAATAAGGGGCATGAAAGTG
1 CAATCAGGGGCA-CAGAGTG
26166775 CAATCAGGGGCACCAGAGTG
1 CAATCAGGGGCA-CAGAGTG
*
26166795 CAAATTAGGGGCA
1 C-AATCAGGGGCA
26166808 TCAACATTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
20 32 0.76
21 10 0.24
ACGTcount: A:0.34, C:0.18, G:0.34, T:0.14
Consensus pattern (19 bp):
CAATCAGGGGCACAGAGTG
Found at i:26166795 original size:40 final size:41
Alignment explanation
Indices: 26166709--26166808 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 41
26166699 CCGAGGATCC
* * * *
26166709 GAAGTGCAAA-CAGTGGCAAGAAAGTACAATCAGGGGCACT
1 GAAGTGCAAATAAGGGGCATGAAAGTACAATCAGGGGCACA
*
26166749 GAAGTGC-AATAAGGGGCATGAAAGTGCAATCAGGGGCACCA
1 GAAGTGCAAATAAGGGGCATGAAAGTACAATCAGGGGCA-CA
*
26166790 G-AGTGCAAATTAGGGGCAT
1 GAAGTGCAAATAAGGGGCAT
26166809 CAACATTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
39 2 0.04
40 36 0.71
41 13 0.25
ACGTcount: A:0.37, C:0.16, G:0.33, T:0.14
Consensus pattern (41 bp):
GAAGTGCAAATAAGGGGCATGAAAGTACAATCAGGGGCACA
Found at i:26168864 original size:2 final size:2
Alignment explanation
Indices: 26168857--26168885 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26168847 NNNNNNNNNN
26168857 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 T
26168886 TAGGTTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26171874 original size:21 final size:22
Alignment explanation
Indices: 26171830--26171876 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
26171820 AAATTACAAC
**
26171830 TGAACAACACCAAATAGGAATT
1 TGAACAACACCAAATAACAATT
*
26171852 TGAACAACA-CACATAACAATT
1 TGAACAACACCAAATAACAATT
26171873 TGAA
1 TGAA
26171877 TAATACCTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.19
Consensus pattern (22 bp):
TGAACAACACCAAATAACAATT
Found at i:26173527 original size:18 final size:18
Alignment explanation
Indices: 26173506--26173541 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
26173496 TTAAGTAATG
26173506 GTTAGCTGTTAGCAGTTA
1 GTTAGCTGTTAGCAGTTA
*
26173524 GTTAGTTGTTAGCAGTTA
1 GTTAGCTGTTAGCAGTTA
26173542 CTGATGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.08, G:0.28, T:0.42
Consensus pattern (18 bp):
GTTAGCTGTTAGCAGTTA
Found at i:26181756 original size:36 final size:36
Alignment explanation
Indices: 26181710--26181782 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
26181700 ATGATCTAAT
26181710 ATATGATAGCTCAATGAGCATTATTGTAGAACTTAA
1 ATATGATAGCTCAATGAGCATTATTGTAGAACTTAA
*
26181746 ATATGATAGCTCAATGAGCATTATTGTATAACTTAA
1 ATATGATAGCTCAATGAGCATTATTGTAGAACTTAA
26181782 A
1 A
26181783 GTGCAGCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (36 bp):
ATATGATAGCTCAATGAGCATTATTGTAGAACTTAA
Found at i:26184300 original size:16 final size:16
Alignment explanation
Indices: 26184279--26184321 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
26184269 ACAATATCCA
*
26184279 ATTATCATATTTGCAC
1 ATTATCATATTTACAC
*
26184295 ATTATCACATTTACAC
1 ATTATCATATTTACAC
26184311 ATATAT-ATATT
1 AT-TATCATATT
26184322 CCTTCCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTATCATATTTACAC
Found at i:26184990 original size:17 final size:17
Alignment explanation
Indices: 26184968--26185000 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26184958 TTTAGGGGTA
26184968 TTTTCTTAATTTTCCAT
1 TTTTCTTAATTTTCCAT
*
26184985 TTTTCTTGATTTTCCA
1 TTTTCTTAATTTTCCA
26185001 CCCAATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTCTTAATTTTCCAT
Found at i:26185045 original size:18 final size:17
Alignment explanation
Indices: 26185013--26185047 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26185003 CAATTTTGAT
26185013 TTAAATTAATAATTTAA
1 TTAAATTAATAATTTAA
*
26185030 TTAAATTTATTAATTTAA
1 TTAAA-TTAATAATTTAA
26185048 ACAATAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATTAATAATTTAA
Found at i:26189575 original size:18 final size:18
Alignment explanation
Indices: 26189549--26189605 Score: 105
Period size: 18 Copynumber: 3.2 Consensus size: 18
26189539 TGTTCATTCC
*
26189549 TAACATAATAAGATTTTA
1 TAACCTAATAAGATTTTA
26189567 TAACCTAATAAGATTTTA
1 TAACCTAATAAGATTTTA
26189585 TAACCTAATAAGATTTTA
1 TAACCTAATAAGATTTTA
26189603 TAA
1 TAA
26189606 AACGTTTTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (18 bp):
TAACCTAATAAGATTTTA
Found at i:26190354 original size:16 final size:16
Alignment explanation
Indices: 26190333--26190375 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
26190323 CCAATATCCA
*
26190333 ATTATCATATTTGCAC
1 ATTATCATATTTACAC
*
26190349 ATTATCACATTTACAC
1 ATTATCATATTTACAC
26190365 ATATAT-ATATT
1 AT-TATCATATT
26190376 CCTTTCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTATCATATTTACAC
Found at i:26204646 original size:16 final size:16
Alignment explanation
Indices: 26204627--26204657 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26204617 TCTTCTTTAC
26204627 TTACTCACTTACTTGT
1 TTACTCACTTACTTGT
*
26204643 TTACTTACTTACTTG
1 TTACTCACTTACTTG
26204658 CTTAAATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (16 bp):
TTACTCACTTACTTGT
Found at i:26205444 original size:30 final size:30
Alignment explanation
Indices: 26205410--26205467 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
26205400 CCTCGAATCT
26205410 AACTTTGACAAAATTACAATTTTGCCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
* * *
26205440 AACTTTTACATAATTACACTTTTGCCCC
1 AACTTTGACAAAATTACAATTTTGCCCC
26205468 AATGCTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:26216821 original size:62 final size:62
Alignment explanation
Indices: 26216688--26216827 Score: 208
Period size: 62 Copynumber: 2.3 Consensus size: 62
26216678 CGTATGACTC
* * *
26216688 ACACGGCCTGGGTACACGCCTGTGTCCTTGGTCGTGTGGATTTGTACCACAAACAGTGAGTT
1 ACACGGCCTGGGCACACGCCAGTGTCCCTGGTCGTGTGGATTTGTACCACAAACAGTGAGTT
* * *
26216750 ACACAGCCTGGGCACATGCCAGTGTCCCTGGTCGTGTGGCTTTGTACCACAAACAGTGAGTT
1 ACACGGCCTGGGCACACGCCAGTGTCCCTGGTCGTGTGGATTTGTACCACAAACAGTGAGTT
* *
26216812 ACATGGCCTGGACACA
1 ACACGGCCTGGGCACA
26216828 AGATCGTGTC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.24
Consensus pattern (62 bp):
ACACGGCCTGGGCACACGCCAGTGTCCCTGGTCGTGTGGATTTGTACCACAAACAGTGAGTT
Found at i:26216837 original size:62 final size:62
Alignment explanation
Indices: 26216709--26216842 Score: 189
Period size: 62 Copynumber: 2.2 Consensus size: 62
26216699 GTACACGCCT
* * *
26216709 GTGTCCTTGGTCGTGTGGATTTGTACCACAAACAGTGAGTTACACAGCCTGGGCACATGCCA
1 GTGTCCCTGGTCGTGTGGATTTGTACCACAAACAGTGAGTTACACAGCCTGGACACAAGCCA
* ** *
26216771 GTGTCCCTGGTCGTGTGGCTTTGTACCACAAACAGTGAGTTACATGGCCTGGACACAAGATC-
1 GTGTCCCTGGTCGTGTGGATTTGTACCACAAACAGTGAGTTACACAGCCTGGACACAAG-CCA
26216833 GTGTCCCTGG
1 GTGTCCCTGG
26216843 CCAAGTGGAC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
62 63 0.98
63 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (62 bp):
GTGTCCCTGGTCGTGTGGATTTGTACCACAAACAGTGAGTTACACAGCCTGGACACAAGCCA
Found at i:26218582 original size:25 final size:25
Alignment explanation
Indices: 26218553--26218619 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 25
26218543 CACAAACTCA
*
26218553 CAAACACTCAAAAGAAAACAAAAAG
1 CAAACACTCAAAAAAAAACAAAAAG
26218578 CAAACACTCAGAAAAAAAAAAAACAAAAAG
1 CAAACACTC-----AAAAAAAAACAAAAAG
26218608 CAAACACTCAAA
1 CAAACACTCAAA
26218620 TTGATTTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
25 12 0.33
30 24 0.67
ACGTcount: A:0.69, C:0.21, G:0.06, T:0.04
Consensus pattern (25 bp):
CAAACACTCAAAAAAAAACAAAAAG
Found at i:26218948 original size:21 final size:21
Alignment explanation
Indices: 26218924--26218965 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
26218914 TAAATGAAAA
26218924 TTATTTAT-AAAAATGTATTTC
1 TTATTTATGAAAAAT-TATTTC
26218945 TTATTTATGAAAAATTATTTC
1 TTATTTATGAAAAATTATTTC
26218966 ATTAAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (21 bp):
TTATTTATGAAAAATTATTTC
Found at i:26222070 original size:3 final size:3
Alignment explanation
Indices: 26222062--26222090 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26222052 AATAACACAA
26222062 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26222091 CATAAGTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:26239462 original size:18 final size:18
Alignment explanation
Indices: 26239441--26239492 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
26239431 TCCACCTTTG
26239441 CCAAATCCACCACCAACT
1 CCAAATCCACCACCAACT
* *
26239459 CCAAATCCTCCCCCAACT
1 CCAAATCCACCACCAACT
*
26239477 CCACCA-CCACCACCAA
1 CCA-AATCCACCACCAA
26239493 ATCCTCCTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.35, C:0.56, G:0.00, T:0.10
Consensus pattern (18 bp):
CCAAATCCACCACCAACT
Found at i:26239480 original size:30 final size:30
Alignment explanation
Indices: 26239441--26239509 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
26239431 TCCACCTTTG
* *
26239441 CCAAATCCACCACCAACTCCAAATCCTCCC
1 CCAACTCCACCACCAACACCAAATCCTCCC
* *
26239471 CCAACTCCACCACCACCACCAAATCCTCCT
1 CCAACTCCACCACCAACACCAAATCCTCCC
*
26239501 CCACCTCCA
1 CCAACTCCA
26239510 AAACCTCCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.30, C:0.57, G:0.00, T:0.13
Consensus pattern (30 bp):
CCAACTCCACCACCAACACCAAATCCTCCC
Found at i:26239520 original size:30 final size:30
Alignment explanation
Indices: 26239459--26239521 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
26239449 ACCACCAACT
**
26239459 CCAAATCCTCCCCCAACTCCACCACCACCA
1 CCAAATCCTCCCCCAACTCCAAAACCACCA
* * *
26239489 CCAAATCCTCCTCCACCTCCAAAACCTCCA
1 CCAAATCCTCCCCCAACTCCAAAACCACCA
26239519 CCA
1 CCA
26239522 CCACCACCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.57, G:0.00, T:0.13
Consensus pattern (30 bp):
CCAAATCCTCCCCCAACTCCAAAACCACCA
Found at i:26239535 original size:18 final size:18
Alignment explanation
Indices: 26239447--26239538 Score: 78
Period size: 18 Copynumber: 4.9 Consensus size: 18
26239437 TTTGCCAAAT
*
26239447 CCACCACCAACTCCA-AA
1 CCACCACCAACTCCACCA
* *
26239464 TCCTCCCCCAACTCCACCA
1 -CCACCACCAACTCCACCA
* * *
26239483 CCACCACCAAATCCTCCT
1 CCACCACCAACTCCACCA
*
26239501 CCACCTCCAAAACCTCCACCA
1 CCACCACC--AA-CTCCACCA
26239522 CCACCACCAACTCCACC
1 CCACCACCAACTCCACC
26239539 GAGCCCTCCT
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
18 40 0.70
19 3 0.05
20 2 0.04
21 12 0.21
ACGTcount: A:0.30, C:0.59, G:0.00, T:0.11
Consensus pattern (18 bp):
CCACCACCAACTCCACCA
Found at i:26239550 original size:42 final size:42
Alignment explanation
Indices: 26239475--26239593 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 42
26239465 CCTCCCCCAA
* * * *
26239475 CTCCACCACCACCACCAAATCCTCC---TCCACCTCCAAAAC
1 CTCCACCACCACCACCAACTCCACCGAGCCCTCCTCCAAAAC
***
26239514 CTCCACCACCACCACCAACTCCACCGAGCCCTCCTCCAGCTC
1 CTCCACCACCACCACCAACTCCACCGAGCCCTCCTCCAAAAC
* * *
26239556 CTCCTCCAGCACCACCACCTCCACCGAGCCCTCCTCCA
1 CTCCACCACCACCACCAACTCCACCGAGCCCTCCTCCA
26239594 GCTCCACCAC
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 23 0.34
42 44 0.66
ACGTcount: A:0.24, C:0.59, G:0.05, T:0.13
Consensus pattern (42 bp):
CTCCACCACCACCACCAACTCCACCGAGCCCTCCTCCAAAAC
Found at i:26239594 original size:42 final size:42
Alignment explanation
Indices: 26239513--26239617 Score: 165
Period size: 42 Copynumber: 2.5 Consensus size: 42
26239503 ACCTCCAAAA
* *
26239513 CCTCCACCACCACCACCAACTCCACCGAGCCCTCCTCCAGCT
1 CCTCCACCAGCACCACCACCTCCACCGAGCCCTCCTCCAGCT
*
26239555 CCTCCTCCAGCACCACCACCTCCACCGAGCCCTCCTCCAGCT
1 CCTCCACCAGCACCACCACCTCCACCGAGCCCTCCTCCAGCT
* *
26239597 CCACCACCTGCACCACCACCT
1 CCTCCACCAGCACCACCACCT
26239618 AATCCGCCCC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.20, C:0.60, G:0.08, T:0.12
Consensus pattern (42 bp):
CCTCCACCAGCACCACCACCTCCACCGAGCCCTCCTCCAGCT
Found at i:26239634 original size:42 final size:42
Alignment explanation
Indices: 26239516--26239634 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
26239506 TCCAAAACCT
* * * * * *
26239516 CCACCACCACCACCAACTCCACCGAGCCCTCCTCCAGCTCCT
1 CCACCAGCACCACCACCTCAACCGACCCCACCTCCAGCTCCA
* * * *
26239558 CCTCCAGCACCACCACCTCCACCGAGCCCTCCTCCAGCTCCA
1 CCACCAGCACCACCACCTCAACCGACCCCACCTCCAGCTCCA
* *
26239600 CCACCTGCACCACCACCT-AATCCGCCCCCACCTCC
1 CCACCAGCACCACCACCTCAA-CCGACCCCACCTCC
26239635 CAGCCCATGG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 1 0.02
42 65 0.98
ACGTcount: A:0.20, C:0.61, G:0.08, T:0.12
Consensus pattern (42 bp):
CCACCAGCACCACCACCTCAACCGACCCCACCTCCAGCTCCA
Found at i:26239712 original size:60 final size:60
Alignment explanation
Indices: 26239633--26239992 Score: 542
Period size: 60 Copynumber: 6.0 Consensus size: 60
26239623 GCCCCCACCT
* * * * *
26239633 CCCAGCCCATGGCCACCACCTAGTCCTCCACC-CCGTCCTAGTCCACCTCCTGCACCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACC-ACCCAATCCACCTCCTGCACCTCCA
* * * * * *
26239693 CCAAGCCCATGGCCCCCACCGAGTCCTCCACCACCACCCAACCCACCTCCTGCACCCCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
*
26239753 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCACTCCACCTCCTGCACCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
* *
26239813 CCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCT
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
26239873 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
* * * *
26239933 CCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCGCCCAATCCTCCTCCTGCTCCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
26239993 AGCATGTGGC
Statistics
Matches: 275, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
60 273 0.99
61 2 0.01
ACGTcount: A:0.19, C:0.57, G:0.11, T:0.13
Consensus pattern (60 bp):
CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
Found at i:26239748 original size:24 final size:24
Alignment explanation
Indices: 26239716--26239761 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
26239706 CCCCACCGAG
26239716 TCCTCCACCACCACCCAACCCACC
1 TCCTCCACCACCACCCAACCCACC
* * *
26239740 TCCTGCACCCCCACCCAGCCCA
1 TCCTCCACCACCACCCAACCCA
26239762 TGGCCACCGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.65, G:0.04, T:0.09
Consensus pattern (24 bp):
TCCTCCACCACCACCCAACCCACC
Found at i:26239990 original size:30 final size:30
Alignment explanation
Indices: 26239716--26239992 Score: 123
Period size: 30 Copynumber: 9.2 Consensus size: 30
26239706 CCCCACCGAG
* *
26239716 TCCTCCACCACCACCCAACCCACCTCCTGC
1 TCCTCCACCACCGCCCAATCCACCTCCTGC
* * * * *
26239746 ACCCCCACC-CAGCCC-ATGGCCACCGCCAAG-
1 TCCTCCACCACCGCCCAAT--CCACCTCC-TGC
* *
26239776 TCCTCCACCACCACCCACTCCACCTCCTGC
1 TCCTCCACCACCGCCCAATCCACCTCCTGC
* * *
26239806 ACCTCCACC-CAGCCC-ATGGCCA-CTGCCAAG-
1 TCCTCCACCACCGCCCAAT--CCACCT-CC-TGC
*
26239836 TCCTCCACCACCACCCAATCCACCTCCTGC
1 TCCTCCACCACCGCCCAATCCACCTCCTGC
* * * * *
26239866 ACCTCCTCC-CAGCCC-ATGGCCACCGCCAAG-
1 TCCTCCACCACCGCCCAAT--CCACCTCC-TGC
*
26239896 TCCTCCACCACCACCCAATCCACCTCCTGC
1 TCCTCCACCACCGCCCAATCCACCTCCTGC
* * *
26239926 ACCTCCACC-CAGCCC-ATGGCCA-CTGCCAAG-
1 TCCTCCACCACCGCCCAAT--CCACCT-CC-TGC
*
26239956 TCCTCCACCACCGCCCAATCCTCCTCCTGC
1 TCCTCCACCACCGCCCAATCCACCTCCTGC
26239986 TCCTCCA
1 TCCTCCA
26239993 AGCATGTGGC
Statistics
Matches: 176, Mismatches: 43, Indels: 56
0.64 0.16 0.20
Matches are distributed among these distances:
28 6 0.03
29 24 0.14
30 114 0.65
31 25 0.14
32 7 0.04
ACGTcount: A:0.20, C:0.57, G:0.09, T:0.13
Consensus pattern (30 bp):
TCCTCCACCACCGCCCAATCCACCTCCTGC
Found at i:26240049 original size:120 final size:118
Alignment explanation
Indices: 26239685--26240054 Score: 350
Period size: 120 Copynumber: 3.1 Consensus size: 118
26239675 CCACCTCCTG
* * ** * * *
26239685 CACCTCCACCAAGCCCATGGCCCCCACCGAGTCCTCCACCACCACCCAACCCACCTCCTGCACCC
1 CACCTCCACCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTG--CCT
* * * * * ** **
26239750 CCACCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCC-ACTCCACCTCCTG
64 CCTCCAAGCACATGGCCACCCCCAAGTCCACCACCACCACCCAAC-CCACCAACAC
26239805 CACCTCCACCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCT
1 CACCTCCACCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTG--CCT
* * * * * ** **
26239870 CCTCCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTG
64 CCTCCAAGCACATGGCCACCCCCAAGTCCACCACCACCACCCAACCCACCAACAC
* *
26239925 CACCTCCACCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCGCCCAATCCTCCTCCTG-CTCC
1 CACCTCCACCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCCTCC
** ** *
26239989 TCCAAGCATGTGGCCACCACCCAA-TCCACCACCTGCACCCCCACCAACACCAACAC
66 TCCAAGCACATGGCCACC-CCCAAGTCCACCACCACCA-CCCAACC--CACCAACAC
26240045 CACCTCCACC
1 CACCTCCACC
26240055 ACCTAATCCT
Statistics
Matches: 220, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
117 28 0.13
118 9 0.04
120 182 0.83
121 1 0.00
ACGTcount: A:0.22, C:0.57, G:0.10, T:0.12
Consensus pattern (118 bp):
CACCTCCACCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCCTCC
TCCAAGCACATGGCCACCCCCAAGTCCACCACCACCACCCAACCCACCAACAC
Found at i:26240051 original size:180 final size:178
Alignment explanation
Indices: 26239685--26240055 Score: 440
Period size: 180 Copynumber: 2.1 Consensus size: 178
26239675 CCACCTCCTG
* *
26239685 CACCTCCACCAAGCCCATGGCCCCCACCGAGTCCTCCACCACCACCCAACCCACCTCCTGCACCC
1 CACCTCCACCAAGCCCATGGCCACCACCAAGTCCTCCACCACCACCCAACCCACCTCCTGCACCC
*
26239750 CCACCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCACTCCACCTCCTGCACCTCCACC
66 CCACCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA--
* ** * * ** **
26239815 CAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTG
129 CAGCACATGGCCACACCCAAGTCCACCACCACCACCCAACCCACCAACAC
* * * * *
26239865 CACCTCCTCCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCT
1 CACCTCCACCAAGCCCATGGCCACCACCAAGTCCTCCACCACCACCCAACCCACCTCCTGCACCC
* * * *
26239930 CCACCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCGCCCAATCCTCCTCCTGCTCCTCCA-A
66 CCACCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACA
** ** *
26239994 GCATGTGGCCACCACCCAA-TCCACCACCTGCACCCCCACCAACACCAACAC
131 GCACATGGCCA-CACCCAAGTCCACCACCACCA-CCCAACC--CACCAACAC
26240045 CACCTCCACCA
1 CACCTCCACCA
26240056 CCTAATCCTC
Statistics
Matches: 159, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
177 19 0.12
178 10 0.06
180 130 0.82
ACGTcount: A:0.22, C:0.57, G:0.10, T:0.12
Consensus pattern (178 bp):
CACCTCCACCAAGCCCATGGCCACCACCAAGTCCTCCACCACCACCCAACCCACCTCCTGCACCC
CCACCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCACA
GCACATGGCCACACCCAAGTCCACCACCACCACCCAACCCACCAACAC
Found at i:26240116 original size:15 final size:15
Alignment explanation
Indices: 26240036--26240135 Score: 62
Period size: 15 Copynumber: 6.5 Consensus size: 15
26240026 CCCCCACCAA
*
26240036 CACCAACACCACCTC
1 CACCACCACCACCTC
*
26240051 CACCACCTAATCCTCCTC
1 CACCACC--A-CCACCTC
26240069 C-CGCACCACCA-C-C
1 CAC-CACCACCACCTC
* *
26240082 CAGGCCTCCACCAACTC
1 CA--CCACCACCACCTC
*
26240099 CACCACCAGCACCTC
1 CACCACCACCACCTC
**
26240114 CACCAAGACCACCTC
1 CACCACCACCACCTC
26240129 CACCACC
1 CACCACC
26240136 TAATCCTCCT
Statistics
Matches: 64, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
13 2 0.03
14 1 0.02
15 42 0.66
16 3 0.05
17 5 0.08
18 11 0.17
ACGTcount: A:0.27, C:0.59, G:0.05, T:0.09
Consensus pattern (15 bp):
CACCACCACCACCTC
Found at i:26240125 original size:24 final size:24
Alignment explanation
Indices: 26240072--26240136 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
26240062 CCTCCTCCCG
*
26240072 CACCACCACCCAG-GCCTCCACCAA
1 CACCACCA-CCAGCACCTCCACCAA
*
26240096 CTCCACCACCAGCACCTCCACCAA
1 CACCACCACCAGCACCTCCACCAA
* * *
26240120 GACCACCTCCACCACCT
1 CACCACCACCAGCACCT
26240137 AATCCTCCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.28, C:0.58, G:0.06, T:0.08
Consensus pattern (24 bp):
CACCACCACCAGCACCTCCACCAA
Found at i:26240154 original size:60 final size:60
Alignment explanation
Indices: 26240108--26240267 Score: 153
Period size: 60 Copynumber: 2.7 Consensus size: 60
26240098 CCACCACCAG
* * * *
26240108 CACCTCCACCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACC-ACCACCTAGGCCTC
1 CACCACCACCAAGACCACCTCCACCACCTAATCCTCCACCCCCACCAACCACCTA-GCCAC
* * * *
26240168 CACCACCCCCAAGACCTCCTCCACCACCTAATCCTCCACCCCCACC-ACCCCCAAGACCAC
1 CACCACCACCAAGACCACCTCCACCACCTAATCCTCCACCCCCACCAACCACCTAG-CCAC
* * * * * * *
26240228 CACCGCCACCTAGTCCTCCACCACCACCAAAGCCTCCACC
1 CACCACCACCAAGACCACCTCCACCACCTAATCCTCCACC
26240268 AGCACCCCCA
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
59 1 0.01
60 83 0.99
ACGTcount: A:0.25, C:0.59, G:0.06, T:0.11
Consensus pattern (60 bp):
CACCACCACCAAGACCACCTCCACCACCTAATCCTCCACCCCCACCAACCACCTAGCCAC
Found at i:26240171 original size:18 final size:18
Alignment explanation
Indices: 26240150--26240273 Score: 72
Period size: 18 Copynumber: 6.6 Consensus size: 18
26240140 CCTCCTCCCG
* *
26240150 CACCACCACCTAGGCCTC
1 CACCACCACCAAGACCTC
*
26240168 CACCACCCCCAAGACCTC
1 CACCACCACCAAGACCTC
* *
26240186 CTCCACCACCTAA-TCCTC
1 CACCACCACC-AAGACCTC
*
26240204 CACCCCCACCACCCCCAAGACCAC
1 CA---CCACCA---CCAAGACCTC
* * *
26240228 CACCGCCACCTAGTCCTC
1 CACCACCACCAAGACCTC
26240246 CACCACCACCAA-AGCCTC
1 CACCACCACCAAGA-CCTC
*
26240264 CACCAGCACC
1 CACCACCACC
26240274 CCCACCTAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 18
0.70 0.15 0.16
Matches are distributed among these distances:
18 58 0.73
19 2 0.03
21 11 0.14
23 2 0.03
24 7 0.09
ACGTcount: A:0.26, C:0.59, G:0.06, T:0.09
Consensus pattern (18 bp):
CACCACCACCAAGACCTC
Found at i:26240192 original size:36 final size:36
Alignment explanation
Indices: 26240150--26240257 Score: 108
Period size: 42 Copynumber: 2.8 Consensus size: 36
26240140 CCTCCTCCCG
* *
26240150 CACCACCACCTAGGCCTCCACCACCCCCAAGACCTC
1 CACCACCACCTAGTCCTCCACCACCCCCAAGACCAC
* *
26240186 CTCCACCACCTAATCCTCCACCCCCACCACCCCCAAGACCAC
1 CACCACCACCTAGTCCT------CCACCACCCCCAAGACCAC
* *
26240228 CACCGCCACCTAGTCCTCCACCACCACCAA
1 CACCACCACCTAGTCCTCCACCACCCCCAA
26240258 AGCCTCCACC
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
36 26 0.45
42 32 0.55
ACGTcount: A:0.26, C:0.59, G:0.06, T:0.09
Consensus pattern (36 bp):
CACCACCACCTAGTCCTCCACCACCCCCAAGACCAC
Found at i:26240195 original size:78 final size:78
Alignment explanation
Indices: 26240024--26240195 Score: 236
Period size: 78 Copynumber: 2.2 Consensus size: 78
26240014 CCACCACCTG
* *
26240024 CACCCCCACCAACACCAACACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCT
1 CACCACCACCACCACCAACACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCT
* *
26240089 CCACCAACTCCAC
66 CCACCAACCCCAA
* * * *
26240102 CACCAGCACCTCCACCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCTAGGCCT
1 CACCACCACCACCACCAACACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCT
*
26240167 CCACCACCCCCAA
66 CCACCAACCCCAA
* * *
26240180 GACCTCCTCCACCACC
1 CACCACCACCACCACC
26240196 TAATCCTCCA
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.26, C:0.59, G:0.05, T:0.10
Consensus pattern (78 bp):
CACCACCACCACCACCAACACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCT
CCACCAACCCCAA
Found at i:26240213 original size:42 final size:42
Alignment explanation
Indices: 26240167--26240256 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
26240157 ACCTAGGCCT
* * *
26240167 CCACCACCCCCAAGACCTCCTCCACCACCTAATCCTCCACCC
1 CCACCACCCCCAAGACCACCACCACCACCTAATCCTCCACCA
* *
26240209 CCACCACCCCCAAGACCACCACCGCCACCTAGTCCTCCACCA
1 CCACCACCCCCAAGACCACCACCACCACCTAATCCTCCACCA
26240251 CCACCA
1 CCACCA
26240257 AAGCCTCCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.61, G:0.04, T:0.09
Consensus pattern (42 bp):
CCACCACCCCCAAGACCACCACCACCACCTAATCCTCCACCA
Found at i:26240267 original size:36 final size:37
Alignment explanation
Indices: 26240150--26240273 Score: 126
Period size: 36 Copynumber: 3.3 Consensus size: 37
26240140 CCTCCTCCCG
*
26240150 CACCACCACCTAGGCCTCCACCACC-CCCAAGACCTC
1 CACCACCACCTAGTCCTCCACCACCACCCAAGACCTC
* * *
26240186 CTCCACCACCTAATCCTCCACCCCCACCACCCCCAAGACCAC
1 CACCACCACCTAGTCCTCCA---CCACCA--CCCAAGACCTC
* *
26240228 CACCGCCACCTAGTCCTCCACCACCACCAAAG-CCTC
1 CACCACCACCTAGTCCTCCACCACCACCCAAGACCTC
*
26240264 CACCAGCACC
1 CACCACCACC
26240274 CCCACCTAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
36 28 0.39
37 5 0.07
39 11 0.15
42 27 0.38
ACGTcount: A:0.26, C:0.59, G:0.06, T:0.09
Consensus pattern (37 bp):
CACCACCACCTAGTCCTCCACCACCACCCAAGACCTC
Found at i:26240279 original size:42 final size:42
Alignment explanation
Indices: 26240223--26240315 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
26240213 CACCCCCAAG
* ** *
26240223 ACCACCACCGCCACCTAGTCCTCCACCACCACCAAAGCCTCC
1 ACCACCACCCCCACCTAAACCACCACCACCACCAAAGCCTCC
* * * *
26240265 ACCAGCACCCCCACCTAAACCACCTCCTCCACCAATGCCTCC
1 ACCACCACCCCCACCTAAACCACCACCACCACCAAAGCCTCC
26240307 ACCACCACC
1 ACCACCACC
26240316 AAAACCACCA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.58, G:0.05, T:0.10
Consensus pattern (42 bp):
ACCACCACCCCCACCTAAACCACCACCACCACCAAAGCCTCC
Found at i:26240287 original size:60 final size:59
Alignment explanation
Indices: 26240128--26240327 Score: 170
Period size: 60 Copynumber: 3.3 Consensus size: 59
26240118 AAGACCACCT
* * * ** * * * *
26240128 CCACCACCTAATCCTCCTCCCGCACCACCACCTAGGCCTCCACCACCCCCAAGACCTCCT
1 CCACCACCAAATCCTCCACCCGCACCCCCACCTAAACCACCACCACCACC-AGTCCTCCA
* * *
26240188 CCACCACCTAATCCTCCACCCCCACCACCC-CC-AAGACCACCACCGCCACCTAGTCCTCCA
1 CCACCACCAAATCCTCCACCCGCACC-CCCACCTAA-ACCACCACCACCACC-AGTCCTCCA
* * * * *
26240248 CCACCACCAAAGCCTCCACCAGCACCCCCACCTAAACCACCTCCTCCACCAATGCCTCCA
1 CCACCACCAAATCCTCCACCCGCACCCCCACCTAAACCACCACCACCACCAGT-CCTCCA
* *
26240308 CCACCACCAAAACCACCACC
1 CCACCACCAAATCCTCCACC
26240328 TAGACCACCA
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
59 6 0.05
60 105 0.91
61 4 0.03
ACGTcount: A:0.27, C:0.58, G:0.05, T:0.10
Consensus pattern (59 bp):
CCACCACCAAATCCTCCACCCGCACCCCCACCTAAACCACCACCACCACCAGTCCTCCA
Found at i:26240322 original size:12 final size:12
Alignment explanation
Indices: 26240307--26240341 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
26240297 CAATGCCTCC
26240307 ACCACCACCAAA
1 ACCACCACCAAA
* *
26240319 ACCACCACCTAG
1 ACCACCACCAAA
26240331 ACCACCACCAA
1 ACCACCACCAA
26240342 TGCCATGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.43, C:0.51, G:0.03, T:0.03
Consensus pattern (12 bp):
ACCACCACCAAA
Found at i:26240326 original size:18 final size:18
Alignment explanation
Indices: 26240265--26240327 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 18
26240255 CAAAGCCTCC
* * *
26240265 ACCAGCACCCCCACCTAA
1 ACCACCACCACCACCAAA
* * *
26240283 ACCACCTCCTCCACCAAT
1 ACCACCACCACCACCAAA
* *
26240301 GCCTCCACCACCACCAAA
1 ACCACCACCACCACCAAA
26240319 ACCACCACC
1 ACCACCACC
26240328 TAGACCACCA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.32, C:0.57, G:0.03, T:0.08
Consensus pattern (18 bp):
ACCACCACCACCACCAAA
Found at i:26242736 original size:109 final size:109
Alignment explanation
Indices: 26242533--26243509 Score: 1521
Period size: 109 Copynumber: 8.9 Consensus size: 109
26242523 GAAATTCAAG
* *
26242533 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* *
26242595 AAATTTCCAAACGAAAAACATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
* * *
26242639 AGGATATTTAGTTATTTGATTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* **
26242704 GAATTTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGGA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
*
26242748 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTT
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
26242813 GAATTTCCAAACGCAAAACATTGACTTATTTTGAATATTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAA-A-TTTTTAAA
* * *
26242859 AGGATATTTAGCTATTTGGTTGAACGAGAAAAAATCAAAACCCAGCACATTAGAGCACGTTTTCT
1 AGGATATTTGGCTATTTGGTTGAACGAG-AAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
* * **
26242924 CGAATTTCCAAATGCAAAACAGTGCCTTATTTTGAAATTTTTGGA
65 CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
* *
26242969 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAATCCAGCACATTAGGGCACATTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* *
26243034 GAATTTCCATACGCAAAACATTGCCTTATTTTGAATTTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAA-ATTTTTAAA
*
26243079 AGGATATTTAGCTATTTGGTTGAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
1 AGGATATTTGGCTATTTGGTTGAACGAG-AAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
* **
26243144 CGAATTTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGGA
65 CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
*
26243189 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAAGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
26243254 GAATTTCCAAACGC-AAACATTGCCTTATTTTGAATTTTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAA--ATTTTTAAA
* *
26243299 AGGATATTTAGCTATTTGGTTGAACGAGAAAAAATCGAAACCGAGCACATTAGGGCACGTTTTCT
1 AGGATATTTGGCTATTTGGTTGAACGAG-AAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
**
26243364 CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGGA
65 CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
* * *
26243409 AGGATATTTGGCTATTTGGTTGAATGAGAAAAATCGAAACCCAACACATTAGTGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
26243474 GAATTTCTAAACGCAAAACATTGCCTTATTTTGAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
26243510 AATTTTCCTC
Statistics
Matches: 795, Mismatches: 64, Indels: 21
0.90 0.07 0.02
Matches are distributed among these distances:
106 24 0.03
108 48 0.06
109 321 0.40
110 165 0.21
111 151 0.19
112 86 0.11
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
Found at i:26243191 original size:220 final size:220
Alignment explanation
Indices: 26242533--26243508 Score: 1676
Period size: 220 Copynumber: 4.5 Consensus size: 220
26242523 GAAATTCAAG
* *
26242533 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* * * * *
26242595 AAATTTCCAAACGAAAAACATTGCCTTATTTTGAA-ATTTTTAAAAGGATATTTAGTTATTTGAT
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAATTTTTTTAAAAGGATATTTAGCTATTTGGT
*
26242659 TGAACGAG-AAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTTCAAACGCAAAAC
131 TGAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAAC
26242723 ATTGCCTTATTTTGAAATTTTTGGA
196 ATTGCCTTATTTTGAAATTTTTGGA
*
26242748 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTT
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
26242813 GAATTTCCAAACGCAAAACATTGACTTATTTTGAATATTTTTTAAAAGGATATTTAGCTATTTGG
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAT-TTTTTTAAAAGGATATTTAGCTATTTGG
* * *
26242878 TTGAACGAGAAAAAATCAAAACCCAGCACATTAGAGCACGTTTTCTCGAATTTCCAAATGCAAAA
130 TTGAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAA
*
26242943 CAGTGCCTTATTTTGAAATTTTTGGA
195 CATTGCCTTATTTTGAAATTTTTGGA
* *
26242969 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAATCCAGCACATTAGGGCACATTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
26243034 GAATTTCCATACGCAAAACATTGCCTTATTTTGAATTTTTTTAAAAGGATATTTAGCTATTTGGT
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAATTTTTTTAAAAGGATATTTAGCTATTTGGT
*
26243099 TGAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTTCAAACGCAAAAC
131 TGAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAAC
26243164 ATTGCCTTATTTTGAAATTTTTGGA
196 ATTGCCTTATTTTGAAATTTTTGGA
*
26243189 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAAGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
26243254 GAATTTCCAAACGC-AAACATTGCCTTATTTTGAATTTTTTTTAAAAGGATATTTAGCTATTTGG
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAA-TTTTTTTAAAAGGATATTTAGCTATTTGG
*
26243318 TTGAACGAGAAAAAATCGAAACCGAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAA
130 TTGAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAA
26243383 CATTGCCTTATTTTGAAATTTTTGGA
195 CATTGCCTTATTTTGAAATTTTTGGA
* * *
26243409 AGGATATTTGGCTATTTGGTTGAATGAGAAAAATCGAAACCCAACACATTAGTGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
26243474 GAATTTCTAAACGCAAAACATTGCCTTATTTTGAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAA
26243509 AAATTTTCCT
Statistics
Matches: 718, Mismatches: 35, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
215 27 0.04
217 28 0.04
218 36 0.05
219 20 0.03
220 415 0.58
221 192 0.27
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (220 bp):
AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAATTTTTTTAAAAGGATATTTAGCTATTTGGT
TGAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAAC
ATTGCCTTATTTTGAAATTTTTGGA
Found at i:26243862 original size:17 final size:18
Alignment explanation
Indices: 26243842--26243875 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26243832 TATATGTTTT
26243842 AAGGATAT-TAAATATAA
1 AAGGATATGTAAATATAA
*
26243859 AAGGTTATGTAAATATA
1 AAGGATATGTAAATATA
26243876 TATATACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (18 bp):
AAGGATATGTAAATATAA
Found at i:26244148 original size:3 final size:3
Alignment explanation
Indices: 26244142--26244209 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
26244132 AATAATAATA
26244142 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
26244190 ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG AT
26244210 AAATTAATTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:26246132 original size:101 final size:101
Alignment explanation
Indices: 26245950--26246502 Score: 824
Period size: 101 Copynumber: 5.5 Consensus size: 101
26245940 CGCAACGTCA
* * ** *
26245950 GGGAAGG-AAGATTCACCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTC
1 GGGAAGGTAAGATTCACCGTTGTGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTC
* *
26246014 ACCGTTGT-GACTTCAATCTGTTCCGCTGCATCACCT
66 GCCGTTGTAG-CTTCAATCTGTTCCGCTGCATTACCT
*
26246050 GGGAAGGTAAGATTCACCGTTGTGGCCTCAATCTTTTGAGTTGCAATGTCGAGGAAGCGAGATTC
1 GGGAAGGTAAGATTCACCGTTGTGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTC
* * *
26246115 ACCGTTGCAGCTTCAATCTGTTCCGTTGCATTACCT
66 GCCGTTGTAGCTTCAATCTGTTCCGCTGCATTACCT
* * *
26246151 GGGAAGGTAAGATTCGCCGTTGTGGCCTCAATCTTATGAATTGCAATGTCTAGGAAGCGAGATTC
1 GGGAAGGTAAGATTCACCGTTGTGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTC
*
26246216 GCCGTTGTAGCTTCAATCTGTTCCACTGCATCT-CCT
66 GCCGTTGTAGCTTCAATCTGTTCCGCTGCAT-TACCT
*
26246252 GGGAAGGTAAGATTCCCCGTTGTGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTC
1 GGGAAGGTAAGATTCACCGTTGTGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTC
* * *
26246317 GCCATTGTAGCTTCAATCTATTCCGCTGCATTGCCT
66 GCCGTTGTAGCTTCAATCTGTTCCGCTGCATTACCT
* *
26246353 GGAAAGGTAAGATTCACCGTTGTGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCAAGATTC
1 GGGAAGGTAAGATTCACCGTTGTGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTC
** * *
26246418 GTTGTTGTAGCTTCAATCTGTTCCACTGCATTGCCT
66 GCCGTTGTAGCTTCAATCTGTTCCGCTGCATTACCT
* *
26246454 GGGAAGGTAAGATTCGCCGTTATGGCCTCAATCTTTTGAGTTGCAATGT
1 GGGAAGGTAAGATTCACCGTTGTGGCCTCAATCTTTTGAGTTGCAATGT
26246503 TTTATGGCCT
Statistics
Matches: 417, Mismatches: 32, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
100 8 0.02
101 407 0.98
102 2 0.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (101 bp):
GGGAAGGTAAGATTCACCGTTGTGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTC
GCCGTTGTAGCTTCAATCTGTTCCGCTGCATTACCT
Found at i:26246508 original size:31 final size:31
Alignment explanation
Indices: 26246473--26246535 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
26246463 AGATTCGCCG
26246473 TTATGGCCTCAATCTTTTGAGTTGCAATGTT
1 TTATGGCCTCAATCTTTTGAGTTGCAATGTT
26246504 TTATGGCCTCAATCTTTTGAGTTGCAATGTT
1 TTATGGCCTCAATCTTTTGAGTTGCAATGTT
26246535 T
1 T
26246536 AGGAAGCGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (31 bp):
TTATGGCCTCAATCTTTTGAGTTGCAATGTT
Found at i:26246606 original size:51 final size:50
Alignment explanation
Indices: 26246535--26246819 Score: 209
Period size: 51 Copynumber: 5.7 Consensus size: 50
26246525 TTGCAATGTT
** *
26246535 TAGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGTATTGCC
1 TAGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATTGCC
* * * ** * * * *
26246585 TGGGAAGGTAAGATTCGCCGTTAT-GACCTCAATCT-TTTGAGTTGGAATGTC
1 TAGGAA-GTAAGATTCGCCGTTGTAG-CTTCAATCTGTTCCA-CTGCATTGCC
* ** * *
26246636 TAGAAAGCGAGATTCGACGTTGTAGCTTCAATCTGTTCCGCTGCATTGCC
1 TAGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATTGCC
* * * * ** * * *
26246686 TGGGAATGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAATTGCAATGTC
1 TAGGAA-GTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATTGCC
* * *
26246737 TAGGAAGTAAGATTCAG-CGTTGTAGCTTCAATCTGTTCCGCTGCATCG-T
1 TAGGAAGTAAGATTC-GCCGTTGTAGCTTCAATCTGTTCCACTGCATTGCC
** *
26246786 TTCGAAGTAAGATTCGCCGTTGTGGCTTCAATCT
1 TAGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT
26246820 TTTAAATTTC
Statistics
Matches: 174, Mismatches: 53, Indels: 17
0.71 0.22 0.07
Matches are distributed among these distances:
48 1 0.01
49 29 0.17
50 71 0.41
51 73 0.42
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (50 bp):
TAGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATTGCC
Found at i:26246615 original size:132 final size:132
Alignment explanation
Indices: 26246375--26246634 Score: 457
Period size: 132 Copynumber: 2.0 Consensus size: 132
26246365 TTCACCGTTG
**
26246375 TGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTT
1 TGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTT
*
26246440 CCACTGCATTGCCTGGGAAGGTAAGATTCGCCGTTATGGCCTCAATCTTTTGAGTTGCAATGTTT
66 CCACTGCATTGCCTGGGAAGGTAAGATTCGCCGTTATGACCTCAATCTTTTGAGTTGCAATGTTT
26246505 TA
131 TA
* *
26246507 TGGCCTCAATCTTTTGAGTTGCAATGTTTAGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTT
1 TGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTT
* *
26246572 CCACTGTATTGCCTGGGAAGGTAAGATTCGCCGTTATGACCTCAATCTTTTGAGTTGGAATGT
66 CCACTGCATTGCCTGGGAAGGTAAGATTCGCCGTTATGACCTCAATCTTTTGAGTTGCAATGT
26246635 CTAGAAAGCG
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 121 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (132 bp):
TGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTT
CCACTGCATTGCCTGGGAAGGTAAGATTCGCCGTTATGACCTCAATCTTTTGAGTTGCAATGTTT
TA
Found at i:26246667 original size:50 final size:50
Alignment explanation
Indices: 26246512--26246822 Score: 193
Period size: 50 Copynumber: 6.2 Consensus size: 50
26246502 TTTTATGGCC
*
26246512 TCAATCTTTTGAGTTGCAATGTTTAGGAAGCGAGATTCGCCGTTGTAGCT
1 TCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTCGCCGTTGTAGCT
** * * * * * * *
26246562 TCAATCTGTTCCA-CTGTATTGCCTGGGAAG-GTAAGATTCGCCGTTAT-GACC
1 TCAATCT-TTTGAGTTGCAATGTCTAGGAAGCG--AGATTCGCCGTTGTAG-CT
* * *
26246613 TCAATCTTTTGAGTTGGAATGTCTAGAAAGCGAGATTCGACGTTGTAGCT
1 TCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTCGCCGTTGTAGCT
* ** * * * * ** * *
26246663 TCAATCTGTTCCGCTGCATTGCCTGGGAATGTAAGATTCGCCGTTGTGGCC
1 TCAATCTTTTGAGTTGCAATGTCTAGGAA-GCGAGATTCGCCGTTGTAGCT
* **
26246714 TCAATCTTTTGAATTGCAATGTCTAGGAAGTAAGATTCAG-CGTTGTAGCT
1 TCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTC-GCCGTTGTAGCT
* ** * ** ** *
26246764 TCAATCTGTTCCGCTGC-ATCGT-TTCGAAGTAAGATTCGCCGTTGTGGCT
1 TCAATCTTTTGAGTTGCAAT-GTCTAGGAAGCGAGATTCGCCGTTGTAGCT
26246813 TCAATCTTTT
1 TCAATCTTTT
26246823 AAATTTCAAA
Statistics
Matches: 196, Mismatches: 54, Indels: 23
0.72 0.20 0.08
Matches are distributed among these distances:
48 1 0.01
49 34 0.17
50 86 0.44
51 74 0.38
52 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (50 bp):
TCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTCGCCGTTGTAGCT
Found at i:26246682 original size:233 final size:233
Alignment explanation
Indices: 26246274--26246735 Score: 762
Period size: 233 Copynumber: 2.0 Consensus size: 233
26246264 TTCCCCGTTG
26246274 TGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTCGCCATTGTAGCTTCAATCTATT
1 TGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTCGCCATTGTAGCTTCAATCTATT
* * *
26246339 CCGCTGCATTGCCTGGAAAGGTAAGATTCACCGTTGTGGCCTCAATCTTTTGAGTTGCAATGTCT
66 CCACTGCATTGCCTGGAAAGGTAAGATTCACCGTTATGACCTCAATCTTTTGAGTTGCAATGTCT
* **
26246404 AGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTCCACTGCATTGCCTGGGAAGGTAAGATTC
131 AGAAAGCAAGATTCGACGTTGTAGCTTCAATCTGTTCCACTGCATTGCCTGGGAAGGTAAGATTC
*
26246469 GCCGTTATGGCCTCAATCTTTTGAGTTGCAATGTTTTA
196 GCCGTTATGGCCTCAATCTTTTGAATTGCAATGTTTTA
* * *
26246507 TGGCCTCAATCTTTTGAGTTGCAATGTTTAGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTT
1 TGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTCGCCATTGTAGCTTCAATCTATT
* * * *
26246572 CCACTGTATTGCCTGGGAAGGTAAGATTCGCCGTTATGACCTCAATCTTTTGAGTTGGAATGTCT
66 CCACTGCATTGCCTGGAAAGGTAAGATTCACCGTTATGACCTCAATCTTTTGAGTTGCAATGTCT
* * *
26246637 AGAAAGCGAGATTCGACGTTGTAGCTTCAATCTGTTCCGCTGCATTGCCTGGGAATGTAAGATTC
131 AGAAAGCAAGATTCGACGTTGTAGCTTCAATCTGTTCCACTGCATTGCCTGGGAAGGTAAGATTC
*
26246702 GCCGTTGTGGCCTCAATCTTTTGAATTGCAATGT
196 GCCGTTATGGCCTCAATCTTTTGAATTGCAATGT
26246736 CTAGGAAGTA
Statistics
Matches: 211, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
233 211 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (233 bp):
TGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTCGCCATTGTAGCTTCAATCTATT
CCACTGCATTGCCTGGAAAGGTAAGATTCACCGTTATGACCTCAATCTTTTGAGTTGCAATGTCT
AGAAAGCAAGATTCGACGTTGTAGCTTCAATCTGTTCCACTGCATTGCCTGGGAAGGTAAGATTC
GCCGTTATGGCCTCAATCTTTTGAATTGCAATGTTTTA
Found at i:26246684 original size:101 final size:100
Alignment explanation
Indices: 26246504--26246822 Score: 444
Period size: 101 Copynumber: 3.2 Consensus size: 100
26246494 TTGCAATGTT
* *
26246504 TTATGGCCTCAATCTTTTGAGTTGCAATGTTTAGGAAGCGAGATTCGCCGTTGTAGCTTCAATCT
1 TTATGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTCGACGTTGTAGCTTCAATCT
* *
26246569 GTTCCACTGTATTGCCTGGGAAGGTAAGATTCGCCG
66 GTTCCGCTGCATTGCCTGGGAA-GTAAGATTCGCCG
* * *
26246605 TTATGACCTCAATCTTTTGAGTTGGAATGTCTAGAAAGCGAGATTCGACGTTGTAGCTTCAATCT
1 TTATGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTCGACGTTGTAGCTTCAATCT
26246670 GTTCCGCTGCATTGCCTGGGAATGTAAGATTCGCCG
66 GTTCCGCTGCATTGCCTGGGAA-GTAAGATTCGCCG
* * **
26246706 TTGTGGCCTCAATCTTTTGAATTGCAATGTCTAGGAAGTAAGATTC-AGCGTTGTAGCTTCAATC
1 TTATGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTCGA-CGTTGTAGCTTCAATC
* * **
26246770 TGTTCCGCTGCATCG-TTTCGAAGTAAGATTCGCCG
65 TGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCG
* *
26246805 TTGTGGCTTCAATCTTTT
1 TTATGGCCTCAATCTTTT
26246823 AAATTTCAAA
Statistics
Matches: 197, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
99 30 0.15
100 5 0.03
101 162 0.82
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (100 bp):
TTATGGCCTCAATCTTTTGAGTTGCAATGTCTAGGAAGCGAGATTCGACGTTGTAGCTTCAATCT
GTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCG
Found at i:26265310 original size:23 final size:23
Alignment explanation
Indices: 26265275--26265318 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
26265265 CTTCTATTAT
26265275 GCATCTAATTCTGTATCTGCTAC
1 GCATCTAATTCTGTATCTGCTAC
*
26265298 GCATCT-ATGTCTGTATTTGCT
1 GCATCTAAT-TCTGTATCTGCT
26265319 CTGTAAGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (23 bp):
GCATCTAATTCTGTATCTGCTAC
Found at i:26271807 original size:28 final size:28
Alignment explanation
Indices: 26271758--26271817 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
26271748 ATTAAAATCT
* *
26271758 TAATTAAATTAATTATCCTAAAATAACC
1 TAATTAAATTAATGATCATAAAATAACC
*
26271786 TAATTAAATTAATGAGT-ATAAAATAACT
1 TAATTAAATTAATGA-TCATAAAATAACC
26271814 TAAT
1 TAAT
26271818 GAAAGTTCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (28 bp):
TAATTAAATTAATGATCATAAAATAACC
Found at i:26276627 original size:4 final size:4
Alignment explanation
Indices: 26276620--26276650 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
26276610 TATTAAAATT
26276620 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
26276651 TTCTTTCACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:26292494 original size:131 final size:132
Alignment explanation
Indices: 26292249--26292570 Score: 486
Period size: 131 Copynumber: 2.5 Consensus size: 132
26292239 ATGGTGAAAT
* *
26292249 CACAAGTCCTATGTCCCTGGTCAGTAGTGGAGTAGGTTGGAAATTACAGATCTTGT-TTCTCTAA
1 CACAAGTCCTATGTCCCTGGTCAGTAGTGGAGTAGGTTGGAAATTGCAGATCTTGTCTCCTCTAA
* *
26292313 CCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTACCTTCCCTAGAAGTAGGGAAACAGATTTAA
66 CCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTACCTTCCCCAGAAGTAGGGAAACAGATTTAA
26292378 GC
131 GC
* * *
26292380 CACACGTCCTTTGTCCCTGGTCAGTAGTGGAGTAGGTTGGAAATTGCAAATCTTGTCTCCT-TAA
1 CACAAGTCCTATGTCCCTGGTCAGTAGTGGAGTAGGTTGGAAATTGCAGATCTTGTCTCCTCTAA
* * *
26292444 GCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAA
66 CCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTACCTTCCCCAGAAGTAGGGAAACAGATTTAA
26292509 GC
131 GC
** * * * *
26292511 CACAAGTCCTATGTCCCTGACCAGCAGAGGAATAGGTTGGAAATTGCAGATCTTATCTCC
1 CACAAGTCCTATGTCCCTGGTCAGTAGTGGAGTAGGTTGGAAATTGCAGATCTTGTCTCC
26292571 CTGAGATTAC
Statistics
Matches: 171, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 168 0.98
132 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (132 bp):
CACAAGTCCTATGTCCCTGGTCAGTAGTGGAGTAGGTTGGAAATTGCAGATCTTGTCTCCTCTAA
CCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTACCTTCCCCAGAAGTAGGGAAACAGATTTAA
GC
Found at i:26292612 original size:44 final size:43
Alignment explanation
Indices: 26292564--26292780 Score: 143
Period size: 44 Copynumber: 4.8 Consensus size: 43
26292554 TTGCAGATCT
*
26292564 TATCTCCCTGAGATTACAACGGAGCAGATTAAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAAT-C
* * * * *
26292608 TATCTCCTTGAGATTACAGTGGAGCGGATTAAA-ATAAAGGATAT-
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCT--AGTA-ATC
* * * * * *
26292652 TATCTCTCTGA-AGTTACAGTAGAGTAGATCGNNAGATTGAAGCCAGAAATT
1 TATCTCCCTGAGA-TTACAG-CG-G-AG--C---AGATTAAAGCTAGTAATC
*
26292703 TCATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
1 T-ATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAAT-C
* *
26292748 TATCTCCCTGAGATTACAGTGGAGCGGATTAAA
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAA
26292781 ACAAAGGATC
Statistics
Matches: 134, Mismatches: 22, Indels: 34
0.71 0.12 0.18
Matches are distributed among these distances:
43 2 0.01
44 88 0.66
45 5 0.04
46 3 0.02
47 3 0.02
49 3 0.02
50 3 0.02
51 5 0.04
52 21 0.16
53 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATC
Found at i:26292817 original size:140 final size:138
Alignment explanation
Indices: 26292565--26292821 Score: 442
Period size: 140 Copynumber: 1.8 Consensus size: 138
26292555 TGCAGATCTT
*
26292565 ATCTCCCTGAGATTACAACGGAGCAGATTAAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGG
1 ATCTCCCTGAGATTACAACGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
* *
26292630 AGCGGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGNNAGATTGAAGC
66 AGCGGATTAAAACAAAGGATATTATCTCTCTGAAGTTACAATAGAGTAGATCG--AGATTGAAGC
26292695 CAGAAATTTC
129 CAGAAATTTC
* *
26292705 ATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 ATCTCCCTGAGATTACAACGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
*
26292770 AGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATC
66 AGCGGATTAAAACAAAGGATATTATCTCTCTGAAGTTACAATAGAGTAGATC
26292822 ACATCAGGTC
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 111 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (138 bp):
ATCTCCCTGAGATTACAACGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
AGCGGATTAAAACAAAGGATATTATCTCTCTGAAGTTACAATAGAGTAGATCGAGATTGAAGCCA
GAAATTTC
Found at i:26292979 original size:50 final size:50
Alignment explanation
Indices: 26292904--26293080 Score: 205
Period size: 50 Copynumber: 3.5 Consensus size: 50
26292894 GTAGTGGAAC
26292904 AGATTAAAGCCACAATGGCGAATCTTACTTCCCCGACATTGCAGTTCAAA
1 AGATTAAAGCCACAATGGCGAATCTTACTTCCCCGACATTGCAGTTCAAA
* ** * * * * ** *
26292954 AGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGCGA-TGCAATGGAAC
1 AGATTAAAGCCACAATGGCGAATCTTACTTCCCCGAC-ATTGCAGTTCAAA
* * *
26293004 AGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAG-TCAAAA
1 AGATTAAAGCCACAATGGCGAATCTTACTTCCCCGACATTGCAGTTC-AAA
26293054 AGATTAAAGCCACAATGGCGAATCTTA
1 AGATTAAAGCCACAATGGCGAATCTTA
26293081 TTTTCCAAAA
Statistics
Matches: 98, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
49 1 0.01
50 96 0.98
51 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAATGGCGAATCTTACTTCCCCGACATTGCAGTTCAAA
Found at i:26293075 original size:100 final size:100
Alignment explanation
Indices: 26292898--26293080 Score: 296
Period size: 100 Copynumber: 1.8 Consensus size: 100
26292888 AGCGGTGTAG
26292898 TGGAACAGATTAAAGCCACAATGGCGAATCTTACTTCCCCGACATTGCAGTTCAAAAGATTAAAG
1 TGGAACAGATTAAAGCCACAATGGCGAATCTTACTTCCCCGACATTGCAGTTCAAAAGATTAAAG
*
26292963 CTACAACAGCGAATCTTACCTCCCAGGCGATGCAA
66 CCACAACAGCGAATCTTACCTCCCAGGCGATGCAA
* * *
26292998 TGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAG-TCAAAAAGATTAAA
1 TGGAACAGATTAAAGCCACAATGGCGAATCTTACTTCCCCGACATTGCAGTTC-AAAAGATTAAA
**
26293062 GCCACAATGGCGAATCTTA
65 GCCACAACAGCGAATCTTA
26293081 TTTTCCAAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
99 2 0.03
100 74 0.97
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (100 bp):
TGGAACAGATTAAAGCCACAATGGCGAATCTTACTTCCCCGACATTGCAGTTCAAAAGATTAAAG
CCACAACAGCGAATCTTACCTCCCAGGCGATGCAA
Found at i:26306000 original size:20 final size:20
Alignment explanation
Indices: 26305974--26306030 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
26305964 CAAGGGCATA
26305974 TAAGTACGATCAGGGGTACCG
1 TAAGTACGATCAGGGGTA-CG
* *
26305995 -AAGTACAAT-AGGGGCACG
1 TAAGTACGATCAGGGGTACG
*
26306013 TAAGTGCGATCAGGGGTA
1 TAAGTACGATCAGGGGTA
26306031 TATTTATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.07
19 13 0.45
20 14 0.48
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.18
Consensus pattern (20 bp):
TAAGTACGATCAGGGGTACG
Found at i:26306010 original size:39 final size:39
Alignment explanation
Indices: 26305950--26306030 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
26305940 CATATCAAGA
* *
26305950 GTACCGATGTACAACAAGGGCATATAAGTACGATCAGGG
1 GTACCGAAGTACAACAAGGGCACATAAGTACGATCAGGG
* * * *
26305989 GTACCGAAGTACAATAGGGGCACGTAAGTGCGATCAGGG
1 GTACCGAAGTACAACAAGGGCACATAAGTACGATCAGGG
26306028 GTA
1 GTA
26306031 TATTTATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.17
Consensus pattern (39 bp):
GTACCGAAGTACAACAAGGGCACATAAGTACGATCAGGG
Found at i:26310986 original size:25 final size:25
Alignment explanation
Indices: 26310957--26311007 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
26310947 CTATTTCAGG
26310957 TTGGTTTTCCTGGTACATGCACAAC
1 TTGGTTTTCCTGGTACATGCACAAC
26310982 TTGGTTTTCCTGGTACATGCACAAC
1 TTGGTTTTCCTGGTACATGCACAAC
26311007 T
1 T
26311008 GGCTGAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (25 bp):
TTGGTTTTCCTGGTACATGCACAAC
Found at i:26313367 original size:5 final size:5
Alignment explanation
Indices: 26313359--26313434 Score: 80
Period size: 5 Copynumber: 15.2 Consensus size: 5
26313349 TTTTATTTCT
* * * *
26313359 TTCCA TTCCA TACCA TTCCA ATCCA TTCCA TACCA TTCCA TTTCA TTCCA
1 TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA
* * * *
26313409 TCCCA TACCA TTCCA GTCCA CTCCA T
1 TTCCA TTCCA TTCCA TTCCA TTCCA T
26313435 ACCAATTATA
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.25, C:0.41, G:0.01, T:0.33
Consensus pattern (5 bp):
TTCCA
Found at i:26314405 original size:50 final size:50
Alignment explanation
Indices: 26314335--26314474 Score: 154
Period size: 50 Copynumber: 2.8 Consensus size: 50
26314325 TATCATTCAA
* * * * *
26314335 TACACGCAGTAGCCTTCACATAGTACTACAGACGTGATCAAACTTTCTGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAACATTCTGG
* * * * * ***
26314385 TTCACGTAGTAGCCTACACATAGAACTCCACATGCGACCTTTCATTCTGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAACATTCTGG
*
26314435 TACACGTAATAGCCTACACATAGTACTACACACGTGACCA
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCA
26314475 TCACTTTCAC
Statistics
Matches: 70, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (50 bp):
TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAACATTCTGG
Found at i:26321030 original size:10 final size:11
Alignment explanation
Indices: 26321007--26321057 Score: 61
Period size: 10 Copynumber: 4.6 Consensus size: 11
26320997 GGATTAGTTT
*
26321007 AAATTTTATCA
1 AAATTTAATCA
26321018 AAATTTAAT-A
1 AAATTTAATCA
26321028 AAATTTATTATCA
1 AAATTTA--ATCA
26321041 AAATTTAAT-A
1 AAATTTAATCA
26321051 AAATTTA
1 AAATTTA
26321058 TCTTAATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 16 0.44
11 10 0.28
12 2 0.06
13 8 0.22
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (11 bp):
AAATTTAATCA
Found at i:26321042 original size:23 final size:23
Alignment explanation
Indices: 26321012--26321058 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
26321002 AGTTTAAATT
26321012 TTATCAAAATTTAATAAAATTTA
1 TTATCAAAATTTAATAAAATTTA
26321035 TTATCAAAATTTAATAAAATTTA
1 TTATCAAAATTTAATAAAATTTA
26321058 T
1 T
26321059 CTTAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
TTATCAAAATTTAATAAAATTTA
Found at i:26324630 original size:27 final size:26
Alignment explanation
Indices: 26324600--26324661 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
26324590 AATATAATAT
26324600 AATTATAAAATAATTAAATTTAACTTA
1 AATTATAAAATAATTAAATTTAA-TTA
* * *
26324627 AATTATTAACATATTTAATTTTAATTA
1 AATTA-TAAAATAATTAAATTTAATTA
*
26324654 ATTTATAA
1 AATTATAA
26324662 TAAATTTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.10
27 12 0.40
28 15 0.50
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (26 bp):
AATTATAAAATAATTAAATTTAATTA
Found at i:26330133 original size:33 final size:34
Alignment explanation
Indices: 26330096--26330183 Score: 133
Period size: 33 Copynumber: 2.6 Consensus size: 34
26330086 ACCCACGCAA
26330096 ATATATTATACATATAACACCCATGCAC-CAAAT
1 ATATATTATACATATAACACCCATGCACTCAAAT
* * *
26330129 ATATATCATACATATAACATCCATGCACTTAAAT
1 ATATATTATACATATAACACCCATGCACTCAAAT
*
26330163 ATATATTATATATATAACACC
1 ATATATTATACATATAACACC
26330184 AAAACCCATA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 26 0.54
34 22 0.46
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (34 bp):
ATATATTATACATATAACACCCATGCACTCAAAT
Found at i:26331385 original size:25 final size:26
Alignment explanation
Indices: 26331357--26331411 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
26331347 CAACAAAATT
* * *
26331357 AAAATATAACCTAAAAA-GAAAAGAG
1 AAAACATAAACTAAAAATGAAAAGAA
*
26331382 AAAACCTAAACTAAAAATGAAAAGAA
1 AAAACATAAACTAAAAATGAAAAGAA
26331408 AAAA
1 AAAA
26331412 AAAAGAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.11
Consensus pattern (26 bp):
AAAACATAAACTAAAAATGAAAAGAA
Found at i:26331430 original size:11 final size:11
Alignment explanation
Indices: 26331416--26331464 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
26331406 AAAAAAAAAA
26331416 GAAAAGGAAAG
1 GAAAAGGAAAG
*
26331427 GAAAGGGAAAGG
1 GAAAAGGAAA-G
26331439 GAAAA-GAAAG
1 GAAAAGGAAAG
26331449 GAAAAGAGAAA-
1 GAAAAG-GAAAG
26331460 GAAAA
1 GAAAA
26331465 CCTAACCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 6 0.18
11 18 0.55
12 9 0.27
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (11 bp):
GAAAAGGAAAG
Found at i:26331436 original size:17 final size:16
Alignment explanation
Indices: 26331416--26331460 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
26331406 AAAAAAAAAA
26331416 GAAAAGGAAAGGAAAGG
1 GAAAAGGAAAGGAAA-G
* *
26331433 GAAAGGGAAAAGAAAG
1 GAAAAGGAAAGGAAAG
26331449 GAAAAGAGAAAG
1 GAAAAG-GAAAG
26331461 AAAACCTAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAAAAGGAAAGGAAAG
Found at i:26339390 original size:94 final size:94
Alignment explanation
Indices: 26339279--26339457 Score: 252
Period size: 94 Copynumber: 1.9 Consensus size: 94
26339269 TCAAACTCTT
* * * * * *
26339279 TTTTTTTTTGCACTCAATTGAGCACTTGAATTTTTAAAATGCATCAAAAAGGCCCTCAAACTTAT
1 TTTTTTTTTGAACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAAATTAT
26339344 TCGAAAAAAGCAATTAAGCCCTTTCTTTTC
66 TC-AAAAAAGCAATTAAGCCCTTTCTTTTC
* * * *
26339374 TTTTTTTTT-AACTCAATTGGGTACTTAAACTTTCAAAATGTATCAAAAAGACCCTCAAAATTTT
1 TTTTTTTTTGAACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAAATTAT
26339438 TCAAAAAAGCAATTAAGCCC
66 TCAAAAAAGCAATTAAGCCC
26339458 CTACTCTTAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 18 0.24
94 47 0.64
95 9 0.12
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (94 bp):
TTTTTTTTTGAACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAAATTAT
TCAAAAAAGCAATTAAGCCCTTTCTTTTC
Found at i:26339526 original size:19 final size:19
Alignment explanation
Indices: 26339499--26339540 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
26339489 TAATAAATAA
26339499 TAAACTTT-AGAAAAATTAT
1 TAAACTTTAAGAAAAATT-T
* *
26339518 TAAATTTTAATAAAAATTT
1 TAAACTTTAAGAAAAATTT
26339537 TAAA
1 TAAA
26339541 AAATTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAACTTTAAGAAAAATTT
Found at i:26339551 original size:29 final size:32
Alignment explanation
Indices: 26339494--26339554 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
26339484 AATTATAATA
*
26339494 AATAATAAACTTTAGAAAAATTATTAAATTTT
1 AATAATAAACTTTAGAAAAATTATGAAATTTT
*
26339526 AATAA-AAATTTTA-AAAAATTA-GAAATTTT
1 AATAATAAACTTTAGAAAAATTATGAAATTTT
26339555 TTTATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 7 0.26
30 8 0.30
31 7 0.26
32 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (32 bp):
AATAATAAACTTTAGAAAAATTATGAAATTTT
Found at i:26342657 original size:16 final size:18
Alignment explanation
Indices: 26342618--26342659 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
26342608 TAAGTTTATA
26342618 ATATTT-TATATTATGCT
1 ATATTTATATATTATGCT
*
26342635 ATTTTTATATATTATG-T
1 ATATTTATATATTATGCT
26342652 A-ATTTATA
1 ATATTTATA
26342660 ACACATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (18 bp):
ATATTTATATATTATGCT
Found at i:26342919 original size:5 final size:5
Alignment explanation
Indices: 26342902--26342941 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
26342892 CTTGAACCTG
* *
26342902 ACTCG ACTCA ACTTA ACTCA ACTCA ACTCA ACTCA ACTCA
1 ACTCA ACTCA ACTCA ACTCA ACTCA ACTCA ACTCA ACTCA
26342942 TGAACACCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.38, C:0.38, G:0.03, T:0.23
Consensus pattern (5 bp):
ACTCA
Found at i:26359028 original size:22 final size:23
Alignment explanation
Indices: 26358994--26359038 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
26358984 TCTACCCAAT
*
26358994 AAAAGAAAGAGAGAGAAGAAGAA
1 AAAAGAAAGAGAGAAAAGAAGAA
26359017 AAAAGAAA-AGAGAAAAGAAGAA
1 AAAAGAAAGAGAGAAAAGAAGAA
26359039 TCAGCGTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (23 bp):
AAAAGAAAGAGAGAAAAGAAGAA
Found at i:26371047 original size:20 final size:20
Alignment explanation
Indices: 26370947--26371049 Score: 68
Period size: 20 Copynumber: 5.2 Consensus size: 20
26370937 TTCAGCACCT
26370947 CTGAATGCACATACGTGCCC
1 CTGAATGCACATACGTGCCC
* * * * *
26370967 CT-ATTTGTAC-TTCGGTACCT
1 CTGA-ATGCACATAC-GTGCCC
*
26370987 CTGAATGCACATACGTGTCC
1 CTGAATGCACATACGTGCCC
* * * *
26371007 CTGATTGTAC-TTCAGTACCC
1 CTGAATGCACATAC-GTGCCC
26371027 CTGAATGCACATACGTGCCC
1 CTGAATGCACATACGTGCCC
26371047 CTG
1 CTG
26371050 TTTGTACTTC
Statistics
Matches: 57, Mismatches: 20, Indels: 12
0.64 0.22 0.13
Matches are distributed among these distances:
19 5 0.09
20 47 0.82
21 5 0.09
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.29
Consensus pattern (20 bp):
CTGAATGCACATACGTGCCC
Found at i:26371074 original size:80 final size:81
Alignment explanation
Indices: 26370910--26371080 Score: 240
Period size: 80 Copynumber: 2.1 Consensus size: 81
26370900 TTATTGTGTG
* *
26370910 AATGCACATA-GCTGCCCCTGTTTGTACTTCAGCACCTCTGAATGCACATACGTGCCCCTATTTG
1 AATGCACATACGCTGCCCCTGATTGTACTTCAGCACCCCTGAATGCACATACGTGCCCCTATTTG
*
26370974 TACTTCGGTACCTCTG
66 TACTTCGGTACCTCTA
* * *
26370990 AATGCACATACG-TGTCCCTGATTGTACTTCAGTACCCCTGAATGCACATACGTGCCCCTGTTTG
1 AATGCACATACGCTGCCCCTGATTGTACTTCAGCACCCCTGAATGCACATACGTGCCCCTATTTG
*
26371054 TACTTCGGTGCC-CGTA
66 TACTTCGGTACCTC-TA
*
26371070 AATGCATATAC
1 AATGCACATAC
26371081 ATGCTCTTGA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 1 0.01
80 79 0.98
81 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (81 bp):
AATGCACATACGCTGCCCCTGATTGTACTTCAGCACCCCTGAATGCACATACGTGCCCCTATTTG
TACTTCGGTACCTCTA
Found at i:26371075 original size:40 final size:40
Alignment explanation
Indices: 26370908--26371059 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
26370898 AATTATTGTG
*
26370908 TGAATGCACATA-GCTGCCCCTGTTTGTACTTCAGCACCTC
1 TGAATGCACATACG-TGCCCCTGTTTGTACTTCAGTACCTC
* *
26370948 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCTC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCTC
* * *
26370988 TGAATGCACATACGTGTCCCTGATTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCTC
26371028 TGAATGCACATACGTGCCCCTGTTTGTACTTC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTC
26371060 GGTGCCCGTA
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 100 0.99
41 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCTC
Found at i:26371817 original size:17 final size:17
Alignment explanation
Indices: 26371794--26371836 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
26371784 CACAGGCTAT
26371794 CACACGGCCATGTGACA
1 CACACGGCCATGTGACA
*
26371811 TACACGGCCATGTGACA
1 CACACGGCCATGTGACA
26371828 CACACGGCC
1 CACACGGCC
26371837 TGGCTACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.28, C:0.37, G:0.23, T:0.12
Consensus pattern (17 bp):
CACACGGCCATGTGACA
Found at i:26372862 original size:21 final size:21
Alignment explanation
Indices: 26372808--26372864 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
26372798 ATGCCAACAA
26372808 AAGCTCATAAGAGCTGAATAG
1 AAGCTCATAAGAGCTGAATAG
*
26372829 AATCTCATAAGAGCTGAATAG
1 AAGCTCATAAGAGCTGAATAG
* *
26372850 AAGCTCGTGAGAGCT
1 AAGCTCATAAGAGCT
26372865 AATCCACCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.21
Consensus pattern (21 bp):
AAGCTCATAAGAGCTGAATAG
Found at i:26373930 original size:37 final size:37
Alignment explanation
Indices: 26373880--26373953 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
26373870 GCCGTCCCAC
26373880 TACTTAAATTAAGGCTTAATTATCCCTTAAATCCTTT
1 TACTTAAATTAAGGCTTAATTATCCCTTAAATCCTTT
26373917 TACTTAAATTAAGGCTTAATTATCCCTTAAATCCTTT
1 TACTTAAATTAAGGCTTAATTATCCCTTAAATCCTTT
26373954 CTCAAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (37 bp):
TACTTAAATTAAGGCTTAATTATCCCTTAAATCCTTT
Found at i:26377055 original size:2 final size:2
Alignment explanation
Indices: 26377048--26377077 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26377038 TCTTGAACTA
26377048 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26377078 CCTTGCAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26383309 original size:6 final size:6
Alignment explanation
Indices: 26383298--26383327 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
26383288 TTACAAATGT
26383298 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
26383328 ATATAAACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:26386796 original size:27 final size:27
Alignment explanation
Indices: 26386735--26386796 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
26386725 ACACACCAGA
* *
26386735 AAATGGATGCCTTTGTGGAAATCTATG
1 AAATGGAAGCCTTTGTGGAAATCTAGG
**
26386762 AAATGGAAGCCTTTGTGGCGATCTAAGG
1 AAATGGAAGCCTTTGTGGAAATCT-AGG
26386790 AAA-GGAA
1 AAATGGAA
26386797 AGTCCATGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGAAATCTAGG
Found at i:26386846 original size:30 final size:30
Alignment explanation
Indices: 26386810--26386872 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
26386800 CCATGTGGAA
26386810 AATGATGAAAGGAACGCCTTCGTGGCACAC
1 AATGATGAAAGGAACGCCTTCGTGGCACAC
*
26386840 AATGATGAAAGGAACGCCTTCGTGGCATAC
1 AATGATGAAAGGAACGCCTTCGTGGCACAC
26386870 AAT
1 AAT
26386873 TGCAACAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (30 bp):
AATGATGAAAGGAACGCCTTCGTGGCACAC
Found at i:26392379 original size:24 final size:24
Alignment explanation
Indices: 26392352--26392398 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
26392342 AGAAAAAAAG
26392352 TAGAGTTTTGGTTTTCTCTCCAAA
1 TAGAGTTTTGGTTTTCTCTCCAAA
26392376 TAGAGTTTTGGTTTTCTCTCCAA
1 TAGAGTTTTGGTTTTCTCTCCAA
26392399 TTACCCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (24 bp):
TAGAGTTTTGGTTTTCTCTCCAAA
Found at i:26394768 original size:26 final size:27
Alignment explanation
Indices: 26394730--26394789 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
26394720 CCTGTAAGCG
26394730 TTCT-AAATCTGATACATGCTATGATA
1 TTCTGAAATCTGATACATGCTATGATA
* *
26394756 TTCTGAAAT-TGATATATGTTATGATA
1 TTCTGAAATCTGATACATGCTATGATA
26394782 TTCTGAAA
1 TTCTGAAA
26394790 CTACTGTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (27 bp):
TTCTGAAATCTGATACATGCTATGATA
Found at i:26395391 original size:27 final size:27
Alignment explanation
Indices: 26395361--26395648 Score: 240
Period size: 27 Copynumber: 10.7 Consensus size: 27
26395351 TACAACAGTT
* *
26395361 ATTTTACCCTGCGTGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* * *
26395388 ATTTTACACATT-GAGGGAATTTTGATA
1 ATTTTAC-CCTTCGAGGGTATTTTGGTA
* *
26395415 ATTTTACCCTTCG-GGAGTATTTCGATA
1 ATTTTACCCTTCGAGG-GTATTTTGGTA
* * *
26395442 GTTTTACCCATCCAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* * * *
26395469 ATTTTACCCTTTGGGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* * *
26395496 GTTTTACCTTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* *
26395523 ATTTTACCCTTCGAGAGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* * **
26395550 ATTTGACCCTTCGGGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* **
26395577 ATTTTA-TCTTTTAGGGGTATTTTGGTA
1 ATTTTACCCTTCGA-GGGTATTTTGGTA
* * * **
26395604 ATTTTACCCATCAATGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
*
26395631 ATTTTACCCATCGAGGGT
1 ATTTTACCCTTCGAGGGT
26395649 GTAATACCTA
Statistics
Matches: 205, Mismatches: 50, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
26 8 0.04
27 190 0.93
28 7 0.03
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTTGGTA
Found at i:26395501 original size:81 final size:80
Alignment explanation
Indices: 26395375--26395639 Score: 289
Period size: 81 Copynumber: 3.3 Consensus size: 80
26395365 TACCCTGCGT
* * * * * * * *
26395375 GGGTATTTTGGTAATTTTACACATTGAGGGAATTTTGATAATTTTACCCTTCGGGAGTATTTCGA
1 GGGTATTTTAGTAATTTTACCCTTTGGGGGTATTTCGATAATTTTACCTTTCGGG-GTATTTCGG
* *
26395440 TAGTTTTACCCATCCA
65 TAATTTTACCCATCAA
* *
26395456 GGGTATTTTGGTAATTTTACCCTTTGGGGGTATTTCGATAGTTTTACCTTTCGAGGGTATTTCGG
1 GGGTATTTTAGTAATTTTACCCTTTGGGGGTATTTCGATAATTTTACCTTTCG-GGGTATTTCGG
* *
26395521 TAATTTTACCCTTCGA
65 TAATTTTACCCATCAA
* * * * * *
26395537 GAGTATTTTAGTAATTTGACCCTTCGGGGGTATTTC-AGTAATTTTATCTTTTAGGGGTATTTTG
1 GGGTATTTTAGTAATTTTACCCTTTGGGGGTATTTCGA-TAATTTTA-CCTTTCGGGGTATTTCG
26395601 GTAATTTTACCCATCAA
64 GTAATTTTACCCATCAA
* *
26395618 TGGTATTTCAGTAATTTTACCC
1 GGGTATTTTAGTAATTTTACCC
26395640 ATCGAGGGTG
Statistics
Matches: 156, Mismatches: 25, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 148 0.95
82 7 0.04
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (80 bp):
GGGTATTTTAGTAATTTTACCCTTTGGGGGTATTTCGATAATTTTACCTTTCGGGGTATTTCGGT
AATTTTACCCATCAA
Found at i:26401597 original size:13 final size:14
Alignment explanation
Indices: 26401573--26401603 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
26401563 CAAAAAAATC
26401573 AAAATCAAAAATAA
1 AAAATCAAAAATAA
26401587 AAAATC-AAAATAA
1 AAAATCAAAAATAA
26401600 AAAA
1 AAAA
26401604 ATGAAAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAATCAAAAATAA
Found at i:26401603 original size:20 final size:20
Alignment explanation
Indices: 26401565--26401603 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26401555 AAAATCATCA
*
26401565 AAAAAATCAAAATCAAAAAT
1 AAAAAATCAAAATAAAAAAT
26401585 AAAAAATCAAAATAAAAAA
1 AAAAAATCAAAATAAAAAA
26401604 ATGAAAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (20 bp):
AAAAAATCAAAATAAAAAAT
Done.