Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 144 of 320
Found at i:47141687 original size:40 final size:40
Alignment explanation
Indices: 47141627--47141814 Score: 304
Period size: 40 Copynumber: 4.7 Consensus size: 40
47141617 GAGCATTGGA
* * *
47141627 ATATATCCGGGCTAAAACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* * *
47141667 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
47141707 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
47141747 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
47141787 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
47141815 ATGTGTTTGC
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:47155808 original size:37 final size:37
Alignment explanation
Indices: 47155749--47155894 Score: 213
Period size: 37 Copynumber: 3.9 Consensus size: 37
47155739 AGCTCAGACG
*
47155749 AAATCTCCACACGA-AGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACAC-ATAGTCATCGGGTCTTACCCGGACA
47155786 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
* * *
47155823 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
* * *
47155860 TAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGA
47155895 ATATATTTCC
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
36 1 0.01
37 101 0.99
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:47155845 original size:74 final size:74
Alignment explanation
Indices: 47155752--47155894 Score: 241
Period size: 74 Copynumber: 1.9 Consensus size: 74
47155742 TCAGACGAAA
* *
47155752 TCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACATAGTCATCGGGTCTTACC
1 TCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACATAGTCATCGGGTCTCACC
47155817 CGGACATAC
66 CGGACATAC
* * *
47155826 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTCACC
1 TCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACATAGTCATCGGGTCTCACC
47155891 CGGA
66 CGGA
47155895 ATATATTTCC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (74 bp):
TCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACATAGTCATCGGGTCTCACC
CGGACATAC
Found at i:47156178 original size:47 final size:47
Alignment explanation
Indices: 47156099--47156386 Score: 414
Period size: 47 Copynumber: 6.1 Consensus size: 47
47156089 TATATATATT
* * * * *
47156099 TCACATTGACCATTCGGCTTTACCGCATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
47156146 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
47156193 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTTGCATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
47156240 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
47156287 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
47156334 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
47156381 TCACAT
1 TCACAT
47156387 AAAATCCTAA
Statistics
Matches: 213, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 213 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:47156268 original size:22 final size:22
Alignment explanation
Indices: 47156192--47156268 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
47156182 GCTCACATTC
*
47156192 ATCACATTGGCCATTCGGCCTT
1 ATCACATAGGCCATTCGGCCTT
* ** *
47156214 ATCACATATATG-CATGTTTGCATT
1 ATCAC--ATAGGCCAT-TCGGCCTT
47156238 CATCACATAGGCCATTCGGCCTT
1 -ATCACATAGGCCATTCGGCCTT
47156261 ATCACATA
1 ATCACATA
47156269 TATGCATGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 13 0.32
23 12 0.29
24 11 0.27
25 5 0.12
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (22 bp):
ATCACATAGGCCATTCGGCCTT
Found at i:47156273 original size:141 final size:141
Alignment explanation
Indices: 47156099--47156365 Score: 489
Period size: 141 Copynumber: 1.9 Consensus size: 141
47156089 TATATATATT
* * *
47156099 TCACATTGACCATTCGGCTTTACCGCATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
47156164 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
47156229 GTTTGCATTCA
131 GTTTGCATTCA
* *
47156240 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
47156305 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
47156366 ACACATTCAC
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 121 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (141 bp):
TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
GTTTGCATTCA
Found at i:47162554 original size:25 final size:25
Alignment explanation
Indices: 47162525--47162572 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47162515 TTATAATATG
* * *
47162525 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
47162550 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
47162573 GTTTATATAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:47162623 original size:9 final size:9
Alignment explanation
Indices: 47162611--47162667 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
47162601 TTTGATAAAC
47162611 ATGATATGT
1 ATGATATGT
*
47162620 ATGATATGCAC
1 ATGATATG--T
*
47162631 ATGACATGT
1 ATGATATGT
*
47162640 ATGATATGCAC
1 ATGATATG--T
47162651 ATGATATGT
1 ATGATATGT
47162660 ATGATATG
1 ATGATATG
47162668 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:47162634 original size:20 final size:20
Alignment explanation
Indices: 47162609--47162671 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
47162599 ATTTTGATAA
47162609 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
47162629 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
47162649 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
47162669 ACA
1 ACA
47162672 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:47162753 original size:24 final size:24
Alignment explanation
Indices: 47162725--47162868 Score: 213
Period size: 24 Copynumber: 6.0 Consensus size: 24
47162715 GAGGAAGTGC
47162725 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
47162749 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47162773 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47162797 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47162820 AAGAAAGGGCTT-TGCCCCAGTTATT
1 -A-AAAGGGCTTATGCCCCAGTTATT
*
47162845 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
47162869 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
23 28 0.25
24 53 0.48
25 21 0.19
26 9 0.08
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:47163096 original size:31 final size:31
Alignment explanation
Indices: 47163061--47163124 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
47163051 CGTTTACAGT
47163061 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
47163092 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
47163123 AA
1 AA
47163125 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:47166518 original size:40 final size:40
Alignment explanation
Indices: 47166429--47166692 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
47166419 TTGAATGCTG
* *
47166429 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
47166468 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
47166508 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47166547 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47166587 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47166627 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47166668 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47166693 AACGAGGAGC
Statistics
Matches: 204, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 53 0.26
40 141 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47169417 original size:43 final size:43
Alignment explanation
Indices: 47169369--47169539 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
47169359 AACTCGTACA
* * *
47169369 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGAAATCAAATATCG
** *
47169412 ATGCC-ACTATATCAGACAAGGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-ATCCCAGACATGGTCTTACACGAAATCAAATATCG
* ** * *
47169454 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ACCG
1 ATGCCAACATCCCAGACATGGTCTTACACG-AAATC-AAATATCG
* * ** *
47169498 ATGACAACATCCTAGATGTGGTCTTACACGAAATCATATATC
1 ATGCCAACATCCCAGACATGGTCTTACACGAAATCAAATATC
47169540 AGAATCCTAT
Statistics
Matches: 100, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
42 28 0.28
43 45 0.45
44 27 0.27
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAACATCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:47171574 original size:95 final size:94
Alignment explanation
Indices: 47171433--47171662 Score: 343
Period size: 95 Copynumber: 2.4 Consensus size: 94
47171423 AAAAGGGTAA
* * * *
47171433 AATGCCGATGCCATGTCCCAGACATAGTCTCACACTGGCTCACATATTGAGGTCGATGCCATGTC
1 AATG-CGATGCCATGTTCCAAACATGGTCT-TCACTGGCTCACATATTGAGGTCGATGCCATGTC
* * *
47171498 CTAGACATGGTCTTACACTAGCTCTCATAAT
64 CCAGACATGGTCTTACACTAACTCTCATAAC
47171529 AATGTCGATGCCATGTTCCAAACATGGTCTTCACTGGCTCACATATTGAGGTCGATGCCATGTCC
1 AATG-CGATGCCATGTTCCAAACATGGTCTTCACTGGCTCACATATTGAGGTCGATGCCATGTCC
47171594 CAGACATGGTCTTACACTAACTCTCATAAC
65 CAGACATGGTCTTACACTAACTCTCATAAC
*
47171624 AATGCTGATCCCATGTTCCAAACATGGTCTTACACTGGC
1 AATGC-GATGCCATGTTCCAAACATGGTCTT-CACTGGC
47171663 CCCGTAATGT
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
94 1 0.01
95 89 0.72
96 33 0.27
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (94 bp):
AATGCGATGCCATGTTCCAAACATGGTCTTCACTGGCTCACATATTGAGGTCGATGCCATGTCCC
AGACATGGTCTTACACTAACTCTCATAAC
Found at i:47171601 original size:47 final size:48
Alignment explanation
Indices: 47171438--47171611 Score: 251
Period size: 48 Copynumber: 3.6 Consensus size: 48
47171428 GGTAAAATGC
* *
47171438 CGATGCCATGTCCCAGACATAGTCTCACACTGGCTCACATATTGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGT
* * * * * *
47171486 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAATAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGT
* *
47171534 CGATGCCATGTTCCAAACATGGTCTT-CACTGGCTCACATATTGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGT
47171581 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
47171612 AACTCTCATA
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 40 0.37
48 67 0.63
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGT
Found at i:47171649 original size:48 final size:48
Alignment explanation
Indices: 47171433--47171659 Score: 226
Period size: 48 Copynumber: 4.8 Consensus size: 48
47171423 AAAAGGGTAA
* * * * * * * *
47171433 AATGCCGATGCCATGTCCCAGACATAGTCTCACACTGGCTCACATATT
1 AATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAAT
* * *
47171481 GAGGTCGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATAAT
1 AATGTCGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATAAT
* * *
47171529 AATGTCGATGCCATGTTCCAAACATGGTCTT-CACTGGCTCACATATT
1 AATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAAT
* * * * * *
47171576 GAGGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATAAC
1 AATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAAT
*
47171624 AATG-CTGATCCCATGTTCCAAACATGGTCTTACACT
1 AATGTC-GATGCCATGTTCCAAACATGGTCTTACACT
47171660 GGCCCCGTAA
Statistics
Matches: 146, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
47 43 0.29
48 100 0.68
49 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
AATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAAT
Found at i:47172666 original size:39 final size:39
Alignment explanation
Indices: 47172595--47172741 Score: 222
Period size: 39 Copynumber: 3.7 Consensus size: 39
47172585 ACTAGCACAA
* * * *
47172595 AGCCTGCGGGACTTTAGGCCCGGATATATTTCCAGCACGT
1 AGCCTGC-GGACCTCAGGTCCGGATATGTTTCCAGCACGT
*
47172635 AGCCTACGGACCTCAGGTCCGGATATGTTTCCAGCACGT
1 AGCCTGCGGACCTCAGGTCCGGATATGTTTCCAGCACGT
*
47172674 AGCCTGCGGACCTTAGGTCCGGATATGTTTCCAGCACGT
1 AGCCTGCGGACCTCAGGTCCGGATATGTTTCCAGCACGT
*
47172713 AGCCTGCGGACCTCAGGCCCGGATATGTT
1 AGCCTGCGGACCTCAGGTCCGGATATGTT
47172742 CCAAATATCA
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 92 0.94
40 6 0.06
ACGTcount: A:0.19, C:0.29, G:0.28, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTCAGGTCCGGATATGTTTCCAGCACGT
Found at i:47180392 original size:40 final size:40
Alignment explanation
Indices: 47180348--47180441 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 40
47180338 ACTAGCACAA
** * *
47180348 AGCCTGCGGGAGTTTAGGCCCGGATATATATCCAGCACGT
1 AGCCTGCGGGACCTCAGGCCCAGATATATATCCAGCACGT
* * *
47180388 AGCCTGC-GGACCTCAGGTCCAGATATGTTTCCAGCACGT
1 AGCCTGCGGGACCTCAGGCCCAGATATATATCCAGCACGT
47180427 AGCCTGC-GGACCTCA
1 AGCCTGCGGGACCTCA
47180442 AGTCCGGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 40 0.85
40 7 0.15
ACGTcount: A:0.21, C:0.30, G:0.28, T:0.21
Consensus pattern (40 bp):
AGCCTGCGGGACCTCAGGCCCAGATATATATCCAGCACGT
Found at i:47180424 original size:39 final size:39
Alignment explanation
Indices: 47180378--47180455 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
47180368 CGGATATATA
*
47180378 TCCAGCACGTAGCCTGCGGACCTCAGGTCCAGATATGTT
1 TCCAGCACGTAGCCTGCGGACCTCAAGTCCAGATATGTT
*
47180417 TCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATGTT
1 TCCAGCACGTAGCCTGCGGACCTCAAGTCCAGATATGTT
47180456 CCAAATATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.23
Consensus pattern (39 bp):
TCCAGCACGTAGCCTGCGGACCTCAAGTCCAGATATGTT
Found at i:47183866 original size:28 final size:28
Alignment explanation
Indices: 47183834--47183898 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
47183824 ATGTACTAGA
47183834 ATACCCCTATGTATGAAAAATTACCATT
1 ATACCCCTATGTATGAAAAATTACCATT
* *
47183862 ATACCCCTATGTATGCAAAATTACCGTT
1 ATACCCCTATGTATGAAAAATTACCATT
47183890 ATACCCCTA
1 ATACCCCTA
47183899 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGAAAAATTACCATT
Found at i:47184045 original size:28 final size:27
Alignment explanation
Indices: 47184004--47184093 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 27
47183994 AGGAAGCGTC
** *
47184004 CTGGTGGCTATGCCACAAATTATCTATT
1 CTGGTGGCCCTGCCACAAA-TATCTGTT
**
47184032 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCCCTGCCACAAATATCTGTT
47184059 CTGGTGGCACC-GCCACAAAATATCTGTAT
1 CTGGTGGC-CCTGCCAC-AAATATCTGT-T
47184088 CTGGTG
1 CTGGTG
47184094 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 20 0.38
28 25 0.48
29 7 0.13
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
CTGGTGGCCCTGCCACAAATATCTGTT
Found at i:47184062 original size:27 final size:28
Alignment explanation
Indices: 47184015--47184093 Score: 90
Period size: 27 Copynumber: 2.8 Consensus size: 28
47184005 TGGTGGCTAT
* *
47184015 GCCACAAATTATCTATTCTGGTGGC-CC
1 GCCACAAAATATCTGTTCTGGTGGCACC
**
47184042 TGCCAC-GTATATCTGTTCTGGTGGCACC
1 -GCCACAAAATATCTGTTCTGGTGGCACC
47184070 GCCACAAAATATCTGTATCTGGTG
1 GCCACAAAATATCTGT-TCTGGTG
47184094 ACTCTGTCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
27 20 0.48
28 15 0.36
29 7 0.17
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (28 bp):
GCCACAAAATATCTGTTCTGGTGGCACC
Found at i:47184576 original size:18 final size:18
Alignment explanation
Indices: 47184537--47184577 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
47184527 TAATAAGGCC
* *
47184537 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
47184555 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
47184573 TTTTA
1 TTTTA
47184578 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:47191176 original size:23 final size:25
Alignment explanation
Indices: 47191136--47191184 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
47191126 AGATCCAAGG
*
47191136 TTTACCTCCTAGTTTTGGAATAAGT
1 TTTACCTCCTAGTTTTGGAAGAAGT
47191161 TTTACCT-C-AGTTTTGGAAGAAGT
1 TTTACCTCCTAGTTTTGGAAGAAGT
47191184 T
1 T
47191185 GCAAAAAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.65
24 1 0.04
25 7 0.30
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (25 bp):
TTTACCTCCTAGTTTTGGAAGAAGT
Found at i:47193501 original size:49 final size:49
Alignment explanation
Indices: 47193244--47193557 Score: 176
Period size: 46 Copynumber: 6.6 Consensus size: 49
47193234 TGTGCGCTAA
* * *
47193244 TGTAAGACATGTCTAGGACAT-GCATCAGCCACAG-T--ATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGGCATC-GACACTGATAGATGAGAGCCAG
* * * * *
47193290 TGTAAGACATGTCTGGGACAT-GCATTGGCATTG--AGACGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGGCATCGACACTGATAGATGAGAGCCAG
* * * * *
47193336 TGTAAGACATGTCTGGGACAT-GCATCGGC-CTCACGATACA-CA-AACTAG
1 TGTAAGACATGTCTGGGACATGGCATCGACACT---GATAGATGAGAGCCAG
* * * * ** * *
47193384 TGTAAGGCCTGTCTGGGACATGGCAT-TA-GCTTTTAG-TG-TA-TCAG
1 TGTAAGACATGTCTGGGACATGGCATCGACACTGATAGATGAGAGCCAG
* *
47193428 CGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGGCATCGACACTGATAGATGAGAGCCAG
* * * * *
47193477 TGTAAGACTTGTCTGGGACATGGCATCGGC-CTCGCTATATGAAAGCCAG
1 TGTAAGACATGTCTGGGACATGGCATCGACACT-GATAGATGAGAGCCAG
* * *
47193526 TGTTAGACCATGTCTGAGACATGGCGTCGACA
1 TGTAAGA-CATGTCTGGGACATGGCATCGACA
47193558 TCTTAACCCA
Statistics
Matches: 208, Mismatches: 41, Indels: 33
0.74 0.15 0.12
Matches are distributed among these distances:
44 26 0.12
45 9 0.04
46 66 0.32
47 2 0.01
48 30 0.14
49 54 0.26
50 21 0.10
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
TGTAAGACATGTCTGGGACATGGCATCGACACTGATAGATGAGAGCCAG
Found at i:47197717 original size:48 final size:48
Alignment explanation
Indices: 47197646--47197832 Score: 239
Period size: 48 Copynumber: 3.9 Consensus size: 48
47197636 AGGGTAAAAT
* * * * *
47197646 GCCGATGCCATGTCTCAGACATGGTCTTACATTGGCTCACATATTAAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAATAAG
* * * *
47197694 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAATAAG
* * * **
47197742 GCCGATGCCATGTTCCAAAAATGGTCTTACACTAGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAATAAG
*
47197790 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
47197833 TCACCCAATT
Statistics
Matches: 123, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 123 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAATAAG
Found at i:47197812 original size:96 final size:96
Alignment explanation
Indices: 47197643--47197832 Score: 265
Period size: 96 Copynumber: 2.0 Consensus size: 96
47197633 AAAAGGGTAA
* * * * *
47197643 AATGCCGATGCCATGTCTCAGACATGGTCTTACATTGGCTCACATATTAAGGCCGATGCCATGTC
1 AATGCCGATGCCATGTCTCAAAAATGGTCTTACACTAGCTCACATAATAAGGCCGATGCCATGTC
* *
47197708 CCAGACATGGTCTTACACTAGCTCTCATAAC
66 CCAAACATGGTCTTACACTAGCTCACATAAC
* **
47197739 AATGCCGATGCCATGT-TCCAAAAATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGT
1 AATGCCGATGCCATGTCT-CAAAAATGGTCTTACACTAGCTCACATAATAAGGCCGATGCCATGT
*
47197803 TCCAAACATGGTCTTACACTAGCTCACATA
65 CCCAAACATGGTCTTACACTAGCTCACATA
47197833 TCACCCAATT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 1 0.01
96 81 0.99
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (96 bp):
AATGCCGATGCCATGTCTCAAAAATGGTCTTACACTAGCTCACATAATAAGGCCGATGCCATGTC
CCAAACATGGTCTTACACTAGCTCACATAAC
Found at i:47198258 original size:24 final size:24
Alignment explanation
Indices: 47198205--47198250 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
47198195 GGTCAAACCC
47198205 GGATCAATCAAAGCAATAACTCCT
1 GGATCAATCAAAGCAATAACTCCT
47198229 GGATCAATCAAAGCAATAACTC
1 GGATCAATCAAAGCAATAACTC
47198251 TAGTATCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.24, G:0.13, T:0.20
Consensus pattern (24 bp):
GGATCAATCAAAGCAATAACTCCT
Found at i:47201304 original size:55 final size:54
Alignment explanation
Indices: 47201184--47201369 Score: 195
Period size: 55 Copynumber: 3.4 Consensus size: 54
47201174 CTATGTCTCA
47201184 ACATGGTCTTACATG-GTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 ACATGGTCTTACATGAGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* * * * *
47201237 GCATGGTCTTACATGAG-A-CCTTTGCCTTATAGAAATTTATCAATGCCATGTCTTG
1 ACATGGTCTTACATGAGTATCC-TTGCCTTAT-G-AACTCACCAATGCCATGCCTTG
* * *
47201292 ACATGGTCTTACATGA-TATCCTTGCATTA-GAAACCTTACCAATTGTCATGCCTTG
1 ACATGGTCTTACATGAGTATCCTTGCCTTATG-AA-CTCACCAA-TGCCATGCCTTG
*
47201347 GCATGGTCTTACATG-GTATCCTT
1 ACATGGTCTTACATGAGTATCCTT
47201370 AAACCCTAAT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
52 2 0.02
53 28 0.25
54 8 0.07
55 72 0.64
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
ACATGGTCTTACATGAGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
Found at i:47214110 original size:27 final size:26
Alignment explanation
Indices: 47214093--47214162 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
47214083 ATATTAAGTC
47214093 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
47214120 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
47214148 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
47214163 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:47214156 original size:28 final size:28
Alignment explanation
Indices: 47214093--47214190 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
47214083 ATATTAAGTC
*
47214093 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
47214120 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
47214148 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
47214177 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47214191 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:47222264 original size:28 final size:28
Alignment explanation
Indices: 47222200--47222298 Score: 137
Period size: 27 Copynumber: 3.5 Consensus size: 28
47222190 TATATTAAGT
*
47222200 TCGCACACTCAGTGCTATATAATC-AAC
1 TCGCACACTTAGTGCTATATAATCAAAC
47222227 TCGCACACTTAGTGCTATATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
* * *
47222255 TCGCACACTTAGTGCTGTACAATTTAAAC
1 TCGCACACTTAGTGCTATATAA-TCAAAC
*
47222284 CCGCACACTTAGTGC
1 TCGCACACTTAGTGC
47222299 CAATCTCATG
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.35
28 23 0.35
29 19 0.29
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATATAATCAAAC
Found at i:47222293 original size:29 final size:28
Alignment explanation
Indices: 47222201--47222298 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
47222191 ATATTAAGTT
* * *
47222201 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATACAATCAAACC
* *
47222228 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACC
* *
47222256 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATACAA-TCAAACC
47222285 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47222299 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACC
Found at i:47225458 original size:24 final size:24
Alignment explanation
Indices: 47225426--47225496 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
47225416 CTGACAGTAG
47225426 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
47225450 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
47225474 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
47225497 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:47225508 original size:48 final size:48
Alignment explanation
Indices: 47225426--47225519 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
47225416 CTGACAGTAG
** * *
47225426 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
47225474 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
47225520 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:47226954 original size:27 final size:26
Alignment explanation
Indices: 47226914--47227025 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
47226904 AGGAAGCGTC
* *
47226914 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCAC-ATTATCTGAT
* *
47226941 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACAT-TATCTGAT
* *
47226968 CTAGTGACACTGCCACGATTATCTGTAT
1 CTGGTGACTCTGCCAC-ATTATCTG-AT
* *
47226996 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGAT
47227022 CTGG
1 CTGG
47227026 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.68
28 16 0.22
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGAT
Found at i:47229344 original size:25 final size:25
Alignment explanation
Indices: 47229316--47229364 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
47229306 ACTCTTTATG
47229316 AGCGTCCTAATATAAGCTCTTCTTA
1 AGCGTCCTAATATAAGCTCTTCTTA
47229341 AGCGTCCTAATATAAGCTCTTCTT
1 AGCGTCCTAATATAAGCTCTTCTT
47229365 GACCTTCCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (25 bp):
AGCGTCCTAATATAAGCTCTTCTTA
Found at i:47229373 original size:25 final size:25
Alignment explanation
Indices: 47229318--47229378 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
47229308 TCTTTATGAG
*
47229318 CGTCCTAATATAAGCTCTTCTTAAG
1 CGTCCTAATATAAGCTCTTCTTAAC
*
47229343 CGTCCTAATATAAGCTCTTCTTGAC
1 CGTCCTAATATAAGCTCTTCTTAAC
* *
47229368 CTTCCTGATAT
1 CGTCCTAATAT
47229379 GGCTCACTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (25 bp):
CGTCCTAATATAAGCTCTTCTTAAC
Found at i:47233766 original size:20 final size:20
Alignment explanation
Indices: 47233729--47233767 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
47233719 AAAATATGTG
*
47233729 TATTTTGATGTTTAATGGTA
1 TATTTTGAAGTTTAATGGTA
47233749 TATTTTGCAAGTTT-ATGGT
1 TATTTTG-AAGTTTAATGGT
47233768 TAGAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.03, G:0.21, T:0.54
Consensus pattern (20 bp):
TATTTTGAAGTTTAATGGTA
Found at i:47238888 original size:2 final size:2
Alignment explanation
Indices: 47238883--47238909 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47238873 AATATATATA
47238883 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
47238910 ATACATGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:47239699 original size:40 final size:40
Alignment explanation
Indices: 47239648--47239761 Score: 169
Period size: 40 Copynumber: 2.9 Consensus size: 40
47239638 TGATACTTGA
* *
47239648 GGAATGTTATCCGGGCTTAAAGACACGCAGGCT-TCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT
*
47239688 GGAACTG-TATCCGGGCTTAAAGACCCACAGGCTATATGCT
1 GGAA-TGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
47239728 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTA
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTA
47239762 CGAGCTAGTA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
39 2 0.03
40 62 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
Found at i:47242829 original size:33 final size:33
Alignment explanation
Indices: 47242792--47242857 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
47242782 TGTGAAAAAG
47242792 AAAGACGAAACCATGAGAATGTGCATTGACTAT
1 AAAGACGAAACCATGAGAATGTGCATTGACTAT
*
47242825 AAAGACGGAACCATGAGAATGTGCATTGACTAT
1 AAAGACGAAACCATGAGAATGTGCATTGACTAT
47242858 CGTCAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (33 bp):
AAAGACGAAACCATGAGAATGTGCATTGACTAT
Found at i:47247761 original size:47 final size:47
Alignment explanation
Indices: 47247680--47248120 Score: 668
Period size: 47 Copynumber: 9.4 Consensus size: 47
47247670 AATGTGAAAG
*
47247680 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
47247728 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
47247775 GGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
47247822 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
47247869 TGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
47247916 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
47247963 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
47248010 TGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
47248057 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
47248103 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
47248121 TCCCGAAGGG
Statistics
Matches: 362, Mismatches: 30, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 349 0.96
48 12 0.03
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:47247763 original size:22 final size:22
Alignment explanation
Indices: 47247736--47247810 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
47247726 CATGTATATG
47247736 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ** *
47247758 TGTGATGAATG-TGAATAGGTGTATG
1 TGTGAT-AAGGCCGAAT-GG-CCA-A
47247783 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
47247805 TGTGAT
1 TGTGAT
47247811 GAAAGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:47247971 original size:23 final size:23
Alignment explanation
Indices: 47247898--47247972 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
47247888 CGAATGGCCA
47247898 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
* *
47247921 ATGTG-TGATAAAGCCG-A-ATGGCCA-
1 ATGTGATG--AAAG-TGAACAT-G-TAT
47247945 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
47247968 ATGTG
1 ATGTG
47247973 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 4 0.10
23 18 0.46
24 13 0.33
25 4 0.10
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (23 bp):
ATGTGATGAAAGTGAACATGTAT
Found at i:47248295 original size:37 final size:37
Alignment explanation
Indices: 47248239--47248318 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
47248229 CCGGGCTCTA
* * *
47248239 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
47248276 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
47248313 AAGACT
1 AAGACT
47248319 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:47250172 original size:40 final size:40
Alignment explanation
Indices: 47250117--47250454 Score: 613
Period size: 40 Copynumber: 8.4 Consensus size: 40
47250107 TCGAATGATG
* *
47250117 TCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
47250157 TCCGGGCTAAGTCCCGAAGAGCATTCGTACTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
47250197 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
47250237 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
47250277 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
47250317 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
47250357 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
47250397 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
47250437 TCCGGGCTAAGTCCCGAA
1 TCCGGGCTAAGTCCCGAA
47250455 TAGTGATATA
Statistics
Matches: 288, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 288 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:47250254 original size:80 final size:80
Alignment explanation
Indices: 47250117--47250647 Score: 675
Period size: 80 Copynumber: 6.3 Consensus size: 80
47250107 TCGAATGATG
* * *
47250117 TCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
* *
47250182 CGTACTAGTGATATA
66 CGTGCTAGTGATGTA
47250197 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
47250262 CGTGCTAGTGATGTA
66 CGTGCTAGTGATGTA
47250277 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
47250342 CGTGCTAGTGATGTA
66 CGTGCTAGTGATGTA
47250357 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
47250422 CGTGCTAGTGATGTA
66 CGTGCTAGTGATGTA
* * * * * * *
47250437 TCCGGGCTAAGTCCCGAATAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
1 TCCGGGCTAAGTCCCG-A-AGAG-CAT-T-CGTGCT-AGT---G-A-TGTATCCGGGCTA---A-
47250502 GTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
51 GT-TCC------------GAAGAGCATTCGTGCTAGTGATGTA
47250545 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
*
47250610 CGTGCTAGTGATATA
66 CGTGCTAGTGATGTA
* *
47250625 TCCGTGCTAAATCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
47250648 ATCATGCTGG
Statistics
Matches: 401, Mismatches: 22, Indels: 56
0.84 0.05 0.12
Matches are distributed among these distances:
80 296 0.74
81 1 0.00
82 3 0.01
83 2 0.00
84 1 0.00
85 5 0.01
86 3 0.01
89 1 0.00
90 1 0.00
91 9 0.02
92 3 0.01
93 2 0.00
94 2 0.00
95 2 0.00
96 3 0.01
97 9 0.02
98 1 0.00
99 1 0.00
102 3 0.01
103 5 0.01
104 1 0.00
105 2 0.00
106 3 0.01
107 1 0.00
108 41 0.10
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
CGTGCTAGTGATGTA
Found at i:47250459 original size:28 final size:28
Alignment explanation
Indices: 47250427--47250482 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
47250417 GCATTCGTGC
*
47250427 TAGTGATGTATCCGGGCTAAGTCCCGAA
1 TAGTGATATATCCGGGCTAAGTCCCGAA
47250455 TAGTGATATATCCGGGCTAAGTCCCGAA
1 TAGTGATATATCCGGGCTAAGTCCCGAA
47250483 GAGCATTCGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
TAGTGATATATCCGGGCTAAGTCCCGAA
Found at i:47250510 original size:40 final size:40
Alignment explanation
Indices: 47250455--47250647 Score: 332
Period size: 40 Copynumber: 4.8 Consensus size: 40
47250445 AAGTCCCGAA
*
47250455 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
1 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
*
47250495 TAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGC
1 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
47250535 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
1 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
*
47250575 TAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGC
1 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
* * *
47250615 TAGTGATATATCCGTGCTAAATCCCGAAGAGCA
1 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
47250648 ATCATGCTGG
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
Found at i:47250536 original size:108 final size:111
Alignment explanation
Indices: 47250347--47250647 Score: 446
Period size: 108 Copynumber: 2.7 Consensus size: 111
47250337 GCATTCGTGC
47250347 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
1 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
47250412 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCC-GA-A-
66 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCAGACAT
*
47250455 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
1 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
47250520 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGT
66 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCC--AGA-CA----T
* * * * *
47250573 GCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATC
1 --TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTT
47250638 CCGAAGAGCA
64 CCGAAGAGCA
47250648 ATCATGCTGG
Statistics
Matches: 174, Mismatches: 7, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
108 104 0.60
111 2 0.01
113 1 0.01
120 67 0.39
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (111 bp):
TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCAGACAT
Found at i:47250575 original size:148 final size:148
Alignment explanation
Indices: 47250307--47250602 Score: 547
Period size: 148 Copynumber: 2.0 Consensus size: 148
47250297 GCATTCGTGC
* *
47250307 TAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCC
*
47250372 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
66 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
47250437 TCCGGGCTAAGTCCCGAA
131 TCCGGGCTAAGTCCCGAA
*
47250455 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCC
47250520 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
66 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
47250585 TCCGGGCTAAGTTCCGAA
131 TCCGGGCTAAGTCCCGAA
47250603 GAGCATTCGT
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
148 143 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (148 bp):
TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCC
GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
TCCGGGCTAAGTCCCGAA
Found at i:47250584 original size:188 final size:188
Alignment explanation
Indices: 47250267--47250642 Score: 716
Period size: 188 Copynumber: 2.0 Consensus size: 188
47250257 GCATTCGTGC
*
47250267 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
47250332 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
66 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
47250397 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
131 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAA
47250455 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
47250520 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
66 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
47250585 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAA
131 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAA
47250643 GAGCAATCAT
Statistics
Matches: 184, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 184 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (188 bp):
TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAA
Found at i:47253442 original size:47 final size:47
Alignment explanation
Indices: 47253361--47253801 Score: 668
Period size: 47 Copynumber: 9.4 Consensus size: 47
47253351 AATGTGAAAG
*
47253361 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
47253409 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
47253456 GGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
47253503 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
47253550 TGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
47253597 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
47253644 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
47253691 TGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
47253738 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
47253784 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
47253802 TCCCGAAGGG
Statistics
Matches: 362, Mismatches: 30, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 349 0.96
48 12 0.03
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:47253444 original size:22 final size:22
Alignment explanation
Indices: 47253417--47253491 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
47253407 CATGTATATG
47253417 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ** *
47253439 TGTGATGAATG-TGAATAGGTGTATG
1 TGTGAT-AAGGCCGAAT-GG-CCA-A
47253464 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
47253486 TGTGAT
1 TGTGAT
47253492 GAAAGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:47253652 original size:23 final size:23
Alignment explanation
Indices: 47253579--47253653 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
47253569 CGAATGGCCA
47253579 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
* *
47253602 ATGTG-TGATAAAGCCG-A-ATGGCCA-
1 ATGTGATG--AAAG-TGAACAT-G-TAT
47253626 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
47253649 ATGTG
1 ATGTG
47253654 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 4 0.10
23 18 0.46
24 13 0.33
25 4 0.10
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (23 bp):
ATGTGATGAAAGTGAACATGTAT
Found at i:47253976 original size:37 final size:37
Alignment explanation
Indices: 47253920--47253999 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
47253910 CCGGGCTCTA
* * *
47253920 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
47253957 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
47253994 AAGACT
1 AAGACT
47254000 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:47268008 original size:37 final size:37
Alignment explanation
Indices: 47267949--47268091 Score: 232
Period size: 37 Copynumber: 3.9 Consensus size: 37
47267939 AGCTCAGACG
* *
47267949 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47267986 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47268023 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
47268060 TAATCTCCACACGTAGTCATTGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
47268092 AGAATATATT
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:47268358 original size:100 final size:96
Alignment explanation
Indices: 47268240--47268425 Score: 284
Period size: 100 Copynumber: 1.9 Consensus size: 96
47268230 GCACATCGCC
* *
47268240 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT-T-TC-T-CATACATATTTCACA
47268305 TT-GACCATTCAGCTTTACCACATATGCATATCTCA
62 TTAG-CCATTCAGCTTTACCACATATGCATATCTCA
*
47268340 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATTTCACATTAG
*
47268405 CCATTCGGCTTTACCACATAT
66 CCATTCAGCTTTACCACATAT
47268426 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
96 35 0.43
97 2 0.02
98 2 0.02
99 1 0.01
100 41 0.51
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATTTCACATTAG
CCATTCAGCTTTACCACATATGCATATCTCA
Found at i:47268368 original size:48 final size:48
Alignment explanation
Indices: 47268240--47268426 Score: 277
Period size: 48 Copynumber: 3.8 Consensus size: 48
47268230 GCACATCGCC
*
47268240 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * *
47268292 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
47268340 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
47268388 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
47268427 TGCATGTTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
48 82 0.66
49 1 0.01
51 1 0.01
52 41 0.33
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:47268475 original size:47 final size:47
Alignment explanation
Indices: 47268396--47268589 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
47268386 CATACATATT
* * * *
47268396 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
47268443 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
47268490 TCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
47268537 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
47268584 TCACAT
1 TCACAT
47268590 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:47272841 original size:69 final size:70
Alignment explanation
Indices: 47272709--47272841 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
47272699 TAGTTTATTA
* * * * *
47272709 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
47272774 CTTAG
66 CTTAG
47272779 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
47272842 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:47274681 original size:48 final size:48
Alignment explanation
Indices: 47274610--47274849 Score: 390
Period size: 48 Copynumber: 5.0 Consensus size: 48
47274600 CACAAGATTA
47274610 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
47274658 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
47274706 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
* *
47274756 AGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
47274804 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
47274850 GGAGGTGTGG
Statistics
Matches: 180, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
48 134 0.74
49 4 0.02
50 42 0.23
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:47274865 original size:98 final size:96
Alignment explanation
Indices: 47274610--47274849 Score: 390
Period size: 98 Copynumber: 2.5 Consensus size: 96
47274600 CACAAGATTA
47274610 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
47274675 AAAGCCGAATGGCTAATGTGAAATATGTATG
66 AAAGCCGAATGGCTAATGTGAAATATGTATG
* *
47274706 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTG
* *
47274771 GTAAAGCTGAATGGCTAGTGTGAAATATGTATG
64 GTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
47274804 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
47274850 GGAGGTGTGG
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
96 41 0.31
97 4 0.03
98 87 0.66
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (96 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:47275035 original size:37 final size:37
Alignment explanation
Indices: 47274985--47275099 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
47274975 ACATGAAACT
47274985 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
47275022 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
* * * *
47275059 TGGAGAT-TTTGTCCGGGTAAGACCCGATAACTTCGTG
1 TGGAAATATAT-TCCGGGTAAGACCCGATGACTACGTG
47275096 TGGA
1 TGGA
47275100 GATTTCATCT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 2 0.03
37 71 0.97
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (37 bp):
TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
Found at i:47280552 original size:23 final size:23
Alignment explanation
Indices: 47280526--47280575 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
47280516 AAACGTCAAC
* * *
47280526 AAAACAACAGTGAAATAACACCA
1 AAAACAACAATAAAATAACACAA
* *
47280549 AAAATAGCAATAAAATAACACAA
1 AAAACAACAATAAAATAACACAA
47280572 AAAA
1 AAAA
47280576 TAACCTGCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.68, C:0.16, G:0.06, T:0.10
Consensus pattern (23 bp):
AAAACAACAATAAAATAACACAA
Found at i:47280575 original size:12 final size:12
Alignment explanation
Indices: 47280538--47280579 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
47280528 AACAACAGTG
*
47280538 AAATAACACCAA
1 AAATAACACAAA
* *
47280550 AAATAGCA-ATA
1 AAATAACACAAA
47280561 AAATAACACAAA
1 AAATAACACAAA
47280573 AAATAAC
1 AAATAAC
47280580 CTGCAAAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.69, C:0.17, G:0.02, T:0.12
Consensus pattern (12 bp):
AAATAACACAAA
Found at i:47280723 original size:3 final size:3
Alignment explanation
Indices: 47280715--47280749 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
47280705 CAATCAAAGA
*
47280715 ATC ATC ATC GTC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
47280750 TCTCTCAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.31, G:0.03, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:47286898 original size:29 final size:28
Alignment explanation
Indices: 47286857--47286912 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
47286847 ATACTAAGAA
47286857 TAATAAAAATAGCTTCCATGCAAAATTT
1 TAATAAAAATAGCTTCCATGCAAAATTT
*
47286885 TAATAAAAAATAGCTTCTATGCAAAATT
1 TAAT-AAAAATAGCTTCCATGCAAAATT
47286913 CATTTAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.32
Consensus pattern (28 bp):
TAATAAAAATAGCTTCCATGCAAAATTT
Found at i:47288973 original size:37 final size:37
Alignment explanation
Indices: 47288923--47289001 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47288913 TTATTACGAA
* * *
47288923 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
47288960 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
47288997 GTCTT
1 GTCTT
47289002 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:47289270 original size:47 final size:47
Alignment explanation
Indices: 47289120--47289545 Score: 665
Period size: 47 Copynumber: 9.1 Consensus size: 47
47289110 CCCTTCGGGA
* * * * * * * *
47289120 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
47289167 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
47289213 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
47289260 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
47289307 CTTATCACATATATACACCTTCACATTCATCACATCGGCTATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
47289354 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
47289401 TTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
47289448 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
47289495 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
47289542 CTTA
1 CTTA
47289546 CTATCATTTC
Statistics
Matches: 355, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 40 0.11
47 315 0.89
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:47292302 original size:13 final size:13
Alignment explanation
Indices: 47292284--47292324 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
47292274 CTGGACTTCC
47292284 TCACACGGGCGTG
1 TCACACGGGCGTG
*
47292297 TCACACGAGCGTG
1 TCACACGGGCGTG
* *
47292310 TTACACGGTCGTG
1 TCACACGGGCGTG
47292323 TC
1 TC
47292325 CATTTGGTAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.17, C:0.29, G:0.32, T:0.22
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:47308269 original size:93 final size:93
Alignment explanation
Indices: 47308154--47308324 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
47308144 GTCCATAAGT
* * *
47308154 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAG
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
47308219 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
47308247 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47308312 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47308325 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:47308321 original size:46 final size:46
Alignment explanation
Indices: 47308145--47308321 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
47308135 ATATAACCCG
* * *
47308145 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
** *
47308191 TCCATAAGTGAACTCGGACTCAACTCAGTGAGTTCGGATGCCTAGTT-ACA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCA
* * *
47308241 T--TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
47308284 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47308322 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.59
47 27 0.25
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
Found at i:47336489 original size:26 final size:26
Alignment explanation
Indices: 47336450--47336511 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
47336440 CATATTGCTT
*
47336450 TTATGTTGTATTAGGAGATTCAGTGA
1 TTATGTTGTATTAGGAAATTCAGTGA
* *
47336476 TTATGTTGTCTTAGGAAATTTAGTGA
1 TTATGTTGTATTAGGAAATTCAGTGA
47336502 TTATGTTGTA
1 TTATGTTGTA
47336512 AGTAGTCCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (26 bp):
TTATGTTGTATTAGGAAATTCAGTGA
Found at i:47364628 original size:29 final size:28
Alignment explanation
Indices: 47364585--47364662 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
47364575 TCATGAGATT
47364585 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
47364615 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
47364642 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
47364663 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:47364928 original size:174 final size:175
Alignment explanation
Indices: 47364615--47364944 Score: 547
Period size: 174 Copynumber: 1.9 Consensus size: 175
47364605 AAATTGTACA
* *
47364615 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
47364680 TGTGCGAACCCAATATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTC
66 CGTGCGAACCC-ATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
*
47364745 GATTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 AATTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
47364792 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
47364857 CGTGC-AACCC-TATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
66 CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
47364920 ATTTTGGACAGCGGAAAAGGTAAGT
131 ATTTTGGACAGCGGAAAAGGTAAGT
47364945 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
173 11 0.08
174 65 0.45
176 5 0.03
177 63 0.44
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (175 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:47372707 original size:29 final size:28
Alignment explanation
Indices: 47372664--47372741 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
47372654 TCATGAGATT
47372664 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
47372694 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
47372721 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
47372742 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:47373013 original size:174 final size:175
Alignment explanation
Indices: 47372694--47373023 Score: 538
Period size: 174 Copynumber: 1.9 Consensus size: 175
47372684 AAATTGTACA
* *
47372694 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
47372759 TGTGCAAACCCAATATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTC
66 CGTGCAAACCC-ATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
*
47372824 GATTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 AATTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
47372871 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
47372936 CGTGC-AACCC-TATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACTGAGTCA
66 CGTGCAAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
47372999 ATTTTGGACAGCGGAAAAGGTAAGT
131 ATTTTGGACAGCGGAAAAGGTAAGT
47373024 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
173 11 0.08
174 64 0.45
176 5 0.03
177 63 0.44
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (175 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
CGTGCAAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:47378371 original size:29 final size:28
Alignment explanation
Indices: 47378328--47378405 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
47378318 TCATGAGATT
47378328 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
47378358 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
47378385 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
47378406 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:47378671 original size:174 final size:175
Alignment explanation
Indices: 47378358--47378687 Score: 547
Period size: 174 Copynumber: 1.9 Consensus size: 175
47378348 AAATTGTACA
* *
47378358 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
47378423 TGTGCGAACCCAATATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTC
66 CGTGCGAACCC-ATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
*
47378488 GATTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 AATTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
47378535 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
47378600 CGTGC-AACCC-TATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
66 CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
47378663 ATTTTGGACAGCGGAAAAGGTAAGT
131 ATTTTGGACAGCGGAAAAGGTAAGT
47378688 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
173 11 0.08
174 65 0.45
176 5 0.03
177 63 0.44
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (175 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:47381180 original size:6 final size:6
Alignment explanation
Indices: 47381140--47381179 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
47381130 TAGTAAGCAA
* *
47381140 CAAAAA CAAAAG CAAAAG CAAAAG CAAAAG AAAAAG -AAAA
1 CAAAAG CAAAAG CAAAAG CAAAAG CAAAAG CAAAAG CAAAA
47381180 AATGAAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.75, C:0.12, G:0.12, T:0.00
Consensus pattern (6 bp):
CAAAAG
Found at i:47388753 original size:27 final size:27
Alignment explanation
Indices: 47388723--47388899 Score: 160
Period size: 27 Copynumber: 6.5 Consensus size: 27
47388713 AAATTGTACA
* *
47388723 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* **
47388750 GCACTCAGTGTGCGAAATGTA-TATGAT-
1 GCACTAAGTGTGCGATTTG-ACTATG-TG
* * *
47388777 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
47388804 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
47388832 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
47388859 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
47388886 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
47388900 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.80
28 24 0.20
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:47388863 original size:82 final size:81
Alignment explanation
Indices: 47388723--47388878 Score: 199
Period size: 82 Copynumber: 1.9 Consensus size: 81
47388713 AAATTGTACA
* * * *
47388723 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGTATATGATGCACTAAGTGT
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGTATACGATGCACTAAGTGT
47388788 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* **
47388804 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTG-ATTACG-TGGCACTAAG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGTA-TACGAT-GCACTAAG
*
47388867 TGTGCGAGTTGA
63 TGTGCGAATTGA
47388879 TTATATAGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
81 16 0.25
82 48 0.75
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGTATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47388890 original size:82 final size:81
Alignment explanation
Indices: 47388719--47388899 Score: 195
Period size: 82 Copynumber: 2.2 Consensus size: 81
47388709 GATTAAATTG
* * * * *
47388719 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGTATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGTATACGATGCACTAA
47388784 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
47388800 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTG-ATTACG-TGGCAC
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGTA-TACGAT-GCAC
* **
47388863 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
47388882 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47388900 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGTATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47390889 original size:30 final size:30
Alignment explanation
Indices: 47390853--47390928 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
47390843 TGGTAAAACG
47390853 ACCATTTTGCCCCTAGACTTTAACAAAATA
1 ACCATTTTGCCCCTAGACTTTAACAAAATA
*
47390883 ACCATTTTGCCCCTAGACTTTAACAAAATG
1 ACCATTTTGCCCCTAGACTTTAACAAAATA
*
47390913 ACCATTTTCCCCCTAG
1 ACCATTTTGCCCCTAG
47390929 GCTCAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (30 bp):
ACCATTTTGCCCCTAGACTTTAACAAAATA
Found at i:47393006 original size:30 final size:30
Alignment explanation
Indices: 47392970--47393045 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
47392960 TGGTAAAACG
47392970 ACCATTTTGCCCCTAGACTTTAACAAAATA
1 ACCATTTTGCCCCTAGACTTTAACAAAATA
*
47393000 ACCATTTTGCCCCTAGACTTTAACAAAATG
1 ACCATTTTGCCCCTAGACTTTAACAAAATA
*
47393030 ACCATTTTCCCCCTAG
1 ACCATTTTGCCCCTAG
47393046 GCTCAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (30 bp):
ACCATTTTGCCCCTAGACTTTAACAAAATA
Found at i:47401230 original size:27 final size:27
Alignment explanation
Indices: 47401200--47401350 Score: 153
Period size: 27 Copynumber: 5.6 Consensus size: 27
47401190 AAATTGTACA
* *
47401200 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* **
47401227 GCACTCAGTGTGCGAAATGTA-TATGAT-
1 GCACTAAGTGTGCGATTTG-ACTATG-TG
* * *
47401254 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
47401281 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
47401309 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
47401336 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
47401351 GCTGATTATA
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 77 0.75
28 24 0.24
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:47401340 original size:82 final size:81
Alignment explanation
Indices: 47401200--47401350 Score: 198
Period size: 82 Copynumber: 1.9 Consensus size: 81
47401190 AAATTGTACA
* * * *
47401200 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGTATATGATGCACTAAGTGT
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGTATACGATGCACTAAGTGT
47401265 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* **
47401281 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTG-ATTACG-TGGCACTAAG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGTA-TACGAT-GCACTAAG
47401344 TGTGCGA
63 TGTGCGA
47401351 GCTGATTATA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
81 16 0.27
82 44 0.73
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGTATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47401356 original size:27 final size:27
Alignment explanation
Indices: 47401199--47401376 Score: 126
Period size: 27 Copynumber: 6.6 Consensus size: 27
47401189 TAAATTGTAC
* ** *
47401199 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGCTGATTATGT
* * **
47401226 TGCACTCAGTGTGCGAAATG-TATATG-
1 AGCACTAAGTGTGCGAGCTGAT-TATGT
** ** *
47401252 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGCTGATTATGT
* *
47401280 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGAG-CTGATTATGT
** *
47401308 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGCTGATTATGT
* *
47401335 GGCACTAAGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGCTGATTATGT
*
47401362 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47401377 GGCTCAATAT
Statistics
Matches: 118, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
27 96 0.81
28 22 0.19
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTGATTATGT
Found at i:47401387 original size:27 final size:27
Alignment explanation
Indices: 47401281--47401387 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
47401271 TGACCATGCG
* * *
47401281 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * ** *
47401309 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
47401336 GCACTAAGTGTGCGAGCTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
47401363 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
47401388 CATTCGTGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
27 50 0.77
28 15 0.23
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:47402919 original size:92 final size:93
Alignment explanation
Indices: 47402803--47402972 Score: 236
Period size: 92 Copynumber: 1.8 Consensus size: 93
47402793 AGCATATCTG
47402803 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACACATC-T-CGTAGCCGATGCATGTCCCA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACAC-TCATACGTAGCCGATGCATGTCCCA
47402866 GACATGTCTTACATTGGCACTCGTCTCAA
65 GACATGTCTTACATTGGCACTCGTCTCAA
* * * * * * * *
47402895 TGCCGATGCTATGTCCTAGACATGGTCTTTCACTGGCTCTCATAATGTGGCCGATGCATGTCTCA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACACTCAT-ACGTAGCCGATGCATGTCCCA
47402960 GACATGTCTTACA
65 GACATGTCTTACA
47402973 CTAGCTCACA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 2 0.03
92 35 0.52
94 30 0.45
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (93 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACACTCATACGTAGCCGATGCATGTCCCAG
ACATGTCTTACATTGGCACTCGTCTCAA
Found at i:47403367 original size:30 final size:30
Alignment explanation
Indices: 47403331--47403406 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
47403321 TGGTAAAACG
47403331 ACCATTTTGCCCCTAGACTTTAACAAAATA
1 ACCATTTTGCCCCTAGACTTTAACAAAATA
*
47403361 ACCATTTTGCCCCTAGACTTTAACAAAATG
1 ACCATTTTGCCCCTAGACTTTAACAAAATA
*
47403391 ACCATTTTCCCCCTAG
1 ACCATTTTGCCCCTAG
47403407 GCTCAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (30 bp):
ACCATTTTGCCCCTAGACTTTAACAAAATA
Found at i:47410562 original size:18 final size:18
Alignment explanation
Indices: 47410536--47410574 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
47410526 AATCAAAATT
47410536 TAAAAATCAAAATTAAAC
1 TAAAAATCAAAATTAAAC
* *
47410554 TAAAGATCAAATTTAAAC
1 TAAAAATCAAAATTAAAC
47410572 TAA
1 TAA
47410575 TTACAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAAAATCAAAATTAAAC
Found at i:47410593 original size:17 final size:18
Alignment explanation
Indices: 47410562--47410599 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
47410552 ACTAAAGATC
47410562 AAATTTAAACTAATTACA
1 AAATTTAAACTAATTACA
* *
47410580 AAATTTTAAC-AATTTCA
1 AAATTTAAACTAATTACA
47410597 AAA
1 AAA
47410600 ATAATTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTTAAACTAATTACA
Found at i:47417717 original size:38 final size:38
Alignment explanation
Indices: 47417666--47417743 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
47417656 TGGCTTTCTT
47417666 TATGCGAATATTACATATTTTGCAGGATATAGAAAACA
1 TATGCGAATATTACATATTTTGCAGGATATAGAAAACA
*
47417704 TATGCGAATATTACATATTTTGTAGGATATAGAAAACA
1 TATGCGAATATTACATATTTTGCAGGATATAGAAAACA
47417742 TA
1 TA
47417744 CATTGGTCGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (38 bp):
TATGCGAATATTACATATTTTGCAGGATATAGAAAACA
Found at i:47437451 original size:68 final size:66
Alignment explanation
Indices: 47437306--47437465 Score: 173
Period size: 68 Copynumber: 2.4 Consensus size: 66
47437296 ACTATTTTCG
* * *
47437306 GAATCACACATGGTGTCCTAGCTACATTTATCTTGTAGCTCTCTTGTCTACATGGTGTCCTTCAC
1 GAATCACACAT-GTGACCTAGCTACATTTATCTTGTAGCTCTCTTGTCTACATGGTGTACATCAC
*
47437371 TTG
65 -TC
*
47437374 GAATCACACATGCGACCTAGCTACATTTATCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACA
1 GAATCACACATGTGACCTAGCTACATTTATCT-T---GTAGCTCTCTTGTCTACATGGTG-TACA
47437438 TC-C-C
61 TCACTC
* *
47437442 GTATCACACATGTGACCTAACTAC
1 GAATCACACATGTGACCTAGCTAC
47437466 TGCATAGTAT
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
67 19 0.24
68 33 0.42
70 2 0.03
71 25 0.32
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (66 bp):
GAATCACACATGTGACCTAGCTACATTTATCTTGTAGCTCTCTTGTCTACATGGTGTACATCACT
C
Found at i:47440525 original size:12 final size:12
Alignment explanation
Indices: 47440508--47440533 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47440498 TCCCCAACAT
47440508 ATTCCTTTTGAA
1 ATTCCTTTTGAA
47440520 ATTCCTTTTGAA
1 ATTCCTTTTGAA
47440532 AT
1 AT
47440534 AGGTCACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (12 bp):
ATTCCTTTTGAA
Found at i:47442259 original size:41 final size:39
Alignment explanation
Indices: 47442153--47442260 Score: 112
Period size: 37 Copynumber: 2.8 Consensus size: 39
47442143 CGGATAGTTT
* **
47442153 GAAGCAATAGTTGACACCCAGTGTCTCATCGGTCTAGCC
1 GAAGTAATAGTTGACACCCAGTGTCTCATCAATCTAGCC
** ** *
47442192 GAAGTAA-AG-TGGTACCCAGTACCTCATCAAATCTATCC
1 GAAGTAATAGTTGACACCCAGTGTCTCATC-AATCTAGCC
47442230 GAAGTAATAGTATGACACCCAGTGTCTCATC
1 GAAGTAATAGT-TGACACCCAGTGTCTCATC
47442261 GACTCGAGGT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
37 15 0.28
38 15 0.28
39 8 0.15
41 15 0.28
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (39 bp):
GAAGTAATAGTTGACACCCAGTGTCTCATCAATCTAGCC
Found at i:47443313 original size:12 final size:12
Alignment explanation
Indices: 47443298--47443328 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
47443288 TTGTCTTTTA
47443298 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
47443310 TTTTTCTTTCTC
1 TTTTTCTTTCCC
47443322 TTTTTCT
1 TTTTTCT
47443329 CCCTTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:47443858 original size:3 final size:3
Alignment explanation
Indices: 47443850--47443880 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
47443840 TTAATTTATT
*
47443850 TAA TAA TAA TAC TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
47443881 CTAATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:47444158 original size:19 final size:19
Alignment explanation
Indices: 47444134--47444172 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
47444124 TTAAACACAC
47444134 TACTAGACTTATAATTATT
1 TACTAGACTTATAATTATT
47444153 TACTAGACTTATAATTATT
1 TACTAGACTTATAATTATT
47444172 T
1 T
47444173 CTAATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (19 bp):
TACTAGACTTATAATTATT
Found at i:47445971 original size:31 final size:31
Alignment explanation
Indices: 47445933--47445998 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
47445923 TATACGAGTA
* *
47445933 AATTTAACTTAATTTAATAAAATTCACAGTT
1 AATTTAACTCAATTTAATAAAATTCACAGTC
47445964 AATTTAACTCAATTTAATAAAATTCACAGTC
1 AATTTAACTCAATTTAATAAAATTCACAGTC
47445995 AATT
1 AATT
47445999 CCATCCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.39
Consensus pattern (31 bp):
AATTTAACTCAATTTAATAAAATTCACAGTC
Found at i:47446444 original size:21 final size:21
Alignment explanation
Indices: 47446418--47446467 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
47446408 AGCAGTGGCG
*
47446418 GTGAGATTCGTTATTGTAGTA
1 GTGAGATTCGATATTGTAGTA
* *
47446439 GTGAGATTGGATATTGTAGTG
1 GTGAGATTCGATATTGTAGTA
47446460 GTGAGATT
1 GTGAGATT
47446468 AAAAACAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.02, G:0.34, T:0.40
Consensus pattern (21 bp):
GTGAGATTCGATATTGTAGTA
Found at i:47449175 original size:53 final size:53
Alignment explanation
Indices: 47448999--47449246 Score: 194
Period size: 53 Copynumber: 4.8 Consensus size: 53
47448989 ATTAGGGTTT
* * *
47448999 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCA-AGGT---TTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * * * *
47449047 AAGGAAATCATGTAATACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGG-C
* * *
47449103 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * *
47449155 AAGGCTACCATGTAAAACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * * *
47449204 AAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
47449247 GTACCCGTGT
Statistics
Matches: 160, Mismatches: 30, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
48 29 0.18
49 39 0.24
51 1 0.01
52 8 0.05
53 41 0.26
54 1 0.01
55 37 0.23
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:47449198 original size:108 final size:103
Alignment explanation
Indices: 47449009--47449199 Score: 274
Period size: 108 Copynumber: 1.8 Consensus size: 103
47448999 AAGGATACCG
* *
47449009 TGTAAGACCATGCCAAGGCATGGCAAGGTTTCTAAGGCAAGGAAATCATGTAATACCATGTCAAG
1 TGTAAGACCATGCCAAGGCATGGCAAGGTTTCTAAGGCAAGGAAACCATGTAAAACCATGTCAAG
*
47449074 ACATGGCATTGATAAGTTACTATAAGGAAAAGGTCCCA
66 ACATGGCAATGATAAGTTACTATAAGGAAAAGGTCCCA
* **
47449112 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGCTACCATGTAAAACCATG
1 TGTAAGACCATGCCAAGGCATGGCA-AGGT---TTC-TAAGGCAAGGAAACCATGTAAAACCATG
*
47449177 TCAAGACATGGCAATGGTAAGTT
61 TCAAGACATGGCAATGATAAGTT
47449200 TCAAAAGGAT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
103 25 0.33
104 3 0.04
107 3 0.04
108 45 0.59
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (103 bp):
TGTAAGACCATGCCAAGGCATGGCAAGGTTTCTAAGGCAAGGAAACCATGTAAAACCATGTCAAG
ACATGGCAATGATAAGTTACTATAAGGAAAAGGTCCCA
Found at i:47449459 original size:16 final size:16
Alignment explanation
Indices: 47449438--47449468 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47449428 ATAAATTTGA
47449438 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
47449454 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
47449469 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:47456722 original size:46 final size:46
Alignment explanation
Indices: 47456657--47456944 Score: 281
Period size: 46 Copynumber: 6.0 Consensus size: 46
47456647 TTATCTTTGA
* * * * *
47456657 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* ** *
47456703 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * **
47456749 CACGCTGCCATGGTATCTTTCGACCATGGTCTTACAAATTTCATAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
47456795 CAAGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * *
47456841 CAGGTTGCCATGGTATCTTTCAACCATGGCCTTACATGGTCTTACACATTTCATAT
1 CATGCTGCCATGGTATCTTTC-A--A----C---CATGGTCTTACTCATTTCATAT
* * *
47456897 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
47456943 CA
1 CA
47456945 GAGAGTACAT
Statistics
Matches: 212, Mismatches: 19, Indels: 22
0.84 0.08 0.09
Matches are distributed among these distances:
45 4 0.02
46 159 0.75
47 1 0.00
49 2 0.01
53 2 0.01
55 1 0.00
56 43 0.20
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:47456854 original size:30 final size:30
Alignment explanation
Indices: 47456818--47456910 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
47456808 TATCTTTCAA
47456818 CCATGGTCTTACACATTTCATATCAGGTTG
1 CCATGGTCTTACACATTTCATATCAGGTTG
* *
47456848 CCATGG---TA-TC-TTTCA-ACCATGGCCTT-
1 CCATGGTCTTACACATTTCATATCA-GG--TTG
*
47456874 ACATGGTCTTACACATTTCATATCAGGTTG
1 CCATGGTCTTACACATTTCATATCAGGTTG
47456904 CCATGGT
1 CCATGGT
47456911 ATCTTTCAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 20
0.64 0.08 0.27
Matches are distributed among these distances:
24 3 0.06
25 7 0.15
26 6 0.13
27 4 0.09
29 4 0.09
30 13 0.28
31 7 0.15
32 3 0.06
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (30 bp):
CCATGGTCTTACACATTTCATATCAGGTTG
Found at i:47456905 original size:56 final size:56
Alignment explanation
Indices: 47456819--47456932 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
47456809 ATCTTTCAAC
47456819 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTA
1 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTA
*
47456875 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTA
47456931 CA
1 CA
47456933 CATTTCATAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (56 bp):
CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTA
Found at i:47458902 original size:20 final size:21
Alignment explanation
Indices: 47458873--47458913 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
47458863 ACATATTTGA
47458873 TTTTCCCTTTTT-TTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
*
47458893 TTTTCTCTTTTTCTTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
47458914 CTTCCCCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTCCCTTTTTCTTTCTTTC
Found at i:47459138 original size:30 final size:33
Alignment explanation
Indices: 47459098--47459161 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 33
47459088 TGTCATTATT
47459098 TAATATATTT-ATCATATAAA-ATCT-TATAATA
1 TAATATATTTAATCA-ATAAATATCTATATAATA
*
47459129 TAAT-TATTTAATTAATAAATATCTATATAATA
1 TAATATATTTAATCAATAAATATCTATATAATA
47459161 T
1 T
47459162 CTAATACATG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 10 0.34
31 11 0.38
32 8 0.28
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (33 bp):
TAATATATTTAATCAATAAATATCTATATAATA
Found at i:47468470 original size:20 final size:20
Alignment explanation
Indices: 47468442--47468479 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47468432 AATCGATAAA
* *
47468442 TTAGGAAATTTTTGAAAAAC
1 TTAGAAAATTTTTCAAAAAC
47468462 TTAGAAAATTTTTCAAAA
1 TTAGAAAATTTTTCAAAA
47468480 TACAGGGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGAAAATTTTTCAAAAAC
Found at i:47470749 original size:14 final size:15
Alignment explanation
Indices: 47470725--47470753 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47470715 TACTAATTAC
47470725 TATATTAACCTTTAA
1 TATATTAACCTTTAA
47470740 TATA-TAACCTTTAA
1 TATATTAACCTTTAA
47470754 AACCATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATTAACCTTTAA
Found at i:47475177 original size:50 final size:50
Alignment explanation
Indices: 47475058--47475353 Score: 278
Period size: 50 Copynumber: 5.9 Consensus size: 50
47475048 ATTGTGAGAA
* * ** *
47475058 CACATGTGTAGTACTATGTGCAGGCTA-TAATGTGT-TTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACT-ACGTGTACCAA-ATAG-TTT-GGT
*
47475110 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGT
* * * * * ***
47475160 CGCATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCCGACA-ACTTCAAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AAATAGTTTGGT
* * * * * *
47475211 CACGTGTGTATTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGT
47475261 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAACT--TTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAA-TAGTTTGGT
* * * *
47475310 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
47475354 CTTCGGTTAT
Statistics
Matches: 200, Mismatches: 36, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.00
49 44 0.22
50 76 0.38
51 41 0.20
52 35 0.17
53 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGT
Found at i:47475236 original size:101 final size:101
Alignment explanation
Indices: 47475109--47475353 Score: 316
Period size: 101 Copynumber: 2.4 Consensus size: 101
47475099 TGGTTTTAGG
* *
47475109 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
47475174 TAAGTGCAGGCTACTATGAGTACCCGACAACTTCAA
66 TAAGTGCAGGCTACTATGAGTACCCGACAACTTCAA
* * * *
47475210 TCACGTGTGTATTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
* * ***
47475275 TAAGTGCAGGCTACTACGTGTA-CC-A-AACTTTTGG
66 TAAGTGCAGGCTACTATGAGTACCCGACAAC-TTCAA
* * * * *
47475309 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
47475354 CTTCGGTTAT
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
98 3 0.02
99 41 0.33
100 2 0.02
101 79 0.63
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGAGTACCCGACAACTTCAA
Found at i:47484105 original size:27 final size:27
Alignment explanation
Indices: 47484047--47484226 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
47484037 ATATTGAGCC
* * *
47484047 CGCACACTCAGTGCTATATATAATCAACT
1 CGCACACTTAGTGC--TACATAATCAAAT
*
47484076 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
47484103 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** * *
47484131 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
47484158 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* * *
47484185 CGCACACTTAGTGCAACATAGTCAAAC
1 CGCACACTTAGTGCTACATAATCAAAT
47484212 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47484227 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 92 0.72
28 23 0.18
29 13 0.10
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:47484141 original size:55 final size:55
Alignment explanation
Indices: 47484047--47484226 Score: 202
Period size: 55 Copynumber: 3.3 Consensus size: 55
47484037 ATATTGAGCC
* * * * *
47484047 CGCACACTCAGTGCTATATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATAGTCAACTCGCACACTTAGTGCAACATAATCAAAT
** * *
47484103 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTATCATAGTC-AACTCGCACACTTAGTGCAACATAATCAAAT
* ** * *
47484158 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAC
1 CGCACACTTAGTGCTATCATAGTCAACTCGCACACTTAGTGCAACATAATCAAAT
47484212 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47484227 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
54 43 0.41
55 46 0.44
56 15 0.14
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATAGTCAACTCGCACACTTAGTGCAACATAATCAAAT
Found at i:47484164 original size:82 final size:81
Alignment explanation
Indices: 47484069--47484225 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 81
47484059 GCTATATATA
* *
47484069 ATCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCG
1 ATCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CG
47484133 CACACTTAGTGCCGCATG
64 CACACTTAGTGCCGCATG
* * **
47484151 ATCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCA
1 ATCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
47484216 CACTTAGTGC
66 CACTTAGTGC
47484226 TGTACAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 53 0.78
83 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
CACTTAGTGCCGCATG
Found at i:47492008 original size:26 final size:27
Alignment explanation
Indices: 47491961--47492135 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
47491951 ATATTGAGCC
* *
47491961 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
47491988 CGCACA-TTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
47492014 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
47492042 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
47492069 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
47492096 CGCACACTTAGTGCAACA-AGT-AAAT
1 CGCACACTTAGTGCTACATAATCAACT
47492121 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47492136 GTACAATTTA
Statistics
Matches: 123, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
25 16 0.13
26 24 0.20
27 60 0.49
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Done.