Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 74 of 144
Found at i:22319644 original size:24 final size:25
Alignment explanation
Indices: 22319612--22319661 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
22319602 GTCATCACTT
22319612 AATTTGGTCCTAATTCA-CATTTTC
1 AATTTGGTCCTAATTCATCATTTTC
22319636 AATTTGGTCCTAATTCATTCATTTTC
1 AATTTGGTCCTAATTCA-TCATTTTC
22319662 CTTAGTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 17 0.71
26 7 0.29
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (25 bp):
AATTTGGTCCTAATTCATCATTTTC
Found at i:22331734 original size:33 final size:34
Alignment explanation
Indices: 22331672--22331738 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
22331662 GCTGGTCATC
22331672 TTTCTTTACTTTTCATAGTTTTAATTTAGGTTTCT
1 TTTCTTTACTTTTCA-AGTTTTAATTTAGGTTTCT
*
22331707 TTTCTTTTCTTTTC-AGTTTTAGA-TTAGGTTTC
1 TTTCTTTACTTTTCAAGTTTTA-ATTTAGGTTTC
22331739 CCCTTTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 16 0.53
34 1 0.03
35 13 0.43
ACGTcount: A:0.15, C:0.12, G:0.10, T:0.63
Consensus pattern (34 bp):
TTTCTTTACTTTTCAAGTTTTAATTTAGGTTTCT
Found at i:22334006 original size:42 final size:42
Alignment explanation
Indices: 22333939--22334023 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
22333929 CGGCTGTGTG
* *
22333939 AGGCCGTGTGCCTCATACAACCAAGGCACATGCCCATGTCCC
1 AGGCCATGTGCCTCACACAACCAAGGCACATGCCCATGTCCC
* * *
22333981 AGGCCATGTGCCTCACACGATCAAGGCACATGCCCGTGTCCC
1 AGGCCATGTGCCTCACACAACCAAGGCACATGCCCATGTCCC
22334023 A
1 A
22334024 AGATGTGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.24, C:0.38, G:0.22, T:0.16
Consensus pattern (42 bp):
AGGCCATGTGCCTCACACAACCAAGGCACATGCCCATGTCCC
Found at i:22335408 original size:69 final size:69
Alignment explanation
Indices: 22335286--22335423 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 69
22335276 AATCCATGAA
* * * * *
22335286 AGAATTTGCGCCCAGCGCTAGTCGGATAAATCGACAAATGTGTGCCTAGCACTAGTCAGATAAAC
1 AGAAGTTGCGCCCAGCGCTAGTCGGATAAACCCACAAATGTGTGCCCAACACTAGTCAGATAAAC
22335351 TGAC
66 TGAC
* * * *
22335355 AGAAGTTGCGCCTAGCGCTAGTTGGATAAACCCACGAATGTGTGCCCAACACTAGTTAGATAAAC
1 AGAAGTTGCGCCCAGCGCTAGTCGGATAAACCCACAAATGTGTGCCCAACACTAGTCAGATAAAC
22335420 TGAC
66 TGAC
22335424 GAATAATTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (69 bp):
AGAAGTTGCGCCCAGCGCTAGTCGGATAAACCCACAAATGTGTGCCCAACACTAGTCAGATAAAC
TGAC
Found at i:22335426 original size:34 final size:34
Alignment explanation
Indices: 22335295--22335427 Score: 110
Period size: 34 Copynumber: 3.9 Consensus size: 34
22335285 AAGAATTTGC
* ** *
22335295 GCCCAGCGCTAGTCGGATAAA-TCGACAAATGTGT
1 GCCCAGCACTAGTTAGATAAACT-GACGAATGTGT
* *
22335329 GCCTAGCACTAGTCAGATAAACTGACAGAA-GT-T
1 GCCCAGCACTAGTTAGATAAACTGAC-GAATGTGT
* * **
22335362 GCGCCTAGCGCTAGTTGGATAAACCCACGAATGTGT
1 GC-CC-AGCACTAGTTAGATAAACTGACGAATGTGT
*
22335398 GCCCAACACTAGTTAGATAAACTGACGAAT
1 GCCCAGCACTAGTTAGATAAACTGACGAAT
22335428 AATTAGTGAG
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
33 3 0.04
34 48 0.62
35 24 0.31
36 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (34 bp):
GCCCAGCACTAGTTAGATAAACTGACGAATGTGT
Found at i:22348813 original size:19 final size:19
Alignment explanation
Indices: 22348789--22348849 Score: 59
Period size: 26 Copynumber: 2.8 Consensus size: 19
22348779 AATCTTCAGG
22348789 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22348808 GATATGCAATATATAATCTTAGATAT
1 GATATGC-------AATCTTAGATAT
22348834 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
22348850 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
19 16 0.46
26 19 0.54
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22348871 original size:23 final size:22
Alignment explanation
Indices: 22348789--22348872 Score: 66
Period size: 23 Copynumber: 3.7 Consensus size: 22
22348779 AATCTTCAGG
22348789 GATATGCAATCTTAGATATGATAT
1 GATATGCAATCTTAGA-A-GATAT
**
22348813 GCAATATATAATCTT---AGATAT
1 G--ATATGCAATCTTAGAAGATAT
22348834 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
22348856 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
22348873 GATTTAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
19 10 0.21
21 6 0.12
22 9 0.19
23 12 0.25
24 1 0.02
26 10 0.21
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:22348875 original size:22 final size:21
Alignment explanation
Indices: 22348789--22348875 Score: 61
Period size: 22 Copynumber: 3.9 Consensus size: 21
22348779 AATCTTCAGG
*
22348789 GATATGCAATCTTAGATATGATAT
1 GATATGTAATCTTAG--A-GATAT
*
22348813 GCAATATATAATCTT--AGATAT
1 G--ATATGTAATCTTAGAGATAT
*
22348834 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
22348856 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
22348876 TTAATTTGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
19 10 0.20
21 6 0.12
22 13 0.25
23 11 0.22
24 1 0.02
26 10 0.20
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:22349062 original size:18 final size:20
Alignment explanation
Indices: 22349039--22349078 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 20
22349029 GGTGGCTTAC
22349039 TATTTTTT-TTATTT-CGAT
1 TATTTTTTATTATTTACGAT
22349057 TATTTTTTACTTATTTACGAT
1 TATTTTTTA-TTATTTACGAT
22349078 T
1 T
22349079 TTAAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
20 6 0.32
21 5 0.26
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (20 bp):
TATTTTTTATTATTTACGAT
Found at i:22349557 original size:22 final size:22
Alignment explanation
Indices: 22349494--22349552 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 22
22349484 TAATATAATT
*
22349494 ATTATTGTTATTTATTTATATGTA
1 ATTATT-TT-TTTATCTATATGTA
22349518 ATTATTTTTTTATCTATATGT-
1 ATTATTTTTTTATCTATATGTA
22349539 ATATATTTATTTTA
1 AT-TATTT-TTTTA
22349553 GTATACATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.06
22 17 0.53
23 7 0.22
24 6 0.19
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
ATTATTTTTTTATCTATATGTA
Found at i:22351253 original size:51 final size:51
Alignment explanation
Indices: 22351190--22351291 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
22351180 AAGGATGATA
*
22351190 ATTTAATGGAAGACTACACGGCTATGGCT-TCGTTGCCCAAGGATTCAAGAT
1 ATTTAATGGAAGACTACACGACTATGGCTCT-GTTGCCCAAGGATTCAAGAT
22351241 ATTTAATGGAAGACTACACGACTATGGCTCTGTTGCCCAAGGATTCAAGAT
1 ATTTAATGGAAGACTACACGACTATGGCTCTGTTGCCCAAGGATTCAAGAT
22351292 GACAAAGATT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 48 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (51 bp):
ATTTAATGGAAGACTACACGACTATGGCTCTGTTGCCCAAGGATTCAAGAT
Found at i:22354461 original size:7 final size:6
Alignment explanation
Indices: 22354451--22354483 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
22354441 TAAAAGTGAT
*
22354451 AAAAAG AAAAAG AAAAAG AAAAAG -GAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
22354484 TGGAGAGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:22360080 original size:9 final size:9
Alignment explanation
Indices: 22360066--22360090 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22360056 CTTGGGTCAG
22360066 AACCTCTTC
1 AACCTCTTC
22360075 AACCTCTTC
1 AACCTCTTC
22360084 AACCTCT
1 AACCTCT
22360091 AATTCCTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (9 bp):
AACCTCTTC
Found at i:22360178 original size:21 final size:21
Alignment explanation
Indices: 22360152--22360192 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22360142 ATCTGCTCAA
* *
22360152 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
22360173 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
22360193 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:22370308 original size:48 final size:48
Alignment explanation
Indices: 22370246--22370342 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
22370236 GAACATTGCT
22370246 CATACTCTCGTAAAATAGTTTTTAGCACACTTTCCCCTTGAACAGATG
1 CATACTCTCGTAAAATAGTTTTTAGCACACTTTCCCCTTGAACAGATG
* * * *
22370294 CATACTCTCGTAAAATAGTTTTTAGTACATTTTCCTCTTGAACCGATG
1 CATACTCTCGTAAAATAGTTTTTAGCACACTTTCCCCTTGAACAGATG
22370342 C
1 C
22370343 CTCACCAAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (48 bp):
CATACTCTCGTAAAATAGTTTTTAGCACACTTTCCCCTTGAACAGATG
Found at i:22377202 original size:60 final size:60
Alignment explanation
Indices: 22377079--22377205 Score: 136
Period size: 60 Copynumber: 2.1 Consensus size: 60
22377069 CAAGTTCAGT
* * * *
22377079 TACCAATTTGAACTAAAAAGCTAAGTTTATGCATCTAATGGGACCAAAATAAACTTTAGG
1 TACCAATTTGAACTAAAAAGCTAAGTTTAAGCATCTAATGGGACCAAAAAAAACCTTAAG
* *
22377139 TACCAATTTGAATCT-TAAAGCTAAGTTTAAGCA-CTTAAAT-GGA-TAAAAAAAATCCTTAAG
1 TACCAATTTGAA-CTAAAAAGCTAAGTTTAAGCATC-T-AATGGGACCAAAAAAAA-CCTTAAG
22377199 TACCAAT
1 TACCAAT
22377206 ATAAACTTGA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
59 8 0.14
60 44 0.77
61 5 0.09
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (60 bp):
TACCAATTTGAACTAAAAAGCTAAGTTTAAGCATCTAATGGGACCAAAAAAAACCTTAAG
Found at i:22379351 original size:26 final size:25
Alignment explanation
Indices: 22379322--22379394 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
22379312 AATAATACTA
22379322 TAATATAAATATATTAAAAGAATATT
1 TAATATAAATATATTAAAA-AATATT
* *
22379348 TAATA-AAAAATATTTAAAAATATT
1 TAATATAAATATATTAAAAAATATT
* *
22379372 AAATATTAAAT-T-TCAAAAAATAT
1 TAATA-TAAATATATTAAAAAATAT
22379395 AAATATTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 19 0.49
25 12 0.31
26 8 0.21
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (25 bp):
TAATATAAATATATTAAAAAATATT
Found at i:22379361 original size:14 final size:15
Alignment explanation
Indices: 22379336--22379364 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22379326 ATAAATATAT
22379336 TAAAAGAATATTTAA
1 TAAAAGAATATTTAA
22379351 TAAAA-AATATTTAA
1 TAAAAGAATATTTAA
22379365 AAATATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
TAAAAGAATATTTAA
Found at i:22379369 original size:24 final size:26
Alignment explanation
Indices: 22379322--22379377 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
22379312 AATAATACTA
*
22379322 TAATATAAATATATTAAAAGAATATT
1 TAATATAAAAATATTAAAAGAATATT
*
22379348 TAATA-AAAAATATTTAAA-AATATT
1 TAATATAAAAATATTAAAAGAATATT
*
22379372 AAATAT
1 TAATAT
22379378 TAAATTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 10 0.38
25 11 0.42
26 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
TAATATAAAAATATTAAAAGAATATT
Found at i:22379389 original size:23 final size:22
Alignment explanation
Indices: 22379359--22379404 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
22379349 AATAAAAAAT
22379359 ATTT-AAAAATATTAAATATTAA
1 ATTTAAAAAATA-TAAATATTAA
22379381 ATTTCAAAAAATATAAATATTAA
1 ATTT-AAAAAATATAAATATTAA
22379404 A
1 A
22379405 AAAAACTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
24 7 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTAAAAAATATAAATATTAA
Found at i:22380761 original size:46 final size:45
Alignment explanation
Indices: 22380694--22380784 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 45
22380684 TTCAATGCTA
*
22380694 TCTCCATAGGCTCCCATGAACAGATTCAGTATGTTCCCCCCCCCC
1 TCTCCATAGGCCCCCATGAACAGATTCAGTATGTTCCCCCCCCCC
*
22380739 NTCTCCATAGGCCCCCATGAACAGATTCAGTATTTTCCCCCCCCCC
1 -TCTCCATAGGCCCCCATGAACAGATTCAGTATGTTCCCCCCCCCC
22380785 CCATCTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.20, C:0.43, G:0.12, T:0.24
Consensus pattern (45 bp):
TCTCCATAGGCCCCCATGAACAGATTCAGTATGTTCCCCCCCCCC
Found at i:22381753 original size:4 final size:4
Alignment explanation
Indices: 22381744--22381768 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22381734 ACTTTGTTAA
22381744 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
22381769 GAAAGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:22386290 original size:22 final size:23
Alignment explanation
Indices: 22386256--22386299 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
22386246 AGAACAAGTT
22386256 ATCCCACACCGTTTAAACGAGTA
1 ATCCCACACCGTTTAAACGAGTA
22386279 ATCCCA-ACCGTTTAAACGAGT
1 ATCCCACACCGTTTAAACGAGT
22386300 CTGCAACTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.23
Consensus pattern (23 bp):
ATCCCACACCGTTTAAACGAGTA
Found at i:22387321 original size:32 final size:32
Alignment explanation
Indices: 22387285--22387350 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
22387275 ACCTAAAATA
*
22387285 CACATATCATTAATACGTACCATTTCTAGTTG
1 CACATATCATTAATACATACCATTTCTAGTTG
22387317 CACATATCATTAATACATACCATTTCTAGTTG
1 CACATATCATTAATACATACCATTTCTAGTTG
22387349 CA
1 CA
22387351 TTGAAACATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (32 bp):
CACATATCATTAATACATACCATTTCTAGTTG
Found at i:22387905 original size:35 final size:35
Alignment explanation
Indices: 22387842--22387961 Score: 141
Period size: 35 Copynumber: 3.4 Consensus size: 35
22387832 GTCAGTCCAA
* * *
22387842 CCAAAACACACCAGATGCTCACACGAGCTAATCCCT
1 CCAAAACACACCA-ATGCTCAAAAGAGCTAGTCCCT
* * **
22387878 CCAAAACACACCATTGCTCATAAGAGCTAGTCCAA
1 CCAAAACACACCAATGCTCAAAAGAGCTAGTCCCT
*
22387913 CCGAAACACACCAATGCTCAAAAGAGCTAGTCCCT
1 CCAAAACACACCAATGCTCAAAAGAGCTAGTCCCT
* *
22387948 TCGAAACACACCAA
1 CCAAAACACACCAA
22387962 ACAAAAAGTA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
35 59 0.82
36 13 0.18
ACGTcount: A:0.39, C:0.35, G:0.12, T:0.14
Consensus pattern (35 bp):
CCAAAACACACCAATGCTCAAAAGAGCTAGTCCCT
Found at i:22388224 original size:17 final size:17
Alignment explanation
Indices: 22388202--22388239 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22388192 CTACTCAACC
22388202 ATTCGTATAGAA-GTTAA
1 ATTCGTATA-AATGTTAA
*
22388219 ATTCGTGTAAATGTTAA
1 ATTCGTATAAATGTTAA
22388236 ATTC
1 ATTC
22388240 TAAACCGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (17 bp):
ATTCGTATAAATGTTAA
Found at i:22389359 original size:3 final size:3
Alignment explanation
Indices: 22389351--22389394 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
22389341 AACAAACTTG
22389351 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22389395 ACTTAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22397749 original size:36 final size:36
Alignment explanation
Indices: 22397702--22397773 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
22397692 AGAAAAAACT
*
22397702 CCTAAATATGAAAAGAAATTACAAAGATTTTTATAC
1 CCTAAATATGAAAAGAAATAACAAAGATTTTTATAC
22397738 CCTAAATATGAAAAGAAATAACAAAGATTTTTATAC
1 CCTAAATATGAAAAGAAATAACAAAGATTTTTATAC
22397774 TAATAAATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.29
Consensus pattern (36 bp):
CCTAAATATGAAAAGAAATAACAAAGATTTTTATAC
Found at i:22401315 original size:42 final size:43
Alignment explanation
Indices: 22401256--22401343 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 43
22401246 AGTTGTAAAC
** *
22401256 GAGAAGCTCTTTTGAGCTGAATAACGGGAAGCTCATGCGAG-T
1 GAGAAGCTCTTGCGAGCTGAATAACGGGAAGCTCATACGAGCT
*
22401298 GAGAAGCTCTTGCGAGCTGTATAACGGGAAGCTCATACGAGCT
1 GAGAAGCTCTTGCGAGCTGAATAACGGGAAGCTCATACGAGCT
22401341 GAG
1 GAG
22401344 TATCGGGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 37 0.90
43 4 0.10
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (43 bp):
GAGAAGCTCTTGCGAGCTGAATAACGGGAAGCTCATACGAGCT
Found at i:22401328 original size:25 final size:25
Alignment explanation
Indices: 22401300--22401364 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
22401290 ATGCGAGTGA
* *
22401300 GAAGCTCTTGCGAGCTGTA-TAACGG
1 GAAGCTCATACGAGCTG-AGTAACGG
*
22401325 GAAGCTCATACGAGCTGAGTATCGG
1 GAAGCTCATACGAGCTGAGTAACGG
*
22401350 GAAGCTCATAAGAGC
1 GAAGCTCATACGAGC
22401365 AGTGGTGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (25 bp):
GAAGCTCATACGAGCTGAGTAACGG
Found at i:22403102 original size:42 final size:42
Alignment explanation
Indices: 22403003--22403102 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
22402993 GATAGCCAAG
* *
22403003 TCACACGCCCGTGTACTAGGCTGTGTACCCTTCCAAATAACC
1 TCACACGCCCGTGTGCCAGGCTGTGTACCCTTCCAAATAACC
* *
22403045 TCACACACCCGTGTGCCAGGCTTTGTACCCTTCCAAATAACC
1 TCACACGCCCGTGTGCCAGGCTGTGTACCCTTCCAAATAACC
* *
22403087 TTACACGCCCCTGTGC
1 TCACACGCCCGTGTGC
22403103 TAAACCGTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.24
Consensus pattern (42 bp):
TCACACGCCCGTGTGCCAGGCTGTGTACCCTTCCAAATAACC
Found at i:22403222 original size:43 final size:43
Alignment explanation
Indices: 22403161--22403262 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 43
22403151 AGCTACAGGG
* *
22403161 GACACACAACCGTGTCGCTTGACCGTGTGTCACACACGGCTGA
1 GACACACAGCCGTGTCGCTTGACCGTGTGTCACACACAGCTGA
* * * *
22403204 GACACACAGTCGTGTCGCTTGGCCGTGTGTCACACATAGTTGA
1 GACACACAGCCGTGTCGCTTGACCGTGTGTCACACACAGCTGA
*
22403247 GACACACGGCCGTGTC
1 GACACACAGCCGTGTC
22403263 TCTGCCCGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.21
Consensus pattern (43 bp):
GACACACAGCCGTGTCGCTTGACCGTGTGTCACACACAGCTGA
Found at i:22406190 original size:23 final size:23
Alignment explanation
Indices: 22406162--22406219 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
22406152 AGATATGATA
22406162 TGTAATCTTAGAAGATATAATCT
1 TGTAATCTTAGAAGATATAATCT
*
22406185 TGTAATCTTAGAAGATATGATCT
1 TGTAATCTTAGAAGATATAATCT
22406208 TGTAATCTTAGA
1 TGTAATCTTAGA
22406220 TATTTCATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATCT
Found at i:22406431 original size:17 final size:17
Alignment explanation
Indices: 22406409--22406442 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22406399 TTCTCTTTGG
22406409 CTTTGTTCTAT-TTCGTT
1 CTTTGTTC-ATCTTCGTT
22406426 CTTTGTTCATCTTCGTT
1 CTTTGTTCATCTTCGTT
22406443 TGGCTTTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.06, C:0.21, G:0.12, T:0.62
Consensus pattern (17 bp):
CTTTGTTCATCTTCGTT
Found at i:22414367 original size:104 final size:104
Alignment explanation
Indices: 22414177--22414374 Score: 292
Period size: 104 Copynumber: 1.9 Consensus size: 104
22414167 CTGCCGACAA
* *
22414177 CACACGGCCAGGGACATGGGTATGTGCCCAGGCCGTGTGAGCCACACGGGTATGAACATGGGTGT
1 CACACGGCCAGGGACATGGGTATGTGCCCAGGCCGTGTGAGCCACACGGGTAGGAACATGGGCGT
*
22414242 GTGTCCAGGCTCTGTATCTCACTATTTACACTTTAGAAC
66 GTGTCCAGGCTCTGTAACTCACTATTTACACTTTAGAAC
* *
22414281 CACACGGCCATGGACATGGG-AGTGTGCCCAGGCCGTGTGAGCCACACGGGTAGGAACATTGGCG
1 CACACGGCCAGGGACATGGGTA-TGTGCCCAGGCCGTGTGAGCCACACGGGTAGGAACATGGGCG
* * *
22414345 TGTG-CCTAGGTTGTGTAACTCACTGTTTAC
65 TGTGTCC-AGGCTCTGTAACTCACTATTTAC
22414375 GAATTAGGAC
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
103 3 0.04
104 81 0.96
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (104 bp):
CACACGGCCAGGGACATGGGTATGTGCCCAGGCCGTGTGAGCCACACGGGTAGGAACATGGGCGT
GTGTCCAGGCTCTGTAACTCACTATTTACACTTTAGAAC
Found at i:22418863 original size:44 final size:44
Alignment explanation
Indices: 22418815--22419295 Score: 290
Period size: 44 Copynumber: 10.9 Consensus size: 44
22418805 TTTTAATCCG
* *
22418815 CTCCACTGCAACTTCGGGGAGATAGGATTTGTAGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTA
* * * * *
22418859 CTCCACTGCAAATTCAGGGAGATAAGATTCGTTATCTTTAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTA
* * * **
22418904 CTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTA
* *
22418948 CTCCACTG------CAGGGAGATAAGATTAT-TGGCTTTAATCTGA
1 CTCCACTGCAACTTCAGGGAGATAAGATT-TGTAGCTTCAATCT-A
* * ** *
22418987 -TCTACTGCAACTTCAGGGAGATAAGA-TT-CA-CCACGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTA
* ** * *
22419027 CTCTACTGCAACTTCAAAGAGATAAGATCTGTGATTTATAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-T-TG-----TAGCTTCAATCTA
* * * * * * *
22419078 TTCCACTGCAATTTCAGGGAAATAAGATTCGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTA
* * * *
22419123 CTCCACTACAACTTCAGGGAGATAAGACTT-CA-CTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTA
* * * *
22419165 CTCCACTGCAACTTCAAGGAGATAGGATTAT-TGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATT-TGTAGCTTCAATCTA
* * *
22419209 CTCCACTACAACTTCCGGGAGATAAGATTTGCTATCTTCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TA---GCTTCAATCTA
* * * *
22419257 TTCCACTGCAACTTCAGTGG-TATAGGATTTGTAGTTTCA
1 CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTCA
22419296 CCAATCTGTT
Statistics
Matches: 330, Mismatches: 79, Indels: 56
0.71 0.17 0.12
Matches are distributed among these distances:
38 28 0.08
39 1 0.00
40 1 0.00
41 29 0.09
42 35 0.11
43 5 0.02
44 93 0.28
45 72 0.22
47 2 0.01
48 32 0.10
49 3 0.01
50 2 0.01
51 27 0.08
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTA
Found at i:22419237 original size:131 final size:135
Alignment explanation
Indices: 22418994--22419247 Score: 311
Period size: 131 Copynumber: 1.9 Consensus size: 135
22418984 TGATCTACTG
* *
22418994 CAACTTCAGGGAGATAAGATTCACCACGATCTACTCTACTGCAACTTCAAAGAGATAAGATCTGT
1 CAACTTCAGGGAGATAAGATTCACCACAATCTACTCCACTGCAACTTCAAAGAGATAAGA-CTGT
** * *
22419059 GATTTATAGCTTTAATCTGTTCCACTGCAATTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC
65 GA-TTATAGCTTTAATCTACTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC
22419124 TCCACTA
129 TCCACTA
** * * *
22419131 CAACTTCAGGGAGATAAGACTTCACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAGGA-T-T
1 CAACTTCAGGGAGATAAGA-TTCACCACAATCTACTCCACTGCAACTTCAAAGAGATAAGACTGT
* * * *
22419194 -A-T-TGGCTTTAATCTACTCCACTACAACTTCCGGGAGATAAGATTTGCTATCTTC
65 GATTATAGCTTTAATCTACTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTC
22419248 TTCAATCTAT
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
131 44 0.44
132 1 0.01
134 1 0.01
135 1 0.01
136 1 0.01
137 19 0.19
138 34 0.34
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (135 bp):
CAACTTCAGGGAGATAAGATTCACCACAATCTACTCCACTGCAACTTCAAAGAGATAAGACTGTG
ATTATAGCTTTAATCTACTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTC
CACTA
Found at i:22424903 original size:41 final size:41
Alignment explanation
Indices: 22424839--22424963 Score: 128
Period size: 41 Copynumber: 3.0 Consensus size: 41
22424829 TCTCACGTGT
* *
22424839 AATCACATATCGATGCCACTGTCCCAGATAGGGTCTTACACA
1 AATCAAATA-CGATGCCAATGTCCCAGATAGGGTCTTACACA
* * *
22424881 AATCAAATACGATGCCAATGTCCCAGATATGGTCTTCCACG
1 AATCAAATACGATGCCAATGTCCCAGATAGGGTCTTACACA
* *
22424922 TATACACAAGT-CGATGCCAACGTCCCAGAT-GTGGTCTTACAC
1 AAT-CA-AA-TACGATGCCAATGTCCCAGATAG-GGTCTTACAC
22424964 GAAAATACAT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
41 30 0.43
42 10 0.14
43 29 0.41
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
AATCAAATACGATGCCAATGTCCCAGATAGGGTCTTACACA
Found at i:22424950 original size:43 final size:40
Alignment explanation
Indices: 22424847--22424966 Score: 134
Period size: 43 Copynumber: 2.9 Consensus size: 40
22424837 GTAATCACAT
* *
22424847 ATCGATGCC-ACTGTCCCAGATAGGGTCTTACACAAATCAA
1 ATCGATGCCAAC-GTCCCAGATATGGTCTTACACGAATCAA
* * *
22424887 ATACGATGCCAATGTCCCAGATATGGTCTTCCACGTATACACA
1 AT-CGATGCCAACGTCCCAGATATGGTCTTACACGAAT-CA-A
*
22424930 AGTCGATGCCAACGTCCCAGATGTGGTCTTACACGAA
1 A-TCGATGCCAACGTCCCAGATATGGTCTTACACGAA
22424967 AATACATATC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
40 2 0.03
41 28 0.42
42 3 0.05
43 32 0.48
44 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
ATCGATGCCAACGTCCCAGATATGGTCTTACACGAATCAA
Found at i:22442550 original size:16 final size:18
Alignment explanation
Indices: 22442518--22442557 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
22442508 AGTTTAATTA
22442518 TTAAAA-TAATATCATAT
1 TTAAAACTAATATCATAT
22442535 TTAAAACTAA-AT-ATAT
1 TTAAAACTAATATCATAT
*
22442551 TAAAAAC
1 TTAAAAC
22442558 AACAGAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 10 0.48
17 8 0.38
18 3 0.14
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAACTAATATCATAT
Found at i:22446213 original size:29 final size:29
Alignment explanation
Indices: 22446168--22446226 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
22446158 CAACGAACAA
* * *
22446168 GTAAAAATACCAGAAGAAATTGAGGAATT
1 GTAAAAATACCAAAAGAAATAGAGAAATT
22446197 GTAAAAATACCAAAAGAAATAGAGAAATT
1 GTAAAAATACCAAAAGAAATAGAGAAATT
22446226 G
1 G
22446227 AACACACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.19, T:0.19
Consensus pattern (29 bp):
GTAAAAATACCAAAAGAAATAGAGAAATT
Found at i:22449394 original size:29 final size:30
Alignment explanation
Indices: 22449362--22449419 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
22449352 AAAGTTGAGT
*
22449362 TTTTAATTTAAA-ATAACAATCAATTGAAA
1 TTTTAATTGAAAGATAACAATCAATTGAAA
* * *
22449391 TTTTAGTTGAAAGCTAGCAATCAATTGAA
1 TTTTAATTGAAAGATAACAATCAATTGAA
22449420 GTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.36
Consensus pattern (30 bp):
TTTTAATTGAAAGATAACAATCAATTGAAA
Found at i:22452400 original size:17 final size:17
Alignment explanation
Indices: 22452375--22452409 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22452365 TATTACAATT
*
22452375 TTGTATTATATAATTAA
1 TTGTATTATACAATTAA
*
22452392 TTGTGTTATACAATTAA
1 TTGTATTATACAATTAA
22452409 T
1 T
22452410 ATTAAAGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (17 bp):
TTGTATTATACAATTAA
Found at i:22470023 original size:26 final size:26
Alignment explanation
Indices: 22469994--22470045 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
22469984 CTTTTCTCTC
22469994 AGTTAAAAGGTAGCTTTTCAGTTGAT
1 AGTTAAAAGGTAGCTTTTCAGTTGAT
*
22470020 AGTTAAAAGGTAGCTTTTTAGTTGAT
1 AGTTAAAAGGTAGCTTTTCAGTTGAT
22470046 TACAACCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (26 bp):
AGTTAAAAGGTAGCTTTTCAGTTGAT
Found at i:22481717 original size:56 final size:57
Alignment explanation
Indices: 22481650--22481846 Score: 270
Period size: 57 Copynumber: 3.5 Consensus size: 57
22481640 TTTTGTTCAT
* *
22481650 ATTGTTGTTGTTTATTGTTATTTATTATTGGAATTAAGTTGT-AAAAAGGGTGTTTT
1 ATTGTTGTTGTTCATTGTTATTTATTATTGGAATTAAGTTGTCAAAAAGGGTGTTTA
*
22481706 ATTGTTGTTGTTCATTGTTATTTATTACTGGAATTAAGTTGTCAAAAAGGGTGTTTA
1 ATTGTTGTTGTTCATTGTTATTTATTATTGGAATTAAGTTGTCAAAAAGGGTGTTTA
* * * * ** * *
22481763 ATTATTGTTCTTCATTTTTATTTATTTTTGGAATTAAACTGTCAAAAATGGTATTTA
1 ATTGTTGTTGTTCATTGTTATTTATTATTGGAATTAAGTTGTCAAAAAGGGTGTTTA
* *
22481820 ATTGTTGTTGTCCATTGTTGTTTATTA
1 ATTGTTGTTGTTCATTGTTATTTATTA
22481847 CCAAAATAAT
Statistics
Matches: 122, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
56 40 0.33
57 82 0.67
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.52
Consensus pattern (57 bp):
ATTGTTGTTGTTCATTGTTATTTATTATTGGAATTAAGTTGTCAAAAAGGGTGTTTA
Found at i:22489757 original size:73 final size:73
Alignment explanation
Indices: 22489676--22489822 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
22489666 TAATATTCAA
22489676 TGATCCAACCAGGTGGTTTTGTTTATTTTATTTGCGTGCGCAAGGTGAAGAGGTGCATGCACCCA
1 TGATCCAACCAGGTGGTTTTGTTTATTTTATTTGCGTGCGCAAGGTGAAGAGGTGCATGCACCCA
22489741 CAAAGGAT
66 CAAAGGAT
*
22489749 TGATCCAACTAGGTGGTTTTGTTTATTTTATTTGCGTGCGCAAGGTGAAGAGGTGCATGCACCCA
1 TGATCCAACCAGGTGGTTTTGTTTATTTTATTTGCGTGCGCAAGGTGAAGAGGTGCATGCACCCA
22489814 CAAAGGAT
66 CAAAGGAT
22489822 T
1 T
22489823 TTAAAGGTTT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (73 bp):
TGATCCAACCAGGTGGTTTTGTTTATTTTATTTGCGTGCGCAAGGTGAAGAGGTGCATGCACCCA
CAAAGGAT
Found at i:22491761 original size:23 final size:22
Alignment explanation
Indices: 22491712--22491754 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22491702 ATTTTTTAAT
*
22491712 ATTTATAAAAAAATATAATTTA
1 ATTTATAAAAAAACATAATTTA
*
22491734 ATTTATTAAAAAACAT-ATTTA
1 ATTTATAAAAAAACATAATTTA
22491755 TCATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTATAAAAAAACATAATTTA
Found at i:22498045 original size:35 final size:35
Alignment explanation
Indices: 22497992--22498129 Score: 105
Period size: 35 Copynumber: 3.8 Consensus size: 35
22497982 ATGCAAACCA
* * *
22497992 TTGTCGATTTGTCCGACTAGTGCTAGGCGCAACTT
1 TTGTCAATTTATCCGACTAGTGCTGGGCGCAACTT
* * * *
22498027 TTGTCAATTTATCTGACTAGTGTTGGGCACACCATTATAT
1 TTGTCAATTTATCCGACTAGTGCTGGGCGCA--A--CT-T
** * *
22498067 TTGTTGATTTATCCGACTAGCGCTGGGTGCAACTT
1 TTGTCAATTTATCCGACTAGTGCTGGGCGCAACTT
* * *
22498102 TCGTCAGTTTATCTGACTAGTGCTGGGC
1 TTGTCAATTTATCCGACTAGTGCTGGGC
22498130 ACACCATTGT
Statistics
Matches: 76, Mismatches: 22, Indels: 10
0.70 0.20 0.09
Matches are distributed among these distances:
35 47 0.62
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 25 0.33
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (35 bp):
TTGTCAATTTATCCGACTAGTGCTGGGCGCAACTT
Found at i:22498120 original size:75 final size:76
Alignment explanation
Indices: 22497992--22498324 Score: 356
Period size: 75 Copynumber: 4.4 Consensus size: 76
22497982 ATGCAAACCA
* * * *
22497992 TTGTCGATTTGTCCGACTAGTGCTAGGCGCAACTTT-TGTCAATTTATCTGACTAGTGTTGGGCA
1 TTGTCGATTTATCCGACTAGCGCTGGGCGCAACTTTCTGTCAGTTTATCTGACTAGTGTTGGGCA
22498056 CACCATTATAT
66 CACCATTATAT
* * *
22498067 TTGTTGATTTATCCGACTAGCGCTGGGTGCAACTTTC-GTCAGTTTATCTGACTAGTGCTGGGCA
1 TTGTCGATTTATCCGACTAGCGCTGGGCGCAACTTTCTGTCAGTTTATCTGACTAGTGTTGGGCA
*
22498131 CACCATTGTAT
66 CACCATTATAT
* * * *
22498142 TTGTCTG-TTTATCTGACTAGCAG-TGGGCGCAAC-TTCTGTTAGTTCATCTGACTAGTATTGGG
1 TTGTC-GATTTATCCGACTAGC-GCTGGGCGCAACTTTCTGTCAGTTTATCTGACTAGTGTTGGG
** *
22498204 CACATTATTATAA
64 CACACCATTATAT
** * * * *
22498217 TCATCGGTATATCCGACTAGCGCTGGGCTCAA-ATTCTGTCAGTTTATCTGACTAGTGTTGGGCA
1 TTGTCGATTTATCCGACTAGCGCTGGGCGCAACTTTCTGTCAGTTTATCTGACTAGTGTTGGGCA
*
22498281 CACTCTTTATAT
66 CAC-CATTATAT
* * *
22498293 TTGTC-AGTTCATCTGACTAGCGCTAGGCGCAA
1 TTGTCGA-TTTATCCGACTAGCGCTGGGCGCAA
22498325 AGTTTAGTTA
Statistics
Matches: 210, Mismatches: 39, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
74 5 0.02
75 175 0.83
76 30 0.14
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (76 bp):
TTGTCGATTTATCCGACTAGCGCTGGGCGCAACTTTCTGTCAGTTTATCTGACTAGTGTTGGGCA
CACCATTATAT
Found at i:22501924 original size:32 final size:34
Alignment explanation
Indices: 22501882--22501961 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
22501872 ATCTCAAAAT
* *
22501882 TATTATTTTAGAAATT-TTTT-AACTTTATTTATA
1 TATTA-TTTAGAAATTATTTTAAAATTTATATATA
*
22501915 TATTATTTAGAATTTATTTTAAAATTTATATATA
1 TATTATTTAGAAATTATTTTAAAATTTATATATA
*
22501949 TATT-TTAAGAAAT
1 TATTATTTAGAAAT
22501962 ATAAATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 9 0.22
33 16 0.40
34 15 0.38
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (34 bp):
TATTATTTAGAAATTATTTTAAAATTTATATATA
Found at i:22501949 original size:34 final size:33
Alignment explanation
Indices: 22501882--22501952 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 33
22501872 ATCTCAAAAT
* *
22501882 TATTATTTTAGAAATTTTTTAACTTTATTTATA
1 TATTATTTTAGAAATTTTTTAAATTTATATATA
*
22501915 TATTA-TTTAGAATTTATTTTAAAATTTATATATA
1 TATTATTTTAGAAATT-TTTT-AAATTTATATATA
22501949 TATT
1 TATT
22501953 TTAAGAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 9 0.27
33 9 0.27
34 15 0.45
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (33 bp):
TATTATTTTAGAAATTTTTTAAATTTATATATA
Found at i:22504496 original size:26 final size:24
Alignment explanation
Indices: 22504467--22504514 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
22504457 AGCATTCGAA
22504467 TATTTAA-AATGCTTAATAAATATTTT
1 TATTTAATAAT-C-TAAT-AATATTTT
22504493 TATTTAATAATCTAATAATATT
1 TATTTAATAATCTAATAATATT
22504515 ATTTTCCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.29
25 4 0.19
26 8 0.38
27 3 0.14
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTTAATAATCTAATAATATTTT
Found at i:22512531 original size:20 final size:21
Alignment explanation
Indices: 22512503--22512548 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
22512493 TTTCACATCA
*
22512503 ATTTACTAT-TAAAGAATAAT
1 ATTTACTATCAAAAGAATAAT
*
22512523 ATTTTCTATCAAAAGAATAAT
1 ATTTACTATCAAAAGAATAAT
22512544 ATTTA
1 ATTTA
22512549 AATATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (21 bp):
ATTTACTATCAAAAGAATAAT
Found at i:22512557 original size:21 final size:21
Alignment explanation
Indices: 22512513--22512557 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22512503 ATTTACTATT
**
22512513 AAAGAATAATATTTTCTATCA
1 AAAGAATAATATTTAATATCA
22512534 AAAGAATAATATTTAAATAT-A
1 AAAGAATAATATTT-AATATCA
22512555 AAA
1 AAA
22512558 TATAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAGAATAATATTTAATATCA
Found at i:22512570 original size:21 final size:21
Alignment explanation
Indices: 22512541--22512590 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
22512531 TCAAAAGAAT
22512541 AATATTTAAATATAA-AATATAA
1 AATA-TTAAATA-AACAATATAA
*
22512563 AATATTAAATAAACTATATAA
1 AATATTAAATAAACAATATAA
22512584 AATATTA
1 AATATTA
22512591 TTAAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 20 0.77
22 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AATATTAAATAAACAATATAA
Found at i:22513815 original size:52 final size:52
Alignment explanation
Indices: 22513737--22513841 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
22513727 CATGGCAACA
22513737 TCGATAAGTGAAGTAGAAAAATCTGGTCCACTAGCCCCAGAACTCTTTTTCC
1 TCGATAAGTGAAGTAGAAAAATCTGGTCCACTAGCCCCAGAACTCTTTTTCC
22513789 TCGATAAGTGAAGTAGAAAAATCTGGTCCACTAGCCCCAGAACTCTTTTTCC
1 TCGATAAGTGAAGTAGAAAAATCTGGTCCACTAGCCCCAGAACTCTTTTTCC
22513841 T
1 T
22513842 TTTCTTTGGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (52 bp):
TCGATAAGTGAAGTAGAAAAATCTGGTCCACTAGCCCCAGAACTCTTTTTCC
Found at i:22514162 original size:28 final size:28
Alignment explanation
Indices: 22514124--22514181 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
22514114 TCTATGACTT
22514124 TATAAAAAAAGATTTCATAAGCATTATA
1 TATAAAAAAAGATTTCATAAGCATTATA
22514152 TATAAAAAAAGATTTCATAAGCATTATA
1 TATAAAAAAAGATTTCATAAGCATTATA
22514180 TA
1 TA
22514182 CTATATGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (28 bp):
TATAAAAAAAGATTTCATAAGCATTATA
Found at i:22516358 original size:25 final size:25
Alignment explanation
Indices: 22516330--22516377 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22516320 AATTCAAGCA
* * *
22516330 AAATGGATGATATTTTTAATAGAAG
1 AAATGAATGAAATCTTTAATAGAAG
22516355 AAATGAATGAAATCTTTAATAGA
1 AAATGAATGAAATCTTTAATAGA
22516378 CAATGAAATT
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:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (25 bp):
AAATGAATGAAATCTTTAATAGAAG
Found at i:22521971 original size:43 final size:43
Alignment explanation
Indices: 22521914--22522125 Score: 253
Period size: 43 Copynumber: 4.9 Consensus size: 43
22521904 TTTTAGAAAA
* * * **
22521914 AAACGCCACTAAAGACCAAAACCTTTAGCGGCGCTTGTCCCTC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAG
* * *
22521957 AAACGCCGCTAAAGACCAGGACCTTTAGCGGTGCTTTTCCTAG
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAG
* *** *
22522000 AAACGCCGCTAAAGGCTTGGACCTTTAGCGGCGCTTTTTCCAG
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAG
* ** *
22522043 AAACGCCGCTAAAGACCAATACCTTTAGCGGCATTTTTCCCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAG
* *
22522086 AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
22522126 TACAAACGTA
Statistics
Matches: 141, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 141 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAG
Found at i:22522133 original size:43 final size:43
Alignment explanation
Indices: 22521914--22522164 Score: 247
Period size: 43 Copynumber: 5.8 Consensus size: 43
22521904 TTTTAGAAAA
* * *
22521914 AAACGCCACTAAAGACCAAAACCTTTAGCGGCGCTTGTCCCT-C
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT-TTCCTAC
* * *
22521957 AAACGCCGCTAAAGACCAGGACCTTTAGCGGTGCTTTTCCTAG
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTAC
* *** *
22522000 AAACGCCGCTAAAGGCTTGGACCTTTAGCGGCGCTTTTTCC-AG
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTCCTAC
* ** * *
22522043 AAACGCCGCTAAAGACCAATACCTTTAGCGGCATTTTTCCCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTAC
* *
22522086 AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCTAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTAC
** * * *
22522129 AAACGTAGCTAAAG-CTCATGACCTTTAACGACGCTT
1 AAACGCCGCTAAAGAC-CAAGACCTTTAGCGGCGCTT
22522165 CTAAAAATGC
Statistics
Matches: 174, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
42 10 0.06
43 158 0.91
44 6 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTAC
Found at i:22522152 original size:129 final size:129
Alignment explanation
Indices: 22521914--22522164 Score: 326
Period size: 129 Copynumber: 1.9 Consensus size: 129
22521904 TTTTAGAAAA
* ** * *
22521914 AAACGCCACTAAAGACCAAAACCTTTAGCGGCGCTTGTCCCTCAAACGCCGCTAAAGACCAGGAC
1 AAACGCCACTAAAGACCAAAACCTTTAGCGGCACTTGTCCCAAAAACGCCGCTAAAGAACAAGAC
** * * * *
22521979 CTTTAGCGGTGCTTTTCCTAGAAACGCCGCTAAAGGCTTGGACCTTTAGCGGCGCTTTTTCCAG
66 CTTTAGCGACGCTTTTCCTACAAACGCAGCTAAAGGCTTGGACCTTTAACGACGCTTTTTCCAG
* * * *
22522043 AAACGCCGCTAAAGACCAATACCTTTAGCGGCATTTTTCCCAAAAACGCCGCTAAAGAACAAGAC
1 AAACGCCACTAAAGACCAAAACCTTTAGCGGCACTTGTCCCAAAAACGCCGCTAAAGAACAAGAC
*
22522108 CTTTAGCGACGCTTTTCCTACAAACGTAGCTAAA-GCTCAT-GACCTTTAACGACGCTT
66 CTTTAGCGACGCTTTTCCTACAAACGCAGCTAAAGGCT--TGGACCTTTAACGACGCTT
22522165 CTAAAAATGC
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
128 3 0.03
129 100 0.96
130 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (129 bp):
AAACGCCACTAAAGACCAAAACCTTTAGCGGCACTTGTCCCAAAAACGCCGCTAAAGAACAAGAC
CTTTAGCGACGCTTTTCCTACAAACGCAGCTAAAGGCTTGGACCTTTAACGACGCTTTTTCCAG
Found at i:22522282 original size:5 final size:5
Alignment explanation
Indices: 22522272--22522298 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
22522262 TCTATAATAA
22522272 ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT AT
22522299 TGAAATTTAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:22527097 original size:61 final size:63
Alignment explanation
Indices: 22526968--22527089 Score: 185
Period size: 61 Copynumber: 2.0 Consensus size: 63
22526958 CCCCTAACTA
* * *
22526968 CTAACCCCTAAACTTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACC
1 CTAACCCATAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
* *
22527031 CTAACCCATAAACCTTATTT-A-ATATAAATTAAAATACACTAATTAATCTAAACCTTAAA
1 CTAACCCATAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAA
22527090 TCTTAACCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 35 0.65
62 1 0.02
63 18 0.33
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (63 bp):
CTAACCCATAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
Found at i:22527280 original size:14 final size:14
Alignment explanation
Indices: 22527261--22527294 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
22527251 CTAAATTAAT
22527261 CATATACCCCAAAC
1 CATATACCCCAAAC
*
22527275 CATATACCCTAAAC
1 CATATACCCCAAAC
22527289 CATATA
1 CATATA
22527295 TTTTAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (14 bp):
CATATACCCCAAAC
Found at i:22527679 original size:41 final size:41
Alignment explanation
Indices: 22527622--22527817 Score: 248
Period size: 41 Copynumber: 4.8 Consensus size: 41
22527612 AAATGTTTTT
*
22527622 GCGACGCTTTTCCAAAAACACCGCTAAAGCCCTGAGCATTA
1 GCGACGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
22527663 GCGACGCTTTTTCAAAAATGCCGCTAACGCCCTAAGAATTA
1 GCGACGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
22527704 GCGGCACTTTTACAAAAACGCCGCTAAATCCCTGAACATTA
1 GCGACGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
22527745 GCGACGCTTCTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGACGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
* ** *
22527786 GCGGCGCTTTTTTAAAAACGCCACTAAAGCCC
1 GCGACGCTTTTCCAAAAACGCCGCTAAAGCCC
22527818 CGAAAGGTTA
Statistics
Matches: 129, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 129 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (41 bp):
GCGACGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:22530143 original size:14 final size:14
Alignment explanation
Indices: 22530124--22530165 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
22530114 TCGATTTTAT
22530124 TTTTATTTTTCTTC
1 TTTTATTTTTCTTC
*
22530138 TTTTATTTTTCTCC
1 TTTTATTTTTCTTC
*
22530152 TCTTTACTTTTCTT
1 T-TTTATTTTTCTT
22530166 GGGGATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTTTTCTTC
Found at i:22530805 original size:20 final size:22
Alignment explanation
Indices: 22530762--22530810 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
22530752 TGGACACACG
*
22530762 GGTGTGTGCCTCCTTCCACTTA
1 GGTGTGTGCCTCCTTCCACATA
*
22530784 GGTGTGTGCC-CC-TCCGCATA
1 GGTGTGTGCCTCCTTCCACATA
*
22530804 GGCGTGT
1 GGTGTGT
22530811 TGACCCCCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 12 0.50
21 2 0.08
22 10 0.42
ACGTcount: A:0.08, C:0.31, G:0.31, T:0.31
Consensus pattern (22 bp):
GGTGTGTGCCTCCTTCCACATA
Found at i:22531770 original size:16 final size:16
Alignment explanation
Indices: 22531749--22531786 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
22531739 TTTGGTTCGC
22531749 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
22531765 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
22531781 CGTAAT
1 TGTAAT
22531787 AGGTAATCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:22532062 original size:54 final size:54
Alignment explanation
Indices: 22531980--22532179 Score: 154
Period size: 57 Copynumber: 3.5 Consensus size: 54
22531970 TAATATCAAT
* * *
22531980 AATAAATAATTTAATCATATT-TTAAATAATTATTATTAAATATATTTGAATTAA
1 AATATATAATTTAATAAAATTCTTAAATAATTATTATTAAATATATTT-AATTAA
* * * *
22532034 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGA-ATTT-ACTAA
1 AATATATAATTTAATAAAATTCTT-A-AATAATTATTATTAAAT-ATATTTAATTAA
* * *
22532089 AATCATAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
1 AAT-AT-ATA-AT-TTA--ATAAAAT-T--CTTAA-ATAATTATTATTAAATAT-ATTTAATTAA
22532154 AATATATAATTTAATAAAATTCTTAA
1 AATATATAATTTAATAAAATTCTTAA
22532180 TATTAAATAT
Statistics
Matches: 113, Mismatches: 16, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
54 18 0.16
55 9 0.08
56 7 0.06
57 21 0.19
58 4 0.04
59 9 0.08
61 9 0.08
62 5 0.04
63 17 0.15
64 8 0.07
65 6 0.05
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (54 bp):
AATATATAATTTAATAAAATTCTTAAATAATTATTATTAAATATATTTAATTAA
Found at i:22532065 original size:15 final size:16
Alignment explanation
Indices: 22532045--22532074 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22532035 ATATATAATT
22532045 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
22532060 TAATAAATATTCTTA
1 TAATAAATATTCTTA
22532075 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:22532067 original size:61 final size:60
Alignment explanation
Indices: 22532001--22532274 Score: 190
Period size: 61 Copynumber: 4.5 Consensus size: 60
22531991 TAATCATATT
*
22532001 TTAAATAATTATTATTAAATATATTTGAATTAAAATATATAATTTAATAAAATTCTTAATA
1 TTAAATAATTATTATTAAATATATTT-AATAAAAATATATAATTTAATAAAATTCTTAATA
* * * * ** * * * *
22532062 ATAAAT-ATTCTTATATGAATTTACTAAAATCATAATATATAATACT-ATAAAA-T-ATAAT-
1 TTAAATAATTATTAT-TAAATATA-TTTAATAAAAATATATAAT-TTAATAAAATTCTTAATA
22532120 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
1 TTAA-ATAATTATTATTAAATAT-ATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* * * ** * * * * *
22532182 TTAAAT-ATTCTTATATGAATTTACTAAAATCATAGTATATAATACT-ATAAAA-T-ATAAT-
1 TTAAATAATTATTAT-TAAATATA-TTTAATAAAAATATATAAT-TTAATAAAATTCTTAATA
22532240 TTAACATAATTATTATTAAATATAATTTAATAAAA
1 TTAA-ATAATTATTATTAAATAT-ATTTAATAAAA
22532275 TTCTTAATAT
Statistics
Matches: 160, Mismatches: 37, Indels: 34
0.69 0.16 0.15
Matches are distributed among these distances:
58 8 0.05
59 49 0.31
60 34 0.21
61 62 0.39
62 7 0.04
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (60 bp):
TTAAATAATTATTATTAAATATATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
Found at i:22532139 original size:120 final size:120
Alignment explanation
Indices: 22532000--22532275 Score: 495
Period size: 120 Copynumber: 2.3 Consensus size: 120
22531990 TTAATCATAT
22532000 TTTAA-ATAATTATTATTAAATAT-ATTTGAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 TTTAACATAATTATTATTAAATATAATTT-AATTAAAATATATAATTTAATAAAATTCTTAATAA
22532063 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
22532119 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
22532184 AAATATTCTTATATGAATTTACTAAAATCATAGTATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
22532239 TTTAACATAATTATTATTAAATATAATTTAA-TAAAAT
1 TTTAACATAATTATTATTAAATATAATTTAATTAAAAT
22532276 TCTTAATATT
Statistics
Matches: 151, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
119 10 0.07
120 137 0.91
121 4 0.03
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:22532278 original size:102 final size:102
Alignment explanation
Indices: 22532157--22532370 Score: 392
Period size: 102 Copynumber: 2.1 Consensus size: 102
22532147 TAATAAAAAT
*
22532157 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAGTATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
22532222 AATACTATAAAATATAATTTAACATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATTATTATTAA
22532259 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
22532324 CATACTATAAAATATAATTTAAAATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATTATTATTAA
*
22532361 ATATATTTTA
1 ATATAATTTA
22532371 TAATCTACTT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 108 1.00
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATTATTATTAA
Found at i:22533814 original size:49 final size:49
Alignment explanation
Indices: 22533758--22533861 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
22533748 AAAAAAAAAC
* * * *
22533758 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
22533807 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
22533856 AAATTA
1 AAATTA
22533862 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
Found at i:22536258 original size:171 final size:166
Alignment explanation
Indices: 22535971--22536296 Score: 562
Period size: 171 Copynumber: 1.9 Consensus size: 166
22535961 ATAATAACAA
*
22535971 TGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCAAATGATCCAATTTTTATTTTAT
1 TGAATAATTGTTTTTTAATCAAGTTGTTTACTTGATTATATCAAATGATCCAATTTTTATTTTAT
* *
22536036 TTACTCATGATTGGATTGGGTTTAATTTATAATAGTTCAAAAGTCGATATATATGTAATATTATT
66 TTACTCATGATTGGAATGAGTTTAATTTATAATAGTTCAAAAGTCGATATATATGTAATATTATT
22536101 AAAATAATATTTTTAATTTTAATTAATGCGTTATAT
131 AAAATAATATTTTTAATTTTAATTAATGCGTTATAT
*
22536137 TGAATAATTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCCAAATTTTATTTTAT
1 TGAATAATTGTTTTTTAATCAAGTTGTTTACTTGATTATATCAAATGATCC-AA---T-TTTTAT
*
22536202 TTTATTTACTCATGATTGGAATGAGTTTAATTTATAATGGTTCAAAAGTCGATATATATGTAATA
61 TTTATTTACTCATGATTGGAATGAGTTTAATTTATAATAGTTCAAAAGTCGATATATATGTAATA
22536267 TTATTAAAATAATATTTTTAATTTTAATTA
126 TTATTAAAATAATATTTTTAATTTTAATTA
22536297 TTTAAAAATA
Statistics
Matches: 150, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
166 49 0.33
167 2 0.01
170 1 0.01
171 98 0.65
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.49
Consensus pattern (166 bp):
TGAATAATTGTTTTTTAATCAAGTTGTTTACTTGATTATATCAAATGATCCAATTTTTATTTTAT
TTACTCATGATTGGAATGAGTTTAATTTATAATAGTTCAAAAGTCGATATATATGTAATATTATT
AAAATAATATTTTTAATTTTAATTAATGCGTTATAT
Found at i:22536318 original size:24 final size:26
Alignment explanation
Indices: 22536266--22536315 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
22536256 TATATGTAAT
22536266 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
22536293 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
22536316 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:22543571 original size:22 final size:21
Alignment explanation
Indices: 22543546--22543586 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
22543536 TGTATGGTGT
*
22543546 GATTTGGTTTTGGTATTATATA
1 GATTTGGTTATGGT-TTATATA
22543568 GATTTGGTTATGGTTTATA
1 GATTTGGTTATGGTTTATA
22543587 AGTATAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (21 bp):
GATTTGGTTATGGTTTATATA
Found at i:22545232 original size:28 final size:28
Alignment explanation
Indices: 22545200--22545255 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
22545190 TAGGAAGTCA
*
22545200 GCTTGAGCATTTTCGACATGGGAGATCC
1 GCTTGAGCATTCTCGACATGGGAGATCC
22545228 GCTTGAGCATTCTCGACATGGGAGATCC
1 GCTTGAGCATTCTCGACATGGGAGATCC
22545256 TATCAACTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (28 bp):
GCTTGAGCATTCTCGACATGGGAGATCC
Found at i:22549012 original size:8 final size:8
Alignment explanation
Indices: 22549001--22549040 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
22548991 ATAGGAAAAA
22549001 ATCATGGG
1 ATCATGGG
*
22549009 ATCATGAG
1 ATCATGGG
*
22549017 ATCATGAG
1 ATCATGGG
22549025 ATCATGGG
1 ATCATGGG
22549033 ATCATGGG
1 ATCATGGG
22549041 CCTACTCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (8 bp):
ATCATGGG
Found at i:22557803 original size:21 final size:19
Alignment explanation
Indices: 22557766--22557804 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
22557756 AATTTAATAA
*
22557766 ATAAATAAATTTTATTATC
1 ATAAATAAATTTAATTATC
22557785 ATAAATATAACTTTAATTAT
1 ATAAATA-AA-TTTAATTAT
22557805 TATTTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAAATAAATTTAATTATC
Found at i:22558496 original size:17 final size:16
Alignment explanation
Indices: 22558457--22558525 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 16
22558447 AGTGTTATAA
22558457 AATTAAATTATATTTTT
1 AATTAAATT-TATTTTT
*
22558474 TA-TAAATTTATTTTT
1 AATTAAATTTATTTTT
* *
22558489 CAATTAAAATTAATATTT
1 -AATT-AAATTTATTTTT
*
22558507 AATTAAATTATATATTT
1 AATTAAATT-TATTTTT
22558524 AA
1 AA
22558526 CTCTAAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
15 7 0.16
16 12 0.28
17 14 0.33
18 10 0.23
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTAAATTTATTTTT
Found at i:22563047 original size:24 final size:23
Alignment explanation
Indices: 22563014--22563058 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
22563004 ATTTTTTGAT
* *
22563014 AAAAATACATAAGATTTATAAAAC
1 AAAAACACAT-AGAATTATAAAAC
22563038 AAAAACACATAGAATTATAAA
1 AAAAACACATAGAATTATAAA
22563059 TAAATGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAAACACATAGAATTATAAAAC
Found at i:22565116 original size:7 final size:7
Alignment explanation
Indices: 22565104--22565131 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
22565094 ACACACAATA
22565104 CCTTTTC
1 CCTTTTC
22565111 CCTTTTC
1 CCTTTTC
22565118 CCTTTTC
1 CCTTTTC
22565125 CCTTTTC
1 CCTTTTC
22565132 TTTCCATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (7 bp):
CCTTTTC
Found at i:22573173 original size:51 final size:53
Alignment explanation
Indices: 22573083--22573196 Score: 151
Period size: 51 Copynumber: 2.2 Consensus size: 53
22573073 TATAGTGGTT
* * * *
22573083 CAAGCGTGTTTCTACGGGAGGATGTGTAGCTTACGGGCTTGGCACTTAGTGCC
1 CAAGCGTGTTTCTACGAGAGGATGTGTAGCCTACAGGCTTGGCACTCAGTGCC
* *
22573136 CAAGCGTGTTTTTA-GAG-GGATGTTTAGCCTACAGGCTTGGCACTCAGTGCC
1 CAAGCGTGTTTCTACGAGAGGATGTGTAGCCTACAGGCTTGGCACTCAGTGCC
*
22573187 CAGGCGTGTT
1 CAAGCGTGTT
22573197 CTTGGATGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 39 0.72
52 2 0.04
53 13 0.24
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (53 bp):
CAAGCGTGTTTCTACGAGAGGATGTGTAGCCTACAGGCTTGGCACTCAGTGCC
Found at i:22577133 original size:23 final size:21
Alignment explanation
Indices: 22577095--22577141 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
22577085 TCAAGGGATT
22577095 TAAACATCATTCAAAAACA-CC
1 TAAACATCATTC-AAAACATCC
*
22577116 TAAACATGCCATTTAAAACATCC
1 TAAACAT--CATTCAAAACATCC
22577139 TAA
1 TAA
22577142 CTCATCTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
22 6 0.27
23 9 0.41
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (21 bp):
TAAACATCATTCAAAACATCC
Found at i:22579521 original size:45 final size:45
Alignment explanation
Indices: 22579452--22579628 Score: 234
Period size: 45 Copynumber: 4.0 Consensus size: 45
22579442 TACATGTATT
* *
22579452 GGGTACCATTGATTATAAAAGTGGTTGCTATGTGCTGATTCCACC
1 GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* *
22579497 GGGTATCATTAATTATAAAGGTGGTTGCTGTGTGCTGATTCCACC
1 GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* *
22579542 GGGTA-CTATTGATTATGAAGGTGGTTTCTATGTGCTGATTCCACC
1 GGGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
** * *
22579587 AAGTATCATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCCAC
1 GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
22579629 TGTGTATCTG
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
43 5 0.04
44 13 0.11
45 97 0.84
46 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (45 bp):
GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
Found at i:22582337 original size:30 final size:30
Alignment explanation
Indices: 22582303--22582376 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
22582293 GTTGATCCAT
*
22582303 CCCTTTTCATAATTCGATAACTGAAG-TTAC
1 CCCTTTTCATAATTCGACAACTGAAGCTT-C
* * *
22582333 CCCTTTTCATAGTTCGACAGCTGAAGCTTT
1 CCCTTTTCATAATTCGACAACTGAAGCTTC
22582363 CCCTTTTCATAATT
1 CCCTTTTCATAATT
22582377 TGATGCTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (30 bp):
CCCTTTTCATAATTCGACAACTGAAGCTTC
Found at i:22582396 original size:30 final size:30
Alignment explanation
Indices: 22582362--22582554 Score: 99
Period size: 30 Copynumber: 6.5 Consensus size: 30
22582352 GCTGAAGCTT
*
22582362 TCCCTTTTCATAATTTGAT-GCTTGTCACCA
1 TCCCTTTTCATAATTTGATGGC-CGTCACCA
** * *
22582392 TCCCTTTTCATTGTTCGATGGCCGTTACCA
1 TCCCTTTTCATAATTTGATGGCCGTCACCA
* * * *
22582422 TCCCTTTTCATAATTTTATAGTCG-AAGCCA
1 TCCCTTTTCATAATTTGATGGCCGTCA-CCA
* * ** * *
22582452 TCCTTTTTCATAGTTCAATAGCCG-AAGCCA
1 TCCCTTTTCATAATTTGATGGCCGTCA-CCA
* * * ** *
22582482 TCTCTTTTCATAGTTCGATGGTTGTCAACA
1 TCCCTTTTCATAATTTGATGGCCGTCACCA
* *
22582512 TCCTTTTTCAT--TGTTGATGGTCGTCACCA
1 TCCCTTTTCATAAT-TTGATGGCCGTCACCA
*
22582541 TCCCTTTTTATAAT
1 TCCCTTTTCATAAT
22582555 CGATAGTCGA
Statistics
Matches: 125, Mismatches: 32, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
28 1 0.01
29 23 0.18
30 97 0.78
31 4 0.03
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (30 bp):
TCCCTTTTCATAATTTGATGGCCGTCACCA
Found at i:22582426 original size:60 final size:59
Alignment explanation
Indices: 22582362--22582554 Score: 185
Period size: 60 Copynumber: 3.2 Consensus size: 59
22582352 GCTGAAGCTT
* *
22582362 TCCCTTTTCATAATTTGATGCTTGTCACCATCCCTTTTCATTGTTCGATGGCCGTTACCA
1 TCCCTTTTCATAATTTGATG-TTGTCACCATCCTTTTTCATTGTTCGATGGCCGTAACCA
* * * * * *
22582422 TCCCTTTTCATAATTTTATAGTCG-AAGCCATCCTTTTTCATAGTTCAATAGCCG-AAGCCA
1 TCCCTTTTCATAATTTGAT-GTTGTCA-CCATCCTTTTTCATTGTTCGATGGCCGTAA-CCA
* * * * * *
22582482 TCTCTTTTCATAGTTCGATGGTTGTCAACATCCTTTTTCATTGTT-GATGGTCGTCACCA
1 TCCCTTTTCATAATTTGAT-GTTGTCACCATCCTTTTTCATTGTTCGATGGCCGTAACCA
*
22582541 TCCCTTTTTATAAT
1 TCCCTTTTCATAAT
22582555 CGATAGTCGA
Statistics
Matches: 104, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
59 21 0.20
60 81 0.78
61 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (59 bp):
TCCCTTTTCATAATTTGATGTTGTCACCATCCTTTTTCATTGTTCGATGGCCGTAACCA
Found at i:22591710 original size:16 final size:16
Alignment explanation
Indices: 22591686--22591716 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22591676 TGATTCTGAC
*
22591686 CATGGCATACTGCATA
1 CATGACATACTGCATA
22591702 CATGACATACTGCAT
1 CATGACATACTGCAT
22591717 GGGGTTGGGA
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:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (16 bp):
CATGACATACTGCATA
Found at i:22598050 original size:3 final size:3
Alignment explanation
Indices: 22598037--22598069 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
22598027 AACTGATTTT
22598037 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22598070 AAGTTCTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22607328 original size:20 final size:20
Alignment explanation
Indices: 22607291--22607329 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22607281 TAAAAAAACA
* **
22607291 TATAATTATTCATTTAATAT
1 TATAACTATTCAAATAATAT
22607311 TATAACTATTCAAATAATA
1 TATAACTATTCAAATAATA
22607330 CTGTGTGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAACTATTCAAATAATAT
Found at i:22612567 original size:16 final size:17
Alignment explanation
Indices: 22612527--22612569 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
22612517 TTCTTGATAT
22612527 AGTTGTTCTCAATGAAG
1 AGTTGTTCTCAATGAAG
22612544 ATGTTGTTC-CAACT-AAG
1 A-GTTGTTCTCAA-TGAAG
22612561 AGTTGTTCT
1 AGTTGTTCT
22612570 GTGGTGCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 8 0.35
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (17 bp):
AGTTGTTCTCAATGAAG
Found at i:22612684 original size:16 final size:16
Alignment explanation
Indices: 22612663--22612704 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
22612653 AAAAACAAAA
22612663 TTGTTCTAAATATA-AG
1 TTGTTCTAAATA-ACAG
* *
22612679 TTGTTCCAAATAACGG
1 TTGTTCTAAATAACAG
22612695 TTGTTCTAAA
1 TTGTTCTAAA
22612705 CATAGCTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (16 bp):
TTGTTCTAAATAACAG
Found at i:22614672 original size:21 final size:21
Alignment explanation
Indices: 22614647--22614702 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
22614637 AACAGTGATG
*
22614647 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
22614668 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
22614689 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
22614703 AACAATGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:22615978 original size:58 final size:59
Alignment explanation
Indices: 22615883--22616054 Score: 170
Period size: 58 Copynumber: 2.9 Consensus size: 59
22615873 TTGTTGCAAT
* * * * *
22615883 GTTTCCTAAAAAATAATGGAAACAA-CAAGTTATAGTGTTTTTGGAATAACCTTTGGTAAT
1 GTTTCCTTACAAA-AATGGGAACAACCAAG-TATAGTGTTTTTGGAATAACCTTTGATAAC
* * * * *
22615943 TTTTCC-T-CAAACAATGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTGATAAC
1 GTTTCCTTACAAA-AATGGGAACAACCAAGTATAGTGTTTTTGGAATAACCTTTGATAAC
* *
22616001 GTTTCCTTACAAAAATTTGGGAACACCCAAGTATAGTGTTTTAGGAATAACCTT
1 GTTTCCTTACAAAAA--TGGGAACAACCAAGTATAGTGTTTTTGGAATAACCTT
22616055 CCATAGTGTT
Statistics
Matches: 89, Mismatches: 18, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
58 42 0.47
59 7 0.08
60 9 0.10
61 31 0.35
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (59 bp):
GTTTCCTTACAAAAATGGGAACAACCAAGTATAGTGTTTTTGGAATAACCTTTGATAAC
Found at i:22616066 original size:61 final size:60
Alignment explanation
Indices: 22615957--22616075 Score: 134
Period size: 61 Copynumber: 2.0 Consensus size: 60
22615947 CCTCAAACAA
* *
22615957 TGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTGATAACGTTTCCTTACAAAAATT
1 TGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTCATAACGTTTCCCTA-AAAAATT
* * * **
22616018 TGGGAACACCCAAGTATAGTGTTT-TAGGAATAACCT-TCCATAGTGTTTCCCTAAAAAA
1 TGGGAACAACCAAGTAAAGTGTTTCT-GGAATAACATGT-CATAACGTTTCCCTAAAAAA
22616076 GTGGCAGCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
60 7 0.14
61 42 0.86
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (60 bp):
TGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTCATAACGTTTCCCTAAAAAATT
Found at i:22616726 original size:97 final size:97
Alignment explanation
Indices: 22616604--22616793 Score: 335
Period size: 97 Copynumber: 2.0 Consensus size: 97
22616594 AGTTATAAAG
22616604 TGTAGCTAAAATATGAACAATAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATACTC
1 TGTAGCTAAAATATGAACAATAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATACTC
*
22616669 GTACAAAAGGGATTAGAAGTATGAATTCGTAA
66 GTACAAAAGGGAGTAGAAGTATGAATTCGTAA
* * *
22616701 TGTAGCTAAAATATGAACGATAAAGTTGTAGTTTAATTTTCATGTATTGATAAAATATCTTACTC
1 TGTAGCTAAAATATGAACAATAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATACTC
*
22616766 GTACAAAATGGAGTAGAAGTATGAATTC
66 GTACAAAAGGGAGTAGAAGTATGAATTC
22616794 CTTTTATATT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 88 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.34
Consensus pattern (97 bp):
TGTAGCTAAAATATGAACAATAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATACTC
GTACAAAAGGGAGTAGAAGTATGAATTCGTAA
Found at i:22618478 original size:25 final size:25
Alignment explanation
Indices: 22618438--22618491 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
22618428 TTTTCTTTTC
* *
22618438 TTTTTCTTTTCATTTTTAGTTTAGG
1 TTTTTCTTTTCATTTTTAGATTAGA
22618463 TTTTCTCTTTTC-TTTTTAGATTAGA
1 TTTT-TCTTTTCATTTTTAGATTAGA
22618488 TTTT
1 TTTT
22618492 ATTGTAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (25 bp):
TTTTTCTTTTCATTTTTAGATTAGA
Found at i:22632757 original size:54 final size:54
Alignment explanation
Indices: 22632685--22632822 Score: 267
Period size: 54 Copynumber: 2.6 Consensus size: 54
22632675 ATTGTCGTTG
22632685 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTTATATTA
*
22632739 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTTATATTA
22632793 CAGGGGATTTAGCCTGGACTGGTAATCCCG
1 CAGGGGATTTAGCCTGGACTGGTAATCCCG
22632823 CTGTAAGGAT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTTATATTA
Found at i:22634753 original size:75 final size:75
Alignment explanation
Indices: 22634674--22634825 Score: 286
Period size: 75 Copynumber: 2.0 Consensus size: 75
22634664 CACTATAGCC
22634674 TTTTTTTTTTTTTTTGAAAATTTTAATTAAATTCTCTTAACATTTATAAAAAGTGTCATTAATCT
1 TTTTTTTTTTTTTTTGAAAATTTTAATTAAATTCTCTTAACATTTATAAAAAGTGTCATTAATCT
*
22634739 CATAAAAATT
66 CACAAAAATT
*
22634749 TTTTTTTTTTTTTTTGAAAATTTTAATTAAATTCTCTTAACATTTTTAAAAAGTGTCATTAATCT
1 TTTTTTTTTTTTTTTGAAAATTTTAATTAAATTCTCTTAACATTTATAAAAAGTGTCATTAATCT
22634814 CACAAAAATT
66 CACAAAAATT
22634824 TT
1 TT
22634826 AAAAGTTTAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (75 bp):
TTTTTTTTTTTTTTTGAAAATTTTAATTAAATTCTCTTAACATTTATAAAAAGTGTCATTAATCT
CACAAAAATT
Found at i:22640797 original size:10 final size:10
Alignment explanation
Indices: 22640782--22640806 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22640772 AGTTTTTAAT
22640782 TTTTAAAATA
1 TTTTAAAATA
22640792 TTTTAAAATA
1 TTTTAAAATA
22640802 TTTTA
1 TTTTA
22640807 TTTTGCTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:22649077 original size:19 final size:18
Alignment explanation
Indices: 22649055--22649112 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
22649045 TACTTTTTTA
*
22649055 TTAACTTTTATCTTTTTCT
1 TTAA-TTTTATATTTTTCT
* * *
22649074 TTAATTTTTTTTTGTTTTT
1 TTAATTTTATATT-TTTCT
22649093 TTAAGTTTTATATTTTTCT
1 TTAA-TTTTATATTTTTCT
22649112 T
1 T
22649113 ATTTGATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 7 0.23
19 17 0.55
20 7 0.23
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (18 bp):
TTAATTTTATATTTTTCT
Found at i:22649093 original size:40 final size:38
Alignment explanation
Indices: 22649048--22649133 Score: 95
Period size: 38 Copynumber: 2.2 Consensus size: 38
22649038 TTTTTATTAC
* **
22649048 TTTTTTATTAACTTTTATCTTTTTCTTTAATTTTTTTTTG
1 TTTTTTATTAACTTTTATATTTTTC-TT-ATTTGATTTTG
*
22649088 -TTTTT-TTAAGTTTTATATTTTTCTTATTTGATTTTG
1 TTTTTTATTAACTTTTATATTTTTCTTATTTGATTTTG
22649124 TTTATTTATT
1 TTT-TTTATT
22649134 TTATTTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
36 9 0.23
37 4 0.10
38 19 0.49
39 7 0.18
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (38 bp):
TTTTTTATTAACTTTTATATTTTTCTTATTTGATTTTG
Found at i:22649134 original size:13 final size:14
Alignment explanation
Indices: 22649111--22649143 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
22649101 TATATTTTTC
*
22649111 TTATTTGATTTTGT
1 TTATTTGATTTTAT
22649125 TTATTT-ATTTTAT
1 TTATTTGATTTTAT
22649138 TTATTT
1 TTATTT
22649144 TTATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (14 bp):
TTATTTGATTTTAT
Found at i:22649134 original size:18 final size:19
Alignment explanation
Indices: 22649111--22649153 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22649101 TATATTTTTC
22649111 TTATTTGATTT-TGTTTAT
1 TTATTTGATTTATGTTTAT
* *
22649129 TTATTTTATTTATTTTTAT
1 TTATTTGATTTATGTTTAT
*
22649148 TAATTT
1 TTATTT
22649154 TAAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTATTTGATTTATGTTTAT
Found at i:22649222 original size:12 final size:11
Alignment explanation
Indices: 22649214--22649263 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
22649204 AATTTTAATT
22649214 ATTATTTTAAA
1 ATTATTTTAAA
*
22649225 ATTATTTTTAA
1 ATTATTTTAAA
22649236 A--ATTTTAAA
1 ATTATTTTAAA
22649245 TATTATTTTTTAAA
1 -ATTA--TTTTAAA
22649259 ATTAT
1 ATTAT
22649264 GTCTTATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
9 7 0.22
10 1 0.03
11 12 0.38
12 1 0.03
13 4 0.12
14 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTATTTTAAA
Found at i:22649229 original size:14 final size:12
Alignment explanation
Indices: 22649214--22649349 Score: 54
Period size: 13 Copynumber: 11.0 Consensus size: 12
22649204 AATTTTAATT
22649214 ATTA-TTTTAAA
1 ATTATTTTTAAA
22649225 ATTATTTTT-AA
1 ATTATTTTTAAA
22649236 A--A-TTTTAAA
1 ATTATTTTTAAA
22649245 TATTATTTTTTAAA
1 -ATTA-TTTTTAAA
* *
22649259 ATTATGTCTTATA
1 ATTAT-TTTTAAA
*
22649272 A--ATTTTAAAA
1 ATTATTTTTAAA
*
22649282 ATATATTTTTGAA
1 AT-TATTTTTAAA
*
22649295 ATTAATTTTTCTAA
1 ATT-ATTTTT-AAA
*
22649309 ATT-TTAAATTTTAA
1 ATTATT---TTTAAA
22649323 ATATATTTTTAAAA
1 AT-TATTTTT-AAA
22649337 ATATATTTTTAAA
1 AT-TATTTTTAAA
22649350 CAAAATAAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 36
0.68 0.06 0.25
Matches are distributed among these distances:
8 4 0.04
9 3 0.03
10 6 0.06
11 9 0.09
12 9 0.09
13 31 0.32
14 29 0.30
15 4 0.04
16 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (12 bp):
ATTATTTTTAAA
Found at i:22649251 original size:21 final size:21
Alignment explanation
Indices: 22649217--22649261 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
22649207 TTTAATTATT
22649217 ATTTTAAAATTA-TTTTTAAA
1 ATTTTAAAATTATTTTTTAAA
22649237 ATTTTAAATATTATTTTTTAAA
1 ATTTTAAA-ATTATTTTTTAAA
22649259 ATT
1 ATT
22649262 ATGTCTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 8 0.35
21 4 0.17
22 11 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTAAAATTATTTTTTAAA
Found at i:22649297 original size:36 final size:35
Alignment explanation
Indices: 22649195--22649316 Score: 130
Period size: 36 Copynumber: 3.5 Consensus size: 35
22649185 TTATAATATA
22649195 TATTTTTA-AAATTTT---AATTATTATTTTAAAAT
1 TATTTTTATAAATTTTAAAAATTATT-TTTTAAAAT
*
22649227 TATTTTTA-AAATTTTAAATATTATTTTTTAAAAT
1 TATTTTTATAAATTTTAAAAATTATTTTTTAAAAT
* *
22649261 TATGTCTTATAAATTTTAAAAA-TATATTTTTGAAAT
1 TAT-TTTTATAAATTTTAAAAATTAT-TTTTTAAAAT
*
22649297 TAATTTTTCTAAATTTTAAA
1 T-ATTTTTATAAATTTTAAA
22649317 TTTTAAATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
32 15 0.19
34 12 0.16
35 13 0.17
36 35 0.45
37 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (35 bp):
TATTTTTATAAATTTTAAAAATTATTTTTTAAAAT
Found at i:22649407 original size:36 final size:34
Alignment explanation
Indices: 22649310--22649472 Score: 119
Period size: 34 Copynumber: 4.8 Consensus size: 34
22649300 TTTTTCTAAA
*
22649310 TTTT-AAATTT-TAAATATATTTTTAAAAATATAT
1 TTTTAAAATTTATAAA-ATAATTTTAAAAATATAT
** *
22649343 TTTTAAACA-AAATAAAATAATTTCAAAAATATAT
1 TTTTAAA-ATTTATAAAATAATTTTAAAAATATAT
22649377 TTTTAAAATTTATAAGACATAATTTTAAAAA-ATAAT
1 TTTTAAAATTTATAA-A-ATAATTTTAAAAATAT-AT
* **
22649413 ATTTAAAATTT-TAAAAGTATATTTTTGAAAT-TAT
1 TTTTAAAATTTATAAAA-TA-ATTTTAAAAATATAT
22649447 TTTT--AATTT-TAAATATTAATTTTAAA
1 TTTTAAAATTTATAAA-A-TAATTTTAAA
22649473 TATTAAATAT
Statistics
Matches: 105, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
32 15 0.14
33 9 0.09
34 37 0.35
35 20 0.19
36 24 0.23
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (34 bp):
TTTTAAAATTTATAAAATAATTTTAAAAATATAT
Found at i:22649465 original size:13 final size:13
Alignment explanation
Indices: 22649449--22649478 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
22649439 GAAATTATTT
22649449 TTAATTTTAAATA
1 TTAATTTTAAATA
22649462 TTAATTTTAAATA
1 TTAATTTTAAATA
22649475 TTAA
1 TTAA
22649479 ATATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATTTTAAATA
Found at i:22649478 original size:20 final size:20
Alignment explanation
Indices: 22649445--22649482 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22649435 TTTTGAAATT
* *
22649445 ATTTTTAATTTTAAATATTA
1 ATTTTAAATATTAAATATTA
22649465 ATTTTAAATATTAAATAT
1 ATTTTAAATATTAAATAT
22649483 ATTTTTAATT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAAATATTAAATATTA
Found at i:22649498 original size:147 final size:146
Alignment explanation
Indices: 22649222--22649490 Score: 338
Period size: 147 Copynumber: 1.9 Consensus size: 146
22649212 TTATTATTTT
* * ** * *
22649222 AAAATTATTTTTAAAATTTTAAATATTATTTTTTAAAATTATGTCTTATAAATTTTAAAAATATA
1 AAAATTATTTTTAAAATTTTAAACATAATTTTAAAAAATAATATCTTATAAATTTTAAAAATATA
* * *
22649287 TTTTTGAAATTAATTTTTCTAAATTTTAAATTTTAAATATATTTTTAAAAATATATTTTTAAACA
66 TTTTTGAAATTAATTTTTCTAAATTTTAAATATTAAATATAATATTAAAAATATATTTTTAAACA
22649352 AAATAAAATAATTTCA
131 AAATAAAATAATTTCA
*
22649368 AAAATATATTTTTAAAATTTATAAGACATAATTTTAAAAAATAATAT-TTA-AAATTTTAAAAGT
1 AAAAT-TATTTTTAAAATTT-TAA-ACATAATTTTAAAAAATAATATCTTATAAATTTTAAAAAT
* *
22649431 ATATTTTTGAAATT-A-TTTT-T-AATTTTAAATATTAATTTTAAATATT--AAATATATTTTTA
63 ATATTTTTGAAATTAATTTTTCTAAATTTTAAATATTAAATAT-AATATTAAAAATATATTTTTA
22649490 A
127 A
22649491 TTTAAACATT
Statistics
Matches: 107, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
142 14 0.13
143 16 0.15
144 5 0.05
145 4 0.04
146 6 0.06
147 40 0.37
148 6 0.06
149 16 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (146 bp):
AAAATTATTTTTAAAATTTTAAACATAATTTTAAAAAATAATATCTTATAAATTTTAAAAATATA
TTTTTGAAATTAATTTTTCTAAATTTTAAATATTAAATATAATATTAAAAATATATTTTTAAACA
AAATAAAATAATTTCA
Found at i:22649581 original size:24 final size:24
Alignment explanation
Indices: 22649554--22649621 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 24
22649544 GTTTAAATAT
22649554 ATTTAAAATAATTTAAAAATCATA
1 ATTTAAAATAATTTAAAAATCATA
22649578 ATTTAAAA-AATTCTGAAAAAATCATA
1 ATTTAAAATAATT-T--AAAAATCATA
*
22649604 ATTTAAAATTATATTAAA
1 ATTTAAAATAAT-TTAAA
22649622 TATATTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
23 4 0.11
24 9 0.24
25 3 0.08
26 18 0.47
27 3 0.08
28 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (24 bp):
ATTTAAAATAATTTAAAAATCATA
Found at i:22649817 original size:20 final size:20
Alignment explanation
Indices: 22649754--22649817 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
22649744 TTAAGTACAT
* *
22649754 AAATTTATGAATGTGTACTA
1 AAATTTATAAATATGTACTA
* * *
22649774 AAA-TTAAAAAAATAATA-TA
1 AAATTTATAAATAT-GTACTA
22649793 TAAATTTATAAATATGTACTA
1 -AAATTTATAAATATGTACTA
22649814 AAAT
1 AAAT
22649818 AAAAAAATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
19 8 0.25
20 14 0.44
21 10 0.31
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (20 bp):
AAATTTATAAATATGTACTA
Found at i:22650276 original size:20 final size:20
Alignment explanation
Indices: 22650253--22650307 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
22650243 TGTGATCTTA
22650253 TAATATATATTTTTAATTTT
1 TAATATATATTTTTAATTTT
* * *
22650273 TAATTTAAATTTTTACTTTT
1 TAATATATATTTTTAATTTT
22650293 TAATATATATATTTT
1 TAATATATAT-TTTT
22650308 TAAATAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TAATATATATTTTTAATTTT
Found at i:22650334 original size:20 final size:20
Alignment explanation
Indices: 22650309--22650366 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 20
22650299 ATATATTTTT
22650309 AAATAAATTTATTTTTTAAC
1 AAATAAATTTATTTTTTAAC
*
22650329 AAATAAA--TCTTTTTTAAC
1 AAATAAATTTATTTTTTAAC
* **
22650347 AGATATTTTTTATTTTTTAA
1 AAATA-AATTTATTTTTTAA
22650367 TTAATTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 14 0.47
20 7 0.23
21 9 0.30
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (20 bp):
AAATAAATTTATTTTTTAAC
Found at i:22650677 original size:20 final size:20
Alignment explanation
Indices: 22650652--22650695 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
22650642 CATAATTTAA
22650652 AATATTATAAAAAATT-AAAT
1 AATATT-TAAAAAATTAAAAT
*
22650672 AATATTTAAAATATTAAAAT
1 AATATTTAAAAAATTAAAAT
22650692 AATA
1 AATA
22650696 ATAATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATATTTAAAAAATTAAAAT
Found at i:22650688 original size:8 final size:9
Alignment explanation
Indices: 22650646--22650692 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
22650636 AAAAATCATA
22650646 ATTTAAAAT
1 ATTTAAAAT
*
22650655 ATTATAAAAA
1 ATT-TAAAAT
*
22650665 ATTAAATAAT
1 ATTTAA-AAT
22650675 ATTTAAAAT
1 ATTTAAAAT
22650684 A-TTAAAAT
1 ATTTAAAAT
22650692 A
1 A
22650693 ATAATAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
8 8 0.25
9 9 0.28
10 15 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
ATTTAAAAT
Done.