Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 650 of 770
Found at i:204215084 original size:79 final size:78
Alignment explanation
Indices: 204214916--204215069 Score: 188
Period size: 80 Copynumber: 2.0 Consensus size: 78
204214906 CGAGTTAATA
** *
204214916 AATCCGGGTTAAG-CCCGAAGATATTTGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATT
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATT
* *
204214980 TGTGCGAGTTACT
66 TGAGCGAGTCACT
* *
204214993 AAACCTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGG
1 AATCC-GGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AATCC-GGGTTAAG-CCCGAAGG
204215056 CATTTGAGCGAGTC
62 CATTTGAGCGAGTC
204215070 GTTATATCCG
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
77 4 0.06
78 8 0.12
79 26 0.40
80 27 0.42
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (78 bp):
AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATT
TGAGCGAGTCACT
Found at i:204232701 original size:13 final size:13
Alignment explanation
Indices: 204232676--204232715 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
204232666 TTTTTATTTT
204232676 ATTAAATAAATTAA
1 ATTAAA-AAATTAA
204232690 ATTAAAAAATTAA
1 ATTAAAAAATTAA
*
204232703 ATTAATAAATTAA
1 ATTAAAAAATTAA
204232716 GGCTCCATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATTAAAAAATTAA
Found at i:204236615 original size:14 final size:14
Alignment explanation
Indices: 204236596--204236624 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
204236586 ACAGATGGAT
204236596 TCGTATAATTCTTA
1 TCGTATAATTCTTA
204236610 TCGTATAATTCTTA
1 TCGTATAATTCTTA
204236624 T
1 T
204236625 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:204240846 original size:20 final size:21
Alignment explanation
Indices: 204240780--204240848 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
204240770 TCACTTCGTT
204240780 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
204240801 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
204240822 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
204240843 -CTTTTT
1 TCTTTTT
204240849 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:204243247 original size:18 final size:18
Alignment explanation
Indices: 204243214--204243307 Score: 122
Period size: 18 Copynumber: 5.4 Consensus size: 18
204243204 AAGGTTTTCT
204243214 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
204243229 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
204243247 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
204243265 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
* *
204243283 TATTGATGATAATGACGC
1 TATTGATGATAGTGACGA
204243301 TATTGAT
1 TATTGAT
204243308 CGTGACCTTG
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 60 0.83
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:204247468 original size:2 final size:2
Alignment explanation
Indices: 204247461--204247498 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
204247451 CCAAATACAT
204247461 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
204247499 ATTAATAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:204251929 original size:12 final size:12
Alignment explanation
Indices: 204251912--204251939 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
204251902 AACAAGTAGG
204251912 ACTTAATTTTTA
1 ACTTAATTTTTA
204251924 ACTTAATTTTTA
1 ACTTAATTTTTA
204251936 ACTT
1 ACTT
204251940 CTTAAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
ACTTAATTTTTA
Found at i:204254544 original size:40 final size:40
Alignment explanation
Indices: 204254452--204254601 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
204254442 AAATTGAATG
* * * *
204254452 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-G-AAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* * *
204254490 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* * *
204254530 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGAT
* *
204254570 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
204254602 AAATCGTGAT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
38 28 0.30
39 4 0.04
40 60 0.64
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
Found at i:204254616 original size:40 final size:38
Alignment explanation
Indices: 204254448--204254633 Score: 155
Period size: 40 Copynumber: 4.8 Consensus size: 38
204254438 TGAGAAATTG
* *
204254448 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
204254487 AAT-T-TATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
204254523 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
204254563 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
204254603 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
204254634 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
35 2 0.02
36 4 0.03
37 2 0.02
38 20 0.17
39 6 0.05
40 84 0.71
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:204262625 original size:40 final size:39
Alignment explanation
Indices: 204262457--204262636 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
204262447 AGAAATTGAA
* *
204262457 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
204262497 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
204262537 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
204262577 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
204262617 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
204262637 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:204265806 original size:39 final size:39
Alignment explanation
Indices: 204265752--204265895 Score: 182
Period size: 39 Copynumber: 3.7 Consensus size: 39
204265742 AATGATGAAG
* **
204265752 TATATCTGGACTTAAGGTCTACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
204265791 TATATCCGGACTTAAGCTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
204265830 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
204265869 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAGGT-CCGCAGGCT
204265896 TCGAGCTGGT
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 5 0.05
39 87 0.95
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:204265904 original size:78 final size:78
Alignment explanation
Indices: 204265759--204265911 Score: 193
Period size: 78 Copynumber: 2.0 Consensus size: 78
204265749 AAGTATATCT
* * * * *
204265759 GGACTTAAGGTCTACAGGCTATGTGCTGGAATTATATCCGGACTTAAGCTCCGCAGGCTATGTGC
1 GGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTAAAGCTCCGCAGGCTATGAGC
204265824 TGGAATTATAACC
66 TGGAATTATAACC
* * *
204265837 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAAG-TCCCGCAGGCT-TCGA
1 GGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTAAAGCT-CCGCAGGCTAT-GA
*
204265900 GCTGGTATTATA
64 GCTGGAATTATA
204265912 CCAGGTTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
77 2 0.03
78 62 0.97
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
GGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTAAAGCTCCGCAGGCTATGAGC
TGGAATTATAACC
Found at i:204268702 original size:15 final size:15
Alignment explanation
Indices: 204268675--204268718 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
204268665 TATAGTATCG
204268675 TATCTTGGGATTTCTC
1 TATCTT-GGATTTCTC
*
204268691 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
*
204268706 TA-CTTGGTTTTCT
1 TATCTTGGATTTCT
204268719 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 10 0.38
15 10 0.38
16 6 0.23
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:204271428 original size:50 final size:50
Alignment explanation
Indices: 204271353--204271545 Score: 246
Period size: 50 Copynumber: 3.9 Consensus size: 50
204271343 TGATGCTAGG
* * *
204271353 GAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATAGCATCGACCTC
1 GAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
*
204271403 GAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACAC-C
1 GAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTC
* * * * *
204271453 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
* * *
204271503 GATATACTAGAGTCT-GTGTAAGACCACGTCTGGGACATGGCAT
1 GAGATACGAGAG-CTAGTGTAAGACCATGTCTGGGACATGGCAT
204271546 TGACTATGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.01
50 122 0.98
51 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (50 bp):
GAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
Found at i:204271534 original size:100 final size:100
Alignment explanation
Indices: 204271358--204271545 Score: 297
Period size: 100 Copynumber: 1.9 Consensus size: 100
204271348 CTAGGGAGAT
* *
204271358 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATAGCATCGACCTCGAGATACGAGAGCTAGTGTA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACCTCGAGATACGAGAGCTAGTGTA
*
204271423 AGACCATGTCTGGGACATGGCATCAACACCGATAG
66 AGACCACGTCTGGGACATGGCATCAACACCGATAG
* * * *
204271458 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATACTAGAGTCT-GTGT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACCTCGAGATACGAGAG-CTAGTGT
204271522 AAGACCACGTCTGGGACATGGCAT
65 AAGACCACGTCTGGGACATGGCAT
204271546 TGACTATGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 78 0.98
101 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (100 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACCTCGAGATACGAGAGCTAGTGTA
AGACCACGTCTGGGACATGGCATCAACACCGATAG
Found at i:204274219 original size:29 final size:29
Alignment explanation
Indices: 204274184--204274316 Score: 135
Period size: 29 Copynumber: 4.6 Consensus size: 29
204274174 CTACTCGATT
*
204274184 TCGCACACTTAGTGCCATGTAGTTT-AAGC
1 TCGCACACTTAGTGCCATATA-TTTCAAGC
** * *
204274213 TCGCACACACAGTGCCATATTTTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCAAGC
* * *
204274242 TTGCACACTTAGTGCCAAATATCTCCAA-C
1 TCGCACACTTAGTGCCATATAT-TTCAAGC
* *
204274271 ACGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCAAGC
*
204274300 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
204274317 ATCTCGACAC
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
28 6 0.07
29 75 0.89
30 3 0.04
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATATTTCAAGC
Found at i:204282298 original size:29 final size:29
Alignment explanation
Indices: 204282270--204282369 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 29
204282260 AATTTAAGCT
** *
204282270 CGCACACACAGTGCCATATTTTTCCAGCT
1 CGCACACTTAGTGCCATATTTTTCCAGCA
* * *
204282299 TGCACACTTAGTGCCA-AATATTCCA--A
1 CGCACACTTAGTGCCATATTTTTCCAGCA
*
204282325 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATTTTTCCAGCA
204282354 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
204282370 ATCTCGACAC
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.26
27 6 0.10
28 7 0.12
29 30 0.52
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATTTTTCCAGCA
Found at i:204282334 original size:26 final size:28
Alignment explanation
Indices: 204282300--204282370 Score: 110
Period size: 26 Copynumber: 2.6 Consensus size: 28
204282290 TTTCCAGCTT
204282300 GCACACTTAGTGCCAAATA-TTCCA-AC
1 GCACACTTAGTGCCAAATATTTCCACAC
*
204282326 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCAAATATTTCCA-CAC
204282355 GCACACTTAGTGCCAA
1 GCACACTTAGTGCCAA
204282371 TCTCGACACC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 18 0.45
27 5 0.12
29 17 0.43
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (28 bp):
GCACACTTAGTGCCAAATATTTCCACAC
Found at i:204292921 original size:40 final size:40
Alignment explanation
Indices: 204292811--204292951 Score: 140
Period size: 40 Copynumber: 3.5 Consensus size: 40
204292801 GGATATAGCG
* * * *
204292811 ACTCGCTCAAAAGCCTTCGGGACATAG-CCCGGTTATAATA
1 ACTCGCACAAAAGCCTTCGGGA-ATTGACCCGGTTTTAGTA
* * * * *
204292851 GCTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCACAAAAGCCTTCGGGAATTGACCCGGTTTTAGTA
* * *
204292891 ACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTC
1 ACTCGCACAAAAGCCTTCGGGAATTGACCCGGTTTTAGTA
*
204292931 ACTTAGCACAAAAGCCTTCGG
1 AC-TCGCACAAAAGCCTTCGG
204292952 ACTTAGCCCG
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 65 0.79
41 16 0.20
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAAAGCCTTCGGGAATTGACCCGGTTTTAGTA
Found at i:204301379 original size:2 final size:2
Alignment explanation
Indices: 204301366--204301396 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
204301356 TATACACAAT
*
204301366 TA TA TT 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 T
204301397 CACATCTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:204302413 original size:42 final size:42
Alignment explanation
Indices: 204302351--204302460 Score: 168
Period size: 42 Copynumber: 2.6 Consensus size: 42
204302341 GATACAGGGG
* * *
204302351 ACACACGGTC-GAACAGCACGCCCGTGGGGTATAGCGTGTATC
1 ACACACGGTCTAAACA-CACGCCCGTGGGGTAGACCGTGTATC
204302393 ACACACGGTCTAAACACACGCCCGTGGGGTAGACCGTGTATC
1 ACACACGGTCTAAACACACGCCCGTGGGGTAGACCGTGTATC
*
204302435 ACACACGGTCTAGACACACGCCCGTG
1 ACACACGGTCTAAACACACGCCCGTG
204302461 TGTTTGCTCA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 59 0.94
43 4 0.06
ACGTcount: A:0.25, C:0.32, G:0.27, T:0.15
Consensus pattern (42 bp):
ACACACGGTCTAAACACACGCCCGTGGGGTAGACCGTGTATC
Found at i:204304015 original size:28 final size:27
Alignment explanation
Indices: 204303952--204304021 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
204303942 ATAGTGAGTC
*
204303952 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
204303979 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
204304007 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
204304022 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:204307291 original size:40 final size:40
Alignment explanation
Indices: 204307232--204307400 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
204307222 CGGGACTTTA
* * *
204307232 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
204307272 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
204307312 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
204307352 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
204307392 CCCGGATAT
1 CCCGGATAT
204307401 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:204315386 original size:40 final size:40
Alignment explanation
Indices: 204315327--204315495 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
204315317 CGGGACTTTA
* * *
204315327 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
204315367 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
204315407 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
204315447 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
204315487 CCCGGATAT
1 CCCGGATAT
204315496 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:204326610 original size:17 final size:18
Alignment explanation
Indices: 204326568--204326616 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
204326558 AGTTGAAAAG
204326568 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
204326587 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
204326604 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
204326617 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:204327505 original size:40 final size:40
Alignment explanation
Indices: 204327439--204327605 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
204327429 AAATTGAATG
* * *
204327439 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
204327478 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
204327518 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
204327558 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
204327598 ATATCCGG
1 ATATCCGG
204327606 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:204334608 original size:17 final size:18
Alignment explanation
Indices: 204334566--204334614 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
204334556 AGTTGAAAAG
204334566 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
204334585 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
204334602 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
204334615 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:204335503 original size:40 final size:40
Alignment explanation
Indices: 204335437--204335603 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
204335427 AAATTGAATG
* * *
204335437 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
204335476 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
204335516 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
204335556 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
204335596 ATATCCGG
1 ATATCCGG
204335604 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:204338220 original size:79 final size:82
Alignment explanation
Indices: 204338080--204338264 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
204338070 TCGAATGATG
* * *
204338080 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
204338144 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
204338160 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
204338222 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
204338240 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
204338265 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:204338272 original size:40 final size:40
Alignment explanation
Indices: 204338081--204338272 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
204338071 CGAATGATGT
* * * * *
204338081 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
204338121 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
204338161 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
204338200 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
204338240 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
204338273 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:204340280 original size:93 final size:93
Alignment explanation
Indices: 204340168--204340339 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
204340158 GCCCATAAGT
* *
204340168 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
204340233 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
204340261 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
204340326 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
204340340 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:204340335 original size:46 final size:46
Alignment explanation
Indices: 204340160--204340335 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
204340150 TGTAACCCGC
* * *
204340160 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
204340206 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
204340256 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
204340299 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
204340336 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:204342764 original size:30 final size:30
Alignment explanation
Indices: 204342720--204342808 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
204342710 CAAAGATAAC
204342720 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
204342749 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
204342779 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
204342809 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:204342768 original size:15 final size:15
Alignment explanation
Indices: 204342720--204342799 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
204342710 CAAAGATAAC
*
204342720 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
204342734 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
204342749 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
204342764 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
204342779 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
204342794 AAGAAA
1 AAGAAA
204342800 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:204342808 original size:15 final size:15
Alignment explanation
Indices: 204342731--204342808 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
204342721 AGAAAACCGA
204342731 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
204342746 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
204342760 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
204342775 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
204342791 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
204342806 ATA
1 ATA
204342809 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:204345870 original size:93 final size:93
Alignment explanation
Indices: 204345758--204345929 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
204345748 GCCCATAAGT
* *
204345758 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
204345823 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
204345851 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
204345916 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
204345930 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:204345925 original size:46 final size:46
Alignment explanation
Indices: 204345750--204345925 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
204345740 TGTAACCCGC
* * *
204345750 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
204345796 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
204345846 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
204345889 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
204345926 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:204350554 original size:78 final size:80
Alignment explanation
Indices: 204350420--204350602 Score: 259
Period size: 78 Copynumber: 2.3 Consensus size: 80
204350410 TCGAATGATG
204350420 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTT
204350484 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * **
204350498 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCAT
204350560 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
204350577 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
204350603 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
77 16 0.17
78 54 0.57
79 10 0.11
80 14 0.15
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:204350564 original size:40 final size:39
Alignment explanation
Indices: 204350420--204350602 Score: 255
Period size: 40 Copynumber: 4.7 Consensus size: 39
204350410 TCGAATGATG
* *
204350420 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
204350459 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
204350498 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
204350537 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
204350577 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
204350603 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
38 24 0.18
39 49 0.38
40 57 0.44
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:204350621 original size:80 final size:77
Alignment explanation
Indices: 204350421--204350625 Score: 220
Period size: 78 Copynumber: 2.6 Consensus size: 77
204350411 CGAATGATGT
** * * *
204350421 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTAAATCCGG-TTAAG-TCCCGAAGGCATT
*
204350483 TGTGCGAGTTACTAAT
62 TGTGCGAGTTACTAAA
**
204350499 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCC-GGTTAAGTCCCGAAGGCATTTGT
204350564 GCGAGTTACTATAA
65 GCGAGTTACTA-AA
* *
204350578 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCCGGTTAA
204350626 ACTCCGAAGG
Statistics
Matches: 112, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
77 16 0.14
78 51 0.46
79 20 0.18
80 25 0.22
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGTTAAGTCCCGAAGGCATTTGTG
CGAGTTACTAAA
Found at i:204358647 original size:40 final size:39
Alignment explanation
Indices: 204358564--204358746 Score: 239
Period size: 40 Copynumber: 4.7 Consensus size: 39
204358554 TCGAATGATG
* *
204358564 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
204358603 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
204358642 TTCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
204358681 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
204358721 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
204358747 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
38 24 0.19
39 48 0.38
40 56 0.44
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:204358698 original size:78 final size:79
Alignment explanation
Indices: 204358564--204358744 Score: 244
Period size: 78 Copynumber: 2.3 Consensus size: 79
204358554 TCGAATGATG
*
204358564 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
204358629 TGCGAGTTACTA-A
66 TGCGAGTTACTATA
* * **
204358642 TTCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCAT
204358704 TTGTGCGAGTTACTATA
63 TTGTGCGAGTTACTATA
* *
204358721 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
204358745 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
77 7 0.08
78 60 0.66
79 24 0.26
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:204366845 original size:77 final size:80
Alignment explanation
Indices: 204366711--204366890 Score: 235
Period size: 77 Copynumber: 2.3 Consensus size: 80
204366701 TCGAATGATG
* *
204366711 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
204366776 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * **
204366790 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTA-TAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
204366851 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
204366868 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
204366891 TTGAACGAGT
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
76 1 0.01
77 47 0.53
78 16 0.18
79 14 0.16
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:204366900 original size:40 final size:39
Alignment explanation
Indices: 204366712--204366893 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
204366702 CGAATGATGT
* *
204366712 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
204366751 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
204366792 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTA-TAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
204366828 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
204366869 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
204366894 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
37 12 0.10
38 21 0.17
39 20 0.16
40 59 0.48
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:204369800 original size:27 final size:27
Alignment explanation
Indices: 204369754--204370060 Score: 323
Period size: 27 Copynumber: 11.4 Consensus size: 27
204369744 GAAGTTAATA
* *
204369754 TAGGGT-AAATAACTGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATACCCTTG
*
204369780 TAGGGTAAAATGACCGCAATACCCTTG
1 TAGGGTAAAATGACCGTAATACCCTTG
*
204369807 TAGGGTAAAATGACCGCAATA-CCTCTG
1 TAGGGTAAAATGACCGTAATACCCT-TG
*
204369834 TAGGGTAAAATGACCATAATA-CCTCTG
1 TAGGGTAAAATGACCGTAATACCCT-TG
* *
204369861 TAAGGTAAAATGACAGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATACCCTTG
* *
204369888 TAGGGTAAAATGATCATAATACCCTTG
1 TAGGGTAAAATGACCGTAATACCCTTG
* * *
204369915 TAGGGTAAAATGACCGTAATGCCCCTA
1 TAGGGTAAAATGACCGTAATACCCTTG
* * * *
204369942 TAGGGCAAAATGACCGTAATGCCCCTA
1 TAGGGTAAAATGACCGTAATACCCTTG
* * *
204369969 TAGGGCAAAATGACCGTAATACCCCTA
1 TAGGGTAAAATGACCGTAATACCCTTG
* * * *
204369996 CAGGGTAAAATTACCGTAATGCCCTTA
1 TAGGGTAAAATGACCGTAATACCCTTG
* * * *
204370023 TAGGGTGAAATGACTGTAATACCCCTC
1 TAGGGTAAAATGACCGTAATACCCTTG
*
204370050 TAAGGTAAAAT
1 TAGGGTAAAAT
204370061 AAAAATTATG
Statistics
Matches: 245, Mismatches: 33, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
26 9 0.04
27 233 0.95
28 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCTTG
Found at i:204370350 original size:38 final size:38
Alignment explanation
Indices: 204370308--204370389 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 38
204370298 CTGCGATATC
*
204370308 GGTGTGCTGGGTGGGTGGGTCAATTTATATCCCCACAT
1 GGTGTGCTGGCTGGGTGGGTCAATTTATATCCCCACAT
* *
204370346 GGTGTTCTGGCTGGGTGGGTCAATTTATATCCCCATAT
1 GGTGTGCTGGCTGGGTGGGTCAATTTATATCCCCACAT
204370384 GGTGTG
1 GGTGTG
204370390 TTGGTTGGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.15, C:0.17, G:0.34, T:0.34
Consensus pattern (38 bp):
GGTGTGCTGGCTGGGTGGGTCAATTTATATCCCCACAT
Found at i:204370488 original size:28 final size:28
Alignment explanation
Indices: 204370452--204370506 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
204370442 ATTACACTGT
* *
204370452 ATTGATACTATATTGGGCTTAGGCCCAC
1 ATTGATACTATATAGGGCTAAGGCCCAC
* *
204370480 ATTGTTACTGTATAGGGCTAAGGCCCA
1 ATTGATACTATATAGGGCTAAGGCCCA
204370507 GACTGTACTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (28 bp):
ATTGATACTATATAGGGCTAAGGCCCAC
Found at i:204381922 original size:40 final size:40
Alignment explanation
Indices: 204381826--204382004 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
204381816 CGAATGATAT
* * * *
204381826 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTCACTAAAA
* *
204381867 CCGGG-TCAATTCCCGAAGGCATTTGTGTGAGTCACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGTGAGTCACTAAAA
* * * * *
204381907 CCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTCACTAAAA
* * * * *
204381947 CCGGGCTAATTCCCGAAGGCAATTGTGGGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTCACTAAAA
*
204381987 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
204382005 ACAATCGAGC
Statistics
Matches: 113, Mismatches: 23, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
40 89 0.79
41 24 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTCACTAAAA
Found at i:204381960 original size:80 final size:81
Alignment explanation
Indices: 204381826--204382004 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
204381816 CGAATGATAT
* * *
204381826 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
204381891 GTGTGAGTCACCAAAA
66 GTGGGAATCACCAAAA
* * *
204381907 CCGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
204381970 TGTGGGAATCACTATAA
65 TGTGGGAATCACCAAAA
*
204381987 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
204382005 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.69
81 25 0.29
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGGGAATCACCAAAA
Found at i:204382017 original size:80 final size:80
Alignment explanation
Indices: 204381860--204382044 Score: 196
Period size: 80 Copynumber: 2.3 Consensus size: 80
204381850 GTGCTAAGTG
* * * *
204381860 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGTGAGTCACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGGGAATCACCAAAACCGGGCTAAGTCCCGAAG
* **
204381925 GCATTTATGCGAGTT
66 ACATCGATGCGAGTT
* * *
204381940 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGGGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGGGAATCACCAAAACCGGGCTAAGTCCCGAA
*
204382004 GACAATCGA-GCGAGTC
65 GAC-ATCGATGCGAGTT
* * * *
204382020 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGG
204382045 TACATGATTC
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
79 8 0.09
80 76 0.87
81 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGGGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACATCGATGCGAGTT
Found at i:204387647 original size:28 final size:27
Alignment explanation
Indices: 204387615--204387712 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 27
204387605 TCACAAATTG
*
204387615 GCACTAAGTGTGCGGGTTCAAATGTATA
1 GCACTAAGTGTGCGAGTTCAAAT-TATA
* ** *
204387643 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCAAAT-TATA
*
204387671 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTC-A-AATTATA
204387699 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
204387713 GGCTTATTAC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
28 54 0.95
29 2 0.04
30 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTCAAATTATA
Found at i:204395281 original size:28 final size:27
Alignment explanation
Indices: 204395249--204395346 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 27
204395239 TCACAAATTG
*
204395249 GCACTAAGTGTGCGGGTTCAAATGTATA
1 GCACTAAGTGTGCGAGTTCAAAT-TATA
* ** *
204395277 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCAAAT-TATA
*
204395305 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTC-A-AATTATA
204395333 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
204395347 GGCTTATTAC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
28 54 0.95
29 2 0.04
30 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTCAAATTATA
Found at i:204400471 original size:39 final size:40
Alignment explanation
Indices: 204400345--204400524 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 40
204400335 TTCGAATGAT
* * *
204400345 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* *
204400386 ATCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
204400426 AACCGGGTTAAGTCCCGAAGGCATTT-TGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
204400465 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
204400506 A-CCGGGCTATGTCCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
204400525 ACAATCGAGC
Statistics
Matches: 119, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 34 0.29
40 56 0.47
41 29 0.24
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:204400480 original size:79 final size:81
Alignment explanation
Indices: 204400347--204400524 Score: 236
Period size: 79 Copynumber: 2.2 Consensus size: 81
204400337 CGAATGATAT
* *
204400347 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
204400412 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
204400428 CCGGGTTAAGTCCCGAAGGCATTT-TGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
204400490 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
204400507 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
204400525 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
78 1 0.01
79 59 0.69
80 3 0.04
81 22 0.26
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:204400545 original size:40 final size:40
Alignment explanation
Indices: 204400467--204400550 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
204400457 GTTACTAAAT
* * *
204400467 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
204400507 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
204400547 CCGG
1 CCGG
204400551 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:204408476 original size:40 final size:40
Alignment explanation
Indices: 204408380--204408558 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
204408370 CGAATGGTAT
* * * *
204408380 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
204408421 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
204408461 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
204408501 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
204408541 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
204408559 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
40 93 0.79
41 25 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:204408521 original size:80 final size:81
Alignment explanation
Indices: 204408380--204408558 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
204408370 CGAATGGTAT
* *
204408380 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
204408445 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
204408461 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
204408524 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
204408541 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
204408559 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.69
81 26 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:204408571 original size:80 final size:80
Alignment explanation
Indices: 204408414--204408598 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
204408404 GTGCTAAGTG
* * * *
204408414 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* * * *
204408479 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTT
* * *
204408494 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
*
204408558 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTT
* * * *
204408574 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGG
204408599 TACGTGATTC
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
79 8 0.09
80 79 0.91
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTT
Found at i:204408579 original size:40 final size:40
Alignment explanation
Indices: 204408501--204408584 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
204408491 GTTACTAAAT
* * *
204408501 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
204408541 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
204408581 CCGG
1 CCGG
204408585 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:204409888 original size:18 final size:18
Alignment explanation
Indices: 204409836--204409892 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
204409826 TACTGTTTAA
* *
204409836 ACTATTACTGCACTGATT
1 ACTATTATTGCACTGTTT
*
204409854 ATTATTATTGCACTGTTT
1 ACTATTATTGCACTGTTT
*
204409872 ACTATTATTGCATTGTTT
1 ACTATTATTGCACTGTTT
204409890 ACT
1 ACT
204409893 GCTACTGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.49
Consensus pattern (18 bp):
ACTATTATTGCACTGTTT
Found at i:204418079 original size:28 final size:28
Alignment explanation
Indices: 204418014--204418084 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
204418004 ATAGTGAATC
*
204418014 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA-GTAATCAACT
204418043 CGCACACTTAGTGCTATA-TAATCAAACT
1 CGCACACTTAGTGCTATAGTAATC-AACT
204418071 CGCACACTTAGTGC
1 CGCACACTTAGTGC
204418085 CAATCTTGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 4 0.10
28 18 0.45
29 18 0.45
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGTAATCAACT
Found at i:204425141 original size:14 final size:12
Alignment explanation
Indices: 204425114--204425138 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
204425104 TATATACAAA
204425114 TATATATGTGTT
1 TATATATGTGTT
204425126 TATATATGTGTT
1 TATATATGTGTT
204425138 T
1 T
204425139 TTAATTGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TATATATGTGTT
Found at i:204425598 original size:24 final size:24
Alignment explanation
Indices: 204425571--204425686 Score: 169
Period size: 24 Copynumber: 4.8 Consensus size: 24
204425561 GAAATGACTT
* *
204425571 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGGATTTGTA
*
204425595 TGGCACTATGTGTGCGGATTAGTA
1 TGGCACTATGTGTGCGGATTTGTA
* *
204425619 TGCCACTATGTGTGCGGATTCGTA
1 TGGCACTATGTGTGCGGATTTGTA
* *
204425643 TAGCACTATGTGTGCAGATTTGTA
1 TGGCACTATGTGTGCGGATTTGTA
204425667 TGGCACTATGTGTGCGGATT
1 TGGCACTATGTGTGCGGATT
204425687 GGAATGTCAA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 81 1.00
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGTA
Found at i:204425721 original size:72 final size:73
Alignment explanation
Indices: 204425572--204425728 Score: 178
Period size: 72 Copynumber: 2.2 Consensus size: 73
204425562 AAATGACTTT
* * * * *
204425572 GGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGGATTAGTATGCCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGGATTAGAATGCCAATATCTATGCGAA
204425637 TTCGTATA
66 TTCGTATA
* * * *
204425645 -GCACTATGTGTGC-AGATTTGTATGGCACTATGTGTGCGGATTGGAATGTCAATATCTATGTGA
1 GGCACTATGTGTGCGA-ATTTGAATGGCACTATGTGTGCGGATTAGAATGCCAATATCTATGCGA
204425708 ATTAC-TA-A
65 ATT-CGTATA
*
204425716 GGCACTGTGTGTG
1 GGCACTATGTGTG
204425729 TGGGTTCACA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
71 2 0.03
72 68 0.96
73 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (73 bp):
GGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGGATTAGAATGCCAATATCTATGCGAA
TTCGTATA
Found at i:204430453 original size:23 final size:23
Alignment explanation
Indices: 204430399--204430517 Score: 213
Period size: 23 Copynumber: 5.1 Consensus size: 23
204430389 CCTAGCCTCT
204430399 TTTAATAACTGGGGCA-AAGCCC
1 TTTAATAACTGGGGCATAAGCCC
204430421 TTTTTAATAACTGGGGCATAAGCCC
1 --TTTAATAACTGGGGCATAAGCCC
204430446 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
204430469 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
204430492 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
204430515 TTT
1 TTT
204430518 TGCACTTCCT
Statistics
Matches: 94, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
23 72 0.77
24 16 0.17
25 6 0.06
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:204430590 original size:9 final size:9
Alignment explanation
Indices: 204430576--204430652 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
204430566 ATCTCGTGTG
204430576 CATATCATA
1 CATATCATA
*
204430585 CATATCATGTG
1 CATATCA--TA
204430596 CATATCATA
1 CATATCATA
* * *
204430605 CGTGTCATGTG
1 CATATCA--TA
204430616 CATATCATA
1 CATATCATA
*
204430625 CATATCATGTG
1 CATATCA--TA
204430636 CATATCATA
1 CATATCATA
204430645 CATATCAT
1 CATATCAT
204430653 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:204430595 original size:20 final size:20
Alignment explanation
Indices: 204430572--204430654 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
204430562 GAACATCTCG
204430572 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
* *
204430592 TGTGCATATCATACGTGTCA
1 TGTGCATATCATACATATCA
204430612 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
204430632 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
204430652 TGT
1 TGT
204430655 TTATCAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:204430601 original size:11 final size:11
Alignment explanation
Indices: 204430572--204430643 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
204430562 GAACATCTCG
204430572 TGTGCATATCA
1 TGTGCATATCA
*
204430583 --TACATATCA
1 TGTGCATATCA
204430592 TGTGCATATCA
1 TGTGCATATCA
* * *
204430603 --TACGTGTCA
1 TGTGCATATCA
204430612 TGTGCATATCA
1 TGTGCATATCA
*
204430623 --TACATATCA
1 TGTGCATATCA
204430632 TGTGCATATCA
1 TGTGCATATCA
204430643 T
1 T
204430644 ACATATCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:204430719 original size:25 final size:25
Alignment explanation
Indices: 204430691--204430738 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
204430681 ATGTATAAAC
* * *
204430691 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
204430716 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
204430739 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:204431962 original size:27 final size:27
Alignment explanation
Indices: 204431897--204431964 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
204431887 GGGCATATTC
*
204431897 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
204431924 GTCATTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCCTACAGGGG-TATTACG
*
204431951 GTCACTTTACCCTA
1 GTCATTTTACCCTA
204431965 ATAGGGGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:204432046 original size:27 final size:27
Alignment explanation
Indices: 204432016--204432067 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
204432006 GTAAATCAAC
204432016 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
204432043 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
204432068 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:204432166 original size:54 final size:54
Alignment explanation
Indices: 204432106--204432231 Score: 173
Period size: 54 Copynumber: 2.3 Consensus size: 54
204432096 TGTAAATCAG
*
204432106 GGGTATTTTGGTAATTTTACAAA-TTGAAGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG-AGGTATTTCGGTAATTTCACAAACCAA
* * * * *
204432160 GGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAGAGGTATTTCGGTAATTTCACAAACCAA
*
204432214 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
204432232 GTAAATCGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 61 0.97
55 2 0.03
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGAGGTATTTCGGTAATTTCACAAACCAA
Found at i:204432243 original size:27 final size:27
Alignment explanation
Indices: 204432024--204432299 Score: 150
Period size: 27 Copynumber: 10.1 Consensus size: 27
204432014 ACAAACCAAA
* * * *
204432024 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
*
204432051 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* * *
204432080 GGTATTTTTA-TAACTTTGTAAATCAGG
1 GGTA-TTTTAGTAATTTTATAAATCAAG
* * *
204432107 GGTATTTTGGTAATTTTACAAATTGAA-
1 GGTATTTTAGTAATTTTATAAA-TCAAG
** * * *
204432134 GGTATTTCGGTAATTTCACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* *
204432161 GGTATTTT-GATAATTTTACAAA-CTAGG
1 GGTATTTTAG-TAATTTTATAAATC-AAG
* *
204432188 GGTATTTTGGTAATTTTACAAA-CTAAG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* *
204432215 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
*** * *
204432242 GGTAAAATAGTAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
*** * *
204432269 GGTAAAATAGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
204432296 GGTA
1 GGTA
204432300 AAACTGTAAT
Statistics
Matches: 204, Mismatches: 34, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
26 8 0.04
27 163 0.80
28 18 0.09
29 12 0.06
30 3 0.01
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:204432245 original size:81 final size:81
Alignment explanation
Indices: 204432076--204432230 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
204432066 TTTAGAAAGT
* * *
204432076 CAAGGGTATTTTTATAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTT
1 CAAGGGTATTTTGATAACTTTGTAAAACAGGGGTATTTTGGTAATTTTACAAACTGAAGGTATTT
*
204432141 CGGTAATTTCACAAAC
66 CAGTAATTTCACAAAC
204432157 CAAGGGTATTTTGATAA-TTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAACT-AAGGGTA
1 CAAGGGTATTTTGATAACTTTGTA-AAAC-AGGGGTATTTTGGTAATTTTACAAACTGAA-GGTA
*
204432219 TTTTAGTAATTT
63 TTTCAGTAATTT
204432231 TGTAAATCGA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 2 0.03
80 8 0.12
81 56 0.85
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (81 bp):
CAAGGGTATTTTGATAACTTTGTAAAACAGGGGTATTTTGGTAATTTTACAAACTGAAGGTATTT
CAGTAATTTCACAAAC
Found at i:204432300 original size:27 final size:27
Alignment explanation
Indices: 204432222--204432355 Score: 182
Period size: 27 Copynumber: 5.0 Consensus size: 27
204432212 AAGGGTATTT
*
204432222 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
204432249 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
204432276 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
204432303 CT-GTAA-TATGTAAATCGAGGGTAAAA
1 -TAGTAATTCTGTAAATCGAGGGTAAAA
** *
204432329 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
204432356 CGGGGGTAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
26 22 0.23
27 72 0.76
28 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:204432337 original size:53 final size:55
Alignment explanation
Indices: 204432223--204432356 Score: 184
Period size: 53 Copynumber: 2.5 Consensus size: 55
204432213 AGGGTATTTT
* * *
204432223 AGTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACTAGTAATTATGTAAATCAAGGGTAAAAC
* *
204432277 AGTAATTCTATAAATCGAGGGTAAAACT-GTAA-TATGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACTAGTAATTATGTAAATCAAGGGTAAAAC
* *
204432330 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
204432357 GGGGGTAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
53 42 0.59
54 28 0.39
55 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.28
Consensus pattern (55 bp):
AGTAATTCTGTAAATCGAGGGTAAAACTAGTAATTATGTAAATCAAGGGTAAAAC
Found at i:204432363 original size:38 final size:38
Alignment explanation
Indices: 204432312--204432389 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 38
204432302 ACTGTAATAT
* * *
204432312 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
* *
204432350 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
204432388 GT
1 GT
204432390 TAAATGGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
Found at i:204432380 original size:27 final size:27
Alignment explanation
Indices: 204432350--204432417 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
204432340 TAAGTCGAGG
*
204432350 GTAAAACGGGGGTAAAATGGTAATTAT
1 GTAAATCGGGGGTAAAATGGTAATTAT
* * *
204432377 GTAAATCGAGGGTTAAATGGTAATTCT
1 GTAAATCGGGGGTAAAATGGTAATTAT
*
204432404 GTAAATCAGGGGTA
1 GTAAATCGGGGGTA
204432418 CTTTGGTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.28
Consensus pattern (27 bp):
GTAAATCGGGGGTAAAATGGTAATTAT
Found at i:204432417 original size:65 final size:64
Alignment explanation
Indices: 204432295--204432414 Score: 181
Period size: 65 Copynumber: 1.9 Consensus size: 64
204432285 TATAAATCGA
*
204432295 GGGTAAAACTGTAATATGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGG
1 GGGTAAAACTGTAATATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGG
* *
204432359 GGGTAAAA-TGGTAATTATGTAAATCGAGGGTTAAATGGTAATTCTGTAAATC-AGGG
1 GGGTAAAACT-GTAA-TATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
204432415 GTACTTTGGT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
63 1 0.02
64 16 0.31
65 34 0.67
ACGTcount: A:0.37, C:0.07, G:0.29, T:0.27
Consensus pattern (64 bp):
GGGTAAAACTGTAATATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGG
Found at i:204432444 original size:27 final size:27
Alignment explanation
Indices: 204432423--204432512 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
204432413 GGGTACTTTG
*
204432423 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
204432450 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
204432477 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
204432504 GTAATTTTA
1 GTAATTTTA
204432513 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:204432526 original size:27 final size:27
Alignment explanation
Indices: 204432423--204432527 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
204432413 GGGTACTTTG
* *
204432423 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
204432450 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
204432477 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
204432504 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
204432528 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:204436101 original size:41 final size:41
Alignment explanation
Indices: 204436056--204436173 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
204436046 TGAAAGATAA
204436056 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
204436097 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
204436127 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
204436168 ATGTAG
1 ATGTAG
204436174 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:204436112 original size:71 final size:71
Alignment explanation
Indices: 204436024--204436187 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
204436014 GAGATGTATC
204436024 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
204436089 AGGACA
66 AGGACA
204436095 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
204436160 AGGACA
66 AGGACA
204436166 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
204436188 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:204444697 original size:40 final size:40
Alignment explanation
Indices: 204444595--204444778 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
204444585 AAATTGAATG
* * * * * *
204444595 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
204444635 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
204444675 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
204444715 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
204444755 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
204444779 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:204444803 original size:80 final size:80
Alignment explanation
Indices: 204444635--204444823 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
204444625 GCTGGAAATT
* * *
204444635 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
204444700 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
204444715 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
204444778 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
204444795 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
204444824 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:204452727 original size:124 final size:121
Alignment explanation
Indices: 204452509--204452729 Score: 291
Period size: 124 Copynumber: 1.8 Consensus size: 121
204452499 AATTATGTGG
* * * *
204452509 AATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATATACCCGGGCTA
1 AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
* * * **
204452574 AGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGAA
66 AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGAA
* *
204452630 AATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCGG
1 AATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAAT-ATACCCGG
*
204452694 GCTAAGCCCCGAAGACAATTATGCTGGAAATTATAA
62 GCTAAGCCCCGAAGACAATTATGCTAGAAATTATAA
204452730 CCGGGTTAAG
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
121 15 0.18
123 29 0.35
124 40 0.48
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (121 bp):
AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGAA
Found at i:204452788 original size:40 final size:40
Alignment explanation
Indices: 204452686--204452869 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
204452676 AAATTGAATG
* * * * * *
204452686 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
204452726 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
204452766 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
204452806 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
204452846 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
204452870 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:204452894 original size:80 final size:80
Alignment explanation
Indices: 204452726--204452914 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
204452716 GCTGGAAATT
* * *
204452726 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
204452791 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
204452806 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
204452869 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
204452886 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
204452915 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:204460752 original size:40 final size:40
Alignment explanation
Indices: 204460650--204460801 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
204460640 AAATTGAATG
* * * * *
204460650 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAAGTT
* * * *
204460690 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGCAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAAGTT
* **
204460730 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGAAGTT
* * * *
204460770 AAATCTGGGCTAAGACCCTAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
204460802 AAATCGTGAT
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
39 3 0.03
40 86 0.95
41 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAAGTT
Found at i:204463784 original size:40 final size:39
Alignment explanation
Indices: 204463740--204463865 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
204463730 GGGACTCAAC
*
204463740 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
204463780 CCGGATTTAGTAACTCGCACGTATGCCATCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
* *
204463820 CTGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
204463860 CCGGAT
1 CCGGAT
204463866 ATCATTCGAA
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
40 62 0.89
41 8 0.11
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:204477026 original size:41 final size:40
Alignment explanation
Indices: 204476969--204477121 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
204476959 TCAAATGATG
* * * * *
204476969 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAATTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
204477010 TCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
204477050 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
204477090 TCCGGGTTAATTCCCGAAGGCAATTGTGCGAG
1 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAG
204477122 CTATTATAAC
Statistics
Matches: 98, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 73 0.74
41 25 0.26
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:204477066 original size:40 final size:40
Alignment explanation
Indices: 204476970--204477162 Score: 206
Period size: 40 Copynumber: 4.8 Consensus size: 40
204476960 CAAATGATGT
* * * * *
204476970 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
204477011 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
204477051 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
204477091 CCGGGTTAATTCCCGAAGGCAATTGTGCGAGCTATTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
204477131 CCGGGCTATGTCTCGAAGGCTTTTGAGCGAGT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
204477163 CGCTATATCC
Statistics
Matches: 126, Mismatches: 26, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 102 0.81
41 24 0.19
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:204477110 original size:80 final size:80
Alignment explanation
Indices: 204476970--204477162 Score: 260
Period size: 80 Copynumber: 2.4 Consensus size: 80
204476960 CAAATGATGT
* *
204476970 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCTTTTGTGC-GAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
*
204477035 GTGCGAGTTACCAAAA
65 GTGCGAGCTACCAAAA
* * * *
204477051 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTG
** *
204477116 TGCGAGCTATTATAA
66 TGCGAGCTACCAAAA
* * *
204477131 CCGGGCTATGTCTCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGT
204477163 CGCTATATCC
Statistics
Matches: 97, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 71 0.73
81 26 0.27
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTG
TGCGAGCTACCAAAA
Found at i:204480343 original size:30 final size:30
Alignment explanation
Indices: 204480307--204480370 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
204480297 AGTAGAAAAC
* *
204480307 ACACGGGCGTGTTTCTTGGCCGTGTGAGAG
1 ACACGGGCGTGTTTCTTGGCCATGAGAGAG
*
204480337 ACACGGGCGTGTTTTTTGGCCATGAGAGAG
1 ACACGGGCGTGTTTCTTGGCCATGAGAGAG
204480367 ACAC
1 ACAC
204480371 AGCCTACCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.20, G:0.36, T:0.25
Consensus pattern (30 bp):
ACACGGGCGTGTTTCTTGGCCATGAGAGAG
Found at i:204483290 original size:18 final size:18
Alignment explanation
Indices: 204483267--204483301 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
204483257 CTCAAATCTG
*
204483267 TTTTGACTCAGGTTCCTA
1 TTTTGACACAGGTTCCTA
204483285 TTTTGACACAGGTTCCT
1 TTTTGACACAGGTTCCT
204483302 GTTCTGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (18 bp):
TTTTGACACAGGTTCCTA
Found at i:204483313 original size:18 final size:18
Alignment explanation
Indices: 204483270--204483313 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
204483260 AAATCTGTTT
* *
204483270 TGACTCAGGTTCCTATTT
1 TGACACAGGTTCCTATTC
*
204483288 TGACACAGGTTCCTGTTC
1 TGACACAGGTTCCTATTC
*
204483306 TGATACAG
1 TGACACAG
204483314 CCTAAATCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (18 bp):
TGACACAGGTTCCTATTC
Found at i:204491428 original size:44 final size:46
Alignment explanation
Indices: 204491307--204491429 Score: 119
Period size: 48 Copynumber: 2.7 Consensus size: 46
204491297 CATGATATAC
* * * * *
204491307 ATAACATATATAA-AAATAAATAAATATTATATAATAAAATGTAAT
1 ATAATATATATAATTAATAAATATATAATATAAAATAAAATGTAAT
* * *
204491352 ATAAATATATAAGAATT-ATAATAGATATAATATAAAATAACATGTAA-
1 AT-AATATAT-ATAATTAATAA-ATATATAATATAAAATAAAATGTAAT
204491399 AT-ATATATATAATTAATAAATATATAATATA
1 ATAATATATATAATTAATAAATATATAATATA
204491430 TGTGAAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
44 16 0.25
45 12 0.19
46 6 0.10
47 9 0.14
48 20 0.32
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (46 bp):
ATAATATATATAATTAATAAATATATAATATAAAATAAAATGTAAT
Found at i:204491443 original size:18 final size:18
Alignment explanation
Indices: 204491355--204491458 Score: 63
Period size: 18 Copynumber: 5.8 Consensus size: 18
204491345 ATGTAATATA
*
204491355 AATATATAAGAAT-T-AT
1 AATATATAAAAATATAAT
* * *
204491371 AATAGATATAATATAAAAT
1 AATATATA-AAAATATAAT
* * *
204491390 AACATGTAAATATATATAT
1 AATATATAAAAATATA-AT
*
204491409 AAT-TAATAAATATATAAT
1 AATAT-ATAAAAATATAAT
*
204491427 -ATATGTGAAAAATATAAT
1 AATATAT-AAAAATATAAT
204491445 AATATATAAAAATA
1 AATATATAAAAATA
204491459 GTGATAATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
16 7 0.10
17 6 0.09
18 28 0.42
19 26 0.39
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.35
Consensus pattern (18 bp):
AATATATAAAAATATAAT
Found at i:204493175 original size:83 final size:83
Alignment explanation
Indices: 204493064--204493239 Score: 235
Period size: 83 Copynumber: 2.1 Consensus size: 83
204493054 ATCTGTAGCG
* * * * *
204493064 AATCATCTTGAATTTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATCTGTTCCTT
1 AATCATCTTGAGTCTATTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATCTGTTCCTT
* * * *
204493129 GTAAGCACAAGGATGCCA
66 ATAAACACAAGAATACCA
* * * *
204493147 AATTATCTTGAGTCTATTTGATAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTCTT
1 AATCATCTTGAGTCTATTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATCTGTTCCTT
204493212 ATAAACACAAGAATACCA
66 ATAAACACAAGAATACCA
204493230 AATCATCTTG
1 AATCATCTTG
204493240 GATTTGTTTC
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (83 bp):
AATCATCTTGAGTCTATTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATCTGTTCCTT
ATAAACACAAGAATACCA
Found at i:204493376 original size:119 final size:119
Alignment explanation
Indices: 204493161--204493684 Score: 818
Period size: 119 Copynumber: 4.4 Consensus size: 119
204493151 ATCTTGAGTC
* * * * * * * * *
204493161 TATTTGATAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTCTTATAAACACAAGAAT
1 TATTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAT
* * * ** *
204493226 ACCAAATCATCTTGGATTTGTTTCAGCATAAACATCTGAAGGT-TAGATCTGCTA
66 GCCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAA-GTCTAGATCTGCTG
* * *
204493280 TATTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTGAGCACAAGGAT
1 TATTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAT
204493345 GCCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTG
66 GCCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTG
204493399 TATTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAT
1 TATTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAT
204493464 GCCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTG
66 GCCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTG
* *
204493518 TATTTGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGA-TTGTTCCTTGTGAGCACAAGGAT
1 TATTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAT
204493582 GCCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTG
66 GCCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTG
** *
204493636 CCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCC
1 TATTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCC
204493685 CAAATCATCT
Statistics
Matches: 376, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
118 115 0.31
119 261 0.69
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (119 bp):
TATTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAT
GCCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTG
Found at i:204498208 original size:86 final size:86
Alignment explanation
Indices: 204498063--204498236 Score: 339
Period size: 86 Copynumber: 2.0 Consensus size: 86
204498053 TAGCACTCAT
204498063 ATCATTGATATCTAGAGACCTGTGAGGGGTATGAAAGAATATACAAAGAATGAATGAATTTGAGA
1 ATCATTGATATCTAGAGACCTGTGAGGGGTATGAAAGAATATACAAAGAATGAATGAATTTGAGA
204498128 ATGATTATTTATGTGCTATGA
66 ATGATTATTTATGTGCTATGA
204498149 ATCATTGATATCTAGAGACCTGTGAGGGGTATGAAAGAATATACAAAGAATGAATGAATTTGAGA
1 ATCATTGATATCTAGAGACCTGTGAGGGGTATGAAAGAATATACAAAGAATGAATGAATTTGAGA
*
204498214 ATGATTGTTTATGTGCTATGA
66 ATGATTATTTATGTGCTATGA
204498235 AT
1 AT
204498237 TAAAAGAATA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (86 bp):
ATCATTGATATCTAGAGACCTGTGAGGGGTATGAAAGAATATACAAAGAATGAATGAATTTGAGA
ATGATTATTTATGTGCTATGA
Found at i:204502362 original size:37 final size:37
Alignment explanation
Indices: 204502271--204502379 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
204502261 TTACCCGAAC
*
204502271 ATCTCCACATGTAGTCATC-GGTCTTACCCGGACATA
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATA
204502307 ATCT-C-CACGTAGTCATCGGGTCTTACCCGGACATA
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATA
204502342 ATCTCCACACGTAGTCATCGGGTCTTACCCGGAACATA
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGG-ACATA
204502380 TTTCCAAGTT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
34 11 0.16
35 22 0.32
36 5 0.07
37 25 0.37
38 5 0.07
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (37 bp):
ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATA
Found at i:204502474 original size:48 final size:48
Alignment explanation
Indices: 204502419--204502570 Score: 241
Period size: 48 Copynumber: 3.2 Consensus size: 48
204502409 TATTACAACA
204502419 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** * *
204502467 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTTATATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
204502515 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
204502563 TTCACATT
1 TTCACATT
204502571 CATCACATCG
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:204502615 original size:49 final size:49
Alignment explanation
Indices: 204502562--204502752 Score: 368
Period size: 49 Copynumber: 3.9 Consensus size: 49
204502552 CACACATATA
204502562 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
204502611 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
204502660 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
204502707 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
204502753 TCTCATACAT
Statistics
Matches: 140, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
47 47 0.34
49 93 0.66
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:204502745 original size:96 final size:97
Alignment explanation
Indices: 204502562--204502752 Score: 366
Period size: 96 Copynumber: 2.0 Consensus size: 97
204502552 CACACATATA
204502562 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACA
204502627 TCGGCCATTAGGCCTTATCACATATATATACAC
65 TCGGCCATTAGGCCTTATCACATATATATACAC
204502660 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
204502724 CGGCCATTAGGCCTTATCACATATATATA
66 CGGCCATTAGGCCTTATCACATATATATA
204502753 TCTCATACAT
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
96 56 0.60
98 37 0.40
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (97 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATATACAC
Found at i:204506939 original size:21 final size:21
Alignment explanation
Indices: 204506900--204506939 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
204506890 GTAATTTTGT
* * *
204506900 TTAGAACATTAATTGAATGTA
1 TTAGAACATGAAATAAATGTA
204506921 TTAGAACATGAAATAAATG
1 TTAGAACATGAAATAAATG
204506940 AAAACAACGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (21 bp):
TTAGAACATGAAATAAATGTA
Found at i:204509274 original size:18 final size:18
Alignment explanation
Indices: 204509210--204509292 Score: 55
Period size: 18 Copynumber: 4.4 Consensus size: 18
204509200 TTTAAAATGT
* *
204509210 ATAATA-ATAATATAATA
1 ATAATATATAATAAAACA
*
204509227 GATAA-ATATAGTAAAATCA
1 -ATAATATATAATAAAA-CA
204509246 ATAATATATATAATAAAACA
1 AT-A-ATATATAATAAAACA
204509266 ATAATATATTAGATAATAA-A
1 ATAATATA-TA-ATAA-AACA
204509286 ATAATAT
1 ATAATAT
204509293 GTACTACTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
17 1 0.02
18 18 0.34
19 5 0.09
20 17 0.32
21 12 0.23
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (18 bp):
ATAATATATAATAAAACA
Found at i:204509281 original size:23 final size:20
Alignment explanation
Indices: 204509209--204509292 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
204509199 ATTTAAAATG
* *
204509209 TATA-ATAATAATATAATAGA
1 TATATATAATAAAACAATA-A
* *
204509229 TAAATATAGTAAAATCAATAA
1 TATATATAATAAAA-CAATAA
204509250 TATATATAATAAAACAATAA
1 TATATATAATAAAACAATAA
204509270 TATAT-TAGATAATAA-AATAA
1 TATATATA-ATAA-AACAATAA
204509290 TAT
1 TAT
204509293 GTACTACTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.04
20 26 0.48
21 22 0.41
22 4 0.07
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (20 bp):
TATATATAATAAAACAATAA
Found at i:204511230 original size:87 final size:87
Alignment explanation
Indices: 204511084--204511316 Score: 349
Period size: 87 Copynumber: 2.7 Consensus size: 87
204511074 TCTGCTTTGA
* * * * * * *
204511084 TGAAAGTCAGATCTGCTATGTTTTCGATTTGCTCCCCGCTAATACAGAAATGCCAAATCATCTTA
1 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCCTGCCAATACAGAGATGCCAAATCATCTTA
*
204511149 GATTTGCTTCAACGTAAACACG
66 GATTTGCTTCAACCTAAACACG
* * *
204511171 TGAAAGCTAAATCAGCTATGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTA
1 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCCTGCCAATACAGAGATGCCAAATCATCTTA
204511236 GATTTGCTTCAACCTAAACACG
66 GATTTGCTTCAACCTAAACACG
* *
204511258 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGCCAGTACAGAGATGCCAAATC
1 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCCTGCCAATACAGAGATGCCAAATC
204511317 TGTTATCTTC
Statistics
Matches: 130, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 130 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (87 bp):
TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCCTGCCAATACAGAGATGCCAAATCATCTTA
GATTTGCTTCAACCTAAACACG
Found at i:204511329 original size:44 final size:44
Alignment explanation
Indices: 204511191--204511488 Score: 322
Period size: 44 Copynumber: 6.8 Consensus size: 44
204511181 ATCAGCTATG
* *
204511191 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAA--T-C-A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTA
* * ** * * *
204511231 TCTTAGATTTGCT-TCAACCTAA-ACACGTGAAAGCCAAATCAGCTA
1 TCTTCGATCTGCTCTCTGCC-AATACA-GAG-ATGCCAAATCTGCTA
* * *
204511276 TGTCTTCGATTTGCTC-CTTGCCAGTACAGAGATGCCAAATCTGTTA
1 --TCTTCGATCTGCTCTC-TGCCAATACAGAGATGCCAAATCTGCTA
204511322 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTA
*
204511366 TCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTA
*
204511410 CCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTA
* * * * *
204511454 TCTTCAATTTGTTCTCTGACAATACAAAGATGCCA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
204511489 GATCATCTTG
Statistics
Matches: 217, Mismatches: 28, Indels: 22
0.81 0.10 0.08
Matches are distributed among these distances:
39 6 0.03
40 15 0.07
41 7 0.03
44 154 0.71
45 2 0.01
46 12 0.06
47 16 0.07
48 5 0.02
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTA
Found at i:204513505 original size:43 final size:43
Alignment explanation
Indices: 204513448--204513611 Score: 274
Period size: 43 Copynumber: 3.8 Consensus size: 43
204513438 CACATAACAA
* *
204513448 CGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
1 CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
* *
204513491 CGGCACGAAGCCTGCTACGCACGAAGGCCCGAATACACATCAC
1 CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
*
204513534 CGGCACTAAGCCTGCTAGGCACGAAGGCCCAAATACACATCAC
1 CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
*
204513577 CGGTACTAAGCCTGCTAGGCACGAAGGCCCGAATA
1 CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
204513612 TAATACCAGT
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 112 1.00
ACGTcount: A:0.30, C:0.34, G:0.24, T:0.12
Consensus pattern (43 bp):
CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
Found at i:204513669 original size:38 final size:37
Alignment explanation
Indices: 204513604--204513686 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 37
204513594 GGCACGAAGG
* *
204513604 CCCGAATATAATACCAGTACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACTAAGCCTGC-GGATTTAT
* *
204513642 CCCGGATATAATACCAGCA-TGAAGCCTGCGGATTTAA
1 CCCGAATATAATACCAGCACT-AAGCCTGCGGATTTAT
*
204513679 CCCAAATA
1 CCCGAATA
204513687 CACATAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
37 14 0.37
38 24 0.63
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (37 bp):
CCCGAATATAATACCAGCACTAAGCCTGCGGATTTAT
Found at i:204514745 original size:2 final size:2
Alignment explanation
Indices: 204514733--204514771 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
204514723 CACTTTCAAA
204514733 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
204514772 CGAATTTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:204521748 original size:26 final size:26
Alignment explanation
Indices: 204521712--204521845 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
204521702 CATGAAATTC
204521712 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
204521738 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
204521764 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
204521790 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
204521814 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
204521840 TTATCA
1 TTATCA
204521846 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
24 10 0.10
25 26 0.25
26 66 0.65
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:204521836 original size:50 final size:52
Alignment explanation
Indices: 204521712--204521845 Score: 236
Period size: 50 Copynumber: 2.6 Consensus size: 52
204521702 CATGAAATTC
* *
204521712 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
204521764 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
204521814 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
204521846 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
50 35 0.44
51 13 0.16
52 32 0.40
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:204524766 original size:14 final size:13
Alignment explanation
Indices: 204524740--204524764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
204524730 CATTCTTTAT
204524740 AAAATTTTTTTTG
1 AAAATTTTTTTTG
204524753 AAAATTTTTTTT
1 AAAATTTTTTTT
204524765 TGTAAACCCA
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:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
AAAATTTTTTTTG
Found at i:204527496 original size:26 final size:26
Alignment explanation
Indices: 204527460--204527593 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
204527450 CATGAAATTC
204527460 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
204527486 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
204527512 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
204527538 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
204527562 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
204527588 TTATCA
1 TTATCA
204527594 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
24 10 0.10
25 26 0.25
26 66 0.65
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:204527584 original size:50 final size:52
Alignment explanation
Indices: 204527460--204527593 Score: 236
Period size: 50 Copynumber: 2.6 Consensus size: 52
204527450 CATGAAATTC
* *
204527460 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
204527512 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
204527562 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
204527594 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
50 35 0.44
51 13 0.16
52 32 0.40
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:204529108 original size:39 final size:39
Alignment explanation
Indices: 204528974--204529117 Score: 200
Period size: 39 Copynumber: 3.7 Consensus size: 39
204528964 ACCAGCTCGA
* * * *
204528974 AGCCTGCGAGA-CTTTAGCCCGGACATATTTCCAGCACAT
1 AGCCTGCG-GACCTTAAGTCCGGATATAATTCCAGCACAT
*
204529013 AGCCTGCGGACATTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
204529052 AGCCTGCGGACCCTAAGTCTGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
204529091 AGCCTGCGGACCTTAAGTCCAGATATA
1 AGCCTGCGGACCTTAAGTCCGGATATA
204529118 CATCACTGAA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 2 0.02
39 91 0.98
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:204537747 original size:21 final size:22
Alignment explanation
Indices: 204537721--204537765 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
204537711 CTTCTCAAGG
* *
204537721 TTTGGATCGA-AGGCTTGGATC
1 TTTGGAGCGACAGACTTGGATC
204537742 TTTGGAGCGATCAGACTTGGATC
1 TTTGGAGCGA-CAGACTTGGATC
204537765 T
1 T
204537766 AGCCATCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (22 bp):
TTTGGAGCGACAGACTTGGATC
Done.