Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 129 of 143
Found at i:37796517 original size:67 final size:67
Alignment explanation
Indices: 37796445--37796590 Score: 238
Period size: 67 Copynumber: 2.2 Consensus size: 67
37796435 ATTAAATAAC
* ** *
37796445 TTAATATAATTATTTAGTTTAATATAATTAAATAATTTTATCTTTTAAATTAATATAATTATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCATTTA
37796510 AT
66 AT
*
37796512 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCATTTA
*
37796577 CT
66 AT
37796579 TTAATATAATTA
1 TTAATATAATTA
37796591 AATAATTAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (67 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCATTTA
AT
Found at i:37796559 original size:49 final size:49
Alignment explanation
Indices: 37796506--37796711 Score: 385
Period size: 49 Copynumber: 4.2 Consensus size: 49
37796496 AATATAATTA
* *
37796506 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
37796555 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
37796604 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
37796653 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
*
37796702 TTTATCTTAA
1 TTTAACTTAA
37796712 ATATTTAATT
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 154 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (49 bp):
TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
Found at i:37796725 original size:326 final size:325
Alignment explanation
Indices: 37796183--37796807 Score: 1115
Period size: 326 Copynumber: 1.9 Consensus size: 325
37796173 CATGATTAAA
* * * *
37796183 TAATTTAATATAATCATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATACTTA
1 TAATTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
* * *
37796248 TTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAGTATAATT
66 TTTACTTTAATATAATTAAATAATTAAATATTTAACTTAATATAATCATTTACTTTAATATAATT
*
37796313 AAATGATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTT
131 AAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTT
37796378 TACCTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATAAAACATGATTAAATA
196 TACCTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATAAAACATGATTAAATA
37796443 ACTTAATATAATTATTTAGTTTAATATAATTAAATAATTTTATCTTTTAAATTAATATAATTATT
261 ACTTAATATAATTATTTAGTTTAATATAATTAAATAATTTTATCTTTTAAATTAATATAATTATT
* *
37796508 TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCA
1 TAATTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
*
37796573 TTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAAT
66 TTTACTTTAATATAATTAAATAATTAAAT-ATTTAACTTAATATAATCATTTACTTTAATATAAT
37796638 TAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTT
130 TAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTT
* *
37796703 TTATCTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAAT
195 TTACCTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATAAAACATGATTAAAT
*
37796768 AATTTAATATAATTATTTAGTTTAATATAATTAAATAATT
260 AACTTAATATAATTATTTAGTTTAATATAATTAAATAATT
37796808 ATAATCAAGC
Statistics
Matches: 285, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
325 88 0.31
326 197 0.69
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (325 bp):
TAATTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
TTTACTTTAATATAATTAAATAATTAAATATTTAACTTAATATAATCATTTACTTTAATATAATT
AAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTT
TACCTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATAAAACATGATTAAATA
ACTTAATATAATTATTTAGTTTAATATAATTAAATAATTTTATCTTTTAAATTAATATAATTATT
Found at i:37796782 original size:18 final size:18
Alignment explanation
Indices: 37796761--37796812 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
37796751 ATTAAACATG
37796761 ATTAAATAATTTAATATA
1 ATTAAATAATTTAATATA
** *
37796779 ATTATTTAGTTTAATATA
1 ATTAAATAATTTAATATA
37796797 ATTAAATAATTATAAT
1 ATTAAATAATT-TAAT
37796813 CAAGCTGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTAAATAATTTAATATA
Found at i:37796806 original size:54 final size:56
Alignment explanation
Indices: 37796659--37796813 Score: 142
Period size: 56 Copynumber: 2.8 Consensus size: 56
37796649 ATCTTTTAAC
* * *
37796659 TTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTATCTTAAATAT
1 TTAATATAATCATTTAGTTTAATATAATTAAATAATTAAATCTATGA-CTTAAATAT
* * *
37796716 TTAAT-TAATCGA--TAGTGTTTATAATTAAATACATAATTAAA-C-ATGA-TTAAATAAT
1 TTAATATAATC-ATTTAGT-TTAAT-A-TAATTAAATAATTAAATCTATGACTTAAAT-AT
*
37796771 TTAATATAATTATTTAGTTTAATATAATTAAATAATTATAATC
1 TTAATATAATCATTTAGTTTAATATAATTAAATAATTA-AATC
37796814 AAGCTGATAT
Statistics
Matches: 78, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
54 18 0.23
55 14 0.18
56 20 0.26
57 12 0.15
58 14 0.18
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (56 bp):
TTAATATAATCATTTAGTTTAATATAATTAAATAATTAAATCTATGACTTAAATAT
Found at i:37799697 original size:6 final size:6
Alignment explanation
Indices: 37799664--37799696 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
37799654 TGAACGAGTC
*
37799664 GCCGGT GCCGGT GCCGGT GCCGGT GCCAGT GCC
1 GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCC
37799697 ACCGCTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.36, G:0.45, T:0.15
Consensus pattern (6 bp):
GCCGGT
Found at i:37801420 original size:41 final size:41
Alignment explanation
Indices: 37801266--37801773 Score: 431
Period size: 41 Copynumber: 12.3 Consensus size: 41
37801256 TTTAAATAAA
* * *
37801266 TTAGCGGCGCTT-ATGGGAAAGCGCCGCTAAT-TCAC-ACCT
1 TTAGCGGCGCTTGA-GGAAAAGCGCCGCTAATGACCCGACCT
* * * *
37801305 TTAGCGACGCTT-ATTAGAAAAGCGCCGCTAATAACCTGACCT
1 TTAGCGGCGCTTGA--GGAAAAGCGCCGCTAATGACCCGACCT
* * *
37801347 TTAGCGGCGCTTTA-TATATAAGCGCCGCTAATGACCCGAACT
1 TTAGCGGCGCTTGAGGA-A-AAGCGCCGCTAATGACCCGACCT
*
37801389 TTAGCGGCACTTGAGGAAAAGCGCCGCTAATGACCCGACCTT
1 TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACC-T
* * * *
37801431 TTAGCGGCGCTTGAATG-AAAGCGCCGTTAAATGATCCTACCT
1 TTAGCGGCGCTTG-AGGAAAAGCGCCGCT-AATGACCCGACCT
* *
37801473 TTAGCGGCGCTTGAGGGAAAGCGTCGCTAATGACCCGACCTT
1 TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACC-T
* * * * * **
37801515 TTCGTGGCGCTTCAGGGAAAGCGCCGCTAATGATCATACCT
1 TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACCT
** * * *
37801556 TTAGCGGCGCTTGAGTTAAAGCGCCGCTAATTACCTGGCCT
1 TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACCT
* * * *
37801597 TTAGCTGCGCTTGAGGGAAAGCGCCGCTAATTACCCTACCT
1 TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACCT
* * ** *
37801638 TTAACGGCGTATTAGAGG--AAGCGCCGCTAATGACTTGAACT
1 TTAGCGGCG-CTT-GAGGAAAAGCGCCGCTAATGACCCGACCT
* * *
37801679 TTAGCGGCGCTTG-TGATAAAGCGCCGCTAATGACTCTACCT
1 TTAGCGGCGCTTGAGGA-AAAGCGCCGCTAATGACCCGACCT
* * *
37801720 TTAGCGGCGCTTGTGGGTAAAGCGCCGCTAATGACCCCACCT
1 TTAGCGGCGCTTG-AGGAAAAGCGCCGCTAATGACCCGACCT
*
37801762 TTAGTGGCGCTT
1 TTAGCGGCGCTT
37801774 TTGTTAAGCG
Statistics
Matches: 383, Mismatches: 67, Indels: 35
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.00
39 13 0.03
40 19 0.05
41 168 0.44
42 163 0.43
43 19 0.05
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (41 bp):
TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACCT
Found at i:37810686 original size:23 final size:23
Alignment explanation
Indices: 37810652--37810732 Score: 108
Period size: 23 Copynumber: 3.5 Consensus size: 23
37810642 ACGCTGGCGC
* *
37810652 GCTTACTGTTTCGCACTTTGTGT
1 GCTTACTATTTCGCACTTCGTGT
37810675 GCTTACTATTTCGCACTTCGTGT
1 GCTTACTATTTCGCACTTCGTGT
* *
37810698 GCTTACTGTTTCGCACCTCGTGT
1 GCTTACTATTTCGCACTTCGTGT
*
37810721 GCCTACTGATTT
1 GCTTACT-ATTT
37810733 GCGCTATGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 48 0.94
24 3 0.06
ACGTcount: A:0.11, C:0.26, G:0.20, T:0.43
Consensus pattern (23 bp):
GCTTACTATTTCGCACTTCGTGT
Found at i:37810751 original size:46 final size:47
Alignment explanation
Indices: 37810650--37810773 Score: 132
Period size: 46 Copynumber: 2.7 Consensus size: 47
37810640 GAACGCTGGC
* *
37810650 GCGCTTACTGTTTCGCACTTTGTGTGCTTACT-ATTTCGCACTTCGT
1 GCGCTTACTGTTTCGCACCTTGTGTGCCTACTGATTTCGCACTTCGT
* * *
37810696 GTGCTTACTGTTTCGCACCTCGTGTGCCTACTGATTT-GCGCTAT-GT
1 GCGCTTACTGTTTCGCACCTTGTGTGCCTACTGATTTCGCACT-TCGT
* *
37810742 GCGCCTACTGATT-GCA-CTGTGTGTGCCTACTG
1 GCGCTTACTGTTTCGCACCT-TGTGTGCCTACTG
37810774 GATTGCACTG
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
44 2 0.03
45 15 0.23
46 44 0.67
47 5 0.08
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (47 bp):
GCGCTTACTGTTTCGCACCTTGTGTGCCTACTGATTTCGCACTTCGT
Found at i:37810788 original size:23 final size:22
Alignment explanation
Indices: 37810717--37810789 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 22
37810707 TTCGCACCTC
* *
37810717 GTGTGCCTACTGATTTGCGCTAT
1 GTGTGCCTACTGA-TTGCACTGT
*
37810740 GTGCGCCTACTGATTGCACTGT
1 GTGTGCCTACTGATTGCACTGT
37810762 GTGTGCCTACTGGATTGCACTGT
1 GTGTGCCTACT-GATTGCACTGT
37810785 GTGTG
1 GTGTG
37810790 ATTACTGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.38
23 28 0.62
ACGTcount: A:0.12, C:0.22, G:0.30, T:0.36
Consensus pattern (22 bp):
GTGTGCCTACTGATTGCACTGT
Found at i:37810795 original size:23 final size:23
Alignment explanation
Indices: 37810746--37810796 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
37810736 CTATGTGCGC
*
37810746 CTACT-GATTGCACTGTGTGTGC
1 CTACTGGATTGCACTGTGTGTGA
37810768 CTACTGGATTGCACTGTGTGTGA
1 CTACTGGATTGCACTGTGTGTGA
*
37810791 TTACTG
1 CTACTG
37810797 TTTCCCCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (23 bp):
CTACTGGATTGCACTGTGTGTGA
Found at i:37812709 original size:97 final size:97
Alignment explanation
Indices: 37812539--37812727 Score: 263
Period size: 97 Copynumber: 1.9 Consensus size: 97
37812529 CGAAAGAGGA
* *
37812539 TATTCGATCATCTCGATTTGAAGAAAAGTTACGCCTAATAAGTTAAGGCACAAATTTTCAAAACT
1 TATTCGATCATCTCGATTTGAAGAAAAATCACGCCTAATAAGTTAAGGCACAAATTTTCAAAACT
*
37812604 AGAGAT-AAAGAAACATTGCCTCGATTTAAGGG
66 AGAAATAAAAG-AACATTGCCTCGATTTAAGGG
* * ** * *
37812636 TATTCGATTATTTCGATTTGAAGAAAAATCGTGCCTAGTAAGTTAAGGCACGAATTTTCAAAACT
1 TATTCGATCATCTCGATTTGAAGAAAAATCACGCCTAATAAGTTAAGGCACAAATTTTCAAAACT
* *
37812701 CGAAATAAAAGAATATTGCCTCGATTT
66 AGAAATAAAAGAACATTGCCTCGATTT
37812728 TAAAGGTTTC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
97 76 0.95
98 4 0.05
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (97 bp):
TATTCGATCATCTCGATTTGAAGAAAAATCACGCCTAATAAGTTAAGGCACAAATTTTCAAAACT
AGAAATAAAAGAACATTGCCTCGATTTAAGGG
Found at i:37812754 original size:97 final size:97
Alignment explanation
Indices: 37812571--37812750 Score: 215
Period size: 97 Copynumber: 1.9 Consensus size: 97
37812561 GAAAAGTTAC
* *
37812571 GCCTAATAAGTTAAGGCACAAATTTTCAAAACTAGAGATAAAGAAACATTGCCTCGATTTAAGGG
1 GCCTAATAAGTTAAGGCACAAATTTTCAAAACTAGAAATAAAGAAACATTGCCTCGATTTAAAGG
* ** *
37812636 TATTCGATTATTTCGATTTGAAGAAAAATCGT
66 TATTCGATAAAATCAATTTGAAGAAAAATCGT
* * * *
37812668 GCCTAGTAAGTTAAGGCACGAATTTTCAAAACTCGAAATAAA-AGAATATTGCCTCGATTTTAAA
1 GCCTAATAAGTTAAGGCACAAATTTTCAAAACTAGAAATAAAGA-AACATTGCCTCGA-TTTAAA
37812732 GGT-TTC-ATGAAAAT-AATTT
64 GGTATTCGAT-AAAATCAATTT
37812751 TGAAAACAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
96 7 0.10
97 55 0.79
98 8 0.11
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (97 bp):
GCCTAATAAGTTAAGGCACAAATTTTCAAAACTAGAAATAAAGAAACATTGCCTCGATTTAAAGG
TATTCGATAAAATCAATTTGAAGAAAAATCGT
Found at i:37813039 original size:29 final size:29
Alignment explanation
Indices: 37812942--37813259 Score: 157
Period size: 29 Copynumber: 10.9 Consensus size: 29
37812932 TTTGGATGCC
* *
37812942 CGGGGGTAAAACTATAATTTTAT--ACACTT
1 CGGGGGTAAAAATGTAATTTT-TGGACA-TT
* *
37812971 CGAGGGT-AAAATGATAATTTTTGGACACT
1 CGGGGGTAAAAATG-TAATTTTTGGACATT
* *
37813000 CGGGGGCAAAAATGTAATTTTTGGATATT
1 CGGGGGTAAAAATGTAATTTTTGGACATT
* * * *
37813029 CAGGGAT-AAAATGGCATTTTTTGGTA-ATT
1 CGGGGGTAAAAAT-GTAATTTTTGG-ACATT
***** *
37813058 TTACTGTAAAAATGGAATTTTTGGACATT
1 CGGGGGTAAAAATGTAATTTTTGGACATT
*** ** * * *
37813087 TAAGGGTAAAACGGTAAGTTTTAGAGGATT
1 CGGGGGTAAAAATGTAATTTTTGGA-CATT
* * *
37813117 CGGGGTTAAAAATGGAATTTTTAGACATT
1 CGGGGGTAAAAATGTAATTTTTGGACATT
*
37813146 CGGGGGT-AAAATGGTAATTTTTGGAGAATT
1 CGGGGGTAAAAAT-GTAATTTTTGGA-CATT
** *
37813176 -TAGGGTCAAAAATGGAATTTTTGGACATT
1 CGGGGGT-AAAAATGTAATTTTTGGACATT
* * *
37813205 CGGGGGT-GAAATGATAATTTTTGAAAAGTT
1 CGGGGGTAAAAATG-TAATTTTTGGACA-TT
* *
37813235 TGGGGGTAAAAAAGTAATTTTTGGA
1 CGGGGGTAAAAATGTAATTTTTGGA
37813260 AAGTTTATGG
Statistics
Matches: 215, Mismatches: 57, Indels: 33
0.70 0.19 0.11
Matches are distributed among these distances:
28 21 0.10
29 114 0.53
30 71 0.33
31 9 0.04
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (29 bp):
CGGGGGTAAAAATGTAATTTTTGGACATT
Found at i:37813206 original size:59 final size:58
Alignment explanation
Indices: 37812969--37813227 Score: 223
Period size: 59 Copynumber: 4.4 Consensus size: 58
37812959 TTTTATACAC
* * * * * * * *
37812969 TTCGAGGGTAAAATGATAATTTTTGGACACTCGGGGGCAAAAATGTAATTTTTGGATA
1 TTCGGGGGTAAAATGGTAATTTTTGGAAATTCAGGGTCAAAAATGGAATTTTTGGACA
* * * * * * **
37813027 TTCAGGGATAAAATGGCATTTTTTGGTAATTTTACTGT-AAAAATGGAATTTTTGGACA
1 TTCGGGGGTAAAATGGTAATTTTTGG-AAATTCAGGGTCAAAAATGGAATTTTTGGACA
*** * * * * * * *
37813085 TTTAAGGGTAAAACGGTAAGTTTTAGAGGATTCGGGGTTAAAAATGGAATTTTTAGACA
1 TTCGGGGGTAAAATGGTAATTTTTGGA-AATTCAGGGTCAAAAATGGAATTTTTGGACA
*
37813144 TTCGGGGGTAAAATGGTAATTTTTGGAGAATTTAGGGTCAAAAATGGAATTTTTGGACA
1 TTCGGGGGTAAAATGGTAATTTTTGGA-AATTCAGGGTCAAAAATGGAATTTTTGGACA
* *
37813203 TTCGGGGGTGAAATGATAATTTTTG
1 TTCGGGGGTAAAATGGTAATTTTTG
37813228 AAAAGTTTGG
Statistics
Matches: 154, Mismatches: 44, Indels: 5
0.76 0.22 0.02
Matches are distributed among these distances:
57 1 0.01
58 60 0.39
59 93 0.60
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (58 bp):
TTCGGGGGTAAAATGGTAATTTTTGGAAATTCAGGGTCAAAAATGGAATTTTTGGACA
Found at i:37813246 original size:59 final size:59
Alignment explanation
Indices: 37812969--37813259 Score: 218
Period size: 59 Copynumber: 5.0 Consensus size: 59
37812959 TTTTATACAC
* * * * * * *
37812969 TTCGAGGGTAAAATGATAATTTTTG-GACA-CTCGGGGGCAAAAATGTAATTTTTGGATA
1 TTCGGGGGTAAAATGGTAATTTTTGAGA-AGTTTGGGGGTAAAAATGGAATTTTTGGACA
* * * * ****
37813027 TTCAGGGATAAAATGGCATTTTTTG-GTAA-TTTTACTGTAAAAATGGAATTTTTGGACA
1 TTCGGGGGTAAAATGGTAATTTTTGAG-AAGTTTGGGGGTAAAAATGGAATTTTTGGACA
*** * * * * * *
37813085 TTTAAGGGTAAAACGGTAAGTTTT-AGAGGATTCGGGGTTAAAAATGGAATTTTTAGACA
1 TTCGGGGGTAAAATGGTAATTTTTGAGAAG-TTTGGGGGTAAAAATGGAATTTTTGGACA
*
37813144 TTCGGGGGTAAAATGGTAATTTTTGGAGAA-TTT-AGGGTCAAAAATGGAATTTTTGGACA
1 TTCGGGGGTAAAATGGTAATTTTT-GAGAAGTTTGGGGGT-AAAAATGGAATTTTTGGACA
* * * * *
37813203 TTCGGGGGTGAAATGATAATTTTTGAAAAGTTTGGGGGTAAAAAAGTAATTTTTGGA
1 TTCGGGGGTAAAATGGTAATTTTTGAGAAGTTTGGGGGTAAAAATGGAATTTTTGGA
37813260 AAGTTTATGG
Statistics
Matches: 178, Mismatches: 46, Indels: 17
0.74 0.19 0.07
Matches are distributed among these distances:
57 1 0.01
58 66 0.37
59 104 0.58
60 4 0.02
61 3 0.02
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (59 bp):
TTCGGGGGTAAAATGGTAATTTTTGAGAAGTTTGGGGGTAAAAATGGAATTTTTGGACA
Found at i:37813272 original size:29 final size:31
Alignment explanation
Indices: 37813153--37813290 Score: 110
Period size: 30 Copynumber: 4.6 Consensus size: 31
37813143 ATTCGGGGGT
*
37813153 AAAATGGTAATTTTTGGAGAA-TTT-AGGGTCA
1 AAAAT-GTAATTTTTGGA-AAGTTTGAGGGTAA
* * * *
37813184 AAAATGGAATTTTTGGACA-TTCGGGGGT--
1 AAAATGTAATTTTTGGAAAGTTTGAGGGTAA
* * *
37813212 GAAATGATAATTTTTGAAAAGTTTGGGGGTAA
1 AAAATG-TAATTTTTGGAAAGTTTGAGGGTAA
*
37813244 AAAA-GTAATTTTTGGAAAGTTT-ATGGTAA
1 AAAATGTAATTTTTGGAAAGTTTGAGGGTAA
*
37813273 AAAATTTAATTTTTGGAA
1 AAAATGTAATTTTTGGAA
37813291 GTTGGTAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
28 5 0.06
29 22 0.25
30 51 0.59
31 6 0.07
32 3 0.03
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (31 bp):
AAAATGTAATTTTTGGAAAGTTTGAGGGTAA
Found at i:37813887 original size:9 final size:9
Alignment explanation
Indices: 37813873--37813899 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
37813863 AAAATCTCAT
37813873 TTCCTTTCA
1 TTCCTTTCA
37813882 TTCCTTTCA
1 TTCCTTTCA
37813891 TTCCTTTCA
1 TTCCTTTCA
37813900 AAAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.56
Consensus pattern (9 bp):
TTCCTTTCA
Found at i:37814426 original size:21 final size:20
Alignment explanation
Indices: 37814402--37814455 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
37814392 TTCTTAGATG
*
37814402 TTATTTAATATTATACTAAT
1 TTATTTAATATTATAATAAT
37814422 ATTA-TTAATATTATAATAAT
1 -TTATTTAATATTATAATAAT
*
37814442 TAATATTAATATTA
1 TTAT-TTAATATTA
37814456 ATGATATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 15 0.52
21 12 0.41
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATTTAATATTATAATAAT
Found at i:37814432 original size:9 final size:9
Alignment explanation
Indices: 37814406--37814471 Score: 51
Period size: 9 Copynumber: 6.7 Consensus size: 9
37814396 TAGATGTTAT
37814406 TTAATATTA
1 TTAATATTA
37814415 TACTAATATTA
1 T--TAATATTA
37814426 TTAATATTA
1 TTAATATTA
*
37814435 TAATAATTAATA
1 T--TAA-TATTA
37814447 TTAATATTA
1 TTAATATTA
* *
37814456 ATGATATTTA
1 TTAATA-TTA
37814466 TTAATA
1 TTAATA
37814472 CATTTTGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
9 18 0.40
10 10 0.22
11 12 0.27
12 5 0.11
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (9 bp):
TTAATATTA
Found at i:37815033 original size:12 final size:12
Alignment explanation
Indices: 37815018--37815094 Score: 61
Period size: 12 Copynumber: 6.6 Consensus size: 12
37815008 GTATTTGGAC
37815018 TTTAAAATTAAA
1 TTTAAAATTAAA
*
37815030 TTTAAAATTAAG
1 TTTAAAATTAAA
**
37815042 TTTAAAA--CCA
1 TTTAAAATTAAA
*
37815052 TTTCAAATTTAAA
1 TTT-AAAATTAAA
* *
37815065 -CTAAATTTAAA
1 TTTAAAATTAAA
*
37815076 TTTAAAAATAAA
1 TTTAAAATTAAA
37815088 TTTAAAA
1 TTTAAAA
37815095 CCAATTTAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
10 3 0.06
11 12 0.24
12 34 0.68
13 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (12 bp):
TTTAAAATTAAA
Found at i:37815087 original size:18 final size:17
Alignment explanation
Indices: 37815051--37815093 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
37815041 GTTTAAAACC
*
37815051 ATTTCAAATTTAAACTAA
1 ATTT-AAATTTAAAATAA
37815069 ATTTAAATTTAAAAATAA
1 ATTTAAATTT-AAAATAA
37815087 ATTTAAA
1 ATTTAAA
37815094 ACCAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:37815092 original size:46 final size:46
Alignment explanation
Indices: 37815020--37815121 Score: 136
Period size: 46 Copynumber: 2.2 Consensus size: 46
37815010 ATTTGGACTT
* * * *
37815020 TAAAATTAAATTTAAAATTAAGTTTAAAACC-ATTTCAAATTTAA-A
1 TAAATTTAAATTTAAAAATAAATTTAAAACCAATTT-AAACTTAATA
37815065 CTAAATTTAAATTTAAAAATAAATTTAAAACCAATTTAAACTTAATA
1 -TAAATTTAAATTTAAAAATAAATTTAAAACCAATTTAAACTTAATA
37815112 TAAATTTAAA
1 TAAATTTAAA
37815122 ATCAAAAGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 45 0.90
47 5 0.10
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (46 bp):
TAAATTTAAATTTAAAAATAAATTTAAAACCAATTTAAACTTAATA
Found at i:37820056 original size:23 final size:23
Alignment explanation
Indices: 37820024--37820097 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
37820014 TACATGTATT
* *
37820024 TTACTGTTTCACACTTTGTGTGC
1 TTACTATTTCACACTTCGTGTGC
37820047 TTACTATTTCACACTTCGTGTGC
1 TTACTATTTCACACTTCGTGTGC
* *
37820070 TTACTATTTCGCACCTCGTGTGC
1 TTACTATTTCACACTTCGTGTGC
*
37820093 CTACT
1 TTACT
37820098 GATCTGCGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.43
Consensus pattern (23 bp):
TTACTATTTCACACTTCGTGTGC
Found at i:37820142 original size:22 final size:22
Alignment explanation
Indices: 37820090--37820166 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 22
37820080 GCACCTCGTG
* *
37820090 TGCCTACTGATCTGCGCTATGTGC
1 TGCCTACTGAT-TGCACTGTGT-C
37820114 -GCCTACTGATTGCACTGTGTC
1 TGCCTACTGATTGCACTGTGTC
*
37820135 TGCCTACTGGATTGCACTGTGTG
1 TGCCTACT-GATTGCACTGTGTC
*
37820158 TGCTTACTG
1 TGCCTACTG
37820167 TTTCCCCAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.02
22 16 0.34
23 30 0.64
ACGTcount: A:0.13, C:0.26, G:0.26, T:0.35
Consensus pattern (22 bp):
TGCCTACTGATTGCACTGTGTC
Found at i:37820731 original size:58 final size:58
Alignment explanation
Indices: 37820584--37820825 Score: 263
Period size: 60 Copynumber: 4.1 Consensus size: 58
37820574 GGAGCTCAAA
* *
37820584 TTTTTTGTCAGATAAAAAATGTGGTGTCGGCCATGCAATGGCCAACACCAAAAAAAATTG
1 TTTTTTATCAGAT-AAAAAGGTGGTGTCGGCCATGCAATGGCCAACACC-AAAAAAATTG
* * * * * * *
37820644 ATTTGTATTAAATAAAAGAGGTGGTGTCGGTCATGCAATGACCTACACCAAAAAAATTG
1 TTTTTTATCAGATAAAA-AGGTGGTGTCGGCCATGCAATGGCCAACACCAAAAAAATTG
* * * *
37820703 TTTTTTATCTGATAAAAAGGTGGTGTCGGCCAATGC-ATTGTCAACACCAAGAAAATTTG
1 TTTTTTATCAGATAAAAAGGTGGTGTCGGCC-ATGCAATGGCCAACACCAA-AAAAATTG
* * *
37820762 ATTTTTTATCAGATAAAACGGTGGTGTCGGTCATGCAATGGCCAACGCCAAAAATAATT-
1 -TTTTTTATCAGATAAAAAGGTGGTGTCGGCCATGCAATGGCCAACACCAAAAA-AATTG
37820821 TTTTT
1 TTTTT
37820826 GTTAAATTAA
Statistics
Matches: 149, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
58 28 0.19
59 44 0.30
60 77 0.52
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (58 bp):
TTTTTTATCAGATAAAAAGGTGGTGTCGGCCATGCAATGGCCAACACCAAAAAAATTG
Found at i:37820731 original size:118 final size:119
Alignment explanation
Indices: 37820584--37820825 Score: 303
Period size: 118 Copynumber: 2.0 Consensus size: 119
37820574 GGAGCTCAAA
* *
37820584 TTTTTTGTCAGATAAAAAATGTGGTGTCGGCC-ATGCAATGGCCAACACCAAAAAAAATTGA-TT
1 TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAATGC-ATGGCCAACACCAAAAAAAATTGATTT
* *
37820647 TGTATTAAATAAAAGAGGTGGTGTCGGTCATGCAATGACCTACACCAAAAA-AATT
65 TGTATCAAATAAAA-AGGTGGTGTCGGTCATGCAATGACCAACACCAAAAATAATT
* * * * *
37820702 GTTTTTTATCTGAT-AAAAAGGTGGTGTCGGCCAATGCATTGTCAACACCAAGAAAATTTGATTT
1 -TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAATGCATGGCCAACACCAAAAAAAATTGATTT
* * * * *
37820766 TTTATCAGATAAAACGGTGGTGTCGGTCATGCAATGGCCAACGCCAAAAATAATT
65 TGTATCAAATAAAAAGGTGGTGTCGGTCATGCAATGACCAACACCAAAAATAATT
37820821 TTTTT
1 TTTTT
37820826 GTTAAATTAA
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
118 74 0.70
119 32 0.30
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (119 bp):
TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAATGCATGGCCAACACCAAAAAAAATTGATTTT
GTATCAAATAAAAAGGTGGTGTCGGTCATGCAATGACCAACACCAAAAATAATT
Found at i:37820841 original size:118 final size:118
Alignment explanation
Indices: 37820598--37820854 Score: 297
Period size: 118 Copynumber: 2.2 Consensus size: 118
37820588 TTGTCAGATA
* *
37820598 AAAAATGTGGTGTCGGCC-ATGCAATGGCCAACACCAAAAAAAATTGATTTGTATTAAATAAAAG
1 AAAAAGGTGGTGTCGGCCAATGCAATGGCCAACACCAAAAAAAATTGATTTGTATCAAATAAAAG
* **
37820662 AGGTGGTGTCGGTCATGCAATGACCTACACCAAAAAAATTGTTTTTTATCTGAT
66 AGGTGGTGTCGGTCATGCAATGACCAACACCAAAAAAATTGTTTTTTAAAT-AT
* * * * * *
37820716 AAAAAGGTGGTGTCGGCCAATGC-ATTGTCAACACCAAGAAAATTTGATTTTTTATCAGATAAAA
1 AAAAAGGTGGTGTCGGCCAATGCAATGGCCAACACCAAAAAAAATTGA-TTTGTATCAAATAAAA
* * * *
37820780 -CGGTGGTGTCGGTCATGCAATGGCCAACGCCAAAAATAATTTTTTTGTTAAAT-T
65 GAGGTGGTGTCGGTCATGCAATGACCAACACCAAAAA-AATTGTTTT-TTAAATAT
*
37820834 AAGAAGGTGGTGTCGGACCAA
1 AAAAAGGTGGTGTCGG-CCAA
37820855 CACCATTTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
118 85 0.72
119 29 0.25
120 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (118 bp):
AAAAAGGTGGTGTCGGCCAATGCAATGGCCAACACCAAAAAAAATTGATTTGTATCAAATAAAAG
AGGTGGTGTCGGTCATGCAATGACCAACACCAAAAAAATTGTTTTTTAAATAT
Found at i:37821558 original size:60 final size:59
Alignment explanation
Indices: 37821482--37821938 Score: 449
Period size: 60 Copynumber: 7.5 Consensus size: 59
37821472 AAGTTCAAAG
* * ** *
37821482 ACAAAAAAAATT-ATTTTTTATCTGATAAAAATGGTGGTATCAACCAATGCATGACCAAC
1 ACAAAAAAAATTGATTTTTTATCAGATAAAAA-GGTGGTGTCGGCCAATGCATGGCCAAC
*
37821541 ACAAAAAAAATTGATTTTTTATCAGATAAAAAAGGTGGTGTTGGCCAA-GCATTGGCCAAC
1 ACAAAAAAAATTGATTTTTTATCAGAT-AAAAAGGTGGTGTCGGCCAATGCA-TGGCCAAC
* *
37821601 AC--CAAAAATTGGATTTTTTTTATCAGATAAAAAGGTGGTGTCGGCCAATGCATGACCAAC
1 ACAAAAAAAATT-GA--TTTTTTATCAGATAAAAAGGTGGTGTCGGCCAATGCATGGCCAAC
* * * * *
37821661 ACTAAAAAAATTTTGAATTTTTTGTCAGATAAAAAAGGTAGTGTCGGCC-ATGCAATGGACTAC
1 AC-AAAAAAA-ATTG-ATTTTTTATCAGAT-AAAAAGGTGGTGTCGGCCAATGC-ATGGCCAAC
* * * *
37821724 ACCAAAAAATTTGATTTTTTTATCAAATAAAAAGATGGTGTCGGCCAATGCATGGCCAAC
1 ACAAAAAAAATTGA-TTTTTTATCAGATAAAAAGGTGGTGTCGGCCAATGCATGGCCAAC
** * * * *
37821784 ACAAAAAATTTTGAATTTTTTGTTAAATAGAAAAGGTGGTGTC-GACAATGCAATGGCCAAC
1 ACAAAAAAAATTG-ATTTTTTATCAGATA-AAAAGGTGGTGTCGGCCAATGC-ATGGCCAAC
* * *
37821845 ATAAAAAAAATTTAATTTTTTTATCAGATAAAAAGGTGGTGTCGGTCAATGCATGGCCAAC
1 ACAAAAAAAA-TTGA-TTTTTTATCAGATAAAAAGGTGGTGTCGGCCAATGCATGGCCAAC
** *
37821906 ACAAAAAAAAATAAATTTTTTGTCAGATAAAAA
1 AC-AAAAAAAATTGATTTTTTATCAGATAAAAA
37821939 AGGCATGGCT
Statistics
Matches: 335, Mismatches: 40, Indels: 45
0.80 0.10 0.11
Matches are distributed among these distances:
58 7 0.02
59 17 0.05
60 132 0.39
61 96 0.29
62 50 0.15
63 30 0.09
64 3 0.01
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (59 bp):
ACAAAAAAAATTGATTTTTTATCAGATAAAAAGGTGGTGTCGGCCAATGCATGGCCAAC
Found at i:37821959 original size:46 final size:45
Alignment explanation
Indices: 37821895--37821985 Score: 101
Period size: 46 Copynumber: 2.0 Consensus size: 45
37821885 GTCGGTCAAT
*
37821895 GCATGGCCAACACAAAAAAAAATAAATTTTTTGTCAGATAAAAAAG
1 GCATGGCCAACACAAAAAAAAATAAA-TTTTTATCAGATAAAAAAG
** * * * **
37821941 GCATGGCTGACACCAAAAATATTTGATTTTTATCAGATAAAAAAG
1 GCATGGCCAACACAAAAAAAAATAAATTTTTATCAGATAAAAAAG
37821986 ATGGTGTCGA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
45 18 0.49
46 19 0.51
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.25
Consensus pattern (45 bp):
GCATGGCCAACACAAAAAAAAATAAATTTTTATCAGATAAAAAAG
Found at i:37822017 original size:60 final size:58
Alignment explanation
Indices: 37821943--37822138 Score: 225
Period size: 60 Copynumber: 3.3 Consensus size: 58
37821933 TAAAAAAGGC
* * *
37821943 ATGGCTGACACCAAAAATATTTGA-TTTTTATCAGATAAAAAAGATGGTGTCGACCATGCA
1 ATGGCTAACACCAAAAA-ATTT-ATTTTTTATCAGAT-AAAAAGGTGGTGTCGGCCATGCA
* * * *
37822003 ATGGCTTACACCAAAAAAATTATTTTTTATCTGGTAAAAAGGTGGTGTCGGCCAATGCA
1 ATGGCTAACACCAAAAAATTTATTTTTTATCAGATAAAAAGGTGGTGTCGGCC-ATGCA
* * *
37822062 TTGTC-AACACCAAAAGAATTTAATTTTTTATCAGATAAAAAGGTGGTGTCGGCCATTCA
1 ATGGCTAACACCAAAA-AATTT-ATTTTTTATCAGATAAAAAGGTGGTGTCGGCCATGCA
*
37822121 ATGGCCAACACCAAAAAA
1 ATGGCTAACACCAAAAAA
37822139 AAATTCTTAA
Statistics
Matches: 116, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
58 26 0.22
59 34 0.29
60 56 0.48
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (58 bp):
ATGGCTAACACCAAAAAATTTATTTTTTATCAGATAAAAAGGTGGTGTCGGCCATGCA
Found at i:37841829 original size:366 final size:365
Alignment explanation
Indices: 37840883--37842058 Score: 1775
Period size: 366 Copynumber: 3.2 Consensus size: 365
37840873 TATGTTCAAT
* *
37840883 CGCAAATAATATGAAAACAAACGAAAATCATGGCAATTAGAAAGAAATATTATTCTTTGCATACA
1 CGCAAATAATATGAAAGCAAAAGAAAATCATGGCAATTAGAAAGAAATATTATTCTTTGCATACA
* * * *
37840948 TTGTTTAATTTTTTTATTTTTTTTTCAAGTGGTTAGATTTTAGTTTCTATTTCGAATATTTTTTA
66 TTGCTCAATTTTTTTATTTTTTTTTCAAGTGGTTAGATTCTAGTTTCTATTTCGAAGATTTTTTA
* * * * * * * *
37841013 GATAATTTGGAAAGTG-AAGAAAAGTTTTCATTTTATTTTTAATTTGTTAATGTTAGTTCGCTTG
131 GACAATTTGAAAAGTGAAAGAAAAGCTTCCATCTTGTCTTTAATTTGTTAATGTTAGTTCACTTG
*
37841077 TAAGATAAGATATTGTGACTTTTTAAAAATAATAACGATAATTAAACATATTAAATTATAATTTT
196 TAAGATAAGATATTGTGACTTTTTAAAAATAATAACGATAATTAAACATATTAAATTAAAATTTT
* * *
37841142 ATTACAATAAAAATTAATTTTA-GTTGGAGTACACGTAGATTAACAAAATATTAATTTTTAAAAA
261 ATTACAAT-AAAATTAATTTTATGTTGGAGTACACATATATTAACAAAATATTAATTTTT-GAAA
* * *
37841206 ATTCTTAACTCAAAAAAATATGTTGAAATCCTTTAGGTACAA
324 ATTCTTAACTCAAAAAAGTATGTTAAAATCTTTTAGGTACAA
37841248 CGCAAATAATATGAAAGCAAAAGAAAATCATGGCAATTAGAAAGAAAGAAATATTATTCTTTGCA
1 CGCAAATAATATGAAAGCAAAAGAAAATCATGGCAATT----AGAAAGAAATATTATTCTTTGCA
* *
37841313 TACATTGCTCAATATTTTTTA-TTTCTTTTCAAGTGGTTAGATTCTAGTTTCTATTTCGAAGAAT
62 TACATTGCTCAAT-TTTTTTATTTTTTTTTCAAGTGGTTAGATTCTAGTTTCTATTTCGAAGATT
* * * * *
37841377 TTTTAGACAATTTAAAAAGCGAAAAAAAAGCTTCAATCTTGTCTTTAATTTGTTAATGTTAGTCC
126 TTTTAGACAATTTGAAAAGTGAAAGAAAAGCTTCCATCTTGTCTTTAATTTGTTAATGTTAGTTC
*
37841442 ACTTGTAAGATAAGGTATTGTGACTTTTTAAAAATAATAACGATAATTAAACATATTAAATTAAA
191 ACTTGTAAGATAAGATATTGTGACTTTTTAAAAATAATAACGATAATTAAACATATTAAATTAAA
* * *
37841507 AATTTATTACAGTAAAATTAATTTTATGTTGGAGTATACATATATTAACAAAAT-TTAATTTTTG
256 ATTTTATTACAATAAAATTAATTTTATGTTGGAGTACACATATATTAACAAAATATTAATTTTTG
*
37841571 AAAATTCTTAACTCAAAAAAGTATGTTTAAATCTTTTAGGTACAA
321 AAAATTCTTAACTCAAAAAAGTATGTTAAAATCTTTTAGGTACAA
* * * *
37841616 CGCAAATAATATGAAAGTAAAGGAAAATCAAGACAATTAGAAAGAAATATTATTCTTTGCATACA
1 CGCAAATAATATGAAAGCAAAAGAAAATCATGGCAATTAGAAAGAAATATTATTCTTTGCATACA
* *
37841681 TTACTCAATTTTTTTATTTTTTATTTTCAAGTGGTTAGATTCTAGTTTCTATTTTGAAGATTTTT
66 TTGCTCAATTTTTTTA-TTTTT-TTTTCAAGTGGTTAGATTCTAGTTTCTATTTCGAAGATTTTT
* *
37841746 TAGACAATTTGAAAAGTGAAAGAAAAGCTTCCACCTTGTCTTTAATTTGTTAATGTTGGTTCACT
129 TAGACAATTTGAAAAGTGAAAGAAAAGCTTCCATCTTGTCTTTAATTTGTTAATGTTAGTTCACT
** * * *
37841811 CCTAAGATATGATATTGTGACTTTTTAAAAATAATAACGATAATTAAATATGTTAAATTAAAATT
194 TGTAAGATAAGATATTGTGACTTTTTAAAAATAATAACGATAATTAAACATATTAAATTAAAATT
* *
37841876 TTATTACAATATAATTAATTTTATATTGGAGTACACATATATTAACAAAATATTAATTTTTGAAA
259 TTATTACAATAAAATTAATTTTATGTTGGAGTACACATATATTAACAAAATATTAATTTTTGAAA
*
37841941 ATTCTTAACTCAAAAAAGCATGTTAAAATCTTTTAGGTACAA
324 ATTCTTAACTCAAAAAAGTATGTTAAAATCTTTTAGGTACAA
* *
37841983 CGCAAATAATATGAAAGCAAAAGAAAATCATGGCAATTAGAAAGAAATATTATTCTTTTCATACC
1 CGCAAATAATATGAAAGCAAAAGAAAATCATGGCAATTAGAAAGAAATATTATTCTTTGCATACA
*
37842048 TTGCCCAATTT
66 TTGCTCAATTT
37842059 CTTGTTTCTT
Statistics
Matches: 732, Mismatches: 68, Indels: 20
0.89 0.08 0.02
Matches are distributed among these distances:
363 7 0.01
364 35 0.05
365 39 0.05
366 203 0.28
367 121 0.17
368 76 0.10
369 112 0.15
370 139 0.19
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.39
Consensus pattern (365 bp):
CGCAAATAATATGAAAGCAAAAGAAAATCATGGCAATTAGAAAGAAATATTATTCTTTGCATACA
TTGCTCAATTTTTTTATTTTTTTTTCAAGTGGTTAGATTCTAGTTTCTATTTCGAAGATTTTTTA
GACAATTTGAAAAGTGAAAGAAAAGCTTCCATCTTGTCTTTAATTTGTTAATGTTAGTTCACTTG
TAAGATAAGATATTGTGACTTTTTAAAAATAATAACGATAATTAAACATATTAAATTAAAATTTT
ATTACAATAAAATTAATTTTATGTTGGAGTACACATATATTAACAAAATATTAATTTTTGAAAAT
TCTTAACTCAAAAAAGTATGTTAAAATCTTTTAGGTACAA
Found at i:37842650 original size:56 final size:56
Alignment explanation
Indices: 37842590--37842802 Score: 227
Period size: 60 Copynumber: 3.8 Consensus size: 56
37842580 AAAAATTCGA
** * ** *
37842590 ATAAAAAATA-ATTTTTTTAGTGTTTGTCAAGTCATGACCGACACTCCTTTTATCAG
1 ATAAAAAATATATTTTTTGGGTGTTTGCCAACCCATGACCGACAC-CCTTTTTTCAG
* * *
37842646 ATAAAAAA-ATATTTTTTGGGTGTTTGCCAAGCCATGATCGACACCCTTTTTTCAA
1 ATAAAAAATATATTTTTTGGGTGTTTGCCAACCCATGACCGACACCCTTTTTTCAG
* * * * *
37842701 ATACAAAAAAAATATATTTTTTGGGTGTCTGTCAACCCATGGCCGACACCTTTTTTTTAG
1 AT----AAAAAATATATTTTTTGGGTGTTTGCCAACCCATGACCGACACCCTTTTTTCAG
37842761 AT-AAAAA-ATATTTTTTGGGTGTTTGCCAACCCATGACCGACA
1 ATAAAAAATATATTTTTTGGGTGTTTGCCAACCCATGACCGACA
37842803 TCAACTTTCC
Statistics
Matches: 133, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
54 32 0.24
55 17 0.13
56 37 0.28
59 6 0.05
60 41 0.31
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (56 bp):
ATAAAAAATATATTTTTTGGGTGTTTGCCAACCCATGACCGACACCCTTTTTTCAG
Found at i:37842775 original size:114 final size:115
Alignment explanation
Indices: 37842592--37842802 Score: 300
Period size: 114 Copynumber: 1.8 Consensus size: 115
37842582 AAATTCGAAT
* * **
37842592 AAAAAATAATTTTTTTAGTGTTTGTCAAGTCATGACCGACACTCCTTTTATCAGATAAAAAAATA
1 AAAAAATAATTTTTTGAGTGTCTGTCAACCCATGACCGACACTCCTTTTATCAGATAAAAAAATA
* *
37842657 TTTTTTGGGTGTTTGCCAAGCCATGATCGACACCCTTTTTTCAAATACAA
66 TTTTTTGGGTGTTTGCCAACCCATGACCGACACCCTTTTTTCAAATACAA
* * * * *
37842707 AAAAAATATATTTTTTGGGTGTCTGTCAACCCATGGCCGACAC-CTTTTTTTTAGAT-AAAAAAT
1 AAAAAATA-ATTTTTTGAGTGTCTGTCAACCCATGACCGACACTCCTTTTATCAGATAAAAAAAT
37842770 ATTTTTTGGGTGTTTGCCAACCCATGACCGACA
65 ATTTTTTGGGTGTTTGCCAACCCATGACCGACA
37842803 TCAACTTTCC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
114 38 0.45
115 18 0.21
116 28 0.33
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (115 bp):
AAAAAATAATTTTTTGAGTGTCTGTCAACCCATGACCGACACTCCTTTTATCAGATAAAAAAATA
TTTTTTGGGTGTTTGCCAACCCATGACCGACACCCTTTTTTCAAATACAA
Found at i:37852942 original size:571 final size:571
Alignment explanation
Indices: 37851860--37852996 Score: 2166
Period size: 571 Copynumber: 2.0 Consensus size: 571
37851850 AATAATATTT
37851860 TTCATTTCATTTACTGCCCTTACATTTATTTTACGGACTCTTCATATTTACTTGTTTTATTGTCT
1 TTCATTTCATTTACTGCCCTTACATTTATTTTACGGACTCTTCATATTTACTTGTTTTATTGTCT
37851925 TTTAACTTATATTAGTAAAGTAGTTAGTTAGTGAATCGATTCAATTAGTTGAAGTGATTCATATA
66 TTTAACTTATATTAGTAAAGTAGTTAGTTAGTGAATCGATTCAATTAGTTGAAGTGATTCATATA
37851990 TATATATATATATAGATTTAGATTTGTTCTTTGAAATACTTCCTAACAAATTTATTTCATTGTAG
131 TATATATATATATAGATTTAGATTTGTTCTTTGAAATACTTCCTAACAAATTTATTTCATTGTAG
* *
37852055 TTATTTCTTGACAACGATATTGTACATTTGTAGTTATCGAGCGTGTACTGAACACTAGTTTGAGG
196 TTATTTCTTGACAACGATACTGTACATTTGTAGTTATCAAGCGTGTACTGAACACTAGTTTGAGG
*
37852120 TTTTAATTAAATTATTTTTAATTGAAATTTTATATTCTATTCACCACCAATCAATCACTAAGGGG
261 CTTTAATTAAATTATTTTTAATTGAAATTTTATATTCTATTCACCACCAATCAATCACTAAGGGG
*
37852185 ATCTTCACCAAATTCGTCTTGTGTCAGTTTTGATATCAATTGTAAGTGTTGAATTATTGATTCTG
326 ATCTTCACCAAATTCGTCTTGTGTCAGTTTTGATATCAATTGAAAGTGTTGAATTATTGATTCTG
37852250 TTGTTATTTGAGTTACAACTAAAGAAACAATTGAAATCTAGAAATATAAAACAAAGAACACAATC
391 TTGTTATTTGAGTTACAACTAAAGAAACAATTGAAATCTAGAAATATAAAACAAAGAACACAATC
37852315 AAACGGTTATACAGTTAGAATCCAATTTTATGTCTGCAAGGCCTGGTCAAAAAAATTCACTATAA
456 AAACGGTTATACAGTTAGAATCCAATTTTATGTCTGCAAGGCCTGGTCAAAAAAATTCACTATAA
37852380 TCTCAACTATACAGAAAAGGATTCAATACTCTAACCATCATTCCAATTTTA
521 TCTCAACTATACAGAAAAGGATTCAATACTCTAACCATCATTCCAATTTTA
37852431 TTCATTTCATTTACTGCCCTTACATTTATTTTACGGACTCTTCATATTTACTTGTTTTATTGTCT
1 TTCATTTCATTTACTGCCCTTACATTTATTTTACGGACTCTTCATATTTACTTGTTTTATTGTCT
37852496 TTTAACTTATATTAGTAAAGTAGTTAGTTAGTGAATCGATTCAATTAGTTGAAGTGATTCATATA
66 TTTAACTTATATTAGTAAAGTAGTTAGTTAGTGAATCGATTCAATTAGTTGAAGTGATTCATATA
37852561 TATATATATATATAGATTTAGATTTGTTCTTTGAAATACTTCCTAACAAATTTATTTCATTGTAG
131 TATATATATATATAGATTTAGATTTGTTCTTTGAAATACTTCCTAACAAATTTATTTCATTGTAG
* *
37852626 TTATTTCTTGATAACGATACTGTACATTTGTAGTTATCAAGCGTGTACTGAATACTAGTTTGAGG
196 TTATTTCTTGACAACGATACTGTACATTTGTAGTTATCAAGCGTGTACTGAACACTAGTTTGAGG
* *
37852691 CTTTAATTGAATTATTTTTAATTGAAATTTTATATTTTATTCACCACCAATCAATCACTAAGGGG
261 CTTTAATTAAATTATTTTTAATTGAAATTTTATATTCTATTCACCACCAATCAATCACTAAGGGG
*
37852756 ATTTTCACCAAATTCGTCTTGTGTCAGTTTTGATATCAATTGAAAGTGTTGAATTATTGATTCTG
326 ATCTTCACCAAATTCGTCTTGTGTCAGTTTTGATATCAATTGAAAGTGTTGAATTATTGATTCTG
37852821 TTGTTATTTGAGTTACAACTAAAGAAACAATTGAAATCTAGAAATATAAAACAAAGAACACAATC
391 TTGTTATTTGAGTTACAACTAAAGAAACAATTGAAATCTAGAAATATAAAACAAAGAACACAATC
*
37852886 AAACGGTTATACAGTTCGAATCCAATTTTATGTCTGCAAGGCCTGGTCAAAAAAATTCACTATAA
456 AAACGGTTATACAGTTAGAATCCAATTTTATGTCTGCAAGGCCTGGTCAAAAAAATTCACTATAA
* *
37852951 TCTCAACTGTACAGAAAATGATTCAATACTCTAACCATCATTCCAA
521 TCTCAACTATACAGAAAAGGATTCAATACTCTAACCATCATTCCAA
37852997 CCCACGAAGT
Statistics
Matches: 554, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
571 554 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (571 bp):
TTCATTTCATTTACTGCCCTTACATTTATTTTACGGACTCTTCATATTTACTTGTTTTATTGTCT
TTTAACTTATATTAGTAAAGTAGTTAGTTAGTGAATCGATTCAATTAGTTGAAGTGATTCATATA
TATATATATATATAGATTTAGATTTGTTCTTTGAAATACTTCCTAACAAATTTATTTCATTGTAG
TTATTTCTTGACAACGATACTGTACATTTGTAGTTATCAAGCGTGTACTGAACACTAGTTTGAGG
CTTTAATTAAATTATTTTTAATTGAAATTTTATATTCTATTCACCACCAATCAATCACTAAGGGG
ATCTTCACCAAATTCGTCTTGTGTCAGTTTTGATATCAATTGAAAGTGTTGAATTATTGATTCTG
TTGTTATTTGAGTTACAACTAAAGAAACAATTGAAATCTAGAAATATAAAACAAAGAACACAATC
AAACGGTTATACAGTTAGAATCCAATTTTATGTCTGCAAGGCCTGGTCAAAAAAATTCACTATAA
TCTCAACTATACAGAAAAGGATTCAATACTCTAACCATCATTCCAATTTTA
Found at i:37855047 original size:26 final size:28
Alignment explanation
Indices: 37855002--37855070 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
37854992 AACTTTTAAA
* *
37855002 TTATTTTAAATATAAA--ATATT-TATT
1 TTATATTAAATAAAAATTATATTGTATT
37855027 TT-TA-TATAATAAAAATTATATTGTATT
1 TTATATTA-AATAAAAATTATATTGTATT
37855054 TTATATTAAATAAAAAT
1 TTATATTAAATAAAAAT
37855071 AAAATTGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 2 0.06
24 8 0.22
25 2 0.06
26 5 0.14
27 6 0.17
28 11 0.31
29 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (28 bp):
TTATATTAAATAAAAATTATATTGTATT
Found at i:37855048 original size:22 final size:21
Alignment explanation
Indices: 37855005--37855048 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
37854995 TTTTAAATTA
37855005 TTTTAAATATAAAATATTTAT
1 TTTTAAATATAAAATATTTAT
*
37855026 TTTTATATAATAAAA-ATTATAT
1 TTTTAAAT-ATAAAATATT-TAT
37855048 T
1 T
37855049 GTATTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTAAATATAAAATATTTAT
Found at i:37859252 original size:15 final size:15
Alignment explanation
Indices: 37859232--37859262 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37859222 TTGACTAATT
37859232 ATATGTGTTTCCTAA
1 ATATGTGTTTCCTAA
37859247 ATATGTGTTTCCTAA
1 ATATGTGTTTCCTAA
37859262 A
1 A
37859263 CTTTTAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (15 bp):
ATATGTGTTTCCTAA
Found at i:37859371 original size:16 final size:17
Alignment explanation
Indices: 37859333--37859381 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
37859323 AATATTATTT
37859333 ATTAATTTAATTTAATTTAA
1 ATTAA-TTAATTT--TTTAA
37859353 ATTAATTAATTTTTT-A
1 ATTAATTAATTTTTTAA
*
37859369 ATTAAATAATTTT
1 ATTAATTAATTTT
37859382 CTCAACTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 13 0.46
17 3 0.11
19 7 0.25
20 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTAATTAATTTTTTAA
Found at i:37863568 original size:26 final size:25
Alignment explanation
Indices: 37863537--37863595 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
37863527 AAAATAGAAA
*
37863537 AATTCAATTCAA-TTATCTGATCAATC
1 AATTCAATT-AATTTAT-AGATCAATC
37863563 AATTCATATTAATTTATAGATCAATC
1 AATTCA-ATTAATTTATAGATCAATC
37863589 AATTCAA
1 AATTCAA
37863596 CTGTTTGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 1 0.03
26 22 0.73
27 7 0.23
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (25 bp):
AATTCAATTAATTTATAGATCAATC
Found at i:37871599 original size:31 final size:29
Alignment explanation
Indices: 37871544--37871614 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
37871534 AAAGTTTGAA
*
37871544 TTAATTTTAAATTCATTTTTAAATTTATC
1 TTAAATTTAAATTCATTTTTAAATTTATC
* *
37871573 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTCA-TT-TTTAAATTTATC
37871604 TTAAATTTAAA
1 TTAAATTTAAA
37871615 CTTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATTTAAATTCATTTTTAAATTTATC
Found at i:37871611 original size:11 final size:11
Alignment explanation
Indices: 37871542--37871612 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
37871532 TTAAAGTTTG
*
37871542 AATTAATTTTA
1 AATTTATTTTA
*
37871553 AATTCATTTTTA
1 AATTTA-TTTTA
*
37871565 AATTTATCTTA
1 AATTTATTTTA
*
37871576 AATTTAAATTT-
1 AATTT-ATTTTA
*
37871587 -ACTTA-TTTA
1 AATTTATTTTA
37871596 AATTTATTTTA
1 AATTTATTTTA
37871607 AATTTA
1 AATTTA
37871613 AACTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.15
11 24 0.50
12 13 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:37871623 original size:17 final size:17
Alignment explanation
Indices: 37871591--37871625 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37871581 AAATTTACTT
* *
37871591 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
37871608 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
37871625 A
1 A
37871626 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:37871707 original size:28 final size:27
Alignment explanation
Indices: 37871664--37871726 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
37871654 CAATGTCCAT
*
37871664 TTACAAAAGCCCAAATCAAAGGCCCGA
1 TTACAAAAGCCCAAATCAAAGGCCCAA
*
37871691 TTACAAGAAGCCCAAATTAAAGGCCCAA
1 TTACAA-AAGCCCAAATCAAAGGCCCAA
37871719 TTACAAAA
1 TTACAAAA
37871727 AACCCAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 8 0.24
28 25 0.76
ACGTcount: A:0.48, C:0.25, G:0.13, T:0.14
Consensus pattern (27 bp):
TTACAAAAGCCCAAATCAAAGGCCCAA
Found at i:37873329 original size:161 final size:162
Alignment explanation
Indices: 37873055--37873364 Score: 446
Period size: 161 Copynumber: 1.9 Consensus size: 162
37873045 TTCAATTTAA
* * * *
37873055 TCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATGTTTTGGCTTATTTCTGCATATA
1 TCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATGTTTTGGCCTATTTATGCATATA
*
37873120 GTCCCTGACATTATTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAAAATT
66 GTCCCTGACATTATTAATTTATTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAAAATT
*
37873185 GG-CCCAACAATTTTTCAAGGTTTATAAAGAAG
131 GGTCCCAA-AATTTTCCAAGGTTTATAAAGAAG
* * *
37873217 TCCTTTAACTGTTTGACTGCACTAGAGGCTGCCACGTGTC-TTTTTTGGCCTATTTATGCATTTA
1 TCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATGTTTTGGCCTATTTATGCATATA
** * * *
37873281 GT-CCTTTCTATTTTTAATTTATTTTAATTTAGTCCTTAAATTAACTTTTATTTAATTACAAAAT
66 GTCCCTGAC-ATTATTAATTTATTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAAAAT
*
37873345 TGGTCCGAAAATTTTCCAAG
130 TGGTCCCAAAATTTTCCAAG
37873365 ATTTTCAAAT
Statistics
Matches: 131, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
160 4 0.03
161 86 0.66
162 41 0.31
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (162 bp):
TCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATGTTTTGGCCTATTTATGCATATA
GTCCCTGACATTATTAATTTATTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAAAATT
GGTCCCAAAATTTTCCAAGGTTTATAAAGAAG
Found at i:37873491 original size:30 final size:30
Alignment explanation
Indices: 37873451--37873628 Score: 200
Period size: 30 Copynumber: 5.9 Consensus size: 30
37873441 GTAAGTCCCT
**
37873451 AAATTGTCCAAAAATTACATTTCAACCCCAA
1 AAATT-TCCAAAAATTACATTTTGACCCCAA
37873482 AAATTTCCAAAAATTACATTTTGACCCCTAA
1 AAATTTCCAAAAATTACATTTTGACCCC-AA
**
37873513 ACTTTTCC-AAAATTACATTTTGACCCCAA
1 AAATTTCCAAAAATTACATTTTGACCCCAA
* *
37873542 AACTTTCTAAAAATTACATTTTGACCCCAA
1 AAATTTCCAAAAATTACATTTTGACCCCAA
* * * * *
37873572 AACTTTCTAAAAATTATATTTTGACCTCGA
1 AAATTTCCAAAAATTACATTTTGACCCCAA
*
37873602 AACTTT-CAAAAATTATCATTTT-ACCCC
1 AAATTTCCAAAAATTA-CATTTTGACCCC
37873629 CGGATATCCA
Statistics
Matches: 131, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
29 19 0.15
30 99 0.76
31 13 0.10
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (30 bp):
AAATTTCCAAAAATTACATTTTGACCCCAA
Found at i:37873622 original size:90 final size:89
Alignment explanation
Indices: 37873460--37873628 Score: 241
Period size: 90 Copynumber: 1.9 Consensus size: 89
37873450 TAAATTGTCC
* *
37873460 AAAAATTACATTTCAACCCCAAAAATTTCCAAAAATTACATTTTGACCCCTAAACTTTTCCAAAA
1 AAAAATTACATTTCAACCCCAAAAATTTCCAAAAATTACATTTTGACCCCGAAACTTTTCAAAAA
37873525 TTACATTTTGACCCCAAAACTTTCT
66 TTACATTTT-ACCCCAAAACTTTCT
** * * * *
37873550 AAAAATTACATTTTGACCCCAAAACTTTCTAAAAATTATATTTTGACCTCGAAAC-TTTCAAAAA
1 AAAAATTACATTTCAACCCCAAAAATTTCCAAAAATTACATTTTGACCCCGAAACTTTTCAAAAA
37873614 TTATCATTTTACCCC
66 TTA-CATTTTACCCC
37873629 CGGATATCCA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
89 16 0.23
90 54 0.77
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.34
Consensus pattern (89 bp):
AAAAATTACATTTCAACCCCAAAAATTTCCAAAAATTACATTTTGACCCCGAAACTTTTCAAAAA
TTACATTTTACCCCAAAACTTTCT
Found at i:37896999 original size:29 final size:28
Alignment explanation
Indices: 37896967--37897024 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
37896957 TTTTTTAATT
*
37896967 TTTTAAAAAATTAAAGTAAAATTTTATCA
1 TTTT-AAAAATTAAAATAAAATTTTATCA
* *
37896996 TTTTAGAGATTAAAATAAAATTTTATCA
1 TTTTAAAAATTAAAATAAAATTTTATCA
37897024 T
1 T
37897025 ATACTAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (28 bp):
TTTTAAAAATTAAAATAAAATTTTATCA
Found at i:37898679 original size:26 final size:28
Alignment explanation
Indices: 37898621--37898681 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
37898611 TTTACAAATT
*
37898621 GAAAAAAAATATATAGAGTGAATGAGAA
1 GAAAAAAAATATATAGAGAGAATGAGAA
*
37898649 GAAAAAAAATA-ATTGACGAGAATGAGAA
1 GAAAAAAAATATATAGA-GAGAATGAGAA
37898677 -AAAAA
1 GAAAAA
37898682 CGAACGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.64, C:0.02, G:0.20, T:0.15
Consensus pattern (28 bp):
GAAAAAAAATATATAGAGAGAATGAGAA
Found at i:37898995 original size:29 final size:28
Alignment explanation
Indices: 37898927--37898995 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
37898917 TTCACATAAT
37898927 TTTTTAAAATTTAATTTTTATATTTTTA
1 TTTTTAAAATTTAATTTTTATATTTTTA
*
37898955 TTTTCAAGAATTTAATATTTT-TATTTTTA
1 TTTTTAA-AATTTAAT-TTTTATATTTTTA
37898984 TATTTTAAAATT
1 T-TTTTAAAATT
37898996 CAAATTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
28 6 0.17
29 21 0.58
30 9 0.25
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTTTAAAATTTAATTTTTATATTTTTA
Found at i:37898998 original size:37 final size:36
Alignment explanation
Indices: 37898940--37899024 Score: 93
Period size: 37 Copynumber: 2.4 Consensus size: 36
37898930 TTAAAATTTA
* ** *
37898940 ATTTTTATATTTTTATTTTCAAGAATTTAA-TATTTTT
1 ATTTTTATATTTTAAAATTC-A-AATTTAATTATTATT
37898977 ATTTTTATATTTTAAAATTCAAATTTAATTATTATT
1 ATTTTTATATTTTAAAATTCAAATTTAATTATTATT
*
37899013 ATTATTA-ATTTT
1 ATTTTTATATTTT
37899025 TTTATCCCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 12 0.29
36 13 0.31
37 17 0.40
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (36 bp):
ATTTTTATATTTTAAAATTCAAATTTAATTATTATT
Found at i:37899126 original size:30 final size:30
Alignment explanation
Indices: 37899086--37899143 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
37899076 TAAAAAGCTG
37899086 AACATAAGAAAAATATGTTGACCATGGCCA
1 AACATAAGAAAAATATGTTGACCATGGCCA
*
37899116 AACATGAGAAAAATATGTTGACCATGGC
1 AACATAAGAAAAATATGTTGACCATGGC
37899144 TTATCTTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.21
Consensus pattern (30 bp):
AACATAAGAAAAATATGTTGACCATGGCCA
Found at i:37915382 original size:3 final size:3
Alignment explanation
Indices: 37915368--37915411 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
37915358 CAAATTGGAG
*
37915368 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AGT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
37915412 TCGAATGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:37916027 original size:22 final size:22
Alignment explanation
Indices: 37915989--37916032 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37915979 TCTTCAAACT
*
37915989 TTAAATTATTATAATTACATTA
1 TTAAATTATGATAATTACATTA
*
37916011 TTAAATTATCGAT-ATTATATTA
1 TTAAATTAT-GATAATTACATTA
37916033 ATAAGGTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAAATTATGATAATTACATTA
Found at i:37917814 original size:22 final size:20
Alignment explanation
Indices: 37917750--37917815 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
37917740 TAAAAAATTC
*
37917750 TTAACAATAATTTTAAAAAA
1 TTAAAAATAATTTTAAAAAA
37917770 TTAAAAATAATCTTT--AAAA
1 TTAAAAATAAT-TTTAAAAAA
*
37917789 -TAAATATAAATTATTAAAAAA
1 TTAAAAAT-AATT-TTAAAAAA
37917810 TTAAAA
1 TTAAAA
37917816 TTATGTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 7 0.19
19 9 0.24
20 10 0.27
21 7 0.19
22 4 0.11
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TTAAAAATAATTTTAAAAAA
Found at i:37917824 original size:19 final size:18
Alignment explanation
Indices: 37917761--37917826 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 18
37917751 TAACAATAAT
*
37917761 TTTAAAAAATTAAAAATAATC
1 TTTAAAAAATT-AAAAT--TA
*
37917782 TTTAAAATAAATATAAATTA
1 TTTAAAA-AATTA-AAATTA
37917802 -TTAAAAAATTAAAATTA
1 TTTAAAAAATTAAAATTA
37917819 TGTTAAAA
1 T-TTAAAA
37917827 CAAAATCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
17 6 0.16
18 4 0.11
19 12 0.32
20 1 0.03
21 8 0.21
22 7 0.18
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TTTAAAAAATTAAAATTA
Found at i:37917841 original size:38 final size:40
Alignment explanation
Indices: 37917758--37917844 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 40
37917748 TCTTAACAAT
* *
37917758 AATT-TTAAAAAATTAAAAATAATCTTTAAAATAAATATA
1 AATTATTAAAAAATTAAAAATAATCGTTAAAACAAATATA
*
37917797 AATTATTAAAAAATT-AAAATTAT-GTTAAAACAAA-ATCA
1 AATTATTAAAAAATTAAAAATAATCGTTAAAACAAATAT-A
*
37917835 ATTTATTAAA
1 AATTATTAAA
37917845 GCCAAAACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 2 0.05
38 19 0.45
39 11 0.26
40 10 0.24
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (40 bp):
AATTATTAAAAAATTAAAAATAATCGTTAAAACAAATATA
Found at i:37919101 original size:31 final size:32
Alignment explanation
Indices: 37919041--37919101 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
37919031 TTTTTTAAAT
* *
37919041 TCTTAACAATAATTCTAAAACATTTAAAATAA
1 TCTTAACAATAATTATAAAACATTAAAAATAA
**
37919073 TCTTAA-AATAATTATAAATTATTAAAAAT
1 TCTTAACAATAATTATAAAACATTAAAAAT
37919102 TAAAAACTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (32 bp):
TCTTAACAATAATTATAAAACATTAAAAATAA
Found at i:37919587 original size:20 final size:19
Alignment explanation
Indices: 37919564--37919630 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
37919554 TTTTAAATTC
*
37919564 TTAACAATAATTCTAAAAAA
1 TTAAAAATAA-TCTAAAAAA
*
37919584 TTAAAAATAATCTTAAAAA
1 TTAAAAATAATCTAAAAAA
*
37919603 -TAAATATAAAT-TATTAAAAA
1 TTAAAAAT-AATCTA--AAAAA
37919623 TTAAAAAT
1 TTAAAAAT
37919631 TATGTTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 7 0.18
19 11 0.29
20 14 0.37
21 6 0.16
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAAATAATCTAAAAAA
Found at i:37919598 original size:32 final size:32
Alignment explanation
Indices: 37919562--37919623 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
37919552 TTTTTTAAAT
* * *
37919562 TCTTAACAATAATTCTAAAAAATTAAAAATAA
1 TCTTAAAAATAAATATAAAAAATTAAAAATAA
**
37919594 TCTTAAAAATAAATATAAATTATTAAAAAT
1 TCTTAAAAATAAATATAAAAAATTAAAAAT
37919624 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (32 bp):
TCTTAAAAATAAATATAAAAAATTAAAAATAA
Found at i:37928528 original size:20 final size:20
Alignment explanation
Indices: 37928495--37928533 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37928485 CAACCATGAA
*
37928495 AAGAACAAATAATT-TTTTT
1 AAGAACAAAAAATTGTTTTT
37928514 AAGAAGCAAAAAATTGTTTT
1 AAGAA-CAAAAAATTGTTTT
37928534 GACATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (20 bp):
AAGAACAAAAAATTGTTTTT
Found at i:37931685 original size:15 final size:16
Alignment explanation
Indices: 37931665--37931700 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
37931655 AAATTTATAA
37931665 AAAAAATTA-AAATTC
1 AAAAAATTATAAATTC
*
37931680 AAAAAATTATAATTTC
1 AAAAAATTATAAATTC
37931696 AAAAA
1 AAAAA
37931701 CTATGGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAATTATAAATTC
Found at i:37931685 original size:16 final size:17
Alignment explanation
Indices: 37931664--37931700 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
37931654 AAAATTTATA
37931664 AAAAAAATTA-AAATTC
1 AAAAAAATTATAAATTC
*
37931680 -AAAAAATTATAATTTC
1 AAAAAAATTATAAATTC
37931696 AAAAA
1 AAAAA
37931701 CTATGGAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 9 0.50
16 5 0.28
17 4 0.22
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAAATTATAAATTC
Found at i:37934282 original size:15 final size:17
Alignment explanation
Indices: 37934261--37934301 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
37934251 TAATCTTTTA
37934261 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
37934277 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
37934293 AAAATTATA
1 AAAATTATA
37934302 TTTTTAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:37940446 original size:32 final size:33
Alignment explanation
Indices: 37940383--37940455 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
37940373 AATATCAAGG
*
37940383 CAAATATTTCTAAAGCTACCAATGAATCATTTA
1 CAAATATTTCTAAAGCTACCAATGAAACATTTA
*
37940416 CAAATATTTCTAAAGCTA-CTATGAAACATTTA
1 CAAATATTTCTAAAGCTACCAATGAAACATTTA
37940448 CAAA-ATTT
1 CAAATATTT
37940456 GTTCTTTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 4 0.11
32 16 0.42
33 18 0.47
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.34
Consensus pattern (33 bp):
CAAATATTTCTAAAGCTACCAATGAAACATTTA
Found at i:37950763 original size:29 final size:29
Alignment explanation
Indices: 37950731--37950788 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
37950721 TTAGTTCATA
*
37950731 TTATTTAAAAATACATTTTAC-TCAATTAT
1 TTATTTAAAAATAAATTTTACAT-AATTAT
37950760 TTATTTAAAAATAAATTTTACATAATTAT
1 TTATTTAAAAATAAATTTTACATAATTAT
37950789 CTTTATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (29 bp):
TTATTTAAAAATAAATTTTACATAATTAT
Found at i:37956980 original size:23 final size:22
Alignment explanation
Indices: 37956948--37957119 Score: 141
Period size: 23 Copynumber: 7.5 Consensus size: 22
37956938 GCTGGAGAAA
*
37956948 CAGTAAGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
37956970 CCAGTAGGCACACACAGTGCAAT
1 -CAGTAGGCACACACAGTGCAAT
*
37956993 CTAGTAGGCACACACAATGCAAT
1 C-AGTAGGCACACACAGTGCAAT
* * *
37957016 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACACAGTGC-AAT
* *
37957039 CAGTAGGCACACGA-GGTGCGAAA
1 CAGTAGGCACAC-ACAGTGC-AAT
* *
37957062 CAGTAAGCACACGA-AGTGCGAAA
1 CAGTAGGCACAC-ACAGTGC-AAT
* * *
37957085 CAGTAAGCACACAAAGTGCGAAA
1 CAGTAGGCACACACAGTGC-AAT
*
37957108 CAGTAAGCACAC
1 CAGTAGGCACAC
37957120 GAAGTCCGAA
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
22 16 0.12
23 115 0.87
24 1 0.01
ACGTcount: A:0.40, C:0.26, G:0.23, T:0.12
Consensus pattern (22 bp):
CAGTAGGCACACACAGTGCAAT
Found at i:37957044 original size:45 final size:45
Alignment explanation
Indices: 37956948--37957050 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
37956938 GCTGGAGAAA
* * *
37956948 CAGTAAGCACACACAGTGCAATCCAGTAGGCACACACAGTGCAAT
1 CAGTAGGCACACACAATGCAATCCAGTAGGCACACACAGCGCAAT
* *
37956993 CTAGTAGGCACACACAATGCAAT-CAGTAGGCGCACATAGCGCAAAT
1 C-AGTAGGCACACACAATGCAATCCAGTAGGCACACACAGCGC-AAT
37957039 CAGTAGGCACAC
1 CAGTAGGCACAC
37957051 GAGGTGCGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 28 0.55
46 23 0.45
ACGTcount: A:0.37, C:0.28, G:0.21, T:0.14
Consensus pattern (45 bp):
CAGTAGGCACACACAATGCAATCCAGTAGGCACACACAGCGCAAT
Found at i:37957124 original size:23 final size:23
Alignment explanation
Indices: 37957039--37957138 Score: 164
Period size: 23 Copynumber: 4.3 Consensus size: 23
37957029 TAGCGCAAAT
* *
37957039 CAGTAGGCACACGAGGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
37957062 CAGTAAGCACACGAAGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
*
37957085 CAGTAAGCACACAAAGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
*
37957108 CAGTAAGCACACGAAGTCCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
37957131 CAGTAAGC
1 CAGTAAGC
37957139 GGGCTAGCGT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (23 bp):
CAGTAAGCACACGAAGTGCGAAA
Found at i:37966924 original size:15 final size:15
Alignment explanation
Indices: 37966904--37966941 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
37966894 ATATATTTAG
*
37966904 TTAGGTGGAGGGACT
1 TTAGGTGAAGGGACT
37966919 TTAGGTGAAGGGACT
1 TTAGGTGAAGGGACT
*
37966934 TTAAGTGA
1 TTAGGTGA
37966942 CGGCACTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.39, T:0.29
Consensus pattern (15 bp):
TTAGGTGAAGGGACT
Found at i:37967211 original size:19 final size:19
Alignment explanation
Indices: 37967187--37967223 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
37967177 TTGTACCGTG
*
37967187 TGTGTGTTTATTTTATTTA
1 TGTGTGTTAATTTTATTTA
37967206 TGTGTGTTAATTTTATTT
1 TGTGTGTTAATTTTATTT
37967224 TAATTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (19 bp):
TGTGTGTTAATTTTATTTA
Found at i:37967328 original size:13 final size:13
Alignment explanation
Indices: 37967310--37967362 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
37967300 CAAATAAACG
37967310 GAAAAGAAAGAAA
1 GAAAAGAAAGAAA
*
37967323 GAAAAGAAAAAAA
1 GAAAAGAAAGAAA
* *
37967336 GAAGGAAGAAGGAGA
1 GAA--AAGAAAGAAA
*
37967351 GGAAAGAAAGAA
1 GAAAAGAAAGAA
37967363 GAATGAGAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
13 22 0.71
15 9 0.29
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAGAAA
Found at i:37967356 original size:20 final size:20
Alignment explanation
Indices: 37967333--37967370 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37967323 GAAAAGAAAA
*
37967333 AAAGAAGGAAGAAGGAGAGG
1 AAAGAAAGAAGAAGGAGAGG
*
37967353 AAAGAAAGAAGAATGAGA
1 AAAGAAAGAAGAAGGAGA
37967371 AAAAGGTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.03
Consensus pattern (20 bp):
AAAGAAAGAAGAAGGAGAGG
Found at i:37967532 original size:15 final size:16
Alignment explanation
Indices: 37967484--37967531 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
37967474 GTATGATATA
37967484 TTATTAAATTCGTATT
1 TTATTAAATTCGTATT
* *
37967500 TTATT-TATT-GAAATT
1 TTATTAAATTCG-TATT
37967515 TTATTAAATTCGTATT
1 TTATTAAATTCGTATT
37967531 T
1 T
37967532 AATTCGATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
14 1 0.04
15 11 0.44
16 12 0.48
17 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.58
Consensus pattern (16 bp):
TTATTAAATTCGTATT
Found at i:37970773 original size:21 final size:21
Alignment explanation
Indices: 37970747--37970792 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
37970737 TAGGGTCCAT
*
37970747 TTGCCCCGAAGGAGTAGAGTA
1 TTGCCCAGAAGGAGTAGAGTA
*
37970768 TTGCCCAGGAGGAGTAGAGTA
1 TTGCCCAGAAGGAGTAGAGTA
37970789 TTGC
1 TTGC
37970793 GGTGGCTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (21 bp):
TTGCCCAGAAGGAGTAGAGTA
Found at i:37970849 original size:45 final size:45
Alignment explanation
Indices: 37970785--37970873 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
37970775 GGAGGAGTAG
*
37970785 AGTATTGCGGTGGCTCGTCAAACTAAGCCTAATATCCTTGGCTTA
1 AGTATTGCGGTGACTCGTCAAACTAAGCCTAATATCCTTGGCTTA
* *
37970830 AGTATTGCGGTGACTCGTCAAACTGAGCCTGATATCCTTGGCTT
1 AGTATTGCGGTGACTCGTCAAACTAAGCCTAATATCCTTGGCTT
37970874 GATGAGCTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (45 bp):
AGTATTGCGGTGACTCGTCAAACTAAGCCTAATATCCTTGGCTTA
Found at i:37971143 original size:14 final size:16
Alignment explanation
Indices: 37971117--37971148 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
37971107 GGGTGCAAAT
37971117 TCGGAGTGTACTC-CA
1 TCGGAGTGTACTCGCA
37971132 TCGGAG-GTACTCGCA
1 TCGGAGTGTACTCGCA
37971147 TC
1 TC
37971149 ATCCGATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (16 bp):
TCGGAGTGTACTCGCA
Found at i:37972791 original size:23 final size:23
Alignment explanation
Indices: 37972758--37972803 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
37972748 TCATTATTTA
37972758 CTAAAACGGTACAAAATAAATAT
1 CTAAAACGGTACAAAATAAATAT
*
37972781 CTAAAATGGTACAAAATAAATAT
1 CTAAAACGGTACAAAATAAATAT
37972804 TTATTTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.24
Consensus pattern (23 bp):
CTAAAACGGTACAAAATAAATAT
Found at i:37973788 original size:23 final size:22
Alignment explanation
Indices: 37973762--37973839 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 22
37973752 TTATAGCAAC
37973762 ATTAAATAACAAATCAATTAAAA
1 ATTAAATAACAAATCAA-TAAAA
*
37973785 ATTAAATTAAACAAAACAA-AAAA
1 ATTAAA-T-AACAAATCAATAAAA
* *
37973808 CTTAAAATAATCAAATTAACTAACAA
1 ATT-AAATAA-CAAATCAA-TAA-AA
37973834 ATTAAA
1 ATTAAA
37973840 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
22 2 0.05
23 19 0.44
24 4 0.09
25 14 0.33
26 4 0.09
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.24
Consensus pattern (22 bp):
ATTAAATAACAAATCAATAAAA
Found at i:37974080 original size:24 final size:24
Alignment explanation
Indices: 37974031--37974085 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
37974021 ATACATTACA
*
37974031 TTTTTCTCCTTCTCCTTCTTCTCT
1 TTTTTCTCCTTCTCCTTCATCTCT
37974055 TTTTTCTCCTTCTTCCTTCATC-CT
1 TTTTTCTCCTTC-TCCTTCATCTCT
37974079 TTCTTTC
1 TT-TTTC
37974086 CTTTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTCTCCTTCTCCTTCATCTCT
Found at i:37976657 original size:18 final size:18
Alignment explanation
Indices: 37976625--37976676 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
37976615 CTAAGACGAG
37976625 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
*
37976641 AATAAATTTAATTAATTG
1 AATAAATTTAATTAATTA
*
37976659 AA-AATTTTAAATTAATTA
1 AATAAATTT-AATTAATTA
37976677 CAACTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 16 0.53
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:37987665 original size:2 final size:2
Alignment explanation
Indices: 37987658--37987690 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
37987648 CAGCCAGGTG
37987658 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37987691 TAATTCAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37989590 original size:6 final size:7
Alignment explanation
Indices: 37989563--37989588 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37989553 TTTTCTGCAA
37989563 AAAAAAG
1 AAAAAAG
37989570 AAAAAAG
1 AAAAAAG
37989577 AAAAAAG
1 AAAAAAG
37989584 AAAAA
1 AAAAA
37989589 GAGGAGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:37995775 original size:3 final size:3
Alignment explanation
Indices: 37995767--37995793 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37995757 CAATTGGATA
37995767 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
37995794 CCCCTAGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:38023762 original size:22 final size:21
Alignment explanation
Indices: 38023734--38023779 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
38023724 TAATTTTTGA
38023734 ATTTTTTAAATAATTACTATAT
1 ATTTTTTAAATAATT-CTATAT
** *
38023756 ATTTTTTGTATAATTTTATAT
1 ATTTTTTAAATAATTCTATAT
38023777 ATT
1 ATT
38023780 AAAATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTTTTTAAATAATTCTATAT
Found at i:38031565 original size:50 final size:53
Alignment explanation
Indices: 38031465--38031565 Score: 120
Period size: 50 Copynumber: 2.0 Consensus size: 53
38031455 ATATTTAAAA
* * * *
38031465 TTATTTTAAAATTAATAATATATTAATGTTGAGATAAATATATTATATTATTT
1 TTATTTTAAAATTAATAATATATTAATGTTAAAATAAATAGATTAAATTATTT
*
38031518 TTATTTTAAAA-TAGATAA-ATATT-AT-TTAAAATAAATAGGTTAAATTAT
1 TTATTTTAAAATTA-ATAATATATTAATGTTAAAATAAATAGATTAAATTAT
38031566 ATGCTTGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
50 18 0.43
51 2 0.05
52 7 0.17
53 15 0.36
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.48
Consensus pattern (53 bp):
TTATTTTAAAATTAATAATATATTAATGTTAAAATAAATAGATTAAATTATTT
Found at i:38046417 original size:178 final size:177
Alignment explanation
Indices: 38046114--38046548 Score: 725
Period size: 178 Copynumber: 2.5 Consensus size: 177
38046104 TTTTTACTTC
*
38046114 TGGGGGTAAAAAT-GTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAATTTCGAGG
1 TGGGGGT-AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAAGTTCGAGG
38046178 GTAAAATGGTAATTTTTGGTGAAACCGAGGTCAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAA
65 GTAAAATGGTAATTTTTGGTGAAACCGAGGTCAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAA
* *
38046243 TGGTATTTTTTTTCTGAAATCGGGGTTAAAAAT-AGACTTTTGGAAAGTT
130 TGGTA-ATTTTTGCTGAAATCGGGGTTAAAAATGAGA-TTTTGGAAAGTT
* *
38046292 TGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATAGGATTTTAGAAAGTTCGAGGG
1 TGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAAGTTCGAGGG
*
38046357 TAAAATGGTAATTTTTGGTGAAACC-AGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAA
66 TAAAATGGTAATTTTTGGTGAAACCGA-GGTCAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAA
* *
38046421 TGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
130 TGGTAATTTTTGCTGAAATCGGGGTTAAAAATGAGATTTTGGAAAGTT
*
38046469 TAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGGATTTTAGAAAGTTCGAGGG
1 TGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAAGTTCGAGGG
38046533 TAAAATGGTAATTTTT
66 TAAAATGGTAATTTTT
38046549 TGAAAGTTTT
Statistics
Matches: 243, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
176 42 0.17
177 77 0.32
178 124 0.51
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (177 bp):
TGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAAGTTCGAGGG
TAAAATGGTAATTTTTGGTGAAACCGAGGTCAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAAT
GGTAATTTTTGCTGAAATCGGGGTTAAAAATGAGATTTTGGAAAGTT
Found at i:38046533 original size:29 final size:29
Alignment explanation
Indices: 38046442--38046540 Score: 73
Period size: 28 Copynumber: 3.4 Consensus size: 29
38046432 GGTGAAATCG
* *
38046442 GGGTTAAAAATGGGATTTTGGAAAGTT-TA
1 GGGTT-AAAATGGGATTTTAGAAAGTTCGA
* * *
38046471 GGGGTAAAATGGTAATTTTTGGTGAAA--TCG-
1 GGGTTAAAATGG-GA-TTTT--AGAAAGTTCGA
38046501 GGGTTAAAATGGGATTTTAGAAAGTTCGA
1 GGGTTAAAATGGGATTTTAGAAAGTTCGA
38046530 GGG-TAAAATGG
1 GGGTTAAAATGG
38046541 TAATTTTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 17
0.70 0.09 0.22
Matches are distributed among these distances:
26 4 0.07
28 22 0.40
29 9 0.16
30 16 0.29
32 4 0.07
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.31
Consensus pattern (29 bp):
GGGTTAAAATGGGATTTTAGAAAGTTCGA
Found at i:38046546 original size:29 final size:30
Alignment explanation
Indices: 38046161--38046556 Score: 131
Period size: 30 Copynumber: 13.4 Consensus size: 30
38046151 AAAAATGGGA
* *
38046161 TTTTAGAAATTTCGAGGGTAAAATGGTAAT
1 TTTTTGAAAGTTCGAGGGTAAAATGGTAAT
*
38046191 TTTTGGTGAAA--CCGA-GGTCAAAAATGG-AA-
1 TTTT--TGAAAGTTCGAGGGT--AAAATGGTAAT
* *
38046220 TTTTGGAAAGTTC-AGGGGTAAAATGGTATTTT
1 TTTTTGAAAGTTCGA-GGGTAAAATGGTA--AT
* *
38046252 TTTTCTGAAA--TCG-GGGTTAAAA--ATAGAC
1 TTTT-TGAAAGTTCGAGGG-TAAAATGGTA-AT
* * *
38046280 TTTTGGAAAGTTTGGGGGTAAAATGGTAAT
1 TTTTTGAAAGTTCGAGGGTAAAATGGTAAT
38046310 TTTTGGTGAAA--TC-AGGGTTAAAAATAGG--A-
1 TTTT--TGAAAGTTCGAGGG-T-AAAAT-GGTAAT
*
38046339 TTTTAGAAAGTTCGAGGGTAAAATGGTAAT
1 TTTTTGAAAGTTCGAGGGTAAAATGGTAAT
*
38046369 TTTTGGTGAAA---CCAGGGTCAAAAATGG-AA-
1 TTTT--TGAAAGTTCGAGGGT--AAAATGGTAAT
* *
38046398 TTTTGGAAAGTT-TAGGGGTAAAATGGTAAT
1 TTTTTGAAAGTTCGA-GGGTAAAATGGTAAT
*
38046428 TTTTGGTGAAA--TCG-GGGTTAAAAATGG-GA-
1 TTTT--TGAAAGTTCGAGGG-T-AAAATGGTAAT
* *
38046457 TTTTGGAAAGTT-TAGGGGTAAAATGGTAAT
1 TTTTTGAAAGTTCGA-GGGTAAAATGGTAAT
*
38046487 TTTTGGTGAAA--TCG-GGGTTAAAATGG-GA-
1 TTTT--TGAAAGTTCGAGGG-TAAAATGGTAAT
*
38046515 TTTTAGAAAGTTCGAGGGTAAAATGGTAAT
1 TTTTTGAAAGTTCGAGGGTAAAATGGTAAT
38046545 TTTTTGAAAGTT
1 TTTTTGAAAGTT
38046557 TTAGGGTCAA
Statistics
Matches: 271, Mismatches: 34, Indels: 122
0.63 0.08 0.29
Matches are distributed among these distances:
26 4 0.01
27 22 0.08
28 46 0.17
29 60 0.22
30 74 0.27
31 35 0.13
32 26 0.10
33 4 0.01
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (30 bp):
TTTTTGAAAGTTCGAGGGTAAAATGGTAAT
Found at i:38046550 original size:59 final size:59
Alignment explanation
Indices: 38046117--38046548 Score: 570
Period size: 59 Copynumber: 7.3 Consensus size: 59
38046107 TTACTTCTGG
* *
38046117 GGGTAAAAAT-GTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAATTTCGA
1 GGGT-AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGA
* * * *
38046176 GGGTAAAATGGTAATTTTTGGTGAAACCGAGGTCAAAAATGGAATTTTGGAAAGTTC-A
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGA
* ** * * *
38046234 GGGGTAAAATGGTATTTTTTTTCTGAAATCGGGGTTAAAAAT-AGACTTTTGGAAAGTTTGG
1 -GGGTAAAATGGTA-ATTTTTGGTGAAATCGGGGTTAAAAATGGGA-TTTTGGAAAGTTCGA
* * *
38046295 GGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATAGGATTTTAGAAAGTTCGA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGA
* * * * *
38046354 GGGTAAAATGGTAATTTTTGGTGAAACCAGGGTCAAAAATGGAATTTTGGAAAGTT-TA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGA
*
38046412 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT-TA
1 -GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGA
*
38046471 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGGATTTTAGAAAGTTCGA
1 -GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGA
38046530 GGGTAAAATGGTAATTTTT
1 GGGTAAAATGGTAATTTTT
38046549 TGAAAGTTTT
Statistics
Matches: 329, Mismatches: 36, Indels: 17
0.86 0.09 0.04
Matches are distributed among these distances:
58 46 0.14
59 235 0.71
60 48 0.15
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGA
Found at i:38046563 original size:30 final size:29
Alignment explanation
Indices: 38046280--38046591 Score: 104
Period size: 30 Copynumber: 10.6 Consensus size: 29
38046270 AAAAATAGAC
* *
38046280 TTTTGGAAAGTTTGGGGGTAAAATGGTAAT
1 TTTTTGAAAGTTT-AGGGTAAAATGGTAAT
*
38046310 TTTTGGTGAAA--TCAGGGTTAAAAATAGG--A-
1 TTTT--TGAAAGTTTAGGG-T-AAAAT-GGTAAT
* *
38046339 TTTTAGAAAGTTCGAGGGTAAAATGGTAAT
1 TTTTTGAAAGTT-TAGGGTAAAATGGTAAT
**
38046369 TTTTGGTGAAA--CCAGGGTCAAAAATGG-AA-
1 TTTT--TGAAAGTTTAGGGT--AAAATGGTAAT
*
38046398 TTTTGGAAAGTTTAGGGGTAAAATGGTAAT
1 TTTTTGAAAGTTTA-GGGTAAAATGGTAAT
** *
38046428 TTTTGGTGAAA--TCGGGGTTAAAAATGG-GA-
1 TTTT--TGAAAGTTTAGGG-T-AAAATGGTAAT
*
38046457 TTTTGGAAAGTTTAGGGGTAAAATGGTAAT
1 TTTTTGAAAGTTTA-GGGTAAAATGGTAAT
** *
38046487 TTTTGGTGAAA--TCGGGGTTAAAATGG-GA-
1 TTTT--TGAAAGTTTAGGG-TAAAATGGTAAT
* *
38046515 TTTTAGAAAGTTCGAGGGTAAAATGGTAAT
1 TTTTTGAAAGTT-TAGGGTAAAATGGTAAT
*
38046545 TTTTTGAAAGTTTTAGGGTCAAAAT-ATAA-
1 TTTTTGAAAG-TTTAGGGT-AAAATGGTAAT
*
38046574 TTTATGAACAGTTTAGGG
1 TTTTTGAA-AGTTTAGGG
38046592 ACCTATAAGC
Statistics
Matches: 211, Mismatches: 31, Indels: 81
0.65 0.10 0.25
Matches are distributed among these distances:
26 4 0.02
27 14 0.07
28 32 0.15
29 54 0.26
30 63 0.30
31 26 0.12
32 18 0.09
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (29 bp):
TTTTTGAAAGTTTAGGGTAAAATGGTAAT
Found at i:38047648 original size:18 final size:19
Alignment explanation
Indices: 38047618--38047668 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
38047608 TTCTCTTCTT
* *
38047618 TTTATTAATTATTATCAATA
1 TTTATT-ATTATTATAAACA
38047638 -TTATTATTATTA-AAACA
1 TTTATTATTATTATAAACA
38047655 TTTATTATTATTAT
1 TTTATTATTATTAT
38047669 TATTATTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATTATTATTATAAACA
Found at i:38047690 original size:30 final size:30
Alignment explanation
Indices: 38047624--38047691 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
38047614 TCTTTTTATT
*
38047624 AATTATTATCAATATTATTATTATTAAAAC
1 AATTATTATCAATATTATTATTACTAAAAC
* * *
38047654 ATTTATTATTATTATTATTATTACCTAAAA-
1 AATTATTATCAATATTATTATTA-CTAAAAC
38047684 AATTATTA
1 AATTATTA
38047692 GTGTTAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (30 bp):
AATTATTATCAATATTATTATTACTAAAAC
Found at i:38048330 original size:14 final size:14
Alignment explanation
Indices: 38048311--38048351 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
38048301 TTGGGCCTAT
*
38048311 TTGGGCCATTGTAA
1 TTGGGCCTTTGTAA
*
38048325 TTGGGCCTTTG-AT
1 TTGGGCCTTTGTAA
38048338 TTGGGCCTTTGTAA
1 TTGGGCCTTTGTAA
38048352 ATGGACTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.15, C:0.15, G:0.29, T:0.41
Consensus pattern (14 bp):
TTGGGCCTTTGTAA
Found at i:38048343 original size:13 final size:14
Alignment explanation
Indices: 38048308--38048350 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
38048298 GCATTGGGCC
*
38048308 TATTTGGGCCATTG
1 TATTTGGGCCTTTG
*
38048322 TAATTGGGCCTTTG
1 TATTTGGGCCTTTG
38048336 -ATTTGGGCCTTTG
1 TATTTGGGCCTTTG
38048349 TA
1 TA
38048351 AATGGACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.14, C:0.14, G:0.28, T:0.44
Consensus pattern (14 bp):
TATTTGGGCCTTTG
Found at i:38048385 original size:20 final size:20
Alignment explanation
Indices: 38048362--38048400 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38048352 ATGGACTTTG
*
38048362 TTATTTGTACATTTA-ATTTT
1 TTATTT-TAAATTTATATTTT
38048382 TTATTTTAAATTTATATTT
1 TTATTTTAAATTTATATTT
38048401 ATATTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TTATTTTAAATTTATATTTT
Found at i:38048407 original size:17 final size:17
Alignment explanation
Indices: 38048381--38048417 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
38048371 CATTTAATTT
* *
38048381 TTTATTTTAAATTTATA
1 TTTATATTAAATTTAAA
38048398 TTTATATTAAATTTAAA
1 TTTATATTAAATTTAAA
38048415 TTT
1 TTT
38048418 TAGAAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATATTAAATTTAAA
Found at i:38052356 original size:22 final size:23
Alignment explanation
Indices: 38052315--38052357 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
38052305 AAGTTATCTT
*
38052315 TTAATTTGATTTTTTTTAATAAA
1 TTAATTTGATTTATTTTAATAAA
38052338 TTAATTTGA-TTATTTTAATA
1 TTAATTTGATTTATTTTAATA
38052358 TTGCAAGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (23 bp):
TTAATTTGATTTATTTTAATAAA
Found at i:38052572 original size:14 final size:14
Alignment explanation
Indices: 38052553--38052579 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38052543 TTTGGCATAT
38052553 TATTTTTTATTGCA
1 TATTTTTTATTGCA
38052567 TATTTTTTATTGC
1 TATTTTTTATTGC
38052580 TATGTGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TATTTTTTATTGCA
Found at i:38053507 original size:21 final size:19
Alignment explanation
Indices: 38053478--38053528 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
38053468 CATTTTTAAC
*
38053478 TTATGATAATGTATTTTAAATA
1 TTAT-ATAAT-TATATTAAA-A
38053500 TTATATAATTATATTAAAA
1 TTATATAATTATATTAAAA
*
38053519 TTTTATAATT
1 TTATATAATT
38053529 GATGATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 8 0.30
21 5 0.19
22 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TTATATAATTATATTAAAA
Found at i:38053542 original size:21 final size:20
Alignment explanation
Indices: 38053483--38053542 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
38053473 TTAACTTATG
* *
38053483 ATAATGTATTTTAAATATTAT
1 ATAAT-TATATTAAATATTTT
38053504 ATAATTATATTAAA-ATTTT
1 ATAATTATATTAAATATTTT
38053523 ATAATTGATGA-TAAATATTT
1 ATAATT-AT-ATTAAATATTT
38053543 ATGTTAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 10 0.29
20 14 0.41
21 10 0.29
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATAATTATATTAAATATTTT
Found at i:38056262 original size:16 final size:16
Alignment explanation
Indices: 38056243--38056274 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38056233 TATCTTTAAT
*
38056243 AGATATTATATTATAA
1 AGATAGTATATTATAA
38056259 AGATAGTATATTATAA
1 AGATAGTATATTATAA
38056275 TAACATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (16 bp):
AGATAGTATATTATAA
Found at i:38062736 original size:18 final size:18
Alignment explanation
Indices: 38062713--38062754 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
38062703 ATAACTGAAA
*
38062713 TGGAGGATACATTTGAGG
1 TGGAGGATACATTGGAGG
*
38062731 TGGAGGATACATTGGCGG
1 TGGAGGATACATTGGAGG
38062749 TGGAGG
1 TGGAGG
38062755 TGGGTGATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.07, G:0.45, T:0.24
Consensus pattern (18 bp):
TGGAGGATACATTGGAGG
Found at i:38062763 original size:24 final size:24
Alignment explanation
Indices: 38062727--38062778 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
38062717 GGATACATTT
38062727 GAGGTGGAGGATACATTG-GCGGTG
1 GAGGTGGAGGATACATTGAG-GGTG
38062751 GAGGTGG-GTGATACATTGAGGGTG
1 GAGGTGGAG-GATACATTGAGGGTG
38062775 GAGG
1 GAGG
38062779 ATGCATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 1 0.04
24 24 0.92
25 1 0.04
ACGTcount: A:0.21, C:0.06, G:0.52, T:0.21
Consensus pattern (24 bp):
GAGGTGGAGGATACATTGAGGGTG
Found at i:38071641 original size:31 final size:31
Alignment explanation
Indices: 38071603--38071672 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
38071593 TCAATTTATC
** *
38071603 ATTTGGTACCTATA-TTTGGCTTTAATGTTCA
1 ATTTGGTACCTA-AGTTTGAATTCAATGTTCA
38071634 ATTTGGTACCTAAGTTTGAATTCAATGTTCA
1 ATTTGGTACCTAAGTTTGAATTCAATGTTCA
38071665 A-TTGGTAC
1 ATTTGGTAC
38071673 ACAAACCAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 8 0.23
31 27 0.77
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (31 bp):
ATTTGGTACCTAAGTTTGAATTCAATGTTCA
Found at i:38072871 original size:21 final size:20
Alignment explanation
Indices: 38072845--38072899 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
38072835 AATAACGGTG
*
38072845 GCAATGAGATTAATTATTGTA
1 GCAATGAGATTAA-TACTGTA
38072866 GCAATGAGATTAGATACTGTA
1 GCAATGAGATTA-ATACTGTA
* *
38072887 GCGATGATATTAA
1 GCAATGAGATTAA
38072900 AAACAACGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (20 bp):
GCAATGAGATTAATACTGTA
Found at i:38080443 original size:13 final size:14
Alignment explanation
Indices: 38080416--38080451 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
38080406 TAAATTTCTT
*
38080416 AAAAGTTGATAAAA
1 AAAATTTGATAAAA
38080430 AAAATTTGATAAAA
1 AAAATTTGATAAAA
*
38080444 AAATTTTG
1 AAAATTTG
38080452 GAGTCCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (14 bp):
AAAATTTGATAAAA
Found at i:38081270 original size:34 final size:35
Alignment explanation
Indices: 38081203--38081272 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
38081193 TAGTAAGATA
38081203 ACTGAATCCACACAAAACATAAAGATGATTAAATT
1 ACTGAATCCACACAAAACATAAAGATGATTAAATT
38081238 ACTGAATCCACACAAAACATAAA-ATGATTAAATT
1 ACTGAATCCACACAAAACATAAAGATGATTAAATT
38081272 A
1 A
38081273 TAGTAAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 12 0.34
35 23 0.66
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.23
Consensus pattern (35 bp):
ACTGAATCCACACAAAACATAAAGATGATTAAATT
Found at i:38081688 original size:30 final size:31
Alignment explanation
Indices: 38081622--38081681 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
38081612 AATTAGTAAT
38081622 GATAAAATTTCATTTTAACCCCTTTAAAAAC
1 GATAAAATTTCATTTTAACCCCTTTAAAAAC
*
38081653 GATAAAATTTCGA-TTTAA-CCTTTTAAAAA
1 GATAAAATTTC-ATTTTAACCCCTTTAAAAA
38081682 TTATAAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.37
31 16 0.59
32 1 0.04
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (31 bp):
GATAAAATTTCATTTTAACCCCTTTAAAAAC
Found at i:38087122 original size:17 final size:17
Alignment explanation
Indices: 38087100--38087154 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
38087090 GTTTAAACTT
38087100 TTAAGTTTAAATTTAAA
1 TTAAGTTTAAATTTAAA
*
38087117 TTAAGTTTAAATTTAAT
1 TTAAGTTTAAATTTAAA
*
38087134 TTGAA-TTTGAATTTAAA
1 TT-AAGTTTAAATTTAAA
38087151 TTAA
1 TTAA
38087155 TTAAAAAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 30 0.88
18 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (17 bp):
TTAAGTTTAAATTTAAA
Found at i:38087132 original size:12 final size:11
Alignment explanation
Indices: 38087099--38087156 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
38087089 AGTTTAAACT
*
38087099 TTTAAGTTTAAA
1 TTTAAATTT-AA
38087111 TTTAAA-TTAA
1 TTTAAATTTAA
38087121 GTTTAAATTTAA
1 -TTTAAATTTAA
*
38087133 TTTGAATTTGAA
1 TTTAAATTT-AA
38087145 TTTAAA-TTAA
1 TTTAAATTTAA
38087155 TT
1 TT
38087157 AAAAAGTACA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 6 0.15
11 18 0.45
12 16 0.40
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:38088892 original size:29 final size:28
Alignment explanation
Indices: 38088860--38089228 Score: 341
Period size: 29 Copynumber: 12.6 Consensus size: 28
38088850 TAAATTATTC
* *
38088860 AAAATTATATTTTGACCCTAAACTTCACT
1 AAAATTACATTTTGACCCTAAACTTC-CA
* *
38088889 AAAATTACATTTTTAACCCTAAAACTTCTA
1 AAAATTACA-TTTTGACCCT-AAACTTCCA
*
38088919 AAAATTACATTTT-ACCCTCGAACTTCCA
1 AAAATTACATTTTGACCCT-AAACTTCCA
*
38088947 AAAATTACATTTTTGACCCCCAAACTTCCA
1 AAAATTACA-TTTTGA-CCCTAAACTTCCA
* * *
38088977 AAAATTACATTTTTACACCCAAACTTTCA
1 AAAATTACATTTTGAC-CCTAAACTTCCA
* *
38089006 AAAATTCCATTTTGACCTTGAAACTTCCA
1 AAAATTACATTTTGACCCT-AAACTTCCA
* * *
38089035 CAAATTACATTTTTACCCCTAAATTTCCA
1 AAAATTACATTTTGA-CCCTAAACTTCCA
*
38089064 AAAATTACATTTTTAACCCTAAAACTTCCA
1 AAAATTACA-TTTTGACCCT-AAACTTCCA
*
38089094 AAAATTACATTTTGACCCCTAAAATTCCA
1 AAAATTACATTTTGA-CCCTAAACTTCCA
* *
38089123 AAAATT-CAATTTTTGACCCAAAAACTCCCA
1 AAAATTAC-A-TTTTGACCC-TAAACTTCCA
* * *
38089153 AAAATTACATTTTTACTCCCAAATTTCCA
1 AAAATTACATTTTGAC-CCTAAACTTCCA
*
38089182 AAAATTACATTTTTG-CCCTAAAACTTTCA
1 AAAATTACA-TTTTGACCCT-AAACTTCCA
38089211 AAAATTACCATTTT-ACCC
1 AAAATTA-CATTTTGACCC
38089229 CCTGAATGTC
Statistics
Matches: 283, Mismatches: 37, Indels: 40
0.79 0.10 0.11
Matches are distributed among these distances:
28 26 0.09
29 153 0.54
30 93 0.33
31 11 0.04
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAATTACATTTTGACCCTAAACTTCCA
Found at i:38089033 original size:88 final size:89
Alignment explanation
Indices: 38088860--38089224 Score: 391
Period size: 88 Copynumber: 4.1 Consensus size: 89
38088850 TAAATTATTC
* *
38088860 AAAATTATA-TTTTGA-CCCTAAACTTCACTAAAATTACATTTTTAACCCTAAAAC-TTCTAAAA
1 AAAATTACATTTTTGACCCCTAAACTTC-CAAAAATTACATTTTTAACCC-AAAACTTTC-AAAA
38088922 ATTACATTTT-A-CCCTCG-AACTTCCA
63 ATTACATTTTGACCCCT-GAAACTTCCA
*
38088947 AAAATTACATTTTTGACCCCCAAACTTCCAAAAATTACATTTTTACACCC-AAACTTTCAAAAAT
1 AAAATTACATTTTTGACCCCTAAACTTCCAAAAATTACATTTTTA-ACCCAAAACTTTCAAAAAT
* *
38089011 TCCATTTTGA-CCTTGAAACTTCCA
65 TACATTTTGACCCCTGAAACTTCCA
* * *
38089035 CAAATTACATTTTT-ACCCCTAAATTTCCAAAAATTACATTTTTAACCCTAAAACTTCCAAAAAT
1 AAAATTACATTTTTGACCCCTAAACTTCCAAAAATTACATTTTTAACCC-AAAACTTTCAAAAAT
*
38089099 TACATTTTGACCCCT-AAAATTCCA
65 TACATTTTGACCCCTGAAACTTCCA
** * *
38089123 AAAATT-CAATTTTTGACCCAAAAACTCCCAAAAATTACATTTTT-ACTCCCAAA-TTTCCAAAA
1 AAAATTAC-ATTTTTGACCCCTAAACTTCCAAAAATTACATTTTTAAC-CCAAAACTTT-CAAAA
* *
38089185 ATTACATTTTTG--CCCTAAAACTTTCA
63 ATTACA-TTTTGACCCCTGAAACTTCCA
38089211 AAAATTACCATTTT
1 AAAATTA-CATTTT
38089225 ACCCCCTGAA
Statistics
Matches: 240, Mismatches: 21, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
86 4 0.02
87 61 0.25
88 120 0.50
89 54 0.22
90 1 0.00
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (89 bp):
AAAATTACATTTTTGACCCCTAAACTTCCAAAAATTACATTTTTAACCCAAAACTTTCAAAAATT
ACATTTTGACCCCTGAAACTTCCA
Found at i:38089241 original size:59 final size:57
Alignment explanation
Indices: 38088889--38089256 Score: 400
Period size: 59 Copynumber: 6.3 Consensus size: 57
38088879 AAACTTCACT
* * * *
38088889 AAAATTACATTTTTAACCCTAAAACTTCTAAAAATTACATTTTACCCTCGAACTTCCA
1 AAAATTACATTTTTGACCCTAAAACTTCCAAAAATTACATTTTACCC-CCAAATTCCA
** * *
38088947 AAAATTACATTTTTGACCCCCAAACTTCCAAAAATTACATTTTTACACCCAAACTTTCA
1 AAAATTACATTTTTGACCCTAAAACTTCCAAAAATTACA-TTTTACCCCCAAA-TTCCA
* * * * *
38089006 AAAATTCCA-TTTTGACCTTGAAACTTCCACAAATTACATTTTTACCCCTAAATTTCCA
1 AAAATTACATTTTTGACCCTAAAACTTCCAAAAATTACA-TTTTACCCCCAAA-TTCCA
* *
38089064 AAAATTACATTTTTAACCCTAAAACTTCCAAAAATTACATTTTGACCCCTAAAATTCCA
1 AAAATTACATTTTTGACCCTAAAACTTCCAAAAATTACATTTT-ACCCC-CAAATTCCA
* * *
38089123 AAAATT-CAATTTTTGACCCAAAAACTCCCAAAAATTACATTTTTACTCCCAAATTTCCA
1 AAAATTAC-ATTTTTGACCCTAAAACTTCCAAAAATTACA-TTTTACCCCCAAA-TTCCA
* *
38089182 AAAATTACATTTTTG-CCCTAAAACTTTCAAAAATTACCATTTTACCCCCTGAATGTCCA
1 AAAATTACATTTTTGACCCTAAAACTTCCAAAAATTA-CATTTTACCCCC-AAAT-TCCA
* *
38089241 AAAATTCCGTTTTTGA
1 AAAATTACATTTTTGA
38089257 TCCCGATTTT
Statistics
Matches: 262, Mismatches: 35, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
58 123 0.47
59 131 0.50
60 8 0.03
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (57 bp):
AAAATTACATTTTTGACCCTAAAACTTCCAAAAATTACATTTTACCCCCAAATTCCA
Found at i:38092127 original size:17 final size:17
Alignment explanation
Indices: 38092040--38092134 Score: 56
Period size: 17 Copynumber: 5.8 Consensus size: 17
38092030 TTGAGTTTAA
* *
38092040 ATTAATTTTAAATTTAT
1 ATTAAATTTAAAATTAT
*
38092057 TTTAAAATTTAAAATTA-
1 ATT-AAATTTAAAATTAT
* **
38092074 CTT--ATTTAAGTTTAT
1 ATTAAATTTAAAATTAT
*
38092089 TTTAAATTT-AAATT-T
1 ATTAAATTTAAAATTAT
*
38092104 GAATAAATTTAAAATTAT
1 -ATTAAATTTAAAATTAT
*
38092122 ATTAAACTTAAAA
1 ATTAAATTTAAAA
38092135 AGTCCATTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 14
0.68 0.15 0.16
Matches are distributed among these distances:
14 9 0.16
15 3 0.05
16 10 0.17
17 24 0.41
18 12 0.21
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
ATTAAATTTAAAATTAT
Found at i:38093576 original size:23 final size:23
Alignment explanation
Indices: 38093502--38093692 Score: 114
Period size: 23 Copynumber: 8.5 Consensus size: 23
38093492 TAAACGGAAC
* * *
38093502 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
38093524 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
38093546 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
38093572 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
38093592 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
38093611 AATCAGAGAGCACACACACTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
38093634 AATAATAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
38093659 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
38093682 AATCAGAGAGC
1 AAACAGAGAGC
38093693 GCGCTAGTGT
Statistics
Matches: 128, Mismatches: 25, Indels: 31
0.70 0.14 0.17
Matches are distributed among these distances:
16 10 0.08
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.02
22 18 0.14
23 56 0.44
24 2 0.02
25 27 0.21
26 8 0.06
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:38096517 original size:30 final size:30
Alignment explanation
Indices: 38096483--38096787 Score: 314
Period size: 30 Copynumber: 10.2 Consensus size: 30
38096473 AATTATCCAG
* * *
38096483 AAATTACATTTCGACCCCAAAACTTTCTGA
1 AAATTATATTTTGACCCCAAAACTTTCTAA
*
38096513 AAATTATATTTTGACCACAAAACTTTCTAA
1 AAATTATATTTTGACCCCAAAACTTTCTAA
* * * *
38096543 AAGTTACATTTTGACCCCTAAACTTT-TCCA
1 AAATTATATTTTGACCCCAAAACTTTCT-AA
* * * **
38096573 AAATTGTGTTTTGACCCCAAAACTTTTTTG
1 AAATTATATTTTGACCCCAAAACTTTCTAA
* **
38096603 AAATTACATTTCAACCCCAAAACTTTCTAA
1 AAATTATATTTTGACCCCAAAACTTTCTAA
*
38096633 AAATTATATTTTGACCCTAAAACTTTCTAA
1 AAATTATATTTTGACCCCAAAACTTTCTAA
* * * *
38096663 AAATTACATTTTAACCCCTAAACTTT-TCCA
1 AAATTATATTTTGACCCCAAAACTTTCT-AA
* *
38096693 AAATTATATTTTGACCCCAATACCTTT-TTA
1 AAATTATATTTTGACCCCAA-AACTTTCTAA
*
38096723 AAATTATATTTTGACCCCAAAACTTT-TCCA
1 AAATTATATTTTGACCCCAAAACTTTCT-AA
*
38096753 AAATTATACTTTGACCCCAAAACTTTC-AA
1 AAATTATATTTTGACCCCAAAACTTTCTAA
38096782 AAATTA
1 AAATTA
38096788 CCATTTTTAC
Statistics
Matches: 227, Mismatches: 42, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
29 15 0.07
30 205 0.90
31 7 0.03
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.36
Consensus pattern (30 bp):
AAATTATATTTTGACCCCAAAACTTTCTAA
Found at i:38096585 original size:60 final size:59
Alignment explanation
Indices: 38096483--38096799 Score: 377
Period size: 60 Copynumber: 5.3 Consensus size: 59
38096473 AATTATCCAG
* * *
38096483 AAATTACATTTCGACCCCAAAAC-TTTCTGAAAATTATATTTTGACCACAAAACTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTC-CAAAATTATATTTTGACCCCAAAACTTTCTA
* * * * *
38096542 AAAGTTACATTTTGACCCCTAAACTTTTCCAAAATTGTGTTTTGACCCCAAAACTTTTTTG
1 AAA-TTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAAC-TTTCTA
** * *
38096603 AAATTACATTTCAACCCCAAAAC-TTTCTAAAAATTATATTTTGACCCTAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTTC-CAAAATTATATTTTGACCCCAAAACTTTCT-A
* * * *
38096663 AAATTACATTTTAACCCCTAAACTTTTCCAAAATTATATTTTGACCCCAATACCTTTTTA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAA-AACTTTCTA
* * *
38096723 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTATACTTTGACCCCAAAACTTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTCTA
*
38096782 AAATTACCATTTTTACCC
1 AAATTA-CATTTTGACCC
38096800 TTAAACTTCC
Statistics
Matches: 218, Mismatches: 32, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
59 23 0.11
60 174 0.80
61 21 0.10
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.37
Consensus pattern (59 bp):
AAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTCTA
Found at i:38096695 original size:120 final size:119
Alignment explanation
Indices: 38096482--38096807 Score: 458
Period size: 120 Copynumber: 2.7 Consensus size: 119
38096472 AAATTATCCA
* *
38096482 GAAATTACATTTCGACCCCAAAACTTTCTGAAAATTATATTTTGACCACAAAACTTTCTAAAAGT
1 GAAATTACATTTCGACCCCAAAACTTTCTAAAAATTATATTTTGACC-CAAAACTTTCTAAAAAT
* * * *
38096547 TACATTTTGACCCCTAAACTTTTCCAAAATTGTGTTTTGACCCCAAAACTTTTTT
65 TACATTTTAACCCCTAAACTTTTCCAAAATTATATTTTGACCCCAAAACCTTTTT
*
38096602 GAAATTACATTTCAACCCCAAAACTTTCTAAAAATTATATTTTGACCCTAAAACTTTCTAAAAAT
1 GAAATTACATTTCGACCCCAAAACTTTCTAAAAATTATATTTTGACCC-AAAACTTTCTAAAAAT
*
38096667 TACATTTTAACCCCTAAACTTTTCCAAAATTATATTTTGACCCCAATACCTTTTT
65 TACATTTTAACCCCTAAACTTTTCCAAAATTATATTTTGACCCCAAAACCTTTTT
* * * * *
38096722 AAAATTATATTTTGACCCCAAAACTTT-TCCAAAATTATACTTTGACCCCAAAACTTTC-AAAAA
1 GAAATTACATTTCGACCCCAAAACTTTCT-AAAAATTATATTTTGA-CCCAAAACTTTCTAAAAA
* *
38096785 TTACCATTTTTACCCTTAAACTT
64 TTA-CATTTTAACCCCTAAACTT
38096808 CCGTAAACCC
Statistics
Matches: 186, Mismatches: 16, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
119 10 0.05
120 173 0.93
121 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (119 bp):
GAAATTACATTTCGACCCCAAAACTTTCTAAAAATTATATTTTGACCCAAAACTTTCTAAAAATT
ACATTTTAACCCCTAAACTTTTCCAAAATTATATTTTGACCCCAAAACCTTTTT
Found at i:38105738 original size:13 final size:13
Alignment explanation
Indices: 38105722--38105764 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
38105712 TTTAAATATC
38105722 AAATTAAATAAAA
1 AAATTAAATAAAA
**
38105735 AAATTAAAT-ACC
1 AAATTAAATAAAA
*
38105747 AAATTAAAAAAAA
1 AAATTAAATAAAA
38105760 AAATT
1 AAATT
38105765 GAGACTTCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATTAAATAAAA
Done.