Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 124 of 320
Found at i:40296815 original size:37 final size:37
Alignment explanation
Indices: 40296707--40296815 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
40296697 GGAAATATAT
** *
40296707 TCCGGGTAAGACCTAATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
40296744 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
40296781 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
40296816 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:40304008 original size:46 final size:47
Alignment explanation
Indices: 40303898--40304020 Score: 160
Period size: 46 Copynumber: 2.6 Consensus size: 47
40303888 GCCACATTAT
* * *
40303898 GAGAGCAAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATCGAGAC
* * *
40303946 GAGTGCTAATGTAAGACATGTCTGGGACATGG-ATCAGCCTCGAGAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGAC
40303992 GTA-AGCTAGTGTAAGACATGTCTGGGACA
1 G-AGAGCTAGTGTAAGACATGTCTGGGACA
40304021 CGTATCGACT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 36 0.55
47 17 0.26
48 13 0.20
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGAC
Found at i:40309175 original size:27 final size:27
Alignment explanation
Indices: 40309137--40309316 Score: 175
Period size: 27 Copynumber: 6.6 Consensus size: 27
40309127 TAAATTGTAC
*
40309137 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
40309164 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
40309190 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGATTTGACT-ATGT
*
40309218 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40309246 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40309273 AGCACTAAGTGTGCGAGTTGATTATATAT
1 AGCACTAAGTGTGCGATTTGA--CTATGT
*
40309302 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40309317 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 87 0.68
28 22 0.17
29 18 0.14
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40309251 original size:82 final size:81
Alignment explanation
Indices: 40309138--40309294 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 81
40309128 AAATTGTACA
* *
40309138 GCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
40309202 TGCGAATTGATCATGCG
65 TGCGAATTGATCATGCG
** *
40309219 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
40309284 TGCGAGTTGAT
65 TGCGAATTGAT
40309295 TATATATAGC
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 53 0.78
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (81 bp):
GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGATCATGCG
Found at i:40309261 original size:55 final size:54
Alignment explanation
Indices: 40309137--40309291 Score: 179
Period size: 55 Copynumber: 2.9 Consensus size: 54
40309127 TAAATTGTAC
* * **
40309137 AGCACTAAGTGTGCGGTTTGA-CTATGTTGCACTAAGTGTGCGA-AATGAATATG
1 AGCACTAAGTGTGCGATTTGATC-ATGTAGCACTAAGTGTGCGAGTTTGAATATG
* ** *
40309190 ATGCACTAAGTGTGCGAATTGATCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCGATTTGATCATGTAGCACTAAGTGTGCGAGTTTGAATATG
* *
40309245 TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTT
1 -AGCACTAAGTGTGCGATTTGATCATGTAGCACTAAGTGTGCGAGTT
40309292 GATTATATAT
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 36 0.42
55 48 0.56
56 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGATCATGTAGCACTAAGTGTGCGAGTTTGAATATG
Found at i:40309327 original size:29 final size:29
Alignment explanation
Indices: 40309272--40309327 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
40309262 TTTGATTACG
* * *
40309272 TAGCACTAAGTGTGCGAGTTGATTATATA
1 TAGCACTAAGTGTGCGAGCTCAATATATA
* *
40309301 TAGCACTGAGTGTGCGGGCTCAATATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
40309328 CATTCGTGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (29 bp):
TAGCACTAAGTGTGCGAGCTCAATATATA
Found at i:40313481 original size:42 final size:42
Alignment explanation
Indices: 40313429--40313519 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
40313419 GGCCCTTAGG
* * ** * *
40313429 CCCAATTCAATATCACATGTAATGTCAATGGATGTATGCAAA
1 CCCATTTCAATATCACATGAAATACCAATGAATGTAGGCAAA
*
40313471 CCCATTTCAATATCACATGAAATACCAATGAATGTAGGCAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTAGGCAAA
40313513 CCCATTT
1 CCCATTT
40313520 GGGGAGACTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (42 bp):
CCCATTTCAATATCACATGAAATACCAATGAATGTAGGCAAA
Found at i:40330797 original size:46 final size:46
Alignment explanation
Indices: 40330730--40330907 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
40330720 CGTAATCCGC
* *
40330730 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * **
40330776 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* **
40330826 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
40330869 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
40330908 CTCAACCATC
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 3 0.03
46 64 0.59
47 28 0.26
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:40330850 original size:93 final size:93
Alignment explanation
Indices: 40330737--40330908 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
40330727 CGCCCATAAG
***
40330737 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40330802 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
*
40330830 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
40330895 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
40330909 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:40338252 original size:45 final size:45
Alignment explanation
Indices: 40338185--40338311 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 45
40338175 TGTAACCCGC
* * *
40338185 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
* *
40338230 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
40338276 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
40338312 ATGCTCAACC
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
45 32 0.43
46 42 0.57
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:40338331 original size:46 final size:45
Alignment explanation
Indices: 40338193--40338331 Score: 122
Period size: 46 Copynumber: 3.0 Consensus size: 45
40338183 GCCCATAAGC
* * * *
40338193 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
* * *** *
40338238 GAACTCGGATTCAACTCAACGAGTTCAGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
40338284 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
40338330 GA
1 GA
40338332 CATGTCACTT
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
45 25 0.31
46 50 0.62
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:40357240 original size:48 final size:48
Alignment explanation
Indices: 40357101--40357453 Score: 589
Period size: 48 Copynumber: 7.3 Consensus size: 48
40357091 TGTACAAGAT
* ** *
40357101 AAATATATATGAGATATGTATATGCAGTAAAGCTGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
40357149 AAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTG
*
40357199 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
40357247 AAATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
40357295 AAATATGTATGAGATATGTATATGTGGTAAGGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
40357343 AAATATGTATGAGATATGTATATGTGGTAAGGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
40357391 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
40357439 AAATATGTAGGAGAT
1 AAATATGTATGAGAT
40357454 GTGTGTATAT
Statistics
Matches: 289, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
48 245 0.85
50 44 0.15
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:40366443 original size:22 final size:22
Alignment explanation
Indices: 40366384--40366440 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
40366374 ATCTTCAATA
40366384 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
40366403 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
40366425 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
40366441 GATTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 12 0.38
22 8 0.25
23 12 0.38
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:40366729 original size:19 final size:18
Alignment explanation
Indices: 40366705--40366740 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
40366695 CATGTTTCCC
*
40366705 TTTTTTTTATATATTTTAA
1 TTTTTTTAATA-ATTTTAA
40366724 TTTTTTTAATAATTTTA
1 TTTTTTTAATAATTTTA
40366741 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTTTAATAATTTTAA
Found at i:40374643 original size:42 final size:42
Alignment explanation
Indices: 40374554--40374649 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
40374544 GTCTTCACCA
* * *
40374554 GTGTAACTCACTAAGAAGGGTCACACAGTCATGTCGCAGGTC
1 GTGTAACTCACTAAGAAGGGTCACACAGCCATGTCGCAAGCC
* *
40374596 GTGTAACTCACTAAGAAGGGTCACACAGCCGTGTAC-TAAGCC
1 GTGTAACTCACTAAGAAGGGTCACACAGCCATGT-CGCAAGCC
*
40374638 TTGTAACTCACT
1 GTGTAACTCACT
40374650 GACTTGAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (42 bp):
GTGTAACTCACTAAGAAGGGTCACACAGCCATGTCGCAAGCC
Found at i:40380399 original size:53 final size:53
Alignment explanation
Indices: 40380216--40380460 Score: 227
Period size: 55 Copynumber: 4.6 Consensus size: 53
40380206 ATTAGGGTTT
* * *
40380216 AAGGATACCGTGTAAGACCATGCCAAGGCATGAAAATTGGTAAGCTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATG-GAATTGGTAAG--TTCATAAGGC
* * * *
40380271 AAGGAAATCATGTAAGACCATGTCAAGACATGGAATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT-C-ATAAGGC
* * *
40380326 AAAGG-TCCCATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTCATAAGGC
* *
40380379 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTCAT-AAGGC
* * *
40380428 AAGGATACCACGTAAGACCATGACAAGTCATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
40380461 CAATGTAAGG
Statistics
Matches: 161, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
49 29 0.18
51 1 0.01
52 8 0.05
53 42 0.26
54 11 0.07
55 66 0.41
56 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTCATAAGGC
Found at i:40380682 original size:16 final size:16
Alignment explanation
Indices: 40380661--40380691 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40380651 ATAAATTTGA
40380661 TTAAGTAAGTAAGTTT
1 TTAAGTAAGTAAGTTT
*
40380677 TTAAGTAAGTGAGTT
1 TTAAGTAAGTAAGTT
40380692 AGTGAAGAAG
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:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (16 bp):
TTAAGTAAGTAAGTTT
Found at i:40383677 original size:48 final size:48
Alignment explanation
Indices: 40383606--40383886 Score: 287
Period size: 48 Copynumber: 5.9 Consensus size: 48
40383596 AGGGAAACTT
* * * * *
40383606 GCCGATGCCTTGTCCCAAACATGGTCTTACATTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAG
* * *
40383654 GCCGATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCATGTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAG
* * * *
40383702 ACCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACGTCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAG
* * * * * *
40383750 GCCGATGCCATGTCCCAGACATGGTCATACACTAGCTCTCGTCTAAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAG
** * * * * **
40383798 GATGATGCCATGTCCCAAACATGATCTTACACTGGCTCTCATGAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATG-TCAAG
* *
40383846 GCCGATGCCATGTCCC-GACATGGTCTTACATTAGCACACAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT
40383887 ATGACCCAAA
Statistics
Matches: 188, Mismatches: 44, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
47 19 0.10
48 168 0.89
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAG
Found at i:40383773 original size:96 final size:97
Alignment explanation
Indices: 40383607--40383880 Score: 367
Period size: 96 Copynumber: 2.9 Consensus size: 97
40383597 GGGAAACTTG
* *
40383607 CCGATGCCTTGTCCCAAACATGGTCTTACATTGGCTCACATGTCGAGGCCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAG
* * *
40383672 GCATGGTCTTACACTAGCTCTCATGTCAAT-A
66 ACATGGTCTTACACTAGCTCTCATCTAAATGA
* * * *
40383703 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACGTCAAGGCCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAG
* *
40383768 ACATGGTCATACACTAGCTCTCGTCTAAATGA
66 ACATGGTCTTACACTAGCTCTCATCTAAATGA
* * * *
40383800 -TGATGCCATGTCCCAAACATGATCTTACACTGGCTCTCATGAT-GTGGCCGATGCCATGTCCC-
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATG-TCGAGGCCGATGCCATGTCCCA
*
40383862 GACATGGTCTTACATTAGC
65 GACATGGTCTTACACTAGC
40383881 ACACATATGA
Statistics
Matches: 155, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
95 17 0.11
96 136 0.88
97 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (97 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCTCTCATCTAAATGA
Found at i:40387717 original size:40 final size:40
Alignment explanation
Indices: 40387673--40387750 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
40387663 ATTTTTAAAA
*
40387673 AAAAAACGCCGCAAT-AGATCGAGCTTTAGCGGCGTTTTTG
1 AAAAAACGCCGCAATAAG-TCGACCTTTAGCGGCGTTTTTG
* * *
40387713 AAAAAGCGCCGCTATAAGTCGACCTTTAGTGGCGTTTT
1 AAAAAACGCCGCAATAAGTCGACCTTTAGCGGCGTTTT
40387751 ACCAAAACGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (40 bp):
AAAAAACGCCGCAATAAGTCGACCTTTAGCGGCGTTTTTG
Found at i:40387890 original size:74 final size:74
Alignment explanation
Indices: 40387738--40387908 Score: 191
Period size: 74 Copynumber: 2.3 Consensus size: 74
40387728 AAGTCGACCT
* * ***
40387738 TTAGTGGCGTTTTACC-AAAACGCCGCTAAAAGGTTAAGAAAAATGGCGTCGTTTTACATGAGCT
1 TTAGCGGCGTTTTCCCAAAAACGCCGCTAAAAGGTTAAGAAAAACAACGTCGTTTTACATGAGCT
* *
40387802 TCATTGGCA
66 TCAGTGACA
* * * * *
40387811 GTAGCGGCGTTTTCCCAAAAACGTCGCTAAAATGTTAAGCAAAACAACGTCGTTTTATATGAGCT
1 TTAGCGGCGTTTTCCCAAAAACGCCGCTAAAAGGTTAAGAAAAACAACGTCGTTTTACATGAGCT
*
40387876 TCAGTGATA
66 TCAGTGACA
* * *
40387885 TTAGCGGTGCTTTCCTAAAAACGC
1 TTAGCGGCGTTTTCCCAAAAACGC
40387909 TGTAATAGCT
Statistics
Matches: 79, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
73 13 0.16
74 66 0.84
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (74 bp):
TTAGCGGCGTTTTCCCAAAAACGCCGCTAAAAGGTTAAGAAAAACAACGTCGTTTTACATGAGCT
TCAGTGACA
Found at i:40388746 original size:15 final size:14
Alignment explanation
Indices: 40388728--40388770 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
40388718 TTTAATATTT
40388728 TTATAGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
40388743 TTATGGGTTTAAGGG
1 TTAT-GGTTTAGGGG
*
40388758 TTATGATTTAGGG
1 TTATGGTTTAGGG
40388771 TTGATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:40388777 original size:14 final size:13
Alignment explanation
Indices: 40388735--40388800 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 13
40388725 TTTTTATAGG
*
40388735 TTTAGGGGTTATGGG
1 TTTA-GGGTTAT-GA
40388750 TTTAAGGGTTATGA
1 TTT-AGGGTTATGA
40388764 TTTAGGGTTGATGA
1 TTTAGGGTT-ATGA
**
40388778 TTTATGTTTTATGA
1 TTTA-GGGTTATGA
40388792 TTTAGGGTT
1 TTTAGGGTT
40388801 TGAGGTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.21
14 20 0.47
15 13 0.30
16 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (13 bp):
TTTAGGGTTATGA
Found at i:40388816 original size:28 final size:28
Alignment explanation
Indices: 40388758--40388816 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
40388748 GGTTTAAGGG
**
40388758 TTATGATTTAGGGTTGATGATTTATGTT
1 TTATGATTTAGGGTTGATGATTTATAAT
*
40388786 TTATGATTTAGGGTTTGA-GGTTTATAAT
1 TTATGATTTAGGG-TTGATGATTTATAAT
40388814 TTA
1 TTA
40388817 GAATGTTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (28 bp):
TTATGATTTAGGGTTGATGATTTATAAT
Found at i:40389192 original size:14 final size:14
Alignment explanation
Indices: 40389175--40389214 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
40389165 AAGGTCTAGT
40389175 GTTTGGGGTTTAAG
1 GTTTGGGGTTTAAG
* *
40389189 GTTTGGAGTTTATG
1 GTTTGGGGTTTAAG
*
40389203 GTTTAGGGTTTA
1 GTTTGGGGTTTA
40389215 TGGAATAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (14 bp):
GTTTGGGGTTTAAG
Found at i:40389199 original size:21 final size:21
Alignment explanation
Indices: 40389156--40389214 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
40389146 TAGGGGTTAA
* *
40389156 TTAGGGTTTAAGGTCTAGTGT
1 TTAGGGTTTAAGGTTTAGAGT
* *
40389177 TTGGGGTTTAAGGTTTGGAGT
1 TTAGGGTTTAAGGTTTAGAGT
* *
40389198 TTATGGTTTAGGGTTTA
1 TTAGGGTTTAAGGTTTA
40389215 TGGAATAGGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.02, G:0.36, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTAAGGTTTAGAGT
Found at i:40389361 original size:14 final size:14
Alignment explanation
Indices: 40389327--40389361 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
40389317 TTTTAGGGTG
*
40389327 TTAGGGTTTAATGT
1 TTAGGGTTTAAAGT
40389341 TTA-GGTTTAAAGT
1 TTAGGGTTTAAAGT
40389354 TTAGGGTT
1 TTAGGGTT
40389362 ATATTTAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTAAAGT
Found at i:40389456 original size:7 final size:7
Alignment explanation
Indices: 40389446--40389547 Score: 50
Period size: 7 Copynumber: 14.6 Consensus size: 7
40389436 GATTTAGGAT
40389446 TTTAGGG
1 TTTAGGG
*
40389453 TTTAGAG
1 TTTAGGG
40389460 TTT-GTGG
1 TTTAG-GG
*
40389467 ATT-GGG
1 TTTAGGG
*
40389473 TTTTGTGG
1 TTTAG-GG
**
40389481 TTTATAG
1 TTTAGGG
*
40389488 TTTGGGG
1 TTTAGGG
40389495 TTTAGGG
1 TTTAGGG
40389502 TTT-GGTG
1 TTTAGG-G
*
40389509 TTTGGGG
1 TTTAGGG
*
40389516 TTTAGAG
1 TTTAGGG
40389523 TTT-GGAG
1 TTTAGG-G
*
40389530 TTTAGAG
1 TTTAGGG
*
40389537 TTTGGGG
1 TTTAGGG
40389544 TTTA
1 TTTA
40389548 ATTTTGGAAT
Statistics
Matches: 70, Mismatches: 18, Indels: 14
0.69 0.18 0.14
Matches are distributed among these distances:
6 8 0.11
7 54 0.77
8 8 0.11
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:40389503 original size:21 final size:21
Alignment explanation
Indices: 40389470--40389526 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
40389460 TTTGTGGATT
*
40389470 GGGTTTTGTGGTTT-ATAGTTTG
1 GGGTTTAG-GGTTTGAT-GTTTG
*
40389492 GGGTTTAGGGTTTGGTGTTTG
1 GGGTTTAGGGTTTGATGTTTG
*
40389513 GGGTTTAGAGTTTG
1 GGGTTTAGGGTTTG
40389527 GAGTTTAGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 23 0.74
22 8 0.26
ACGTcount: A:0.09, C:0.00, G:0.42, T:0.49
Consensus pattern (21 bp):
GGGTTTAGGGTTTGATGTTTG
Found at i:40389504 original size:14 final size:14
Alignment explanation
Indices: 40389494--40389547 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
40389484 ATAGTTTGGG
* * *
40389494 GTTTAGGGTTTGGT
1 GTTTGGGGTTTAGA
40389508 GTTTGGGGTTTAGA
1 GTTTGGGGTTTAGA
*
40389522 GTTTGGAGTTTAGA
1 GTTTGGGGTTTAGA
40389536 GTTTGGGGTTTA
1 GTTTGGGGTTTA
40389548 ATTTTGGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.13, C:0.00, G:0.41, T:0.46
Consensus pattern (14 bp):
GTTTGGGGTTTAGA
Found at i:40389527 original size:21 final size:21
Alignment explanation
Indices: 40389486--40389532 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
40389476 TGTGGTTTAT
*
40389486 AGTTTGGGGTTTAGGGTTTGG
1 AGTTTGGGGTTTAGAGTTTGG
*
40389507 TGTTTGGGGTTTAGAGTTTGG
1 AGTTTGGGGTTTAGAGTTTGG
40389528 AGTTT
1 AGTTT
40389533 AGAGTTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.43, T:0.47
Consensus pattern (21 bp):
AGTTTGGGGTTTAGAGTTTGG
Found at i:40389546 original size:21 final size:21
Alignment explanation
Indices: 40389494--40389546 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
40389484 ATAGTTTGGG
* * *
40389494 GTTTAGGGTTTGGTGTTTGGG
1 GTTTAGGGTTTGGAGTTTAGA
*
40389515 GTTTAGAGTTTGGAGTTTAGA
1 GTTTAGGGTTTGGAGTTTAGA
*
40389536 GTTTGGGGTTT
1 GTTTAGGGTTT
40389547 AATTTTGGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (21 bp):
GTTTAGGGTTTGGAGTTTAGA
Found at i:40405628 original size:40 final size:40
Alignment explanation
Indices: 40405584--40405815 Score: 306
Period size: 40 Copynumber: 5.8 Consensus size: 40
40405574 ATAACCACAA
*
40405584 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
40405624 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
40405664 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * * *
40405704 GCACAATTGCCTTCAGGTCTTATCCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
40405744 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
40405784 GCACAATTGCCTTCGGGACTTAGCCTGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
40405816 CATTCAAATG
Statistics
Matches: 166, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
39 4 0.02
40 155 0.93
41 7 0.04
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:40405687 original size:80 final size:80
Alignment explanation
Indices: 40405584--40405815 Score: 349
Period size: 80 Copynumber: 2.9 Consensus size: 80
40405574 ATAACCACAA
* * * *
40405584 GCACAAATGCCCTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAGC
*
40405648 CCGGATATATCAACTC
65 CCGGATATAGCAACTC
* *
40405664 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCAGGTCTTATCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
*
40405729 CGGGTATAGCAACTC
66 CGGATATAGCAACTC
* *
40405744 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
*
40405809 TGGATAT
66 CGGATAT
40405816 CATTCAAATG
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
80 133 0.97
81 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
CGGATATAGCAACTC
Found at i:40405788 original size:120 final size:120
Alignment explanation
Indices: 40405555--40405814 Score: 344
Period size: 120 Copynumber: 2.2 Consensus size: 120
40405545 ACCCAAGTTT
* * * * *
40405555 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATATC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCAGGTCTTAGCCCGGATATAGC
* *
40405619 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
* * * * * * *
40405674 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCAGGTCTTATCCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCAGGTCTTAGCCCGGATATAGC
* *
40405739 AACTCGCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATC-ACTAGCACAATTGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AAATCAACTAGCACAAATGC
*
40405794 CTTCGGGACTTAGCCTGGATA
1 CTTCGGGACTTAGCCCGGATA
40405815 TCATTCAAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
119 10 0.08
120 107 0.88
121 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCAGGTCTTAGCCCGGATATAGC
AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
Found at i:40412744 original size:15 final size:16
Alignment explanation
Indices: 40412726--40412763 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
40412716 AATTGGAAAG
40412726 ATGAAAAGTT-ATTAA
1 ATGAAAAGTTAATTAA
* *
40412741 ATGACAATTTAATTAA
1 ATGAAAAGTTAATTAA
40412757 ATGAAAA
1 ATGAAAA
40412764 ACAAAACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.32
Consensus pattern (16 bp):
ATGAAAAGTTAATTAA
Found at i:40415524 original size:47 final size:48
Alignment explanation
Indices: 40415409--40415542 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 48
40415399 AGGAATGTGA
* * * *
40415409 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGAT
1 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATC-GACTCGA-TTCGAT
* * *
40415459 -AGTCAGTGTAAGACTATGTCTGGGACATGGCATCGACTTGA-TGGAT
1 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGACTCGATTCGAT
*
40415505 GAGCCAGTGTAAGACTATGTCTGTGACATGGCATCGAC
1 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGAC
40415543 ATTATACCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 4 0.05
47 35 0.47
48 5 0.07
49 30 0.41
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (48 bp):
GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGACTCGATTCGAT
Found at i:40416139 original size:60 final size:60
Alignment explanation
Indices: 40416059--40416178 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
40416049 GGAAAATGGA
40416059 TAGTATTGAAAGTTATTATGTGAATGCAAGCTAGTCTTTCATGAATGTGGAATTATTGGC
1 TAGTATTGAAAGTTATTATGTGAATGCAAGCTAGTCTTTCATGAATGTGGAATTATTGGC
* *
40416119 TAGTGTTGAAAGTTATTATGTGAATGCAAGCTAGTCTTTCATGAATGTGGAATTGTTGGC
1 TAGTATTGAAAGTTATTATGTGAATGCAAGCTAGTCTTTCATGAATGTGGAATTATTGGC
40416179 ATGGTTGAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.38
Consensus pattern (60 bp):
TAGTATTGAAAGTTATTATGTGAATGCAAGCTAGTCTTTCATGAATGTGGAATTATTGGC
Found at i:40416594 original size:12 final size:12
Alignment explanation
Indices: 40416577--40416606 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
40416567 GTTTTTAGAA
40416577 ACGGGCTAAGAC
1 ACGGGCTAAGAC
40416589 ACGGGCTAAGAC
1 ACGGGCTAAGAC
40416601 ACGGGC
1 ACGGGC
40416607 ATGTCATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.30, C:0.27, G:0.37, T:0.07
Consensus pattern (12 bp):
ACGGGCTAAGAC
Found at i:40416809 original size:21 final size:21
Alignment explanation
Indices: 40416783--40416842 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
40416773 GTCATAATGG
*
40416783 CACACGGGTGTGT-TGCCCTTC
1 CACACGGGCGTGTGT-CCCTTC
40416804 CACACGGGCGTGTGTCCCTTC
1 CACACGGGCGTGTGTCCCTTC
* *
40416825 CAGACGGTCGTGTG-CCCT
1 CACACGGGCGTGTGTCCCT
40416843 ATTTCAAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.11
21 30 0.86
22 1 0.03
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CACACGGGCGTGTGTCCCTTC
Found at i:40428057 original size:44 final size:44
Alignment explanation
Indices: 40427991--40428132 Score: 132
Period size: 42 Copynumber: 3.3 Consensus size: 44
40427981 TCTAAGATAT
* * *
40427991 CGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTCAGATTTA
1 CGTGTAAGACCATGTCTAGGACACAGGCATCGATTTCAGATTTA
* *
40428035 CGTGTAAGACCATGTCTAGGACATCA-ACATCG-TATCTA-ATTT-
1 CGTGTAAGACCATGTCTAGGACA-CAGGCATCGATTTC-AGATTTA
* * * * *
40428077 CGTGTAAGACCCTGTCTAGGACAAAGGCATCGA-TACTGAATTA
1 CGTGTAAGACCATGTCTAGGACACAGGCATCGATTTCAGATTTA
*
40428120 CATGTAAGACCAT
1 CGTGTAAGACCAT
40428133 ATCTGAGACG
Statistics
Matches: 78, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 31 0.40
43 18 0.23
44 26 0.33
45 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTAGGACACAGGCATCGATTTCAGATTTA
Found at i:40430368 original size:48 final size:49
Alignment explanation
Indices: 40430293--40430387 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 49
40430283 TGTAAGACTT
* *
40430293 AGTAAATATGCACGGAAGTGCGTATCTACAGAAG-TATCATGTGCAATC
1 AGTAAACATGCACGGAAGTGCGGATCTACAGAAGCTATCATGTGCAATC
* *
40430341 AGTAAACATGCACGGGAGTGTGGATCTACAGAAGCTATCATGTGCAA
1 AGTAAACATGCACGGAAGTGCGGATCTACAGAAGCTATCATGTGCAA
40430388 GAGGTTTGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 30 0.71
49 12 0.29
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (49 bp):
AGTAAACATGCACGGAAGTGCGGATCTACAGAAGCTATCATGTGCAATC
Found at i:40439551 original size:24 final size:24
Alignment explanation
Indices: 40439524--40439576 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
40439514 AAGGCTGTCA
40439524 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
40439548 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
40439572 GGAGA
1 GGAGA
40439577 ACGGTGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.43, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:40441088 original size:27 final size:26
Alignment explanation
Indices: 40441020--40441120 Score: 112
Period size: 27 Copynumber: 3.8 Consensus size: 26
40441010 CTGGTGGTTA
** *
40441020 TGCCACAATTATCTCATCTAGTGGCAC
1 TGCCAC-ATTATCTGTTCTGGTGGCAC
*
40441047 TGCCACATATATCTGTTCTGGTGGCTC
1 TGCCACAT-TATCTGTTCTGGTGGCAC
*
40441074 TGCCACAATTATCTGTTCTGGTGACAC
1 TGCCAC-ATTATCTGTTCTGGTGGCAC
* *
40441101 TGTCACATTATTTGTTCTGG
1 TGCCACATTATCTGTTCTGG
40441121 CAGTCATGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
26 15 0.23
27 47 0.73
28 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.37
Consensus pattern (26 bp):
TGCCACATTATCTGTTCTGGTGGCAC
Found at i:40441102 original size:54 final size:53
Alignment explanation
Indices: 40441010--40441120 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 53
40441000 AGGAAGCGTC
* *
40441010 CTGGTGGTTATGCCACAATTATCTCATCTAGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTCATCTAGTGACACTGCCACAT-TATCTGTT
* ** * * *
40441064 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACACTGTCACATTATTTGTT
1 CTGGTGGCTATGCCACAATTATCTCATCTAGTGACACTGCCACATTATCTGTT
40441117 CTGG
1 CTGG
40441121 CAGTCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 11 0.22
54 38 0.78
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTCATCTAGTGACACTGCCACATTATCTGTT
Found at i:40450074 original size:29 final size:29
Alignment explanation
Indices: 40450011--40450078 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
40450001 TAATCAACCG
40450011 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
40450040 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
40450069 CGCACACTTA
1 CGCACACTTA
40450079 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:40450191 original size:174 final size:174
Alignment explanation
Indices: 40449900--40450227 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
40449890 CACTCAAGGT
* * *
40449900 ACTTACCTTTTCCGCTGTCCAAAATTGATTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
40449965 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
40450030 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
40450074 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
40450139 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
40450204 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
40450228 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:40450221 original size:29 final size:30
Alignment explanation
Indices: 40450187--40450258 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
40450177 ATCAACCACG
*
40450187 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
40450216 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
40450245 CACACTTAGTGCCA
1 CACACTTAGTGCCA
40450259 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:40455575 original size:68 final size:65
Alignment explanation
Indices: 40455360--40455613 Score: 205
Period size: 68 Copynumber: 3.9 Consensus size: 65
40455350 CATGTAGTTC
* * * *
40455360 AGCTCTCTTGTACACATGGTGGACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTTG
1 AGCTCTCTTGTACACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATTCTTG
40455422 T
65 T
* * * * * ** * *
40455423 AGCTCTCTTGTCCACATGGTGTCCTTCACCTGGAACCATGCATGGGACCTAGCTACATATA-TCC
1 AGCTCTCTTGTACACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATTCT
40455487 TGT
63 TGT
*
40455490 AGCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTC
1 AGCTCTCTTGTAC-ACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TC
40455554 TTGT
62 TTGT
* * * ** *
40455558 AGCTCTCTTGTACACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 AGCTCTCTTGTACACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA
40455614 CCATCTGTAT
Statistics
Matches: 152, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
63 20 0.13
64 26 0.17
65 2 0.01
66 23 0.15
67 29 0.19
68 51 0.34
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (65 bp):
AGCTCTCTTGTACACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTTGT
Found at i:40456313 original size:30 final size:30
Alignment explanation
Indices: 40456279--40456339 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
40456269 TCATTAAATC
40456279 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
40456309 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
40456339 A
1 A
40456340 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:40457292 original size:46 final size:44
Alignment explanation
Indices: 40457219--40457401 Score: 149
Period size: 46 Copynumber: 4.0 Consensus size: 44
40457209 GGGTTACTTG
* * *
40457219 TGTGCTAGTGTAAGTCATGCCTGGGACATGCATCGGCCT-CGAGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGA
* *
40457263 TGTAAGCCAGTGTAAGACATATCTGGGACATGCATTGGCTACGAGA
1 TGT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
* * *
40457309 TGTGTCAGTGTAAGACTATGTCTGAGACATGGCATTGGC-ACGTATAGA
1 TGTGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCTACG---AGA
* * *
40457357 GGTGTCAATGTAAGACCATGTCTGGGACATGGCATCGG-TAC-AGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGA
40457401 T
1 T
40457402 ATGTGAGAGC
Statistics
Matches: 116, Mismatches: 13, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
44 18 0.16
45 16 0.14
46 44 0.38
48 37 0.32
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
Found at i:40457369 original size:48 final size:45
Alignment explanation
Indices: 40457273--40457391 Score: 143
Period size: 48 Copynumber: 2.6 Consensus size: 45
40457263 TGTAAGCCAG
* * *
40457273 TGTAAGACATATCTGGGACAT-GCATTGGCTACGAGATGTGTCAG
1 TGTAAGACATGTCTGGGACATGGCATTGGCTACGAGAGGTGTCAA
*
40457317 TGTAAGACTATGTCTGAGACATGGCATTGGC-ACGTATAGAGGTGTCAA
1 TGTAAGAC-ATGTCTGGGACATGGCATTGGCTACG---AGAGGTGTCAA
40457365 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGA-CATGTCTGGGACATGGCAT
40457392 CGGTACAGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
44 8 0.12
45 14 0.22
46 8 0.12
48 33 0.52
49 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGGCATTGGCTACGAGAGGTGTCAA
Found at i:40460642 original size:40 final size:40
Alignment explanation
Indices: 40460611--40460820 Score: 264
Period size: 40 Copynumber: 5.3 Consensus size: 40
40460601 GGACTAAGAT
*
40460611 CCGAAGGCAATT-GTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGC-ATTCGTGCGAGATACTAAA-TCCGGGTTAAGTC
* *
40460651 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
*
40460691 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
40460731 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
40460771 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
*
40460810 TCGAAGGCATT
1 CCGAAGGCATT
40460821 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 36 0.23
40 117 0.75
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:40460774 original size:120 final size:120
Alignment explanation
Indices: 40460558--40460820 Score: 293
Period size: 120 Copynumber: 2.2 Consensus size: 120
40460548 TTGAATGCTG
* *
40460558 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCAAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCAAT
*
40460622 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
40460678 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGC-A
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAA
* * * * * *
40460740 TTCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TT-GTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* * *
40460797 ACCGGGCTATGTCTCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
40460821 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
119 40 0.33
120 71 0.59
121 9 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:40460840 original size:79 final size:80
Alignment explanation
Indices: 40460559--40460855 Score: 223
Period size: 80 Copynumber: 3.7 Consensus size: 80
40460549 TGAATGCTGT
* ** * * * **
40460559 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGC-AT
* *
40460622 T-GTGCGAGATAC-AAATT
63 TCGTGCGAGTTACTAAA-A
* * * * **
40460639 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
40460703 GTGCGAGTTACTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
40460719 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
40460783 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * * *
40460798 CCGGGCTATGTCTCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
40460856 TACGTGATTT
Statistics
Matches: 184, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
78 15 0.08
79 50 0.27
80 108 0.59
81 11 0.06
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:40468717 original size:40 final size:40
Alignment explanation
Indices: 40468588--40468719 Score: 187
Period size: 40 Copynumber: 3.3 Consensus size: 40
40468578 GGACTAAGAT
*
40468588 CCGAAGGCAATT-GTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGC-ATTCGTGCGAGATACTAAA-TCCGGGTTAAGTC
* *
40468628 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
40468668 CCGAAGGCATTCGTGCTAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
40468708 CCGAAGGCATTC
1 CCGAAGGCATTC
40468720 ATCCGGGTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
39 2 0.02
40 79 0.94
41 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:40468742 original size:25 final size:26
Alignment explanation
Indices: 40468694--40468743 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
40468684 TAGTTACTAA
40468694 ATCCGGGTTAAGTCCCGAAGGCATTC
1 ATCCGGGTTAAGTCCCGAAGGCATTC
*
40468720 ATCCGGGTTATGT-CCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
40468744 GTGTGAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (26 bp):
ATCCGGGTTAAGTCCCGAAGGCATTC
Found at i:40468778 original size:64 final size:66
Alignment explanation
Indices: 40468654--40468782 Score: 174
Period size: 64 Copynumber: 2.0 Consensus size: 66
40468644 GAGATACTAA
* * *
40468654 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTACTAAAACCGAGCTAAGTCCCGAAGGCATT
40468719 C
66 C
* * *
40468720 ATCCGGGTTATGT-CCGAAGGCATT-GTG-TGAGTTACTAAAACCGAGCTACGTCCTGAAGGCAT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCT-AGTTACTAAAACCGAGCTAAGTCCCGAAGGCAT
40468782 T
65 T
40468783 TGAACGAGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 1 0.02
64 32 0.57
65 11 0.20
66 12 0.21
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (66 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTACTAAAACCGAGCTAAGTCCCGAAGGCATT
C
Found at i:40481563 original size:79 final size:81
Alignment explanation
Indices: 40481427--40481609 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
40481417 TCGAATGATG
* *
40481427 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
40481491 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
40481506 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
40481568 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
40481586 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
40481610 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:40481625 original size:40 final size:40
Alignment explanation
Indices: 40481428--40481611 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
40481418 CGAATGATGT
* * * *
40481428 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
40481468 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
40481508 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40481546 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40481587 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
40481612 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:40481633 original size:79 final size:79
Alignment explanation
Indices: 40481480--40481634 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
40481470 GGACTAAGAT
* **
40481480 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
40481545 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
40481559 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
40481622 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
40481635 ATTTCGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:40485317 original size:43 final size:43
Alignment explanation
Indices: 40485270--40485369 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
40485260 TCTGCCAAAA
40485270 TTAGCGGCG-TTTGTAAAAAAAACGCCACTAAAAGCCTTGACCT
1 TTAGCGGCGCTTT-TAAAAAAAACGCCACTAAAAGCCTTGACCT
** * * *
40485313 TTAGCGGCGCTTTTACCACAAGCGCCGCTAAAAGCCTTGACCT
1 TTAGCGGCGCTTTTAAAAAAAACGCCACTAAAAGCCTTGACCT
40485356 TTAGCGGCGCTTTT
1 TTAGCGGCGCTTTT
40485370 TCCAAATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 48 0.94
44 3 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (43 bp):
TTAGCGGCGCTTTTAAAAAAAACGCCACTAAAAGCCTTGACCT
Found at i:40485827 original size:28 final size:29
Alignment explanation
Indices: 40485754--40485841 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
40485744 AGCACGGCTG
* * * *
40485754 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
40485781 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
40485810 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
40485838 CCAG
1 CCAG
40485842 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:40485994 original size:28 final size:28
Alignment explanation
Indices: 40485947--40486011 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
40485937 AAATTAACCC
*
40485947 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* * *
40485975 TAGGGGTATAATGGTAATTTTTCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
40486003 TAGGGGTAT
1 TAGGGGTAT
40486012 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:40487094 original size:12 final size:13
Alignment explanation
Indices: 40487075--40487107 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
40487065 GGGTTCGGCT
40487075 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
40487088 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
40487100 ATGGAGAA
1 ATGGAGAA
40487108 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:40487882 original size:48 final size:46
Alignment explanation
Indices: 40487712--40487927 Score: 186
Period size: 46 Copynumber: 4.6 Consensus size: 46
40487702 AAGTCGATTC
* * * ** * *
40487712 CATGTCCTAGACATGGCCTTACACT-GACTATCATCTCGTGGCCAACG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATCTCAAGGCCGATG
* * *
40487759 CTTGTCCCAGACATGTCTTACACTAGCT-TACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGCCGATG
* * * *
40487805 CATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAATGTCGGTG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
* * ** *
40487851 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGGCCGATG
40487899 CATGTCCCAGACATGTCTTACACTAGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
40487928 ACAAACAAAT
Statistics
Matches: 139, Mismatches: 24, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 74 0.53
47 41 0.29
48 22 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
Found at i:40497111 original size:20 final size:20
Alignment explanation
Indices: 40497073--40497111 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
40497063 CATATCAATC
*
40497073 ACATATAAGCATATATAGTT
1 ACATATAAGCACATATAGTT
* *
40497093 ACATATAATCACATTTAGT
1 ACATATAAGCACATATAGT
40497112 CATTGTGTAT
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:0.44, C:0.13, G:0.08, T:0.36
Consensus pattern (20 bp):
ACATATAAGCACATATAGTT
Found at i:40499956 original size:14 final size:14
Alignment explanation
Indices: 40499937--40499976 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
40499927 TTGATTGCCA
40499937 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
40499951 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
40499965 GGAAAATGTTTT
1 GTAAAATGTTTT
40499977 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:40499985 original size:20 final size:20
Alignment explanation
Indices: 40499960--40499998 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
40499950 CGTAAAATGA
*
40499960 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
40499980 TTTCTGTAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
40499999 CAGAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:40503908 original size:39 final size:40
Alignment explanation
Indices: 40503813--40504074 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
40503803 TTGAATGATG
*
40503813 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
40503851 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
40503892 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
40503931 TCCGGGCTAAG-CCTGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
40503970 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
40504009 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
40504048 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
40504075 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 15, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
39 128 0.64
40 59 0.30
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:40511934 original size:39 final size:40
Alignment explanation
Indices: 40511839--40512100 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
40511829 TTGAATGATG
*
40511839 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
40511877 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
40511918 TCCGGGCTAAG-CCCGAATGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
40511957 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
40511996 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
40512035 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
40512074 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
40512101 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 15, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
39 128 0.64
40 59 0.30
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:40512131 original size:79 final size:79
Alignment explanation
Indices: 40511868--40512133 Score: 233
Period size: 78 Copynumber: 3.4 Consensus size: 79
40511858 GCTTGTGCTA
* * *
40511868 AGTGAC-AATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCC
1 AGTGACTAA-ATCCGGATTAA-ATCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCC
* **
40511931 CGAATGCATTTGTGCG
64 CGAAGGCATTTGAACG
* ** * *
40511947 AGAT-ACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCC
1 AG-TGACTAAATCCGGATTAAATCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCC
**
40512010 GAAGGCATTTGTGCG
65 GAAGGCATTTGAACG
* * * * *
40512025 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 AGTGACTAAATCCGGATTAAATCCCGAAGGCATTTGTACGAGA-TACTAAT-ACCGGGCTAAG-C
40512088 CCGAAGGCATTTGAACG
63 CCGAAGGCATTTGAACG
* *
40512105 AG-GAGCTATATCC-GATTAAATTCCGAAGG
1 AGTGA-CTAAATCCGGATTAAATCCCGAAGG
40512134 TACGTGATTT
Statistics
Matches: 159, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
77 2 0.01
78 72 0.45
79 57 0.36
80 28 0.18
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (79 bp):
AGTGACTAAATCCGGATTAAATCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCG
AAGGCATTTGAACG
Found at i:40515887 original size:27 final size:27
Alignment explanation
Indices: 40515857--40516034 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
40515847 ATATTGAGCC
* *
40515857 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
40515884 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
40515911 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
40515939 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
40515966 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
40515993 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
40516020 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40516035 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:40515996 original size:82 final size:81
Alignment explanation
Indices: 40515878--40516033 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40515868 TGCTATATAA
* *
40515878 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGCA
40515943 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
40515960 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
40516024 CACTTAGTGC
65 CACTTAGTGC
40516034 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCAC
ACTTAGTGCCGCATGG
Found at i:40516596 original size:13 final size:13
Alignment explanation
Indices: 40516578--40516602 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40516568 TACTAAATTT
40516578 TCATGGATTCAAG
1 TCATGGATTCAAG
40516591 TCATGGATTCAA
1 TCATGGATTCAA
40516603 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:40521681 original size:9 final size:10
Alignment explanation
Indices: 40521655--40521695 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
40521645 CAATTAAGGT
40521655 TAGTTAATTA
1 TAGTTAATTA
40521665 TAGTTAATTA
1 TAGTTAATTA
*
40521675 -GGTTAATTA
1 TAGTTAATTA
*
40521684 TAATTAATTA
1 TAGTTAATTA
40521694 TA
1 TA
40521696 AATTAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (10 bp):
TAGTTAATTA
Found at i:40521681 original size:19 final size:19
Alignment explanation
Indices: 40521632--40521693 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
40521622 ATGCTCACTA
*
40521632 AATT-GGTTAATTACAATT
1 AATTAGGTTAATTATAATT
*
40521650 AAGGTTA-GTTAATTATAGTT
1 AA--TTAGGTTAATTATAATT
40521670 AATTAGGTTAATTATAATT
1 AATTAGGTTAATTATAATT
40521689 AATTA
1 AATTA
40521694 TAAATTAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.14
19 17 0.46
20 15 0.41
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (19 bp):
AATTAGGTTAATTATAATT
Found at i:40522477 original size:12 final size:11
Alignment explanation
Indices: 40522449--40522481 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
40522439 GGGACCTAAT
40522449 TGTAAAATG-G
1 TGTAAAATGTG
40522459 TGTAAAATGTG
1 TGTAAAATGTG
40522470 TGGTAAAATGTG
1 T-GTAAAATGTG
40522482 AATAAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.43
11 2 0.10
12 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (11 bp):
TGTAAAATGTG
Found at i:40525577 original size:48 final size:48
Alignment explanation
Indices: 40525492--40525766 Score: 290
Period size: 48 Copynumber: 5.7 Consensus size: 48
40525482 TAAAGTACTA
* * *
40525492 ATGCCATGTCCCCGACATGGTCTTACA-T-GAATCCACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCAACGCTG
* * * * *
40525540 ATGCCATTTCCCTGACATGGTCTTACACTGGCACACATATAAACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTG
* * *
40525588 ATGCCATGTCCCAAACATGGTCTTACATTGGCACACATATCAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTG
* ** *
40525636 ATGCCAAGTCTTAGACATGGTCTTACACTGGCACACTTATCAACG-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCT-G
* **
40525684 ATGCCATGTCCCAG--ATCGAGTCTTACACAGGCACACATATCAACGCCA
1 ATGCCATGTCCCAGACAT-G-GTCTTACACTGGCACACATATCAACGCTG
* *
40525732 ATGCCATGTCCCAGGCATGGTCTTACACAGGCACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACA
40525767 TTTAGCACGG
Statistics
Matches: 190, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 180 0.95
49 2 0.01
50 4 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTG
Found at i:40533203 original size:47 final size:48
Alignment explanation
Indices: 40533026--40533339 Score: 429
Period size: 48 Copynumber: 6.6 Consensus size: 48
40533016 GCCATATACA
* * *
40533026 ATGCCATGTCCCAGACATGGTCTTACA-T-GAATCCACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCAACGCCG
* *
40533074 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACAAATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
*
40533122 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
* **
40533170 ATGCCATG-CCTAGACATGGTCTTACACTGGCACACATATCAACATCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
* *
40533217 ATGCCATG-CCTAGACATGGTCTTACACTGGTACACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
* * * * *
40533264 ATGCCATATCCCAAACAGGGTCTTACACAGGCACACATATCAACGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
*
40533312 ATGCCATGTCCCATACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
40533340 CAGTACATTT
Statistics
Matches: 241, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
47 88 0.37
48 150 0.62
49 1 0.00
50 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
Found at i:40536446 original size:42 final size:42
Alignment explanation
Indices: 40536342--40536453 Score: 109
Period size: 42 Copynumber: 2.7 Consensus size: 42
40536332 TACCGTGTCA
* * * *
40536342 ATGCCATATCCCGAATATGGTCTTACATGAAATATCATATCG
1 ATGCCATATCCCAAATATGGTCTTATACGAAATATCATACCG
* * * ****
40536384 ACGCCATGTCTCTTGCATGGTCTTATACGAAATCAT-ATACCG
1 ATGCCATATCCCAAATATGGTCTTATACGAAAT-ATCATACCG
40536426 ATGCCATATCCCAAATATGGTCTTATAC
1 ATGCCATATCCCAAATATGGTCTTATAC
40536454 AGAATCTCGG
Statistics
Matches: 52, Mismatches: 17, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
42 50 0.96
43 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTATACGAAATATCATACCG
Found at i:40537003 original size:26 final size:25
Alignment explanation
Indices: 40536955--40537005 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
40536945 TAACTCATAA
40536955 ATTTCACATTTCACAAATTAGTCCCC
1 ATTTCACATTTCACAAA-TAGTCCCC
40536981 ATTTCACATTTTCATCAAA-AGTCCC
1 ATTTCACA-TTTCA-CAAATAGTCCC
40537006 TTAACAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 14 0.61
27 5 0.22
28 4 0.17
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.35
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGTCCCC
Found at i:40543736 original size:101 final size:99
Alignment explanation
Indices: 40543558--40543741 Score: 253
Period size: 101 Copynumber: 1.8 Consensus size: 99
40543548 GTACGCATAG
* * * *
40543558 TAGCCTGCACTTAGTACTACACATGCGACCAACAGTTTGGTACACGTAGGAGCTTGCACTTAGTA
1 TAGCCTACACTTAGTACTACACACGCGACCAACAGTTTGGTACACATAGGAGCCTGCACTTAGTA
40543623 CTACACACGTGACCTCACCATCTAATACACGTAA
66 CTACACACGTGACCTCACCATCTAATACACGTAA
* * * *
40543657 TAGCCTACACTTAGTACTACACACGTGATC-ACAGTTTTCAGGTACGCATAGTAGCCTGCACTTA
1 TAGCCTACACTTAGTACTACACACGCGACCAACAG-TTT--GGTACACATAGGAGCCTGCACTTA
*
40543721 GTACTACACATGTGACCTCAC
63 GTACTACACACGTGACCTCAC
40543742 AATAGATCAT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
98 4 0.05
99 29 0.40
101 40 0.55
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGCCTACACTTAGTACTACACACGCGACCAACAGTTTGGTACACATAGGAGCCTGCACTTAGTA
CTACACACGTGACCTCACCATCTAATACACGTAA
Found at i:40545926 original size:15 final size:15
Alignment explanation
Indices: 40545869--40545934 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
40545859 TAAAGATAAC
*
40545869 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
40545883 AAGAAATCACA-AGATA
1 AAGAAATC-CAGA-ATA
*
40545899 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
40545914 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
40545929 AAGAAA
1 AAGAAA
40545935 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
14 9 0.21
15 24 0.56
16 8 0.19
17 2 0.05
ACGTcount: A:0.64, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:40548984 original size:49 final size:49
Alignment explanation
Indices: 40548912--40549105 Score: 185
Period size: 49 Copynumber: 3.9 Consensus size: 49
40548902 GCCGAAGCTA
* * *
40548912 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACCCATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* *
40548961 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACATCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGAC--CAACAG
* ** ** * *
40549011 TTTAATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * * *
40549059 TTTTCGGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
40549106 TCACAATAGA
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 39 0.34
50 37 0.32
51 37 0.32
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:40554894 original size:40 final size:40
Alignment explanation
Indices: 40554850--40555007 Score: 262
Period size: 40 Copynumber: 4.0 Consensus size: 40
40554840 GAAAAAAAAA
* *
40554850 TATAACCAGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
40554890 TATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
40554930 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
40554970 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
40555008 GTTACATCCG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:40555031 original size:80 final size:80
Alignment explanation
Indices: 40554865--40555033 Score: 221
Period size: 80 Copynumber: 2.1 Consensus size: 80
40554855 CCAGGTTAAG
40554865 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTAT
* * ** *
40554930 TATAACCGGGTTAAG
66 TACAACCGAGCCAAA
* * * * * *
40554945 TCCCGAAGGCATTCGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTAT
*
40555010 TACATCCGAGCCAAA
66 TACAACCGAGCCAAA
*
40555025 TTCCGAAGG
1 TCCCGAAGG
40555034 TATTTATGTT
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTAT
TACAACCGAGCCAAA
Found at i:40557087 original size:21 final size:21
Alignment explanation
Indices: 40557050--40557109 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
40557040 TCCCTAAAAT
*
40557050 AGGGCAAC-CGCCTGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
40557070 AGGGCAACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
40557091 AGGGCAGCACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
40557110 ACCAACTCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
20 8 0.22
21 29 0.78
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:40558346 original size:46 final size:46
Alignment explanation
Indices: 40558296--40558423 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 46
40558286 CTCGTAGCTA
* * *
40558296 ATGCATGTCCCAAACATGTCTTACACTGGCT-TACGTCCCGAGGTCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCCCAAGGACG
* * ** *
40558342 ATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTTAATGACG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCCCAAGGACG
40558388 ATGCCATGTCCCAGACATCGTCTTACACTGGCTCTC
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC
40558424 ATAATTTGGC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 39 0.57
47 14 0.20
48 16 0.23
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCCCAAGGACG
Found at i:40558438 original size:48 final size:45
Alignment explanation
Indices: 40558340--40558467 Score: 141
Period size: 47 Copynumber: 2.8 Consensus size: 45
40558330 GTCCCGAGGT
* *
40558340 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTTAATGA
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATATT-ATGA
* * *
40558386 CGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCATAATT-TGGC
1 CGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCAT-ATTAT-GA
* *
40558434 CGATGCATGTTCTAAACATGTCTTACACTAGCTC
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTC
40558468 ACAAACAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
46 19 0.28
47 25 0.36
48 23 0.33
49 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (45 bp):
CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATATTATGA
Found at i:40560015 original size:20 final size:20
Alignment explanation
Indices: 40559979--40560017 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
40559969 TCAAATAACC
*
40559979 AGTAGTTCATCCGTATAAAT
1 AGTAGTTCATCCATATAAAT
*
40559999 AGTAGTTCATCTATATAAA
1 AGTAGTTCATCCATATAAA
40560018 CACATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (20 bp):
AGTAGTTCATCCATATAAAT
Found at i:40560190 original size:24 final size:23
Alignment explanation
Indices: 40560163--40560219 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
40560153 GAGCCATGAT
40560163 CGGTAAGCTCT-TCTTGAACTGAAA
1 CGGTAAGCTCTATC--GAACTGAAA
* *
40560187 CGGTAAACTCTATCGAGCTGAAA
1 CGGTAAGCTCTATCGAACTGAAA
40560210 CGGTAAGCTC
1 CGGTAAGCTC
40560220 CAATGAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.59
24 10 0.34
25 2 0.07
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (23 bp):
CGGTAAGCTCTATCGAACTGAAA
Found at i:40560227 original size:23 final size:24
Alignment explanation
Indices: 40560181--40560243 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
40560171 TCTTCTTGAA
* *
40560181 CTGAAACGGTAAACT-CTATCGAG
1 CTGAAACGGTAAGCTCCAATCGAG
40560204 CTGAAACGGTAAGCTCCAAT-GAG
1 CTGAAACGGTAAGCTCCAATCGAG
* *
40560227 CTAAAAACAGTAAGCTC
1 CT-GAAACGGTAAGCTC
40560244 TTACGAGCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 19 0.56
24 15 0.44
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (24 bp):
CTGAAACGGTAAGCTCCAATCGAG
Found at i:40560251 original size:24 final size:26
Alignment explanation
Indices: 40560224--40560278 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
40560214 AAGCTCCAAT
*
40560224 GAGCTAA-A-AACAGTAAGCTCTTAC
1 GAGCTAATATAACAGTAAGCTCATAC
* *
40560248 GAGCTAATATATCTGTAAGCTCATAC
1 GAGCTAATATAACAGTAAGCTCATAC
40560274 GAGCT
1 GAGCT
40560279 GTGGTGACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 7 0.27
25 1 0.04
26 18 0.69
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (26 bp):
GAGCTAATATAACAGTAAGCTCATAC
Found at i:40563646 original size:16 final size:16
Alignment explanation
Indices: 40563614--40563647 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
40563604 TATTTTATTA
40563614 TTTACATTTTAACCAT
1 TTTACATTTTAACCAT
40563630 TTTACCATTTTAA-CAT
1 TTTA-CATTTTAACCAT
40563646 TT
1 TT
40563648 AATAATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTACATTTTAACCAT
Found at i:40568906 original size:23 final size:23
Alignment explanation
Indices: 40568880--40569113 Score: 276
Period size: 23 Copynumber: 10.2 Consensus size: 23
40568870 GCTACATTTC
*
40568880 AGTGGTAGCTTCGACTACAATAT
1 AGTGGTAGCTTCGGCTACAATAT
* *
40568903 AGTGGTAGCTTTGGCTAC-ATCT
1 AGTGGTAGCTTCGGCTACAATAT
* *
40568925 CAGTGGTAGCTTCAGCTACAATAC
1 -AGTGGTAGCTTCGGCTACAATAT
*
40568949 AGTGGTAGCTTCTGCTACAATAT
1 AGTGGTAGCTTCGGCTACAATAT
* *
40568972 AGTGGTAGCTTCAGCTACAATAC
1 AGTGGTAGCTTCGGCTACAATAT
* *
40568995 AGTGGTAGCTTTGGCTAC-ATCT
1 AGTGGTAGCTTCGGCTACAATAT
40569017 CAGTGGTAGCTTCGGCTACAATAT
1 -AGTGGTAGCTTCGGCTACAATAT
*
40569041 AGTGGTAGCTTCGGCTAC-ATCT
1 AGTGGTAGCTTCGGCTACAATAT
**
40569063 CAGTGGTAGCTTCGGCTACGTTAT
1 -AGTGGTAGCTTCGGCTACAATAT
* * *
40569087 AGTGATAGCTTCGGCTATATTAT
1 AGTGGTAGCTTCGGCTACAATAT
40569110 AGTG
1 AGTG
40569114 TAGTACTTTG
Statistics
Matches: 182, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
22 8 0.04
23 167 0.92
24 7 0.04
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACAATAT
Found at i:40568936 original size:46 final size:46
Alignment explanation
Indices: 40568869--40569103 Score: 307
Period size: 46 Copynumber: 5.1 Consensus size: 46
40568859 GGAATCTATA
*
40568869 GGCTACATTTCAGTGGTAGCTTCGACTACAATATAGTGGTAGCTTT
1 GGCTACATCTCAGTGGTAGCTTCGACTACAATATAGTGGTAGCTTT
*
40568915 GGCTACATCTCAGTGGTAGCTTC-AGCTACAATACAGTGGTAGCTTCT
1 GGCTACATCTCAGTGGTAGCTTCGA-CTACAATATAGTGGTAGCTT-T
* *
40568962 -GCTACAATAT-AGTGGTAGCTTC-AGCTACAATACAGTGGTAGCTTT
1 GGCTAC-ATCTCAGTGGTAGCTTCGA-CTACAATATAGTGGTAGCTTT
* *
40569007 GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTCGACTACAATATAGTGGTAGCTTT
* ** * *
40569053 GGCTACATCTCAGTGGTAGCTTCGGCTACGTTATAGTGATAGCTTC
1 GGCTACATCTCAGTGGTAGCTTCGACTACAATATAGTGGTAGCTTT
40569099 GGCTA
1 GGCTA
40569104 TATTATAGTG
Statistics
Matches: 173, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
45 5 0.03
46 164 0.95
47 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
GGCTACATCTCAGTGGTAGCTTCGACTACAATATAGTGGTAGCTTT
Found at i:40568981 original size:69 final size:69
Alignment explanation
Indices: 40568869--40569113 Score: 314
Period size: 69 Copynumber: 3.6 Consensus size: 69
40568859 GGAATCTATA
* * * *
40568869 GGCTACATTTCAGTGGTAGCTTCGACTACAATATAGTGGTAGCTTTGGCTACATCTCAGTGGTAG
1 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAG
40568934 CTTC
66 CTTC
* * * *
40568938 AGCTACAATACAGTGGTAGCTTCTGCTACAATATAGTGGTAGCTTCAGCTACAAT-ACAGTGGTA
1 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTAC-ATCTCAGTGGTA
*
40569002 GCTTT
65 GCTTC
*
40569007 GGCTAC-ATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTA
1 GGCTACAAT-ACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTA
40569071 GCTTC
65 GCTTC
** * * * *
40569076 GGCTACGTTATAGTGATAGCTTCGGCTATATTATAGTG
1 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTG
40569114 TAGTACTTTG
Statistics
Matches: 151, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
68 4 0.03
69 144 0.95
70 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (69 bp):
GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAG
CTTC
Found at i:40575270 original size:23 final size:23
Alignment explanation
Indices: 40575244--40575486 Score: 294
Period size: 23 Copynumber: 10.6 Consensus size: 23
40575234 GCTACATTTC
*
40575244 AGTGGTAGCTCCGGCTACAATAT
1 AGTGGTAGCTTCGGCTACAATAT
* *
40575267 AGTGGTAGCTTTGGCTAC-ATCT
1 AGTGGTAGCTTCGGCTACAATAT
* *
40575289 CAGTGGTAGCTTCGTCTACAATAC
1 -AGTGGTAGCTTCGGCTACAATAT
*
40575313 AGTGGTAGCTTCGGCTAGAATAT
1 AGTGGTAGCTTCGGCTACAATAT
*
40575336 AGTGGTAGCTTCGGCTACAATAC
1 AGTGGTAGCTTCGGCTACAATAT
* *
40575359 AGTGGTAGCTTTGGCTAC-ATCTT
1 AGTGGTAGCTTCGGCTACAAT-AT
*
40575382 AGTGGTAGCTTCGGCTACAATAC
1 AGTGGTAGCTTCGGCTACAATAT
*
40575405 AGTGGTAGCTTCGGCTAC-ATCT
1 AGTGGTAGCTTCGGCTACAATAT
*
40575427 CAGTGGTAGCTTCGGCTACAATAC
1 -AGTGGTAGCTTCGGCTACAATAT
**
40575451 AGTGGTAGCTTCGGCTACGTTAT
1 AGTGGTAGCTTCGGCTACAATAT
* *
40575474 AGTGATTGCTTCG
1 AGTGGTAGCTTCG
40575487 ACTATATTAC
Statistics
Matches: 187, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
22 7 0.04
23 174 0.93
24 6 0.03
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACAATAT
Found at i:40575308 original size:46 final size:46
Alignment explanation
Indices: 40575233--40575468 Score: 375
Period size: 46 Copynumber: 5.1 Consensus size: 46
40575223 GGAATCTATG
* * * *
40575233 GGCTACATTTCAGTGGTAGCTCCGGCTACAATATAGTGGTAGCTTT
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
*
40575279 GGCTACATCTCAGTGGTAGCTTCGTCTACAATACAGTGGTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
* * *
40575325 GGCTAGAATAT-AGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTT
1 GGCTA-CATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
*
40575371 GGCTACATCTTAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
40575417 GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
40575463 GGCTAC
1 GGCTAC
40575469 GTTATAGTGA
Statistics
Matches: 175, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 3 0.02
46 169 0.97
47 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
Found at i:40575346 original size:69 final size:69
Alignment explanation
Indices: 40575233--40575486 Score: 343
Period size: 69 Copynumber: 3.7 Consensus size: 69
40575223 GGAATCTATG
* * * *
40575233 GGCTACATTTCAGTGGTAGCTCCGGCTACAATATAGTGGTAGCTTTGGCTACATCTCAGTGGTAG
1 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAG
40575298 CTTC
66 CTTC
* * *
40575302 GTCTACAATACAGTGGTAGCTTCGGCTAGAATATAGTGGTAGCTTCGGCTACAAT-ACAGTGGTA
1 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTAC-ATCTCAGTGGTA
*
40575366 GCTTT
65 GCTTC
*
40575371 GGCTAC-AT-CTTAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTCGGCTACATCTCAGTGGT
1 GGCTACAATAC--AGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGT
40575434 AGCTTC
64 AGCTTC
** * *
40575440 GGCTACAATACAGTGGTAGCTTCGGCTACGTTATAGTGATTGCTTCG
1 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCG
40575487 ACTATATTAC
Statistics
Matches: 161, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
67 1 0.01
68 4 0.02
69 151 0.94
70 4 0.02
71 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (69 bp):
GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAG
CTTC
Found at i:40576890 original size:40 final size:40
Alignment explanation
Indices: 40576819--40576993 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
40576809 ACCCAAGTAT
*
40576819 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
40576858 CTTCGGGTCCTAGCCCGGATACAGCAAGTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
40576898 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
40576938 CTTCGGGTCTTAGCCCGG-T-TATC-ATTTGATACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCG-CACAAATGC
40576976 CTTCGGGTCTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
40576994 TTATCATCTG
Statistics
Matches: 122, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
37 3 0.02
38 30 0.25
39 11 0.09
40 78 0.64
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:40585040 original size:40 final size:40
Alignment explanation
Indices: 40584973--40585109 Score: 206
Period size: 40 Copynumber: 3.5 Consensus size: 40
40584963 ACCCAAGTAT
*
40584973 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
40585012 CTTCGGGTCCTAGCCCGGATACAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
40585052 CTTCGGGTCTTGGCCCGGATATAGCAACTCACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
40585092 CTTCGGGTCTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
40585110 TTATCATCTG
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 10 0.11
40 77 0.88
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:40590356 original size:41 final size:42
Alignment explanation
Indices: 40590299--40590389 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 42
40590289 AGCTACAAGG
* * *
40590299 GACACACAGTCGTGTCACCTGGCCGTGTGT-CACACGGTTGA
1 GACACACAGCCGTGTCACCCGGCCGTGTATACACACGGTTGA
*
40590340 GACACACAGCCGTGTCACCCGGTCGTGTATCACACACGGTTGA
1 GACACACAGCCGTGTCACCCGGCCGTGTAT-ACACACGGTTGA
40590383 GACACAC
1 GACACAC
40590390 GCTCATGTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 26 0.59
43 18 0.41
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (42 bp):
GACACACAGCCGTGTCACCCGGCCGTGTATACACACGGTTGA
Found at i:40591077 original size:24 final size:24
Alignment explanation
Indices: 40591041--40591111 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
40591031 CTGTCAGGAG
*
40591041 AGGATTTAAGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
40591065 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
40591089 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
40591112 GGAAATCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:40592563 original size:27 final size:27
Alignment explanation
Indices: 40592523--40592634 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
40592513 AGGAAGCGTC
*
40592523 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
40592550 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
40592577 ATGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
40592605 CTAGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
40592631 CTGG
1 CTGG
40592635 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.68
28 16 0.23
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:40592629 original size:54 final size:54
Alignment explanation
Indices: 40592524--40592630 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
40592514 GGAAGCGTCC
* * *
40592524 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTA
1 TGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTTA
* * *
40592578 TGGTGGCTCTGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
40592631 CTGGCAGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.63
55 17 0.37
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.38
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTTA
Found at i:40597156 original size:52 final size:51
Alignment explanation
Indices: 40597083--40597186 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 51
40597073 ATTACTTCAG
* * **
40597083 GTCGTGTTCGAGTCTATTAGAATGGCACGGGCGTGTGCTATACCCGTGTGA
1 GTCGTGTTCGAGTCTACTAGAATGACACGACCGTGTGCTATACCCGTGTGA
* * * * *
40597134 GTCGTGCTTCGATTCTGCTAGAATGACACGACCGTGTGGTCTGCCCGTGTGA
1 GTCGTG-TTCGAGTCTACTAGAATGACACGACCGTGTGCTATACCCGTGTGA
40597186 G
1 G
40597187 GAAGTCCAGG
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
51 6 0.14
52 37 0.86
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.29
Consensus pattern (51 bp):
GTCGTGTTCGAGTCTACTAGAATGACACGACCGTGTGCTATACCCGTGTGA
Found at i:40599155 original size:21 final size:22
Alignment explanation
Indices: 40599110--40599156 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
40599100 AGCAGGGCTC
**
40599110 ACACGCCCGTGTAGTCCTAGGG
1 ACACGCCCGTGTAACCCTAGGG
40599132 ACACGCCCGTGTAACCCT-GGG
1 ACACGCCCGTGTAACCCTAGGG
40599153 ACAC
1 ACAC
40599157 CCCCTTGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.15
Consensus pattern (22 bp):
ACACGCCCGTGTAACCCTAGGG
Found at i:40602253 original size:24 final size:24
Alignment explanation
Indices: 40602177--40602256 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
40602167 TCCTATAAAT
* *
40602177 GTATGCTCACACGAGCTGTAAATCG
1 GTATGCTCTCACGAGCTAT-AATCG
* **
40602202 GTATGCTCTCACGGGCTATACCCG
1 GTATGCTCTCACGAGCTATAATCG
*
40602226 GTATGCTCTCACGAGCTATAATCA
1 GTATGCTCTCACGAGCTATAATCG
40602250 GTATGCT
1 GTATGCT
40602257 TTCATGAGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 30 0.65
25 16 0.35
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (24 bp):
GTATGCTCTCACGAGCTATAATCG
Found at i:40612082 original size:27 final size:27
Alignment explanation
Indices: 40612052--40612229 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
40612042 ATATTGAGTC
* *
40612052 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
40612079 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
40612106 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
40612134 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
40612161 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
40612188 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
40612215 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40612230 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:40612191 original size:82 final size:81
Alignment explanation
Indices: 40612078--40612228 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
40612068 TATAATCAAC
* *
40612078 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
40612143 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
40612160 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
40612224 AGTGC
65 AGTGC
40612229 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:40631186 original size:39 final size:40
Alignment explanation
Indices: 40631101--40631269 Score: 225
Period size: 39 Copynumber: 4.3 Consensus size: 40
40631091 GGACTAAGAT
* * *
40631101 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
**
40631141 CCGAAGGCATTCGTGCGAGTTGTTAAATCC-GGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
**
40631180 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
40631220 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
40631259 CCGAAGGCATT
1 CCGAAGGCATT
40631270 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 72 0.62
40 45 0.38
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:40631213 original size:79 final size:79
Alignment explanation
Indices: 40631048--40631269 Score: 225
Period size: 79 Copynumber: 2.8 Consensus size: 79
40631038 TCGAATGCTG
* * * * * * * *
40631048 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGCATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAC-TAAAACCGGGCTAAG-TCCCGAAGGCAT
*
40631111 TTGTGCGAGATACTAAA
63 TCGTGCGAGATACTAAA
** * *
40631128 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCC-GGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
40631192 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* *
40631207 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
40631270 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
78 15 0.12
79 69 0.57
80 30 0.25
81 6 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:40631289 original size:79 final size:79
Alignment explanation
Indices: 40631123--40631304 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
40631113 GTGCGAGATA
** * *
40631123 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGTTAAGTCCCGAAGGC
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGCTAAGTCCCGAAGGC
** **
40631188 ATTCGTGCGAGTTG
66 ATTCGAACGAGGAG
* * *
40631202 TTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACC-GGCTAAGTCCCGAAGG
*
40631266 CATTTGAACGAGGAG
65 CATTCGAACGAGGAG
* *
40631281 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
40631305 TACGTGATTT
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
78 29 0.33
79 58 0.67
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAG
Found at i:40636392 original size:39 final size:40
Alignment explanation
Indices: 40636347--40636478 Score: 185
Period size: 40 Copynumber: 3.3 Consensus size: 40
40636337 GCTGCTCGTT
* * *
40636347 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
40636387 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
40636426 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
40636466 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
40636479 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 35 0.43
40 47 0.57
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:40636491 original size:40 final size:40
Alignment explanation
Indices: 40636347--40636531 Score: 151
Period size: 40 Copynumber: 4.7 Consensus size: 40
40636337 GCTGCTCGTT
* * * * * *
40636347 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
40636387 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
40636426 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** ** * * *
40636466 CAAAGGCCTTC-GGATCTTAGTCCGGATACATTCACTTAGCA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
40636507 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
40636532 CATGTTGAGA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 38 0.31
40 74 0.60
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:40638939 original size:80 final size:79
Alignment explanation
Indices: 40638790--40639012 Score: 223
Period size: 80 Copynumber: 2.8 Consensus size: 79
40638780 TTGAATGCTG
* * * ** * * * * *
40638790 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
40638854 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* * * *
40638870 TCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
40638935 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * *
40638950 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
40639013 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 35 0.30
80 79 0.67
81 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:40638994 original size:39 final size:40
Alignment explanation
Indices: 40638843--40639012 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
40638833 GGACTAAGAT
* * *
40638843 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
40638883 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
40638923 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
40638963 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
40639002 CCGAAGGCATT
1 CCGAAGGCATT
40639013 TGAACGAGGA
Statistics
Matches: 115, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 34 0.30
40 81 0.70
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:40639032 original size:79 final size:80
Alignment explanation
Indices: 40638865--40639047 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
40638855 GTGCGAGATA
* * * *
40638865 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
40638930 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
40638945 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
40639009 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
40639024 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
40639048 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 26 0.30
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Done.