Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 40 of 207
Found at i:11571820 original size:22 final size:22
Alignment explanation
Indices: 11571794--11571835 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11571784 GTTTAATTTG
11571794 AGTATTA-ATTGTCTATTTAAGA
1 AGTATTACA-TGTCTATTTAAGA
*
11571816 AGTATTACATGTTTATTTAA
1 AGTATTACATGTCTATTTAA
11571836 AATAATCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (22 bp):
AGTATTACATGTCTATTTAAGA
Found at i:11573685 original size:17 final size:17
Alignment explanation
Indices: 11573663--11573700 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
11573653 ATAGACATTT
11573663 CTCGTCTTTAGTAAATC
1 CTCGTCTTTAGTAAATC
11573680 CTCGTCTTTAGTAAATC
1 CTCGTCTTTAGTAAATC
11573697 CTCG
1 CTCG
11573701 ACGATTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (17 bp):
CTCGTCTTTAGTAAATC
Found at i:11574301 original size:35 final size:35
Alignment explanation
Indices: 11574215--11574302 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
11574205 CCTCTTTCGA
* * * *
11574215 GGTGTCGCCTCAAAGGACCTATATACCGTTTGCAC
1 GGTGTAGCCTCAAAGGACCCATATACCATTTACAC
* *
11574250 GGTGTCACCCT-AAAGGACCCATATACTATTTACAC
1 GGTGT-AGCCTCAAAGGACCCATATACCATTTACAC
*
11574285 GGTGTAGCCTCGAAGGAC
1 GGTGTAGCCTCAAAGGAC
11574303 TAGTCGATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
34 4 0.09
35 36 0.84
36 3 0.07
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (35 bp):
GGTGTAGCCTCAAAGGACCCATATACCATTTACAC
Found at i:11578006 original size:44 final size:42
Alignment explanation
Indices: 11577951--11578073 Score: 174
Period size: 42 Copynumber: 2.9 Consensus size: 42
11577941 AAATGCTATG
*
11577951 TCCCAGATATGGTCTTACATGGAAATCTCATATCGATGTCAATA
1 TCCCAGATATGGTCTTACAT-GAAATCTCATATCAATGTC-ATA
* * *
11577995 TCCCAGCTATGGTCTTACACGAAGTCTCATATCAATGTCATA
1 TCCCAGATATGGTCTTACATGAAATCTCATATCAATGTCATA
* *
11578037 TCCCAGATATGGTCTTATATGAAATCTCAAATCAATG
1 TCCCAGATATGGTCTTACATGAAATCTCATATCAATG
11578074 CCGATGCCAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
42 35 0.50
43 17 0.24
44 18 0.26
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
TCCCAGATATGGTCTTACATGAAATCTCATATCAATGTCATA
Found at i:11578112 original size:48 final size:48
Alignment explanation
Indices: 11578033--11578216 Score: 226
Period size: 48 Copynumber: 3.8 Consensus size: 48
11578023 ATATCAATGT
* * **
11578033 CATATCCCAGATATGGTCTTATATGAAATCTCAAATCAATGCCGATGC
1 CATATCTCAGATATGGTCTTATACGGGATCTCAAATCAATGCCGATGC
* * * * *
11578081 CATATCTCAAATATGGTCTTATACGGGATCTCAAACCGATGCCAATTC
1 CATATCTCAGATATGGTCTTATACGGGATCTCAAATCAATGCCGATGC
* * *
11578129 CATATATCAGATATGGTCTTATACGGGATCTCAAATCGA-GACCGATGT
1 CATATCTCAGATATGGTCTTATACGGGATCTCAAATCAATG-CCGATGC
* *
11578177 TATATCTCAGATATAGTCTTATACGGGATCTCAAATCAAT
1 CATATCTCAGATATGGTCTTATACGGGATCTCAAATCAAT
11578217 TCGGCAATGT
Statistics
Matches: 115, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
47 1 0.01
48 114 0.99
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (48 bp):
CATATCTCAGATATGGTCTTATACGGGATCTCAAATCAATGCCGATGC
Found at i:11586542 original size:9 final size:9
Alignment explanation
Indices: 11586528--11586556 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
11586518 TAAACAATTC
11586528 AATAATATA
1 AATAATATA
11586537 AATAATATA
1 AATAATATA
11586546 AATAATATA
1 AATAATATA
11586555 AA
1 AA
11586557 ATGTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:11587059 original size:9 final size:9
Alignment explanation
Indices: 11587045--11587081 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11587035 TATAGTTTGA
11587045 TATTCGAAT
1 TATTCGAAT
11587054 TATTCGAAT
1 TATTCGAAT
* *
11587063 TATTTGAGT
1 TATTCGAAT
11587072 TATTCGAAT
1 TATTCGAAT
11587081 T
1 T
11587082 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11597453 original size:13 final size:13
Alignment explanation
Indices: 11597435--11597459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11597425 TAATTTATGT
11597435 GTGTGAAAATTTC
1 GTGTGAAAATTTC
11597448 GTGTGAAAATTT
1 GTGTGAAAATTT
11597460 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:11598675 original size:43 final size:42
Alignment explanation
Indices: 11598533--11598675 Score: 128
Period size: 42 Copynumber: 3.3 Consensus size: 42
11598523 TGATTTTGTA
* * *
11598533 TAAGACCACATCTAGGACATTGGCATCG-ATTTGGGATTTACATG
1 TAAGACCACATCTGGGACAATGGCATCGTATAT--GA-TTACATG
* ** * *
11598577 TAAAACCATGTCTGGGACAGTGGCATCGTATATGATTACGTG
1 TAAGACCACATCTGGGACAATGGCATCGTATATGATTACATG
* * *
11598619 TAAGACC-CTATCTGGGACAATGGCATTGTTATTTTATTACATG
1 TAAGACCAC-ATCTGGGACAATGGCATCG-TATATGATTACATG
11598662 TAAGACCACATCTG
1 TAAGACCACATCTG
11598676 TGACGTTGGT
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
42 28 0.35
43 25 0.31
44 24 0.30
45 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (42 bp):
TAAGACCACATCTGGGACAATGGCATCGTATATGATTACATG
Found at i:11603167 original size:19 final size:19
Alignment explanation
Indices: 11603143--11603189 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
11603133 AATTTTGATG
11603143 AAATTGTAATTTAGGGACT
1 AAATTGTAATTTAGGGACT
11603162 AAATTGTAATTTAGGGACT
1 AAATTGTAATTTAGGGACT
11603181 AAATTGTAA
1 AAATTGTAA
11603190 ATTTGTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.36
Consensus pattern (19 bp):
AAATTGTAATTTAGGGACT
Found at i:11603992 original size:24 final size:25
Alignment explanation
Indices: 11603874--11604002 Score: 81
Period size: 24 Copynumber: 5.2 Consensus size: 25
11603864 TTAGTGTCCT
11603874 GTTATATGGCTCTTCGTGAGCTTCCC
1 GTTATATGGCTCTTCG-GAGCTTCCC
* *
11603900 GATTA-AAGGCTCTTTGTGAGCTT-CC
1 G-TTATATGGCTCTTCG-GAGCTTCCC
* *
11603925 -TAATATGGCTCGCTT--GAACTTCCC
1 GTTATATGGCT--CTTCGGAGCTTCCC
** * * *
11603949 AATATATGGCTATCCAGAGCTTCCC
1 GTTATATGGCTCTTCGGAGCTTCCC
*
11603974 GTTA-ATGGCTCTTCGGAGCTACCC
1 GTTATATGGCTCTTCGGAGCTTCCC
11603998 GTTAT
1 GTTAT
11604003 GGGCTCGCAT
Statistics
Matches: 78, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
23 8 0.10
24 27 0.35
25 20 0.26
26 20 0.26
27 3 0.04
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (25 bp):
GTTATATGGCTCTTCGGAGCTTCCC
Found at i:11607583 original size:58 final size:58
Alignment explanation
Indices: 11607493--11607751 Score: 367
Period size: 58 Copynumber: 4.5 Consensus size: 58
11607483 TCAGCAAATA
* * * ** * *
11607493 GTTTTATACTTGAGAAAAATTTGAAAGATAATCAATTAGGGATGTGAATTTGTGAACT
1 GTTTTATACTTGTGAAAATTTTGAAAGATAATCAACTAGGGATGTGAATCCGCGAGCT
*
11607551 GTTTTATACTTGTGAAAATTTTGAAAGATAATCAACTAGGGATGTGAATCCACGAGCT
1 GTTTTATACTTGTGAAAATTTTGAAAGATAATCAACTAGGGATGTGAATCCGCGAGCT
* * * *
11607609 GTTTTATGCTTGTGAAAATTCTGAAAGATAATCAACTGGGGATGTGAATCCGTGAGCT
1 GTTTTATACTTGTGAAAATTTTGAAAGATAATCAACTAGGGATGTGAATCCGCGAGCT
* * *
11607667 ATTTTATACTTGT-ACAAATTTTGAAAGATAACCAACTAGGGATGTGAATCCCCGAGCT
1 GTTTTATACTTGTGA-AAATTTTGAAAGATAATCAACTAGGGATGTGAATCCGCGAGCT
11607725 GTTTTATACTTGTGAAAATTTTGAAAG
1 GTTTTATACTTGTGAAAATTTTGAAAG
11607752 GTAACATAGT
Statistics
Matches: 178, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
57 1 0.01
58 176 0.99
59 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (58 bp):
GTTTTATACTTGTGAAAATTTTGAAAGATAATCAACTAGGGATGTGAATCCGCGAGCT
Found at i:11607934 original size:69 final size:68
Alignment explanation
Indices: 11607835--11608123 Score: 301
Period size: 69 Copynumber: 4.2 Consensus size: 68
11607825 CTTTGCCTGT
* * * * * *
11607835 GAGCTTCAGTATGACAGCTAGAGCTTTGCTCTTGCTAATTGTGTTGGAGGCTGCGGCTCTTCACC
1 GAGCTTTAATATGACAGGTAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCTCTTCACC
11607900 TAC
66 TAC
* * * *
11607903 GAGTTTTAGTATGATAGGTGAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGGCTCTTCGA
1 GAGCTTTAATATGACAGGT-AGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCTCTTC-A
*
11607968 -CTAT
64 CCTAC
* * * * * * *
11607972 GAGCTTTAATATTACAGCTAGGAGCTTTGTTCTCGTTAACTATGTTGGAGGTTGTGGCTTTTCAC
1 GAGCTTTAATATGACAGGTA-GAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCTCTTCAC
*
11608037 CGAC
65 CTAC
* * * * * * *
11608041 GAGCCTTAATATGACAGGTAGAGTTTTGCTCTCGCTAATTGTGTTGGAGGCTGCGACTCTTCGCT
1 GAGCTTTAATATGACAGGTAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCTCTTCACC
11608106 TAC
66 TAC
*
11608109 GAGCCTTAATATGAC
1 GAGCTTTAATATGAC
11608124 TCGAATGTCG
Statistics
Matches: 182, Mismatches: 35, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
68 68 0.37
69 113 0.62
70 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (68 bp):
GAGCTTTAATATGACAGGTAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCTCTTCACC
TAC
Found at i:11608077 original size:137 final size:137
Alignment explanation
Indices: 11607834--11608123 Score: 341
Period size: 137 Copynumber: 2.1 Consensus size: 137
11607824 TCTTTGCCTG
* * * * *
11607834 TGAGCTTCAGTATGACAGCTAGAGCTTTGCTCTTGCTAATTGTGTTGGAGGCTGCGGCTCTTCAC
1 TGAGCTTTAATATGACAGCTAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCTCTTCAC
* ** * * * *
11607899 CTACGAGTTTTAGTATGATAGGTGAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGGCTCT
66 CGACGAGCCTTAATATGACAGGTGAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGACTCT
11607964 TCGAC-TA
131 TCG-CTTA
* * * * * *
11607971 TGAGCTTTAATATTACAGCTAGGAGCTTTGTTCTCGTTAACTATGTTGGAGGTTGTGGCTTTTCA
1 TGAGCTTTAATATGACAGCTA-GAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCTCTTCA
* * *
11608036 CCGACGAGCCTTAATATGACAGGT-AGAGTTTTGCTCTCGCTAATTGTGTTGGAGGCTGCGACTC
65 CCGACGAGCCTTAATATGACAGGTGAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGACTC
11608100 TTCGCTTA
130 TTCGCTTA
* *
11608108 CGAGCCTTAATATGAC
1 TGAGCTTTAATATGAC
11608124 TCGAATGTCG
Statistics
Matches: 127, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
136 1 0.01
137 72 0.57
138 54 0.43
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (137 bp):
TGAGCTTTAATATGACAGCTAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCTCTTCAC
CGACGAGCCTTAATATGACAGGTGAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGACTCT
TCGCTTA
Found at i:11617669 original size:54 final size:54
Alignment explanation
Indices: 11617586--11617695 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
11617576 TCTCGTCAGT
*
11617586 TGAAATCACACAAAAGAAATTATCTGACACATGACCTTGAGTTAGTTGCAATCG
1 TGAAATCACACAAAAGAAATTATCCGACACATGACCTTGAGTTAGTTGCAATCG
*
11617640 TGAAATCACAGAAAAGAAATTATCCGACACATGACCTTGAGTTAGTTGCAATCG
1 TGAAATCACACAAAAGAAATTATCCGACACATGACCTTGAGTTAGTTGCAATCG
11617694 TG
1 TG
11617696 TTTGCTTTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (54 bp):
TGAAATCACACAAAAGAAATTATCCGACACATGACCTTGAGTTAGTTGCAATCG
Found at i:11622532 original size:39 final size:39
Alignment explanation
Indices: 11622489--11622625 Score: 150
Period size: 39 Copynumber: 3.5 Consensus size: 39
11622479 TATTCTGTTG
* * *
11622489 ATTTATGATCATGACCTTTGGCTTTCTTACAGTCCGCTA
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCACTA
* * * *
11622528 ATTTACGATCATGATCTTTGACTTTCTTA-TGTTCCACTA
1 ATTTACGATCACGACCTTTGGCTTTCTTACAG-TCCACTA
* * * * *
11622567 ATTTACGGTCACGATCTTCGGCTTTCTTACAGTCTACTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCACTA
11622606 ATTTACGATCACGACCTTTG
1 ATTTACGATCACGACCTTTG
11622626 ATTTTCTAAC
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.01
39 79 0.98
40 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (39 bp):
ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCACTA
Found at i:11622632 original size:39 final size:39
Alignment explanation
Indices: 11622487--11622657 Score: 146
Period size: 39 Copynumber: 4.4 Consensus size: 39
11622477 TATATTCTGT
* * * *
11622487 TGATTTATGATCATGACCTTTGGCTTTCTTACAGTCCGC
1 TGATTTACGATCACGACCTTTGACTTTCTTACAGTCCAC
* * * *
11622526 TAATTTACGATCATGATCTTTGACTTTCTTA-TGTTCCAC
1 TGATTTACGATCACGACCTTTGACTTTCTTACAG-TCCAC
* * * * * *
11622565 TAATTTACGGTCACGATCTTCGGCTTTCTTACAGTCTAC
1 TGATTTACGATCACGACCTTTGACTTTCTTACAGTCCAC
* * * **
11622604 TGATTTACGATCACGACCTTTGATTTTCTAACAATTTAC
1 TGATTTACGATCACGACCTTTGACTTTCTTACAGTCCAC
*
11622643 TGATTTATGATCACG
1 TGATTTACGATCACG
11622658 GCTTCAGTTC
Statistics
Matches: 108, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
38 1 0.01
39 106 0.98
40 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (39 bp):
TGATTTACGATCACGACCTTTGACTTTCTTACAGTCCAC
Found at i:11622657 original size:78 final size:78
Alignment explanation
Indices: 11622487--11622657 Score: 182
Period size: 78 Copynumber: 2.2 Consensus size: 78
11622477 TATATTCTGT
* * * * *
11622487 TGATTTATGATCATGACCTTTGGCTTTCTTACAGTCCGCTAATTTACGATCATGATCTTTGACTT
1 TGATTTATGATCACGACCTTCGGCTTTCTTACAGTCCACTAATTTACGATCACGACCTTTGACTT
* **
11622552 TCTTATGTTCCAC
66 TCTAAAATTCCAC
* * * * * * *
11622565 TAATTTACGGTCACGATCTTCGGCTTTCTTACAGTCTACTGATTTACGATCACGACCTTTGATTT
1 TGATTTATGATCACGACCTTCGGCTTTCTTACAGTCCACTAATTTACGATCACGACCTTTGACTT
*
11622630 TCTAACAATT-TAC
66 TCTAA-AATTCCAC
11622643 TGATTTATGATCACG
1 TGATTTATGATCACG
11622658 GCTTCAGTTC
Statistics
Matches: 73, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
78 71 0.97
79 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (78 bp):
TGATTTATGATCACGACCTTCGGCTTTCTTACAGTCCACTAATTTACGATCACGACCTTTGACTT
TCTAAAATTCCAC
Found at i:11622932 original size:133 final size:133
Alignment explanation
Indices: 11622643--11622984 Score: 418
Period size: 133 Copynumber: 2.6 Consensus size: 133
11622633 AACAATTTAC
* * * *
11622643 TGATTTATGATCACGGCTTCAGTTCATTAATTTAAAATTATGAACACTTCTTAAAGAGTTCATCG
1 TGATTTACGATCACGACTTCAGTTCATTGATTTATAATTATGAACACTTCTTAAAGAGTTCATCG
** * * * * * * *
11622708 ATTTATGATCGCGACTCCACTTAAATAGTTCGCTAATTTACAATCACAATTGTCATTTTTAAAGC
66 ATTTACAATCACGACTACAATTAAATA-TTCGCTAAGTTACAATCACAACTATCATGTTTAAAGC
*
11622773 TTGT
130 CTGT
* * * * *
11622777 TGATTTACGATCAC-AGCTTCAGTTTATTGATTTATGATCATGAACACTTCTTGAAGAGTTCACC
1 TGATTTACGATCACGA-CTTCAGTTCATTGATTTATAATTATGAACACTTCTTAAAGAGTTCATC
* * ** *
11622841 GATTTACAATCATGACTACAATTAACAT-TTCGCTGAGTTAGTATCACGACTATCATGTTTAAAG
65 GATTTACAATCACGACTACAATTAA-ATATTCGCTAAGTTACAATCACAACTATCATGTTTAAAG
11622905 CCTGT
129 CCTGT
*
11622910 TGATTTACGATCACGACTTCAGTTCATTGATTTATAATTATGAACACTTCTTAAAGAATTCATCG
1 TGATTTACGATCACGACTTCAGTTCATTGATTTATAATTATGAACACTTCTTAAAGAGTTCATCG
11622975 ATTTACAATC
66 ATTTACAATC
11622985 GCGATTCCAC
Statistics
Matches: 175, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
133 99 0.57
134 74 0.42
135 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (133 bp):
TGATTTACGATCACGACTTCAGTTCATTGATTTATAATTATGAACACTTCTTAAAGAGTTCATCG
ATTTACAATCACGACTACAATTAAATATTCGCTAAGTTACAATCACAACTATCATGTTTAAAGCC
TGT
Found at i:11624603 original size:190 final size:190
Alignment explanation
Indices: 11624275--11624651 Score: 657
Period size: 190 Copynumber: 2.0 Consensus size: 190
11624265 TTAAAGCTCA
* *
11624275 CTAATTTACGATCAAGGCTTTAATTTATTGATTTACGATCATGAACACTTCTTAAAGAGTTCACT
1 CTAATTTACGATCAAGGCTTCAATTTATTGATTTACGATCATGAACACTTCTTAAAGAGTTCACC
**
11624340 GATTTACAATCGTGACTCTACTTAAACAGTTCGTTGATTTATGATCACAACCTTCTGCATACAAG
66 GATTTACAATCGCAACTCTACTTAAACAGTTCGTTGATTTATGATCACAACCTTCTGCATACAAG
* *
11624405 ATTTTCAGAATATTATGGATTACAATACATTTCGCGGTATTCTACAATATAGTTTGCGGC
131 AATTTCAGAATATTATGGATTACAATACATTTCGCGATATTCTACAATATAGTTTGCGGC
* * *
11624465 CTAATTTACTATCATGGCTTCAATTTATTGATTTATGATCATGAACACTTCTTAAAGAGTTCACC
1 CTAATTTACGATCAAGGCTTCAATTTATTGATTTACGATCATGAACACTTCTTAAAGAGTTCACC
11624530 GATTTACAATCGCAACTCTACTTAAACAGTTCGTTGATTTATGATCACAACCTTCTGCATGA-AA
66 GATTTACAATCGCAACTCTACTTAAACAGTTCGTTGATTTATGATCACAACCTTCTGCAT-ACAA
11624594 GAATTTCAGAATATTATGGATTACAATACATTTCGCGATATTCTACAATATAGTTTGC
130 GAATTTCAGAATATTATGGATTACAATACATTTCGCGATATTCTACAATATAGTTTGC
11624652 AGCATTTATG
Statistics
Matches: 177, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
190 176 0.99
191 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (190 bp):
CTAATTTACGATCAAGGCTTCAATTTATTGATTTACGATCATGAACACTTCTTAAAGAGTTCACC
GATTTACAATCGCAACTCTACTTAAACAGTTCGTTGATTTATGATCACAACCTTCTGCATACAAG
AATTTCAGAATATTATGGATTACAATACATTTCGCGATATTCTACAATATAGTTTGCGGC
Found at i:11632159 original size:22 final size:23
Alignment explanation
Indices: 11632128--11632170 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11632118 GCTATCTACA
11632128 AATCAAATC-TCTAAAATTACCG
1 AATCAAATCTTCTAAAATTACCG
* *
11632150 AATCATATCTTCTAAGATTAC
1 AATCAAATCTTCTAAAATTAC
11632171 ATATCATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (23 bp):
AATCAAATCTTCTAAAATTACCG
Found at i:11633371 original size:17 final size:17
Alignment explanation
Indices: 11633345--11633377 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11633335 TTATTGAATC
11633345 AGCAAAAAAAATCAAAA
1 AGCAAAAAAAATCAAAA
*
11633362 AGCAATAAAAATCAAA
1 AGCAAAAAAAATCAAA
11633378 GTCTGCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.12, G:0.06, T:0.09
Consensus pattern (17 bp):
AGCAAAAAAAATCAAAA
Found at i:11635758 original size:22 final size:22
Alignment explanation
Indices: 11635706--11635758 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
11635696 ATGCAATATA
*
11635706 AAAATATATGTAAGTATGTATAT
1 AAAATATATGT-AGTATGTAAAT
*
11635729 ATACATATATGT-GTATGTAAATT
1 A-AAATATATGTAGTATGTAAA-T
11635752 AAAATAT
1 AAAATAT
11635759 GTATATATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 13 0.52
23 3 0.12
24 9 0.36
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (22 bp):
AAAATATATGTAGTATGTAAAT
Found at i:11637660 original size:44 final size:45
Alignment explanation
Indices: 11637444--11637660 Score: 190
Period size: 44 Copynumber: 4.8 Consensus size: 45
11637434 CTATCAATGG
*
11637444 TCTGCTCCACTACAACTTTAGGGAGATAAGACTTGTAGTCGG-TCTTCAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TT-T-GT-GGCT-TTCAA
* * * **
11637493 TCTACTCCACTACATCTTCAGGGAGATAAGATTGGTATCTTT-AA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTGGCTTTCAA
* * * **
11637537 TCTGCTCCACTAAAACTTCAGAGAGATAAGGTTTGT-TATTTCAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTGGCTTTCAA
* * * *
11637581 CCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTC-A
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTGGCTTTCAA
** * *
11637625 TCTGCTCCACTGTAACTTTAGGGAGACAAGATTTGT
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGT
11637661 AGCCTATCTT
Statistics
Matches: 139, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
43 4 0.03
44 96 0.69
45 6 0.04
46 3 0.02
48 2 0.01
49 28 0.20
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (45 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTGGCTTTCAA
Found at i:11638014 original size:89 final size:88
Alignment explanation
Indices: 11637915--11638574 Score: 445
Period size: 89 Copynumber: 7.4 Consensus size: 88
11637905 GGTTTGTTAT
* * *
11637915 TTCGATCTGCTTCACTGCCATCACAAGAAGACAAGATCTGCTATTTTTCAGTCTGCTCCACTG-A
1 TTCGATCTACTTCGCTGCCAT-ACAAGAAGACAAGATCTGCTA-CTTTCAGTCTGCTCCACTGCA
*
11637979 AACTC-GGAGAGGCGAGGCTGGTGTC
64 AACTCAGG-GAGGCAAGGCTGGTGTC
* * * *
11638004 TTCGATCTGCTCCACTGCCAGTAC-AGAAAGACAAGATCTGCTACTTTCAGTCTGCTCCGCTGCA
1 TTCGATCTACTTCGCTGCCA-TACAAG-AAGACAAGATCTGCTACTTTCAGTCTGCTCCACTGCA
*
11638068 AACTCAGGGAGGCAAGGTTGGTGTC
64 AACTCAGGGAGGCAAGGCTGGTGTC
* * * * * *** *
11638093 TTCAATCTACTTCGCTGCCAATACAGGAAGATAAGATCTACTGCTTTCAGTCTGCTTTGCTGTAA
1 TTCGATCTACTTCGCTGCC-ATACAAGAAGACAAGATCTGCTACTTTCAGTCTGCTCCACTGCAA
* * *
11638158 ACTCAAGGAGGCAAGGCCGGTGTT
65 ACTCAGGGAGGCAAGGCTGGTGTC
* * * * * * *
11638182 TTCGATCTACTTCGCTGCCAATATAGGAAGATAAGATCTGTTACTTTTAGTCTGTTCAACTGCAA
1 TTCGATCTACTTCGCTGCC-ATACAAGAAGACAAGATCTGCTACTTTCAGTCTGCTCCACTGCAA
*
11638247 ACTCAGGGAGGCAAGGCTAGTGTC
65 ACTCAGGGAGGCAAGGCTGGTGTC
* * * * * ** *
11638271 TTCGATCTACTTCGCTGCCAATACAGGAAAACAAAATCTACAATCTTT-AACCTACTCCACTGC-
1 TTCGATCTACTTCGCTGCC-ATACAAGAAGACAAGATCTGCTA-CTTTCAGTCTGCTCCACTGCA
** ** * *
11638334 TGCTCAGGGAGATAAGGCTAGTGTT
64 AACTCAGGGAGGCAAGGCTGGTGTC
* * * * * * * ** * *
11638359 TTTGATCTGCTTCACTGCCAGTATATGAAGACAAGATCTACAATCTTT-AACCTACTTCACTGCA
1 TTCGATCTACTTCGCTGCCA-TACAAGAAGACAAGATCTGCTA-CTTTCAGTCTGCTCCACTGCA
* * ** * *
11638423 AATTTAGGGAGATAAGGCTAGTGTT
64 AACTCAGGGAGGCAAGGCTGGTGTC
* * * * * ** * *
11638448 TTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTT-AACCTACTCCATTGC-
1 TTCGATCTACTTCGCTGCCA-TACAAGAAGACAAGATCTGCTA-CTTTCAGTCTGCTCCACTGCA
** ** *
11638511 TGCTCAGGGAGATAAGGCTGGTGTT
64 AACTCAGGGAGGCAAGGCTGGTGTC
* * *
11638536 TTTGATCTATTTCACTGCCAGTACAAGAAGACAAGATCT
1 TTCGATCTACTTCGCTGCCA-TACAAGAAGACAAGATCT
11638575 ACAATCTTCA
Statistics
Matches: 484, Mismatches: 78, Indels: 19
0.83 0.13 0.03
Matches are distributed among these distances:
87 1 0.00
88 147 0.30
89 327 0.68
90 9 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (88 bp):
TTCGATCTACTTCGCTGCCATACAAGAAGACAAGATCTGCTACTTTCAGTCTGCTCCACTGCAAA
CTCAGGGAGGCAAGGCTGGTGTC
Found at i:11638418 original size:45 final size:45
Alignment explanation
Indices: 11638368--11638503 Score: 123
Period size: 45 Copynumber: 3.0 Consensus size: 45
11638358 TTTTGATCTG
*
11638368 CTTCACTGCCAGTATATGAAGACAAGATCTACAATCTTTAACCTA
1 CTTCACTGCCAGTATAGGAAGACAAGATCTACAATCTTTAACCTA
* * * * * * *** * * *
11638413 CTTCACTGCAAATTTAGGGAGATAAG-GCTAGTGT-TTTCGATCTG
1 CTTCACTGCCAGTATAGGAAGACAAGATCTACAATCTTT-AACCTA
*
11638457 CTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTTAACCTA
1 CTTCACTGCCAGTATAGGAAGACAAGATCTACAATCTTTAACCTA
11638502 CT
1 CT
11638504 CCATTGCTGC
Statistics
Matches: 62, Mismatches: 26, Indels: 6
0.66 0.28 0.06
Matches are distributed among these distances:
43 3 0.05
44 27 0.44
45 29 0.47
46 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (45 bp):
CTTCACTGCCAGTATAGGAAGACAAGATCTACAATCTTTAACCTA
Found at i:11638446 original size:177 final size:177
Alignment explanation
Indices: 11638240--11638591 Score: 551
Period size: 177 Copynumber: 2.0 Consensus size: 177
11638230 AGTCTGTTCA
* *
11638240 ACTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAAACAA
1 ACTGCAAACTCAGGGAGACAAGGCTAGTGTCTTCGATCTACTTCACTGCCAATACAGGAAAACAA
*
11638305 AATCTACAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGTTTTTGATCTGCT
66 AATCTACAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGTTTTTGATCTACT
* * *
11638370 TCACTGCCAGTATATGAAGACAAGATCTACAATCTTTAACCTACTTC
131 TCACTGCCAGTACAAGAAGACAAGATCTACAATCTTCAACCTACTTC
* * * * * * *
11638417 ACTGCAAATTTAGGGAGATAAGGCTAGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAA
1 ACTGCAAACTCAGGGAGACAAGGCTAGTGTCTTCGATCTACTTCACTGCCAATACAGGAAAACAA
* * * *
11638482 GATCTACAATCTTTAACCTACTCCATTGCTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTATT
66 AATCTACAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGTTTTTGATCTACT
11638547 TCACTGCCAGTACAAGAAGACAAGATCTACAATCTTCAACCTACT
131 TCACTGCCAGTACAAGAAGACAAGATCTACAATCTTCAACCTACT
11638592 CTACTGCTGC
Statistics
Matches: 158, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
177 158 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (177 bp):
ACTGCAAACTCAGGGAGACAAGGCTAGTGTCTTCGATCTACTTCACTGCCAATACAGGAAAACAA
AATCTACAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGTTTTTGATCTACT
TCACTGCCAGTACAAGAAGACAAGATCTACAATCTTCAACCTACTTC
Found at i:11638621 original size:88 final size:88
Alignment explanation
Indices: 11638248--11638617 Score: 488
Period size: 88 Copynumber: 4.2 Consensus size: 88
11638238 CAACTGCAAA
** * * * * *
11638248 CTCAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAAACAAAATCTACA
1 CTCAGGGAGATAAGGCTAGTGTTTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACA
11638313 ATCTTTAACCTACTCCACTGCTG
66 ATCTTTAACCTACTCCACTGCTG
* * * *
11638336 CTCAGGGAGATAAGGCTAGTGTTTTTGATCTGCTTCACTGCCAGTATATGAAGACAAGATCTACA
1 CTCAGGGAGATAAGGCTAGTGTTTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACA
* **
11638401 ATCTTTAACCTACTTCACTGCAAA
66 ATCTTTAACCTACTCCACTGC-TG
* * *
11638425 TTTAGGGAGATAAGGCTAGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACA
1 CTCAGGGAGATAAGGCTAGTGTTTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACA
*
11638490 ATCTTTAACCTACTCCATTGCTG
66 ATCTTTAACCTACTCCACTGCTG
* * * *
11638513 CTCAGGGAGATAAGGCTGGTGTTTTTGATCTATTTCACTGCCAGTACAAGAAGACAAGATCTACA
1 CTCAGGGAGATAAGGCTAGTGTTTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACA
* *
11638578 ATCTTCAACCTACTCTACTGCTG
66 ATCTTTAACCTACTCCACTGCTG
* **
11638601 CTTAATGAGATAAGGCT
1 CTCAGGGAGATAAGGCT
11638618 GGTGGCTTAA
Statistics
Matches: 245, Mismatches: 36, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
88 166 0.68
89 79 0.32
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (88 bp):
CTCAGGGAGATAAGGCTAGTGTTTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACA
ATCTTTAACCTACTCCACTGCTG
Found at i:11638713 original size:43 final size:44
Alignment explanation
Indices: 11638638--11638745 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 44
11638628 ATTTGCTTCC
* * * * *
11638638 CTACTACTTTGGGAAGATAAGATTCACCATCTTTAATCTGCTCCA
1 CTACTACTTAGGG-AGATAAGATTCACAATCTTCAACCTACTCCA
* *
11638683 CTACTACTTAGGGAGA-CAGATTTACAATCTTCAACCTACTCCA
1 CTACTACTTAGGGAGATAAGATTCACAATCTTCAACCTACTCCA
* * *
11638726 CTGCTGCTCAGGGAGATAAG
1 CTACTACTTAGGGAGATAAG
11638746 GCTGGTGTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
43 34 0.67
44 5 0.10
45 12 0.24
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
CTACTACTTAGGGAGATAAGATTCACAATCTTCAACCTACTCCA
Found at i:11640067 original size:16 final size:15
Alignment explanation
Indices: 11640043--11640080 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
11640033 TCATCTTGGC
11640043 CTTTTTTTTCTAT-TT
1 CTTTTTTTTCT-TCTT
11640058 CTTTTCTTTTCTTCTT
1 CTTTT-TTTTCTTCTT
11640074 CTTTTTT
1 CTTTTTT
11640081 GAAATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
CTTTTTTTTCTTCTT
Found at i:11643088 original size:9 final size:9
Alignment explanation
Indices: 11643077--11643161 Score: 125
Period size: 9 Copynumber: 9.4 Consensus size: 9
11643067 TTTGGTTAAA
*
11643077 AATTAACCA
1 AATTAACCG
11643086 AATTAACCG
1 AATTAACCG
11643095 AATTAACCG
1 AATTAACCG
*
11643104 AATTACCCG
1 AATTAACCG
11643113 AATTAACCG
1 AATTAACCG
11643122 AATTAACCG
1 AATTAACCG
*
11643131 AATTACCCG
1 AATTAACCG
*
11643140 AATTACCCG
1 AATTAACCG
*
11643149 AATTAACCA
1 AATTAACCG
11643158 AATT
1 AATT
11643162 GAATCACTAC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 70 1.00
ACGTcount: A:0.44, C:0.25, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:11644293 original size:2 final size:2
Alignment explanation
Indices: 11644282--11644310 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11644272 AATTATAAAA
11644282 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11644311 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:11644446 original size:22 final size:22
Alignment explanation
Indices: 11644394--11644446 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
11644384 ATGCAATATA
*
11644394 AAAATATATGTAAGTATGTATAT
1 AAAATATATGT-AGTATGTAAAT
*
11644417 ATACATATATGT-GTATGTAAATT
1 A-AAATATATGTAGTATGTAAA-T
11644440 AAAATAT
1 AAAATAT
11644447 GTATATATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 13 0.52
23 3 0.12
24 9 0.36
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (22 bp):
AAAATATATGTAGTATGTAAAT
Found at i:11653528 original size:5 final size:6
Alignment explanation
Indices: 11653511--11653535 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11653501 ATTATAATAA
11653511 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
11653536 TTCTTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:11655896 original size:30 final size:24
Alignment explanation
Indices: 11655841--11655887 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
11655831 GTAGGAGAAT
11655841 GGCAGCTATATTACAATCAATGTC
1 GGCAGCTATATTACAATCAATGTC
11655865 GGCAGCTATATTACAATCAATGT
1 GGCAGCTATATTACAATCAATGT
11655888 TCTAGTCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (24 bp):
GGCAGCTATATTACAATCAATGTC
Found at i:11662314 original size:24 final size:24
Alignment explanation
Indices: 11662264--11662315 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
11662254 TTTCTAGAAG
* * *
11662264 ATTTAGTATCTATTAGTATTATAT
1 ATTTAGCATCTATTAGCATAATAT
* *
11662288 ATTTAGCATTTATTAGCATAATGT
1 ATTTAGCATCTATTAGCATAATAT
11662312 ATTT
1 ATTT
11662316 TACCTACGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGCATCTATTAGCATAATAT
Found at i:11664255 original size:24 final size:24
Alignment explanation
Indices: 11664228--11664279 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11664218 ATATTTTATT
*
11664228 TATAGAAGATTTAGTATCTATTAG
1 TATAGAAGATTTAGCATCTATTAG
* * *
11664252 TATAGTATATTTAGCATTTATTAG
1 TATAGAAGATTTAGCATCTATTAG
11664276 TATA
1 TATA
11664280 ATTTATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (24 bp):
TATAGAAGATTTAGCATCTATTAG
Found at i:11664286 original size:24 final size:24
Alignment explanation
Indices: 11664236--11664287 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11664226 TTTATAGAAG
* *
11664236 ATTTAGTATCTATTAGTATAGTAT
1 ATTTAGCATCTATTAGTATAATAT
* *
11664260 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATCTATTAGTATAATAT
11664284 ATTT
1 ATTT
11664288 TACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.54
Consensus pattern (24 bp):
ATTTAGCATCTATTAGTATAATAT
Found at i:11673492 original size:19 final size:19
Alignment explanation
Indices: 11673470--11673507 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11673460 GAATATAGAA
*
11673470 TAAAATATAT-GATATAAAT
1 TAAAA-ATATCGAAATAAAT
11673489 TAAAAATATCGAAATAAAT
1 TAAAAATATCGAAATAAAT
11673508 CAGATTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
TAAAAATATCGAAATAAAT
Found at i:11679907 original size:42 final size:42
Alignment explanation
Indices: 11679842--11679922 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
11679832 TTCATAATTT
* * *
11679842 ACTTATATATATACATACTTATATATATTTTTACATTTTATA
1 ACTTATATACATACATACATATATATATATTTACATTTTATA
* *
11679884 ACTTATATACATATC-TACATATATCTATATTTATATTTT
1 ACTTATATACATA-CATACATATATATATATTTACATTTT
11679923 TTATTTTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (42 bp):
ACTTATATACATACATACATATATATATATTTACATTTTATA
Found at i:11680073 original size:19 final size:19
Alignment explanation
Indices: 11680042--11680078 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
11680032 ATATTTTATT
11680042 CATTTTTGTTTATTTATTTA
1 CATTTTTGTTTA-TTATTTA
11680062 CATTTTTG-TTATTATTT
1 CATTTTTGTTTATTATTT
11680079 TAAAAGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.70
Consensus pattern (19 bp):
CATTTTTGTTTATTATTTA
Found at i:11680937 original size:71 final size:71
Alignment explanation
Indices: 11680821--11680962 Score: 248
Period size: 71 Copynumber: 2.0 Consensus size: 71
11680811 TATTTTCAAA
*
11680821 CTCAAGTTTTAAACGATATCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCAT
1 CTCAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCAT
11680886 TTTTTT
66 TTTTTT
* * *
11680892 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCAT
11680957 TTTTTT
66 TTTTTT
11680963 AAATCCAAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCAT
TTTTTT
Found at i:11683874 original size:16 final size:15
Alignment explanation
Indices: 11683850--11683902 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
11683840 GGTTCAGTGG
11683850 AAAAAAAACAAAAAA
1 AAAAAAAACAAAAAA
11683865 AAACAAAAACAATAAAA
1 AAA-AAAAACAA-AAAA
* *
11683882 TAATAAAACAAAACAA
1 AAAAAAAACAAAA-AA
11683898 AAAAA
1 AAAAA
11683903 CCTCTATCGG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 5 0.16
16 20 0.65
17 6 0.19
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAAAAACAAAAAA
Found at i:11684358 original size:17 final size:17
Alignment explanation
Indices: 11684336--11684368 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11684326 TTCACTTGAA
*
11684336 AAAAAAGAAACGAAAAG
1 AAAAAAGAAAAGAAAAG
11684353 AAAAAAGAAAAGAAAA
1 AAAAAAGAAAAGAAAA
11684369 AGGAGAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAGAAAAG
Found at i:11686056 original size:50 final size:50
Alignment explanation
Indices: 11685302--11686082 Score: 553
Period size: 50 Copynumber: 15.6 Consensus size: 50
11685292 GCAGCGGAAC
* * **
11685302 AGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTATAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* ** * * * * * * ** *
11685352 A-ATTTGAAGCCACAACAACGAATCTTACTTCCCTGGCAGTGTACTGGAAC
1 AGA-TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* *
11685402 AGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGATATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * * ** * ** *
11685452 AGATTGAAGCCACAACGGCAAATCTTACTT-CCCTAGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGA-CATTGCAATTAAAA
* * *
11685502 AGATTGAAGCTACAACGACGAATCTTGCTACCCCGACATTGTAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * * ** * * ** *
11685552 ATATTGAAGCCACAACGGCGAATCTTACTT-CCCTAGCGGTACAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGA-CATTGCAATTAAAA
* * *
11685602 AGATTGAAGCTACAACGACGAATCTTGCTTCCCCAACATTGTAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * * * ** * ** *
11685652 AGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAATGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* *** * *
11685702 AGATTGAAGCTACGACAATGAATCTTGTTTCCTCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * * * ** * * * *
11685752 ATATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTACAGTGGAACA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAAT-TAAAA
**
11685803 A-ATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * * ** * ** *
11685852 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
11685902 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * * ** * * ** *
11685952 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * * *
11686002 AGATTGAAGCTACGACGGCGAATCTCGTTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* ** *
11686052 AGATTGAAGCTACGACAACGAATCTTACTTC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTC
11686083 TTTGGCATTA
Statistics
Matches: 534, Mismatches: 189, Indels: 16
0.72 0.26 0.02
Matches are distributed among these distances:
49 13 0.02
50 508 0.95
51 13 0.02
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
Found at i:11686112 original size:100 final size:100
Alignment explanation
Indices: 11685240--11686082 Score: 1220
Period size: 100 Copynumber: 8.4 Consensus size: 100
11685230 ACCCCTAAGG
* * * *
11685240 TTGCAGTTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGTGGTGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
* **
11685305 TTAAAGCTACAACGGTGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGACGAATCTTGCTTCCCCGACA
** ** * * *
11685340 TTATAATTAAAAA-ATTTGAAGCCACAACAACGAATCTTACTTCCCTGGCAGTGTACTGGAACAG
1 TTGCAATTAAAAAGA-TTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAG
* * *
11685404 ATTGAAGCTACAATGGCGAATCTTGCTTCCCCGATA
65 ATTGAAGCTACAACGACGAATCTTGCTTCCCCGACA
* *
11685440 TTGCAATTAAAAAGATTGAAGCCACAACGGCAAATCTTACTTCCCTAGCGGTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
*
11685505 TTGAAGCTACAACGACGAATCTTGCTACCCCGACA
66 TTGAAGCTACAACGACGAATCTTGCTTCCCCGACA
* * * *
11685540 TTGTAATTAAAAATATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTACAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
*
11685605 TTGAAGCTACAACGACGAATCTTGCTTCCCCAACA
66 TTGAAGCTACAACGACGAATCTTGCTTCCCCGACA
* * * *
11685640 TTGTAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAATGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
* * * * *
11685705 TTGAAGCTACGACAATGAATCTTGTTTCCTCGACA
66 TTGAAGCTACAACGACGAATCTTGCTTCCCCGACA
* * *
11685740 TTGCAATTAAAAATATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTACAGTGGAACAAA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
*
11685805 TTGAAGCTACAACAACGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGACGAATCTTGCTTCCCCGACA
11685840 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
*
11685905 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGACGAATCTTGCTTCCCCGACA
*
11685940 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
* * * *
11686005 TTGAAGCTACGACGGCGAATCTCGTTTCCCCGACA
66 TTGAAGCTACAACGACGAATCTTGCTTCCCCGACA
* * * * **
11686040 TTGCAGTTAAATAGATTGAAGCTACGACAACGAATCTTACTTC
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
11686083 TTTGGCATTA
Statistics
Matches: 669, Mismatches: 72, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
99 1 0.00
100 667 1.00
101 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
TTGAAGCTACAACGACGAATCTTGCTTCCCCGACA
Found at i:11686221 original size:83 final size:83
Alignment explanation
Indices: 11686079--11686237 Score: 257
Period size: 83 Copynumber: 1.9 Consensus size: 83
11686069 ACGAATCTTA
* * * *
11686079 CTTCTTTGGCATTATAGTGGAGCAGATTAAAGCTGAAGGCAGCAGATCTTATCTTCCTGGCGTTA
1 CTTCTTTGGCATTATAGCGGAGCAGATTAAAGCTAAAGGCAGCAGATCTTATCTCCCTGGCATTA
11686144 AGACTGAAGACAGCTAGT
66 AGACTGAAGACAGCTAGT
*
11686162 CTTCTTTGGCATTGTAGCGGAGCAGATTAAAGCTAAAGGCAGC-GAATCTTATCTCCCTGGCATT
1 CTTCTTTGGCATTATAGCGGAGCAGATTAAAGCTAAAGGCAGCAG-ATCTTATCTCCCTGGCATT
11686226 AAGACTGAAGAC
65 AAGACTGAAGAC
11686238 GGCGAATCTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
82 1 0.01
83 69 0.99
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (83 bp):
CTTCTTTGGCATTATAGCGGAGCAGATTAAAGCTAAAGGCAGCAGATCTTATCTCCCTGGCATTA
AGACTGAAGACAGCTAGT
Found at i:11688166 original size:3 final size:3
Alignment explanation
Indices: 11688158--11688182 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11688148 AATTTGATAC
11688158 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
11688183 TACTCATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11688907 original size:71 final size:71
Alignment explanation
Indices: 11688791--11688932 Score: 241
Period size: 71 Copynumber: 2.0 Consensus size: 71
11688781 TCTTTTCAAA
*
11688791 CTCAAGTTTTAAACGATATCAGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACGATATCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCT
11688856 TTTTTT
66 TTTTTT
* *
11688862 CTCAAGTTTTAAATGATCTC-GAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACGATATCAG-GAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCC
11688926 TTTTTTT
65 TTTTTTT
11688933 AAATCCAAGA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 1 0.01
71 66 0.99
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATATCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCT
TTTTTT
Found at i:11708593 original size:13 final size:13
Alignment explanation
Indices: 11708574--11708606 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
11708564 AAATACTGTA
11708574 GAAAAGTGTTTTT
1 GAAAAGTGTTTTT
*
11708587 GAGAAGTGTTTTT
1 GAAAAGTGTTTTT
11708600 GAAAAGT
1 GAAAAGT
11708607 TTAGTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (13 bp):
GAAAAGTGTTTTT
Found at i:11714481 original size:3 final size:3
Alignment explanation
Indices: 11714473--11714529 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
11714463 TTTATAATGT
* * * * * *
11714473 TGC TGC TGC TGT TGT TGT TGC TGC TGT TGT TGA TGC TGC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
11714521 TGC TGC TGC
1 TGC TGC TGC
11714530 ATATTATTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.02, C:0.23, G:0.33, T:0.42
Consensus pattern (3 bp):
TGC
Found at i:11714493 original size:18 final size:18
Alignment explanation
Indices: 11714469--11714519 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
11714459 CCAGTTTATA
11714469 ATGTTGCTGCTGCTGTTG
1 ATGTTGCTGCTGCTGTTG
* *
11714487 TTGTTGCTGCTGTTGTTG
1 ATGTTGCTGCTGCTGTTG
*
11714505 ATGCTGCTGCTGCTG
1 ATGTTGCTGCTGCTG
11714520 CTGCTGCTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.04, C:0.18, G:0.33, T:0.45
Consensus pattern (18 bp):
ATGTTGCTGCTGCTGTTG
Found at i:11714494 original size:15 final size:15
Alignment explanation
Indices: 11714470--11714528 Score: 82
Period size: 15 Copynumber: 3.9 Consensus size: 15
11714460 CAGTTTATAA
11714470 TGTTGCTGCTGCTGT
1 TGTTGCTGCTGCTGT
*
11714485 TGTTGTTGCTGCTGT
1 TGTTGCTGCTGCTGT
* *
11714500 TGTTGATGCTGCTGC
1 TGTTGCTGCTGCTGT
*
11714515 TGCTGCTGCTGCTG
1 TGTTGCTGCTGCTG
11714529 CATATTATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.02, C:0.20, G:0.34, T:0.44
Consensus pattern (15 bp):
TGTTGCTGCTGCTGT
Found at i:11715269 original size:12 final size:12
Alignment explanation
Indices: 11715263--11715300 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
11715253 ATGTTGCTGT
*
11715263 TGCTGTTGTTGC
1 TGCTGCTGTTGC
*
11715275 TGCTGCTGGTGC
1 TGCTGCTGTTGC
11715287 TGCTGCTGTTGC
1 TGCTGCTGTTGC
11715299 TG
1 TG
11715301 ATGATGATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.21, G:0.37, T:0.42
Consensus pattern (12 bp):
TGCTGCTGTTGC
Found at i:11715274 original size:15 final size:15
Alignment explanation
Indices: 11715254--11715297 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
11715244 ATGCTGATGA
*
11715254 TGTTGCTGTTGCTGT
1 TGTTGCTGCTGCTGT
11715269 TGTTGCTGCTGCTG-
1 TGTTGCTGCTGCTGT
11715283 -G-TGCTGCTGCTGT
1 TGTTGCTGCTGCTGT
11715296 TG
1 TG
11715298 CTGATGATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 11 0.42
13 1 0.04
14 1 0.04
15 13 0.50
ACGTcount: A:0.00, C:0.18, G:0.36, T:0.45
Consensus pattern (15 bp):
TGTTGCTGCTGCTGT
Found at i:11718897 original size:30 final size:26
Alignment explanation
Indices: 11718863--11718937 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 26
11718853 TTAATTAAGT
11718863 TTTTAAAATTAAAAATAATTTTTTTTATAA
1 TTTTAAAATTAAAAAT-A--TTTTTT-TAA
* *
11718893 TTTTAATATTTTAAAATATTTTTTTAA
1 TTTTAA-AATTAAAAATATTTTTTTAA
11718920 TTTTAAAAATTAATAAAT
1 TTTT-AAAATTAA-AAAT
11718938 TGCTAATGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
27 11 0.29
28 12 0.32
30 7 0.18
31 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTTAAAATTAAAAATATTTTTTTAA
Found at i:11719945 original size:18 final size:18
Alignment explanation
Indices: 11719895--11719945 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
11719885 AGATGAAAAA
11719895 AATTATATTTGAAAT-AT
1 AATTATATTTGAAATAAT
* * * *
11719912 -CTTACATATAAAATAAT
1 AATTATATTTGAAATAAT
11719929 AATTATATTTGAAATAA
1 AATTATATTTGAAATAA
11719946 CTATTTCATT
Statistics
Matches: 24, Mismatches: 8, Indels: 3
0.69 0.23 0.09
Matches are distributed among these distances:
16 10 0.42
17 2 0.08
18 12 0.50
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (18 bp):
AATTATATTTGAAATAAT
Found at i:11722026 original size:16 final size:16
Alignment explanation
Indices: 11722005--11722035 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11721995 GGGGAAAATA
*
11722005 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
11722021 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
11722036 AGTAAATAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:11722160 original size:30 final size:31
Alignment explanation
Indices: 11722121--11722180 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11722111 AGAGGTGGGA
*
11722121 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGAGAATAAAAATTTTAGGGGAAAAG
* *
11722152 TGGG-AGAGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGAGAATAAAAATTTTAGGGGAAAA
11722181 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:11722350 original size:21 final size:21
Alignment explanation
Indices: 11722316--11722356 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11722306 GGGGAAATGT
*
11722316 GGGAAGAAGTAAAAGTTTTGA
1 GGGAAGAAGTAAAAGATTTGA
11722337 GGGAA-AAGTAAAAAGATTTG
1 GGGAAGAAGT-AAAAGATTTG
11722357 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.22
Consensus pattern (21 bp):
GGGAAGAAGTAAAAGATTTGA
Found at i:11722408 original size:9 final size:9
Alignment explanation
Indices: 11722394--11722430 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11722384 TATAGTTTGA
11722394 TATTCGAAT
1 TATTCGAAT
11722403 TATTCGAAT
1 TATTCGAAT
*
11722412 TATTCGAGT
1 TATTCGAAT
*
11722421 TATTTGAAT
1 TATTCGAAT
11722430 T
1 T
11722431 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11725337 original size:20 final size:20
Alignment explanation
Indices: 11725291--11725346 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
11725281 AGTTAATACA
* *
11725291 TATCTTAATATT-ATTTTAT
1 TATCTTAATATTAAATTGAT
11725310 TAAT-TTAATATTAAATTGAT
1 T-ATCTTAATATTAAATTGAT
*
11725330 TATCTTAATGTTAAATT
1 TATCTTAATATTAAATT
11725347 TAATTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (20 bp):
TATCTTAATATTAAATTGAT
Found at i:11730083 original size:5 final size:5
Alignment explanation
Indices: 11730073--11730098 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11730063 GCTCACATAC
11730073 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
11730099 CAAACCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:11732796 original size:19 final size:18
Alignment explanation
Indices: 11732772--11732818 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
11732762 TGGTTTATTG
*
11732772 TTATTATTTTTATTGGTC
1 TTATTATTTTTATTAGTC
*
11732790 ATTATTATTATTATTAGTC
1 -TTATTATTTTTATTAGTC
*
11732809 TTTTTATTTT
1 TTATTATTTT
11732819 ATTTTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.68
Consensus pattern (18 bp):
TTATTATTTTTATTAGTC
Found at i:11733372 original size:5 final size:5
Alignment explanation
Indices: 11733357--11733387 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
11733347 TAAATCTTCA
11733357 TATTAT TATTT TATTT TATTT TATTT TATTT
1 TATT-T TATTT TATTT TATTT TATTT TATTT
11733388 GTAATCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:11734274 original size:24 final size:25
Alignment explanation
Indices: 11734238--11734285 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
11734228 TTAAAATGAA
11734238 TTTTAAAAGATTT-TAAACTTTTAT
1 TTTTAAAAGATTTATAAACTTTTAT
* * *
11734262 TTTTATAATATTTATATACTTTTA
1 TTTTAAAAGATTTATAAACTTTTA
11734286 AAGAAAAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTAAAAGATTTATAAACTTTTAT
Found at i:11736254 original size:11 final size:11
Alignment explanation
Indices: 11736238--11736263 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11736228 ATTTAAGGAA
11736238 TTTTATCCTAT
1 TTTTATCCTAT
11736249 TTTTATCCTAT
1 TTTTATCCTAT
11736260 TTTT
1 TTTT
11736264 GACTGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATCCTAT
Found at i:11737253 original size:17 final size:17
Alignment explanation
Indices: 11737231--11737273 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
11737221 AATATATAAT
11737231 ATTATAATGCAAAATTA
1 ATTATAATGCAAAATTA
11737248 ATTATAATGCAAAATTA
1 ATTATAATGCAAAATTA
11737265 ATATATAAT
1 AT-TATAAT
11737274 ATTATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (17 bp):
ATTATAATGCAAAATTA
Found at i:11740214 original size:43 final size:43
Alignment explanation
Indices: 11740155--11740259 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
11740145 AATTTTTTTG
* *
11740155 AAGGT-ATGTT-TTTAGCGGCGTTTTTGCGAGAAGCGCCGCTA
1 AAGGTCATGTTCTTTAGCGGCGTTTTTGCGAAAAGCACCGCTA
* *
11740196 AAGGTCATGTTCTTTAGCGGCGTTTTTGGGAAAAGCACTGCTA
1 AAGGTCATGTTCTTTAGCGGCGTTTTTGCGAAAAGCACCGCTA
* *
11740239 AAGGTCGTGGTCTTTAGCGGC
1 AAGGTCATGTTCTTTAGCGGC
11740260 ATTTGTTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 5 0.09
42 5 0.09
43 46 0.82
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (43 bp):
AAGGTCATGTTCTTTAGCGGCGTTTTTGCGAAAAGCACCGCTA
Found at i:11742149 original size:16 final size:16
Alignment explanation
Indices: 11742128--11742167 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
11742118 CGTTTGGTTC
*
11742128 GCTGTAATGGAATAGA
1 GCTGTAATGAAATAGA
11742144 GCTGTAATGAAATAGA
1 GCTGTAATGAAATAGA
*
11742160 ACTGTAAT
1 GCTGTAAT
11742168 AGTAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (16 bp):
GCTGTAATGAAATAGA
Found at i:11745383 original size:15 final size:15
Alignment explanation
Indices: 11745360--11745400 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
11745350 TTTTGGTCTC
*
11745360 AAAATGTGAATCAGA
1 AAAAGGTGAATCAGA
11745375 AAAAGGTGAATCAGA
1 AAAAGGTGAATCAGA
11745390 AAAAGGTGAAT
1 AAAAGGTGAAT
11745401 AGCTATTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.24, T:0.17
Consensus pattern (15 bp):
AAAAGGTGAATCAGA
Found at i:11749013 original size:9 final size:9
Alignment explanation
Indices: 11749001--11749031 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11748991 GTTAAACGAG
11749001 TCGAGTTAT
1 TCGAGTTAT
*
11749010 TCGAGTTAA
1 TCGAGTTAT
11749019 TCGAGTTAT
1 TCGAGTTAT
11749028 TCGA
1 TCGA
11749032 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11749185 original size:30 final size:31
Alignment explanation
Indices: 11749151--11749211 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
11749141 AAACTTTTTT
* *
11749151 ACTTTTCCCTAAAAACTTTTACCCCT-TCCC
1 ACTTTCCCCCAAAAACTTTTACCCCTCTCCC
* *
11749181 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCCCCCAAAAACTTTTACCCCTCTCCC
11749212 CTCCCAACCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.34
Consensus pattern (31 bp):
ACTTTCCCCCAAAAACTTTTACCCCTCTCCC
Found at i:11749498 original size:21 final size:21
Alignment explanation
Indices: 11749469--11749508 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
11749459 TCCCTCAAAC
11749469 TTTTATTCCCCAAAACTTTTTA
1 TTTTATT-CCCAAAACTTTTTA
*
11749491 TTTT-TTCCCTAAACTTTT
1 TTTTATTCCCAAAACTTTT
11749509 ACTTCCCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTCCCAAAACTTTTTA
Found at i:11751345 original size:69 final size:67
Alignment explanation
Indices: 11751256--11751387 Score: 194
Period size: 69 Copynumber: 1.9 Consensus size: 67
11751246 TCCGACTAAG
* *
11751256 AAAATGCAAAACTATGTCGTTTTGATAAATGTTTA-CATTTTCTAAGTTAAAAGTCAAAACCATT
1 AAAAGGCAAAACTATGTCGTTTTGATAAATGTTTAGC--TAT-TAAGTTAAAAGTCAAAACCATT
11751320 AAGTT
63 AAGTT
* *
11751325 AAAAGGCAAAACTATTTCGTTTTGATAAATGTTTAGCTATTAAGTTAAAAGTCAAAATCATTA
1 AAAAGGCAAAACTATGTCGTTTTGATAAATGTTTAGCTATTAAGTTAAAAGTCAAAACCATTA
11751388 TATTGTTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
67 22 0.38
68 2 0.03
69 33 0.57
70 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (67 bp):
AAAAGGCAAAACTATGTCGTTTTGATAAATGTTTAGCTATTAAGTTAAAAGTCAAAACCATTAAG
TT
Found at i:11765328 original size:9 final size:10
Alignment explanation
Indices: 11765310--11765340 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
11765300 CACATATTTT
11765310 AATAATTTAA
1 AATAATTTAA
11765320 AATAA-TTAA
1 AATAATTTAA
11765329 AATAATTTAA
1 AATAATTTAA
11765339 AA
1 AA
11765341 AACTTCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AATAATTTAA
Found at i:11765476 original size:21 final size:21
Alignment explanation
Indices: 11765452--11765504 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
11765442 CATTGTTTCT
*
11765452 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
11765473 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
11765494 AATCTCACCGC
1 AATCTCACCGC
11765505 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:11766206 original size:14 final size:15
Alignment explanation
Indices: 11766176--11766209 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11766166 TTAACATGGC
*
11766176 AATTTGGAACCTTTG
1 AATTTGGAACATTTG
11766191 AATTTGGAA-ATTTG
1 AATTTGGAACATTTG
11766205 AATTT
1 AATTT
11766210 TAAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (15 bp):
AATTTGGAACATTTG
Found at i:11766718 original size:21 final size:22
Alignment explanation
Indices: 11766678--11766719 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11766668 TTTTGAATTA
*
11766678 ATTCAAATTTAATGTTTGGATG
1 ATTCAAATTTAATATTTGGATG
11766700 ATTCAAATTTAA-ATTTGGAT
1 ATTCAAATTTAATATTTGGAT
11766720 TTTATCTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
ATTCAAATTTAATATTTGGATG
Found at i:11768221 original size:21 final size:21
Alignment explanation
Indices: 11768195--11768235 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11768185 GACAAGTAAC
11768195 AGATCAGACAAATCGTATCAT
1 AGATCAGACAAATCGTATCAT
* *
11768216 AGATCATACATATCGTATCA
1 AGATCAGACAAATCGTATCA
11768236 CGCTACATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (21 bp):
AGATCAGACAAATCGTATCAT
Found at i:11769667 original size:22 final size:22
Alignment explanation
Indices: 11769642--11769711 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
11769632 AAATTCAATA
11769642 TCAATTTCTTTCAAAAATTCTC
1 TCAATTTCTTTCAAAAATTCTC
* *
11769664 TCAATTCCTTTCAAAATTTC-C
1 TCAATTTCTTTCAAAAATTCTC
* *
11769685 ATCAATTTCCTTCCAAAATTCTC
1 -TCAATTTCTTTCAAAAATTCTC
11769708 TCAA
1 TCAA
11769712 ACTCTCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.03
22 38 0.95
23 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTTCTTTCAAAAATTCTC
Found at i:11769744 original size:52 final size:50
Alignment explanation
Indices: 11769661--11769763 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 50
11769651 TTCAAAAATT
* * *
11769661 CTCTCAATTCCTTTCAAAATTTCCATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCTTCCAAAA-TTCCATCAATTTCCTTCAAAAAATCTC-CAAA
*
11769713 CTCTCAAATTCCTTCCAAAA-TCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCTTCCAAAATTCC-ATCAATTTCCTTCAAAAAATCTCCAAA
11769764 TCCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 7 0.16
52 25 0.56
53 13 0.29
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (50 bp):
CTCTCAATTCCTTCCAAAATTCCATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:11769752 original size:21 final size:22
Alignment explanation
Indices: 11769713--11769754 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11769703 TTCTCTCAAA
11769713 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
11769735 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
11769755 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:11769847 original size:29 final size:29
Alignment explanation
Indices: 11769796--11769851 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
11769786 ATTAAATTTC
11769796 ATTTTTTTAAGAAAATTTTAAATTTTTTT
1 ATTTTTTTAAGAAAATTTTAAATTTTTTT
* *
11769825 ATTTTTTTAA-ATAATTTTAAAATTTTT
1 ATTTTTTTAAGAAAATTTTAAATTTTTT
11769852 AATATTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAATTTTTTT
Found at i:11769859 original size:29 final size:29
Alignment explanation
Indices: 11769796--11769859 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
11769786 ATTAAATTTC
* *
11769796 ATTTTTTTAAGAAAATTTTAAATTTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
11769825 ATTTTTTTAA-ATAATTTTAAAATTTTTA
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
11769853 ATATTTT
1 ATTTTTT
11769860 CAACAATGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTA
Found at i:11773707 original size:125 final size:124
Alignment explanation
Indices: 11773514--11773755 Score: 371
Period size: 125 Copynumber: 1.9 Consensus size: 124
11773504 CCACGAGGGC
* *
11773514 GCGATTTGACACTGTTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* *
11773579 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCA
* *
11773638 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAAATTATTT-CTCACATGACC-ACTGTA
1 GCGATTTGACACTATTTCCTCAG-AAACGTC-AAAAAAAATTATTTCCT-ACATGACCAACTGTA
* *
11773701 GCGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCT
63 GCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCT
11773756 AGTAGAAGTG
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
124 19 0.18
125 66 0.62
126 22 0.21
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (124 bp):
GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCA
Found at i:11773802 original size:125 final size:124
Alignment explanation
Indices: 11773514--11773794 Score: 370
Period size: 125 Copynumber: 2.3 Consensus size: 124
11773504 CCACGAGGGC
* * *
11773514 GCGATTTGACACTGTTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTCACACTATTTACTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * **
11773579 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* * *
11773638 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAAATTATTT-CTCACATGACC-ACTGTA
1 GCGATTTCACACTATTTACTCAG-AAACGTC-AAAAAAAATTATTTCCT-ACATGACCAACTGTA
* *
11773701 GCGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
63 GCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* *
11773763 GTGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 GCGATTTCACACTATTT-ACTCAGAAACGTCAA
11773795 CTCAAAAAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
123 2 0.01
124 26 0.19
125 86 0.63
126 23 0.17
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (124 bp):
GCGATTTCACACTATTTACTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:11775669 original size:15 final size:15
Alignment explanation
Indices: 11775649--11775688 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
11775639 TTCTGTCCGG
11775649 CCCAATACCCACAAA
1 CCCAATACCCACAAA
11775664 CCCAATACCCACAAA
1 CCCAATACCCACAAA
11775679 CCCAATACCC
1 CCCAATACCC
11775689 TCAGCCCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.42, C:0.50, G:0.00, T:0.07
Consensus pattern (15 bp):
CCCAATACCCACAAA
Found at i:11789260 original size:44 final size:46
Alignment explanation
Indices: 11789146--11789260 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
11789136 ATACAGGTCT
* * *
11789146 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
* *
11789192 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAAT-GTCAGATCC
* *
11789236 TATCTCCTTGAGATTACAATGGAGC
1 TATCTCCCTGAGATTACAGTGGAGC
11789261 GGATTAAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 25 0.42
45 3 0.05
46 32 0.53
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
Found at i:11789319 original size:41 final size:41
Alignment explanation
Indices: 11789272--11789472 Score: 134
Period size: 41 Copynumber: 4.8 Consensus size: 41
11789262 GATTAAAAGA
* * * *
11789272 TCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCATCAGG
1 TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAATCAGG
* * **
11789313 TCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAAG-TTACAGCAGAGCAGATCGAA-TCA-GG
* ** * ** *
11789356 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 TCTTATCTCCCTGAAGTTACAGCAGAGCAGA-TCGAAT-CAGG
* * * * *
11789399 ATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAG
1 -TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAATCAGG
* **
11789441 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TCTTATCTCCCTGAAGTTACAGCAGAGCAGAT
11789473 AGAAGAAACC
Statistics
Matches: 118, Mismatches: 35, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
40 2 0.02
41 54 0.46
42 4 0.03
43 28 0.24
44 30 0.25
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAATCAGG
Found at i:11789436 original size:128 final size:127
Alignment explanation
Indices: 11789189--11789583 Score: 496
Period size: 129 Copynumber: 3.1 Consensus size: 127
11789179 GAATTTCAGA
* * * *
11789189 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGATTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAAACT-ATCCTATCTCCCTGAAG-TTAC
* * *
11789253 AATGGAGCGGATT---A-AAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCATCAGG
64 AGTGGAGCGGATTAAAATAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
*
11789313 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAAACTATCCTATCTCCCTGAAGTTACAG
*
11789378 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAG
66 TGGAGCGGATTAAAATAAA-GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
* * * * * *
11789441 TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATAGAAGAAACCAATCCTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGAAA-CTATCCTATCTCCCTGAAGTTAC
* * * * * *
11789505 AGTAGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCGCATCAAG
64 AGTGGAGCGGATTAAAAT-AAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
*
11789570 TCTTATTTCCCTGA
1 TCTTATCTCCCTGA
11789584 AGTACAATGG
Statistics
Matches: 239, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
123 29 0.12
124 41 0.17
126 1 0.00
127 4 0.02
128 74 0.31
129 88 0.37
130 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (127 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAAACTATCCTATCTCCCTGAAGTTACAG
TGGAGCGGATTAAAATAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
Found at i:11789586 original size:41 final size:41
Alignment explanation
Indices: 11789359--11789586 Score: 152
Period size: 44 Copynumber: 5.3 Consensus size: 41
11789349 GACACTATCC
* * * * * *
11789359 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TAGAATCAA-G-TCT
* * * * * *
11789403 TATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAGTCT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCAAGTCT
* * * *
11789444 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAA-TCC
1 TATCTCTCTGAAGTTGCAGTAGAGCAGAT---AG-AATCAAGTCT
* *
11789488 TATCTCTCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATCT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TAGAATCA-AG-TCT
* * *
11789532 TATCTCTTTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCAAGTCT
* *
11789573 TATTTCCCTGAAGT
1 TATCTCTCTGAAGT
11789587 ACAATGGATT
Statistics
Matches: 142, Mismatches: 34, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
41 44 0.31
42 5 0.04
43 10 0.07
44 78 0.55
45 5 0.04
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (41 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCAAGTCT
Found at i:11789786 original size:15 final size:15
Alignment explanation
Indices: 11789766--11789820 Score: 94
Period size: 15 Copynumber: 3.7 Consensus size: 15
11789756 TTCTGTCCGG
11789766 CCCAATACCCACAAA
1 CCCAATACCCACAAA
11789781 CCCAATACCCACAATA
1 CCCAATACCCACAA-A
11789797 -CCAATACCCACAAA
1 CCCAATACCCACAAA
11789811 CCCAATACCC
1 CCCAATACCC
11789821 TCAGCCCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.03
15 36 0.95
16 1 0.03
ACGTcount: A:0.44, C:0.47, G:0.00, T:0.09
Consensus pattern (15 bp):
CCCAATACCCACAAA
Found at i:11792276 original size:21 final size:22
Alignment explanation
Indices: 11792243--11792284 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11792233 GAAACCAACA
*
11792243 AGTTTGTACGCAA-AAATTAGC
1 AGTTTATACGCAATAAATTAGC
*
11792264 AGTTTATATGCAATAAATTAG
1 AGTTTATACGCAATAAATTAG
11792285 TAAAAATCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (22 bp):
AGTTTATACGCAATAAATTAGC
Found at i:11804021 original size:20 final size:20
Alignment explanation
Indices: 11803998--11804036 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11803988 TTGTCTTTTT
* * *
11803998 GCGTTTGTTTTTGCTTGTTG
1 GCGTTGGTTGTTGCGTGTTG
11804018 GCGTTGGTTGTTGCGTGTT
1 GCGTTGGTTGTTGCGTGTT
11804037 TATTTCCTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.36, T:0.54
Consensus pattern (20 bp):
GCGTTGGTTGTTGCGTGTTG
Found at i:11804469 original size:22 final size:22
Alignment explanation
Indices: 11804444--11804535 Score: 80
Period size: 22 Copynumber: 4.1 Consensus size: 22
11804434 TGCAAAAAGA
* *
11804444 TTTGCTGCTATTTTTTTATTAT
1 TTTGCTACTATTTTATTATTAT
* * *
11804466 TTTGCCACTATTCCTT-TCATTGT
1 TTTGCTACTATT--TTATTATTAT
*
11804489 TTTGCTA-TCATTTTACTATTAT
1 TTTGCTACT-ATTTTATTATTAT
*
11804511 ATTGCTACTATTTTATTATTAT
1 TTTGCTACTATTTTATTATTAT
11804533 TTT
1 TTT
11804536 TTGAATATTC
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.04
22 35 0.65
23 15 0.28
24 2 0.04
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTGCTACTATTTTATTATTAT
Found at i:11825039 original size:57 final size:59
Alignment explanation
Indices: 11824928--11825075 Score: 194
Period size: 57 Copynumber: 2.5 Consensus size: 59
11824918 AATTGACGGT
*
11824928 AAAAAGGATCTAGCTCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-G
11824991 AAAAAGATCTAGCCCGGACGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
* * *
11825047 AAAATGGATTTAGCCCGGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
11825076 GAATTAGGGT
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
56 5 0.06
57 46 0.58
58 1 0.01
59 1 0.01
61 1 0.01
62 20 0.25
63 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:11825984 original size:23 final size:23
Alignment explanation
Indices: 11825954--11826000 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
11825944 CATTAGTTTG
11825954 AACAACTAAGAATGAGAGCTGTT
1 AACAACTAAGAATGAGAGCTGTT
11825977 AACAACTAAGAATGAGAGCTGTT
1 AACAACTAAGAATGAGAGCTGTT
11826000 A
1 A
11826001 TGCAATGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (23 bp):
AACAACTAAGAATGAGAGCTGTT
Found at i:11833556 original size:9 final size:9
Alignment explanation
Indices: 11833544--11833593 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
11833534 AAAATAAAAA
11833544 AATTCGGGT
1 AATTCGGGT
11833553 AATTCGGGT
1 AATTCGGGT
*
11833562 ATTTTTC-GGT
1 A--ATTCGGGT
*
11833572 AATTCGGTT
1 AATTCGGGT
11833581 AATTCGGGT
1 AATTCGGGT
11833590 AATT
1 AATT
11833594 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 3 0.09
9 24 0.71
10 4 0.12
11 3 0.09
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:11836322 original size:88 final size:85
Alignment explanation
Indices: 11836220--11836418 Score: 224
Period size: 86 Copynumber: 2.3 Consensus size: 85
11836210 AGTTATCGTG
* *
11836220 TAAGACCATGTCTGGGACGTTGGCGTCGATTTGA-GATTTACGTATAAGACCATGTCTGGGAC-G
1 TAAGACCATGTCTGGGACGTTGGCATCG-TAT-ACGATTT-CGTATAAGACCATGTCTGGGACAG
* *
11836283 TTGGCGTCGAT-TTGAGATTTACGTA
63 -TGGCATCGATATT-AGA-TTACATA
* * * *
11836308 TAAGACCATGTCTGGGACATCGGCATCGTATACGATTTCGTGTAAGACCCTGTCTGGGACAGTGG
1 TAAGACCATGTCTGGGACGTTGGCATCGTATACGATTTCGTATAAGACCATGTCTGGGACAGTGG
* *
11836373 CATCGATATTTGATTACATG
66 CATCGATATTAGATTACATA
*
11836393 TAAGACCACGTCTGGGACGTTGGCAT
1 TAAGACCATGTCTGGGACGTTGGCAT
11836419 TGTAAGAGCT
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
85 28 0.29
86 32 0.34
87 10 0.11
88 25 0.26
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (85 bp):
TAAGACCATGTCTGGGACGTTGGCATCGTATACGATTTCGTATAAGACCATGTCTGGGACAGTGG
CATCGATATTAGATTACATA
Found at i:11836409 original size:43 final size:44
Alignment explanation
Indices: 11836216--11836418 Score: 238
Period size: 44 Copynumber: 4.7 Consensus size: 44
11836206 TATGAGTTAT
*
11836216 CGTGTAAGACCATGTCTGGGACGTTGGCGTCGATTTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGAGATTTA
* *
11836260 CGTATAAGACCATGTCTGGGACGTTGGCGTCGATTTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGAGATTTA
* * * *
11836304 CGTATAAGACCATGTCTGGGACATCGGCATCG-TAT-ACGATTT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGA-GATTTA
* *
11836346 CGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATT-TGA-TTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTGAGATTTA
* *
11836389 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
11836419 TGTAAGAGCT
Statistics
Matches: 139, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
42 31 0.22
43 35 0.25
44 73 0.53
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGAGATTTA
Found at i:11839413 original size:26 final size:26
Alignment explanation
Indices: 11839383--11839450 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
11839373 CACCATCAAT
*
11839383 TCATA-AACATATATAGATATCAAATA
1 TCATATAACATA-ATACATATCAAATA
* *
11839409 TCATATAACATAATTCATATCACATA
1 TCATATAACATAATACATATCAAATA
*
11839435 TCATATATCAATAATA
1 TCATATAAC-ATAATA
11839451 TCACACTCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 24 0.69
27 11 0.31
ACGTcount: A:0.50, C:0.15, G:0.01, T:0.34
Consensus pattern (26 bp):
TCATATAACATAATACATATCAAATA
Found at i:11841396 original size:4 final size:4
Alignment explanation
Indices: 11841382--11841431 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
11841372 GATGGAATAA
* * *
11841382 AAAT AAAAT AAAT AAAT AAAT -AA- AAAT AAAC AAAG AAAT AAAT CAAT
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
11841429 AAA
1 AAA
11841432 CCAATCAGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
3 4 0.11
4 30 0.79
5 4 0.11
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:11841409 original size:18 final size:18
Alignment explanation
Indices: 11841382--11841423 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11841372 GATGGAATAA
* *
11841382 AAAT-AAAATAAATAAAT
1 AAATAAAAATAAACAAAG
11841399 AAATAAAAATAAACAAAG
1 AAATAAAAATAAACAAAG
11841417 AAATAAA
1 AAATAAA
11841424 TCAATAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (18 bp):
AAATAAAAATAAACAAAG
Found at i:11841977 original size:96 final size:96
Alignment explanation
Indices: 11841867--11842059 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
11841857 AATTGAATAA
11841867 TCGTGGGTTGAATATCAAATGGGGAACGGAGTAGTAAATCTCATGATTGGAATAACAAAATAAAA
1 TCGTGGGTTGAATATCAAATGGGGAACGGAGTAGTAAATCTCATGATTGGAATAACAAAATAAAA
11841932 CAAATGCAAAAGAACATAAACTAAAAATACT
66 CAAATGCAAAAGAACATAAACTAAAAATACT
*
11841963 TCGTGGGTTGAATATCGAATGGGGAACGGAGTAGTAAATCTCATGATTGGAATAACAAAATAAAA
1 TCGTGGGTTGAATATCAAATGGGGAACGGAGTAGTAAATCTCATGATTGGAATAACAAAATAAAA
11842028 CAAATGCAAAAGAACATAAACTAAAAATACT
66 CAAATGCAAAAGAACATAAACTAAAAATACT
11842059 T
1 T
11842060 TAATAATATA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (96 bp):
TCGTGGGTTGAATATCAAATGGGGAACGGAGTAGTAAATCTCATGATTGGAATAACAAAATAAAA
CAAATGCAAAAGAACATAAACTAAAAATACT
Found at i:11859518 original size:13 final size:12
Alignment explanation
Indices: 11859499--11859534 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
11859489 CATTGTGTCC
11859499 TTTTTTATTTTT
1 TTTTTTATTTTT
11859511 TATTTTTATTTTT
1 T-TTTTTATTTTT
11859524 TTTTTGTATTT
1 TTTTT-TATTT
11859535 CAAAATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (12 bp):
TTTTTTATTTTT
Found at i:11859738 original size:14 final size:14
Alignment explanation
Indices: 11859706--11859739 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
11859696 CCATTAGTAA
11859706 AATA-TCATATTTT
1 AATATTCATATTTT
11859719 ATATATTCATATTTT
1 A-ATATTCATATTTT
11859734 AATATT
1 AATATT
11859740 TTGAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 8 0.42
15 10 0.53
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTCATATTTT
Found at i:11863282 original size:28 final size:28
Alignment explanation
Indices: 11863251--11863308 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
11863241 TTTCTTGTAA
11863251 TTTT-TTAAAAATTAAACCTTTTTTATTT
1 TTTTATTAAAAATTAAA-CTTTTTTATTT
****
11863279 TTTTATTTTTCATTAAACTTTTTTATTT
1 TTTTATTAAAAATTAAACTTTTTTATTT
11863307 TT
1 TT
11863309 AAATTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTATTAAAAATTAAACTTTTTTATTT
Found at i:11863317 original size:29 final size:29
Alignment explanation
Indices: 11863261--11863316 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
11863251 TTTTTTAAAA
**
11863261 ATTAAACCTTTTTTATTTTTTTATTTTTC
1 ATTAAACCTTTTTTATTTTTAAATTTTTC
11863290 ATTAAA-CTTTTTTATTTTTAAATTTTT
1 ATTAAACCTTTTTTATTTTTAAATTTTT
11863317 TTTGAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (29 bp):
ATTAAACCTTTTTTATTTTTAAATTTTTC
Found at i:11866622 original size:24 final size:24
Alignment explanation
Indices: 11866595--11866641 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11866585 TATCACAATT
* *
11866595 ATAATATAA-TATAATATAAATATC
1 ATAA-ATAATTATAAAACAAATATC
11866619 ATAAATAATTATAAAACAAATAT
1 ATAAATAATTATAAAACAAATAT
11866642 AAAAAGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (24 bp):
ATAAATAATTATAAAACAAATATC
Found at i:11867610 original size:31 final size:31
Alignment explanation
Indices: 11867575--11867679 Score: 90
Period size: 31 Copynumber: 3.4 Consensus size: 31
11867565 TAATCATATT
11867575 AATATTAAATTAATAAAATAATATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
** * *
11867606 AATATTAAATT-A-AATTTCATATCTCATG-TT
1 AATATTAAATTAATAAAATAATATCT-A-GATA
* * * *
11867636 AATATTCAATTGATAAAATACTATTTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
*
11867667 AATATTGAATTAA
1 AATATTAAATTAA
11867680 ATTTAATTTT
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
29 9 0.16
30 14 0.25
31 26 0.46
32 7 0.12
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.40
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:11867654 original size:61 final size:61
Alignment explanation
Indices: 11867568--11867683 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 61
11867558 TTAGAATTAA
11867568 TCATATTAATATTAAATTAATAAAATAATATCTAGATAAATATTAAATTAAATTTCATATC
1 TCATATTAATATTAAATTAATAAAATAATATCTAGATAAATATTAAATTAAATTTCATATC
* * * * * *
11867629 TCATGTTAATATTCAATTGATAAAATACTATTTAGATAAATATTGAATTAAATTT
1 TCATATTAATATTAAATTAATAAAATAATATCTAGATAAATATTAAATTAAATTT
11867684 AATTTTAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.42
Consensus pattern (61 bp):
TCATATTAATATTAAATTAATAAAATAATATCTAGATAAATATTAAATTAAATTTCATATC
Found at i:11868939 original size:3 final size:3
Alignment explanation
Indices: 11868931--11868959 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11868921 GAGTATTAAA
11868931 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
11868960 CATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:11869389 original size:23 final size:23
Alignment explanation
Indices: 11869363--11869406 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11869353 TAAATATTAT
*
11869363 TTTATTAATGTTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
11869386 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
11869407 AAATGGTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:11877169 original size:20 final size:22
Alignment explanation
Indices: 11877139--11877182 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
11877129 AGAAAAAGAG
11877139 AAATACAAAAA-AGAATAG-ATC
1 AAATACAAAAAGA-AATAGAATC
11877160 AAAT-CAAAAAGAAATAGAATC
1 AAATACAAAAAGAAATAGAATC
11877181 AA
1 AA
11877183 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.14
Consensus pattern (22 bp):
AAATACAAAAAGAAATAGAATC
Found at i:11880028 original size:32 final size:32
Alignment explanation
Indices: 11879990--11880096 Score: 151
Period size: 32 Copynumber: 3.2 Consensus size: 32
11879980 AAATAATACA
11879990 TGAACAGGAGAGATTTCCTGCAAGAAATGATG
1 TGAACAGGAGAGATTTCCTGCAAGAAATGATG
* * * *
11880022 TGAACAGGAAAGATTCCCTGCAACAAAATAATCCG
1 TGAACAGGAGAGATTTCCTGCAA-GAAATGAT--G
11880057 TGAACAGGAGAGATTTCCTGCAAGAAATGATG
1 TGAACAGGAGAGATTTCCTGCAAGAAATGATG
11880089 TGAACAGG
1 TGAACAGG
11880097 GAATCGAATG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 30 0.47
33 6 0.09
34 6 0.09
35 22 0.34
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (32 bp):
TGAACAGGAGAGATTTCCTGCAAGAAATGATG
Found at i:11880151 original size:35 final size:35
Alignment explanation
Indices: 11880103--11880239 Score: 174
Period size: 35 Copynumber: 4.0 Consensus size: 35
11880093 CAGGGAATCG
11880103 AATGATGTGAACAGGA-ACGATTCCCTGCAACAAAAT
1 AATG-TGTGAACAGGAGA-GATTCCCTGCAACAAAAT
11880139 AATGTGTGAACAGGAGAGATTCCCTGCAACAAAAT
1 AATGTGTGAACAGGAGAGATTCCCTGCAACAAAAT
* *
11880174 AATGCGTGAACAGGAGAGATTCCCTGCAA-GAAAT
1 AATGTGTGAACAGGAGAGATTCCCTGCAACAAAAT
* * * *
11880208 GA--TGTGAACAGGAAATATTCCCTGCAAGAAAA
1 AATGTGTGAACAGGAGAGATTCCCTGCAACAAAA
11880240 GACAAGTGAA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
32 22 0.24
33 3 0.03
34 5 0.05
35 57 0.62
36 5 0.05
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (35 bp):
AATGTGTGAACAGGAGAGATTCCCTGCAACAAAAT
Found at i:11893320 original size:17 final size:18
Alignment explanation
Indices: 11893257--11893321 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
11893247 ACAAAATTTC
*
11893257 AATAAAAATATATAAAATT
1 AATAAAAATATTTAAAA-T
* * *
11893276 ATTAAATATTAATTAAAAT
1 AATAAA-AATATTTAAAAT
*
11893295 AATATAAATATTTAAAA-
1 AATAAAAATATTTAAAAT
11893312 AATAAAAATA
1 AATAAAAATA
11893322 GTATGGGTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
17 9 0.25
18 9 0.25
19 10 0.28
20 8 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAAAAATATTTAAAAT
Found at i:11895245 original size:41 final size:41
Alignment explanation
Indices: 11895188--11895272 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
11895178 GGAAGTGATT
* *
11895188 GTAGCAAATCAACATTGTAGACACTGAAACACTGCCTAGTG
1 GTAGCAAATCAACATTGCAGACACTGAAACACTGCCTAGCG
11895229 GTAGCAAATCAACATTGCAGACACTGAAACACTGCCTAGCG
1 GTAGCAAATCAACATTGCAGACACTGAAACACTGCCTAGCG
11895270 GTA
1 GTA
11895273 AAGGATGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (41 bp):
GTAGCAAATCAACATTGCAGACACTGAAACACTGCCTAGCG
Found at i:11898202 original size:24 final size:24
Alignment explanation
Indices: 11898149--11898203 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
11898139 TGTATAACAA
* *
11898149 GAAGCTCATGCGAGCCATAATTGG
1 GAAGCTCATGCGAGCAATAATAGG
11898173 GAAGCTCATGCGAGGCAATAA-AGG
1 GAAGCTCATGCGA-GCAATAATAGG
*
11898197 GTAGCTC
1 GAAGCTC
11898204 CGAAGAGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.18
Consensus pattern (24 bp):
GAAGCTCATGCGAGCAATAATAGG
Done.