Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 80 of 433
Found at i:23500377 original size:3 final size:3
Alignment explanation
Indices: 23500362--23500410 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
23500352 TGTTAAAATA
* *
23500362 TAT TAT TA- GAT TAT TAT TAT TAT TA- TAT TA- AAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23500406 TAT TA
1 TAT TA
23500411 AATAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.16
3 32 0.84
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:23500418 original size:24 final size:24
Alignment explanation
Indices: 23500373--23500418 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
23500363 ATTATTAGAT
* *
23500373 TATTATTATTATTATATTAAATTA
1 TATTATTATTATTAAATAAAATTA
23500397 TATTATTATTATTAAATAAAAT
1 TATTATTATTATTAAATAAAAT
23500419 AAATAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTATTATTATTAAATAAAATTA
Found at i:23500670 original size:18 final size:17
Alignment explanation
Indices: 23500647--23500684 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
23500637 ACAGAGAAGA
*
23500647 AAAGAAGGAAAGAAAGGG
1 AAAGAAAGAAA-AAAGGG
23500665 AAAGAAAGAAAAAAGGG
1 AAAGAAAGAAAAAAGGG
23500682 AAA
1 AAA
23500685 TTAGGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAAAAAGGG
Found at i:23507859 original size:3 final size:3
Alignment explanation
Indices: 23507851--23507887 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
23507841 ATATTTTTAG
23507851 ATT ATT ATT A-T ATT A-T ATT A-T ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
23507888 AATAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.19
3 25 0.81
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:23507863 original size:21 final size:21
Alignment explanation
Indices: 23507839--23507887 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
23507829 ACGTGTTAAA
*
23507839 ATATATTTTTAGATTATTATT
1 ATATATTATTAGATTATTATT
*
23507860 ATAT-TATATTATATTATTATT
1 ATATAT-TATTAGATTATTATT
23507881 AT-TATTA
1 ATATATTA
23507888 AATAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATATATTATTAGATTATTATT
Found at i:23508779 original size:20 final size:18
Alignment explanation
Indices: 23508754--23508792 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23508744 TGAGTATTGA
23508754 TATTGAACTGAATGAAAATG
1 TATTGAACTG--TGAAAATG
*
23508774 TATTGAATTGTGAAAATG
1 TATTGAACTGTGAAAATG
23508792 T
1 T
23508793 GTGAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (18 bp):
TATTGAACTGTGAAAATG
Found at i:23509327 original size:26 final size:24
Alignment explanation
Indices: 23509297--23509346 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
23509287 TAAATAAAAA
*
23509297 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
23509323 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
23509347 GAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:23509810 original size:12 final size:13
Alignment explanation
Indices: 23509791--23509828 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
23509781 AATGATCTTG
23509791 ATTAAGAAATGAA
1 ATTAAGAAATGAA
23509804 A-TAAGAAATTGAA
1 ATTAAGAAA-TGAA
*
23509817 ATTGAGAAATGA
1 ATTAAGAAATGA
23509829 GAATGAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 7 0.32
13 9 0.41
14 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (13 bp):
ATTAAGAAATGAA
Found at i:23512531 original size:40 final size:40
Alignment explanation
Indices: 23512461--23512678 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
23512451 AAGCCAAGTA
* * *
23512461 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
* *
23512500 CCTTCGGGACATAGCCCAGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
23512540 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* *
23512580 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * * *
23512620 CCTTTGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
23512660 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
23512679 TTATCATCCA
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 149 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:23532404 original size:37 final size:37
Alignment explanation
Indices: 23532349--23532439 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
23532339 TTATTACGAA
*
23532349 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTCACCCGGACATAATCTCCACACGTAGTCATCGG
23532386 GTCTCACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTCACCCGGACATAATCTCCACACGTAGTCATCGG
23532423 GTCTCACCCGGAACATA
1 GTCTCACCCGG-ACATA
23532440 TTTCTAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTCACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:23532708 original size:49 final size:49
Alignment explanation
Indices: 23532508--23532709 Score: 359
Period size: 49 Copynumber: 4.1 Consensus size: 49
23532498 TTTACCACAT
* *
23532508 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* * *
23532557 ATATATATACATTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
1 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
23532606 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
23532655 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
23532704 ATATGT
1 ATATGT
23532710 TATTATGTAC
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 147 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (49 bp):
ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
Found at i:23535411 original size:40 final size:40
Alignment explanation
Indices: 23535349--23535566 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
23535339 AAGCCAAGTA
* * *
23535349 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
23535388 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
23535428 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * *
23535468 CCTTCGGGACTTAGCCCGGATATAGTGACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * * *
23535508 CCTTCGGGACTTAGTCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
23535548 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
23535567 TTATCATCCA
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.08
40 150 0.92
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:23544204 original size:44 final size:43
Alignment explanation
Indices: 23544053--23544209 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
23544043 AGCTCGTACA
* *
23544053 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAA-ATCG
** * *
23544096 ATGCCTCTGTCCCAGACAG-GGTCTTACAC-AAAATCAAATTCG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAAATCAAAATCG
** * *
23544138 ATGCCAATGTTTCAGACATGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCA-AAATCG
*
23544182 ATGCCAATGTCCCAGATGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
23544210 TGATAACACA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 26 0.28
43 36 0.39
44 30 0.33
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAAATCG
Found at i:23547855 original size:51 final size:51
Alignment explanation
Indices: 23547800--23547899 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
23547790 CTACCACATG
* *
23547800 ACATGTAA-CACATCCATAATGAAATTAGACCTCTCAATGAGCTCAGATGTT
1 ACATG-AATCACATCCATAATGAAATCAGACCTCTCAACGAGCTCAGATGTT
* * * * *
23547851 ACATGAATCGCATCCATTATGAACTCGGACCTCTCAACGAGCTCGGATG
1 ACATGAATCACATCCATAATGAAATCAGACCTCTCAACGAGCTCAGATG
23547900 CTCGCATCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 2 0.05
51 39 0.95
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAAATCAGACCTCTCAACGAGCTCAGATGTT
Found at i:23547919 original size:43 final size:43
Alignment explanation
Indices: 23547858--23547943 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
23547848 GTTACATGAA
* *
23547858 TCGCATCCATTATGAACTCGGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGAATGC
*
23547901 TCGCATCCATAATGAACTCGGACCTTTCAACGAGCTCGAATGC
1 TCGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGAATGC
23547944 CACATATCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGAATGC
Found at i:23548194 original size:8 final size:8
Alignment explanation
Indices: 23548181--23548206 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
23548171 TAAAATATAT
23548181 ATTAAAAC
1 ATTAAAAC
23548189 ATTAAAAC
1 ATTAAAAC
23548197 ATTAAAAC
1 ATTAAAAC
23548205 AT
1 AT
23548207 ACTACAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (8 bp):
ATTAAAAC
Found at i:23555679 original size:51 final size:51
Alignment explanation
Indices: 23555624--23555723 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
23555614 CTACCACATA
*
23555624 ACATGTAA-CACATCCATAATGAACTCTGACCTCTCAACGAGCTCAGATGTT
1 ACATG-AATCACATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATGTT
* * *
23555675 ACATGAATTACATCCATTATGAACTCGGACCTCTCAACGAGCTCGGATG
1 ACATGAATCACATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATG
23555724 CCACATATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.05
51 42 0.95
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATGTT
Found at i:23555745 original size:24 final size:24
Alignment explanation
Indices: 23555718--23555787 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 24
23555708 TCAACGAGCT
23555718 CGGATGCCACATATCTCACGAACC
1 CGGATGCCACATATCTCACGAACC
* * *
23555742 CGGA--CCAC---TC-AACGAGCT
1 CGGATGCCACATATCTCACGAACC
23555760 CGGATGCCACATATCTCACGAACC
1 CGGATGCCACATATCTCACGAACC
23555784 CGGA
1 CGGA
23555788 CCACTCAACG
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 9 0.26
19 2 0.06
20 4 0.12
22 4 0.12
23 2 0.06
24 13 0.38
ACGTcount: A:0.29, C:0.37, G:0.20, T:0.14
Consensus pattern (24 bp):
CGGATGCCACATATCTCACGAACC
Found at i:23555759 original size:42 final size:42
Alignment explanation
Indices: 23555695--23555799 Score: 192
Period size: 42 Copynumber: 2.5 Consensus size: 42
23555685 CATCCATTAT
* *
23555695 GAACTCGGACCTCTCAACGAGCTCGGATGCCACATATCTCAC
1 GAACCCGGACCACTCAACGAGCTCGGATGCCACATATCTCAC
23555737 GAACCCGGACCACTCAACGAGCTCGGATGCCACATATCTCAC
1 GAACCCGGACCACTCAACGAGCTCGGATGCCACATATCTCAC
23555779 GAACCCGGACCACTCAACGAG
1 GAACCCGGACCACTCAACGAG
23555800 TTTGGACATT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.29, C:0.37, G:0.20, T:0.14
Consensus pattern (42 bp):
GAACCCGGACCACTCAACGAGCTCGGATGCCACATATCTCAC
Found at i:23561915 original size:8 final size:8
Alignment explanation
Indices: 23561902--23561926 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23561892 AACTTAACTT
23561902 TATAAACA
1 TATAAACA
23561910 TATAAACA
1 TATAAACA
23561918 TATAAACA
1 TATAAACA
23561926 T
1 T
23561927 CATCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (8 bp):
TATAAACA
Found at i:23562278 original size:43 final size:42
Alignment explanation
Indices: 23562204--23562366 Score: 125
Period size: 43 Copynumber: 3.8 Consensus size: 42
23562194 AGAAAGCTCG
* * * *
23562204 TACAATACCAATGTCCCAGGC-GTGGTCTTACATGTAATCAAA
1 TACAATGCCAATATCCCAGACAG-GGTCTTACACGTAATCAAA
** * *
23562246 TATCAATGCCTCTATCCCAGATAGGGTCTTACACGAAATCAAA
1 TA-CAATGCCAATATCCCAGACAGGGTCTTACACGTAATCAAA
* * *
23562289 TACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAA
1 TACAATGCCAATATCCCAGACAGGGTCTTACACGT-AATCA-AA
* * *
23562333 GT-CGATGCCAATGTCCCAGGC-GTGGTCTTACACG
1 -TACAATGCCAATATCCCAGACAG-GGTCTTACACG
23562367 ATAAGTCGAT
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.29
43 37 0.38
44 32 0.33
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
TACAATGCCAATATCCCAGACAGGGTCTTACACGTAATCAAA
Found at i:23562350 original size:44 final size:41
Alignment explanation
Indices: 23562211--23562405 Score: 184
Period size: 38 Copynumber: 4.7 Consensus size: 41
23562201 TCGTACAATA
* * * *
23562211 CCAATGTCCCAGGCGTGGTCTTACATGTAATCAAATATCAATG
1 CCAATGTCCCAGACGTGGTCTTACACG-AATCAAA-GTCGATG
** * *
23562254 CCTCTATCCCAGATAG-GGTCTTACACGAAATCAAA-TACGATG
1 CCAATGTCCCAGA-CGTGGTCTTACACG-AATCAAAGT-CGATG
*
23562296 CCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGTCGATG
1 CCAATGTCCCAGACGTGGTCTTACACG--AATCA-AAGTCGATG
*
23562340 CCAATGTCCCAGGCGTGGTCTTACACG-AT--AAGTCGATG
1 CCAATGTCCCAGACGTGGTCTTACACGAATCAAAGTCGATG
*
23562378 CCAATGTCCCAGACGTGGTCTTAAACGA
1 CCAATGTCCCAGACGTGGTCTTACACGA
23562406 TAACACATAT
Statistics
Matches: 128, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
38 34 0.27
41 3 0.02
42 25 0.20
43 32 0.25
44 33 0.26
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (41 bp):
CCAATGTCCCAGACGTGGTCTTACACGAATCAAAGTCGATG
Found at i:23564697 original size:14 final size:14
Alignment explanation
Indices: 23564678--23564705 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23564668 TGATGAACTT
23564678 GAATCGAGAATCAA
1 GAATCGAGAATCAA
23564692 GAATCGAGAATCAA
1 GAATCGAGAATCAA
23564706 ACTCCTTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (14 bp):
GAATCGAGAATCAA
Found at i:23567872 original size:2 final size:2
Alignment explanation
Indices: 23567832--23567864 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
23567822 ATAACTCTTA
23567832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23567865 TTTATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23568156 original size:36 final size:36
Alignment explanation
Indices: 23568109--23568179 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
23568099 CTATACTATG
23568109 CGTAAAGTTGTAAGTTTAGTTCATATTCTCCAATTA
1 CGTAAAGTTGTAAGTTTAGTTCATATTCTCCAATTA
23568145 CGTAAAGTTGTAAGTTTAGTTCATATTCTCCAATT
1 CGTAAAGTTGTAAGTTTAGTTCATATTCTCCAATT
23568180 GGATTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (36 bp):
CGTAAAGTTGTAAGTTTAGTTCATATTCTCCAATTA
Found at i:23574180 original size:81 final size:81
Alignment explanation
Indices: 23574045--23574209 Score: 330
Period size: 81 Copynumber: 2.0 Consensus size: 81
23574035 GAACATCAAT
23574045 AAAGGATTCGGGGGCAATAATGCTACAGCTATATGAATAAAATGGGAATATATCCCAAACAAAAA
1 AAAGGATTCGGGGGCAATAATGCTACAGCTATATGAATAAAATGGGAATATATCCCAAACAAAAA
23574110 TCATCATCAAAGATCG
66 TCATCATCAAAGATCG
23574126 AAAGGATTCGGGGGCAATAATGCTACAGCTATATGAATAAAATGGGAATATATCCCAAACAAAAA
1 AAAGGATTCGGGGGCAATAATGCTACAGCTATATGAATAAAATGGGAATATATCCCAAACAAAAA
23574191 TCATCATCAAAGATCG
66 TCATCATCAAAGATCG
23574207 AAA
1 AAA
23574210 TAACCCAGAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (81 bp):
AAAGGATTCGGGGGCAATAATGCTACAGCTATATGAATAAAATGGGAATATATCCCAAACAAAAA
TCATCATCAAAGATCG
Found at i:23577113 original size:33 final size:34
Alignment explanation
Indices: 23577070--23577138 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
23577060 AATTTTAACC
23577070 AAGCATTTTTTCAACCTTTTTCATTTTCGAGAAA
1 AAGCATTTTTTCAACCTTTTTCATTTTCGAGAAA
23577104 AAGCATTTTTTCAACCTTTTTCATTTTCGAGAAA
1 AAGCATTTTTTCAACCTTTTTCATTTTCGAGAAA
23577138 A
1 A
23577139 TGAAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (34 bp):
AAGCATTTTTTCAACCTTTTTCATTTTCGAGAAA
Found at i:23577432 original size:29 final size:30
Alignment explanation
Indices: 23577399--23577457 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
23577389 TTTGGTTCTA
23577399 TGTGCAATTTCATATAT-AAATTTTGATTT
1 TGTGCAATTTCATATATAAAATTTTGATTT
* *
23577428 TGTGCGATTTTATATATAAAATTTTGATTT
1 TGTGCAATTTCATATATAAAATTTTGATTT
23577458 AATTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.53
Consensus pattern (30 bp):
TGTGCAATTTCATATATAAAATTTTGATTT
Found at i:23578258 original size:16 final size:17
Alignment explanation
Indices: 23578231--23578264 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23578221 TCTTTATGTT
23578231 AAATATAAAAAGAGCAA
1 AAATATAAAAAGAGCAA
*
23578248 AAATA-AAAAAGATCAA
1 AAATATAAAAAGAGCAA
23578264 A
1 A
23578265 GTTCAAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (17 bp):
AAATATAAAAAGAGCAA
Found at i:23582021 original size:20 final size:20
Alignment explanation
Indices: 23581977--23582015 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23581967 TGGAGCAGGA
*
23581977 ATATCGATACCCTAGGAAAT
1 ATATCGATACCCTAAGAAAT
*
23581997 ATATCGATACCTTAAGAAA
1 ATATCGATACCCTAAGAAA
23582016 AGTATCAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (20 bp):
ATATCGATACCCTAAGAAAT
Found at i:23593512 original size:43 final size:44
Alignment explanation
Indices: 23593464--23593577 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 44
23593454 CATCAACTTA
*
23593464 TGATTTACGTCTAAGACCATGTCTGGGACA-TCGACATCG-TATT
1 TGATTTACGTGTAAGACCATGTCTGGGACAGT-GACATCGATATT
* * *
23593507 TGATTT-TGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACAGTGACATCGATATT
* * *
23593550 TGA-TTACATGTAAGTCCACGTCTGGGAC
1 TGATTTACGTGTAAGACCATGTCTGGGAC
23593578 GTTGGCATTG
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 28 0.47
43 31 0.53
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGTCTGGGACAGTGACATCGATATT
Found at i:23597482 original size:10 final size:11
Alignment explanation
Indices: 23597453--23597482 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23597443 TAAACCCATA
23597453 ATAATTTTTTT
1 ATAATTTTTTT
23597464 ATAATTTTTTT
1 ATAATTTTTTT
*
23597475 ATGATTTT
1 ATAATTTT
23597483 CCAAAGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (11 bp):
ATAATTTTTTT
Found at i:23598363 original size:13 final size:11
Alignment explanation
Indices: 23598331--23598373 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
23598321 CCATTTTCTA
*
23598331 AATAAAATAAT
1 AATAAAATATT
23598342 AAT-AAATATTT
1 AATAAAATA-TT
23598353 AAGTAAAATATT
1 AA-TAAAATATT
23598365 AATAAAATA
1 AATAAAATA
23598374 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 5 0.18
13 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:23599613 original size:18 final size:18
Alignment explanation
Indices: 23599590--23599626 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23599580 GAAACTAAAA
23599590 GTCATTAATCTCTGGTCG
1 GTCATTAATCTCTGGTCG
23599608 GTCATTAATCTCTGGTCG
1 GTCATTAATCTCTGGTCG
23599626 G
1 G
23599627 GGAAGACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (18 bp):
GTCATTAATCTCTGGTCG
Found at i:23608627 original size:2 final size:2
Alignment explanation
Indices: 23608622--23608646 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23608612 CAAGATATTG
23608622 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23608647 CACACACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23609796 original size:20 final size:19
Alignment explanation
Indices: 23609750--23609796 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
23609740 ATAATTCATG
23609750 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
23609769 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
23609790 TTTAATT
1 TTTAATT
23609797 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:23616394 original size:40 final size:40
Alignment explanation
Indices: 23616334--23616521 Score: 274
Period size: 40 Copynumber: 4.7 Consensus size: 40
23616324 TATTTGGATG
* *
23616334 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
23616374 A-ATTCCGGGCTAAG-CTCCGAAGGCATTTGTGCGAGTAACT
1 ATA-ACCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACT
*
23616414 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
23616454 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
23616493 ATAACCGGGCTAAGTCCCGAAGACATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
23616522 AGCAAGTAGT
Statistics
Matches: 136, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
39 39 0.29
40 95 0.70
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:23616488 original size:79 final size:80
Alignment explanation
Indices: 23616334--23616521 Score: 290
Period size: 79 Copynumber: 2.4 Consensus size: 80
23616324 TATTTGGATG
* *
23616334 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCTCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCTCCGAAGGCA
*
23616399 TTTGTGCGAGTAACT
66 TTTGTACGAGTAACT
* *
23616414 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATACCGGGCTAAG-TCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCT-CCGAAGGC
*
23616477 ATTTGTACGAGTTACT
65 ATTTGTACGAGTAACT
*
23616493 ATAACCGGGCTAAGTCCCGAAGACATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
23616522 AGCAAGTAGT
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 61 0.62
80 37 0.37
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCTCCGAAGGCA
TTTGTACGAGTAACT
Found at i:23616543 original size:79 final size:79
Alignment explanation
Indices: 23616334--23616553 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 79
23616324 TATTTGGATG
*
23616334 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC--TAGTGACTAATTCCGGGCTAAG-CTCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTA-T-ATT-CGGGCTAAGTC-CCGAAG
*
23616396 GCATTTGTGCGAGTAACT
62 GCATTTGTACGAGTAACT
* *
23616414 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-G-AGTTACTATACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTA-TAT-TCGGGCTAAGTCCCGAAGGC
*
23616477 ATTTGTACGAGTTACT
64 ATTTGTACGAGTAACT
* * *
23616493 ATAACCGGGCTAAGTCCCGAAGACATTTGAGCAAGTAGTTATATTC-GGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTAGTTATATTCGGGCTAAGTCCCGAAG
23616554 ATGCTTGGGT
Statistics
Matches: 124, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
79 76 0.61
80 39 0.31
81 4 0.03
82 5 0.04
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTATATTCGGGCTAAGTCCCGAAGGCAT
TTGTACGAGTAACT
Found at i:23616820 original size:22 final size:21
Alignment explanation
Indices: 23616779--23616822 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
23616769 GAATGTGCAT
23616779 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
23616801 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
23616823 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:23617431 original size:40 final size:40
Alignment explanation
Indices: 23617376--23617560 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
23617366 CTCACACAAG
* * *
23617376 GCCTTCGGGTCTTAGCCCGGGTAT-GATCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAG-TCACTAGCACAAAT
*
23617416 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
** * * * *
23617456 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
23617496 GCCTTC-GGATCTTAGTCCGGATATAGTCACTTAACACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
23617537 GCCATCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
23617561 CATTTGAATA
Statistics
Matches: 119, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.75
41 25 0.21
42 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:23617474 original size:80 final size:80
Alignment explanation
Indices: 23617376--23617560 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 80
23617366 CTCACACAAG
* *
23617376 GCCTTCGGGTCTTAGCCCGGGTAT-GATCACTAGCATAAATGCCTTCGGGA-CTTAGCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-TAACTAGCATAAATGCCTTC-GGATCTTAGCCCGGATA
23617439 TAGTCGCTAGCACAAAT
64 TAGTCGCTAGCACAAAT
* * * *
23617456 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAATGCCTTCGGATCTTAGTCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATATA
* * *
23617521 GTCACTTAACACAAAA
66 GTCGC-TAGCACAAAT
* *
23617537 GCCATCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
23617561 CATTTGAATA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 3 0.03
80 57 0.64
81 29 0.33
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (80 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATATA
GTCGCTAGCACAAAT
Found at i:23628282 original size:40 final size:40
Alignment explanation
Indices: 23628226--23628489 Score: 417
Period size: 40 Copynumber: 6.6 Consensus size: 40
23628216 TGGATGATAA
* *
23628226 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
23628266 CCGGGCTAAG-CTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATAT
*
23628306 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23628345 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
23628385 CCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
23628425 CCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23628465 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23628490 AGCAAGTAGT
Statistics
Matches: 209, Mismatches: 11, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
39 39 0.19
40 168 0.80
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:23628440 original size:119 final size:120
Alignment explanation
Indices: 23628222--23628489 Score: 443
Period size: 119 Copynumber: 2.2 Consensus size: 120
23628212 TATTTGGATG
* *
23628222 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCTCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGAGCTAAGCTCCGAAGGCA
* * *
23628287 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
66 TTTGTGCGAGTTACTATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
*
23628342 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGAGCTAAGAC-CCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGAGCTAAG-CTCCGAAGG
23628404 CATTTGTGCGAGTTACTATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
64 CATTTGTGCGAGTTACTATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
23628461 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
23628490 AGCAAGTAGT
Statistics
Matches: 139, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
118 2 0.01
119 108 0.78
120 29 0.21
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGAGCTAAGCTCCGAAGGCA
TTTGTGCGAGTTACTATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
Found at i:23628512 original size:119 final size:119
Alignment explanation
Indices: 23628222--23628521 Score: 423
Period size: 119 Copynumber: 2.5 Consensus size: 119
23628212 TATTTGGATG
*
23628222 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAG-CTCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATATT-C-GGCTAAGAC-CCGAAG
* * *
23628284 GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
62 GCATTTGTGCGAGTTACTATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
* *
23628342 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGAGCTAAGACCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATTCG-GCTAAGACCCGAAGGC
23628405 ATTTGTGCGAGTTACTATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACTATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
* *
23628461 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATTCGGCTAA-ATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATTCGGCTAAGA-CCCGAAG
23628522 ATGCTTGGGT
Statistics
Matches: 163, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
118 2 0.01
119 118 0.72
120 43 0.26
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATTCGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTACTATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
Found at i:23628519 original size:159 final size:159
Alignment explanation
Indices: 23628230--23628521 Score: 423
Period size: 159 Copynumber: 1.8 Consensus size: 159
23628220 TGATAACCGG
* * *
23628230 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCTCCGAAGGCATTTGTGCG
1 GCTAAGACCCGAAGGCATTTGTGCGAGTGACTAATTCCAGGCTAAGCTCCGAAGGCATTTGTGCG
* * * *
23628295 AGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATACCGGGCTAAGTCCCG
66 AGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGAGAGTTACTATACCGGGCTAAATCCCG
23628360 AAGGCATTTGTGCGAGTTACTATATCCGA
131 AAGGCATTTGTGCGAGTTACTATATCCGA
*
23628389 GCTAAGACCCGAAGGCATTTGTGCGAGTTACT-ATATCCAGGCTAAGAC-CCGAAGGCATTTGTG
1 GCTAAGACCCGAAGGCATTTGTGCGAGTGACTAAT-TCCAGGCTAAG-CTCCGAAGGCATTTGTG
*
23628452 CGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTA-TAT-TC-GGCTAAA
64 CGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAG--AG-AGTTACTATACCGGGCTAAA
23628514 TCCCGAAG
126 TCCCGAAG
23628522 ATGCTTGGGT
Statistics
Matches: 119, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
158 2 0.02
159 106 0.89
160 2 0.02
161 4 0.03
162 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (159 bp):
GCTAAGACCCGAAGGCATTTGTGCGAGTGACTAATTCCAGGCTAAGCTCCGAAGGCATTTGTGCG
AGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGAGAGTTACTATACCGGGCTAAATCCCG
AAGGCATTTGTGCGAGTTACTATATCCGA
Found at i:23628788 original size:22 final size:21
Alignment explanation
Indices: 23628747--23628790 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
23628737 GAATGTGCAT
23628747 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
23628769 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
23628791 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:23631236 original size:40 final size:40
Alignment explanation
Indices: 23631181--23631260 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
23631171 TATCATAATA
23631181 TACTTCCCAATGTTGACATAACTCAAAATTTCCCTTTTTG
1 TACTTCCCAATGTTGACATAACTCAAAATTTCCCTTTTTG
23631221 TACTTCCCAATGTTGACATAACTCAAAATTTCCCTTTTTG
1 TACTTCCCAATGTTGACATAACTCAAAATTTCCCTTTTTG
23631261 CCACTTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (40 bp):
TACTTCCCAATGTTGACATAACTCAAAATTTCCCTTTTTG
Found at i:23632538 original size:24 final size:24
Alignment explanation
Indices: 23632469--23632532 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
23632459 GCATCATCCA
*
23632469 CAACCGCGATAGACACCACAACTG
1 CAACCGCGAAAGACACCACAACTG
*
23632493 CAACCGCGACAGACACCACAACTG
1 CAACCGCGAAAGACACCACAACTG
23632517 CAACCGCGAAAGACAC
1 CAACCGCGAAAGACAC
23632533 TGCAACCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.39, C:0.39, G:0.17, T:0.05
Consensus pattern (24 bp):
CAACCGCGAAAGACACCACAACTG
Found at i:23634004 original size:31 final size:31
Alignment explanation
Indices: 23633969--23634027 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
23633959 ACTTTATTAT
23633969 AATATTATATATGTTTGATTAATTGAATTTG
1 AATATTATATATGTTTGATTAATTGAATTTG
23634000 AATATTATATATGTTTGATTAATTGAAT
1 AATATTATATATGTTTGATTAATTGAAT
23634028 ATTAGTTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (31 bp):
AATATTATATATGTTTGATTAATTGAATTTG
Found at i:23639510 original size:15 final size:15
Alignment explanation
Indices: 23639490--23639519 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23639480 AAATACTTAT
*
23639490 TTTTTATTTTTATTA
1 TTTTTATATTTATTA
23639505 TTTTTATATTTATTA
1 TTTTTATATTTATTA
23639520 ATTTGAAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATATTTATTA
Found at i:23640149 original size:21 final size:21
Alignment explanation
Indices: 23640124--23640179 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
23640114 TGTCGATTTT
23640124 CACACGGGCGTGTGCCTTAGA
1 CACACGGGCGTGTGCCTTAGA
* * * *
23640145 CACACGGTCATGTCCCTTAGT
1 CACACGGGCGTGTGCCTTAGA
*
23640166 CGCACGGGCGTGTG
1 CACACGGGCGTGTG
23640180 AGATTTCCAC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTGCCTTAGA
Found at i:23640682 original size:16 final size:15
Alignment explanation
Indices: 23640661--23640710 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
23640651 TTTTGGCACA
23640661 TTCTCTATTGTTTTTT
1 TTCTCTATT-TTTTTT
*
23640677 TTCTCTATTTTCTTTC
1 TTCTCTATTTT-TTTT
*
23640693 TTCT-T-TCTTTTTT
1 TTCTCTATTTTTTTT
23640706 TTCTC
1 TTCTC
23640711 CTCTTTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 7 0.24
14 3 0.10
15 3 0.10
16 16 0.55
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (15 bp):
TTCTCTATTTTTTTT
Found at i:23640722 original size:16 final size:15
Alignment explanation
Indices: 23640674--23640723 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
23640664 TCTATTGTTT
*
23640674 TTTTTCTCTATTTTC
1 TTTTTCTCTCTTTTC
*
23640689 TTTCTTCTTTC-TTT-
1 TTT-TTCTCTCTTTTC
23640703 TTTTTCTCCTCTTTTC
1 TTTTTCT-CTCTTTTC
23640719 TTTTT
1 TTTTT
23640724 GGGTTTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 4 0.14
14 5 0.18
15 9 0.32
16 10 0.36
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTCTCTCTTTTC
Found at i:23648969 original size:46 final size:46
Alignment explanation
Indices: 23648876--23649039 Score: 158
Period size: 46 Copynumber: 3.5 Consensus size: 46
23648866 TGATGCCATA
* * **
23648876 TCCCAGACATGGTCTTACACTGAC-TATCATCTCGTAG-CGATGTATG
1 TCCCAGACATGGTCTTACACTGGCTTA-CGTCTCG-AGCCGATACATG
23648922 TCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGCCCGATACATG
1 TCCCAGACATGGTCTTACACTGGCTTACGTCTCGAG-CCGATACATG
* * * *
23648968 TCCCAGACAT-GTCTTACACTAGCACT-CGTCTCGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACACTGGC-TTACGTCTCGA-GCCGAT-ACATG
*
23649015 TCCCAGACATGGTCTTACACAGGCT
1 TCCCAGACATGGTCTTACACTGGCT
23649040 CTCATAATGT
Statistics
Matches: 100, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
44 2 0.02
45 18 0.18
46 53 0.53
47 16 0.16
48 11 0.11
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
TCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGCCGATACATG
Found at i:23661604 original size:40 final size:39
Alignment explanation
Indices: 23661550--23661743 Score: 289
Period size: 40 Copynumber: 4.9 Consensus size: 39
23661540 GATATAGCTT
*
23661550 CTCGCTCAAATGCCTTCAGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATAGTAA
*
23661590 CTCGCACAATTGCCTTCGAGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCG-GACTTAGCCCGGTTATAGTAA
* * *
23661630 CTAGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATAGTAA
*
23661670 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATAGTAA
*
23661710 CTCGCACAAATGCCTTCGGGCTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGACTTAGCCCGGTTAT
23661744 CAATCCGAAT
Statistics
Matches: 142, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
39 16 0.11
40 125 0.88
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTAA
Found at i:23665025 original size:46 final size:46
Alignment explanation
Indices: 23664944--23665106 Score: 136
Period size: 46 Copynumber: 3.5 Consensus size: 46
23664934 GTGCTGATGT
23664944 CATATCCCAGACATGGTCTTACATTGACTATCATCTC-ATAGCCAATG
1 CATATCCCAGACAT-GTCTTACATTGACTATCATCTCGA-AGCCAATG
* * * *
23664991 CATATCCCAGACATGTCTTGCATTGGCT-TACATCTCGAGGCCGATG
1 CATATCCCAGACATGTCTTACATTGACTAT-CATCTCGAAGCCAATG
* * * * * *
23665037 CATGTCCCGGACATGTCTTACACTAGCACT-T-GTCTAGATGCCAATG
1 CATATCCCAGACATGTCTTACA-TTG-ACTATCATCTCGAAGCCAATG
*
23665083 CCATGTCCCAGACATGGTCTTACA
1 -CATATCCCAGACAT-GTCTTACA
23665107 CAGGCTCTCA
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 54 0.56
47 30 0.31
48 11 0.11
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CATATCCCAGACATGTCTTACATTGACTATCATCTCGAAGCCAATG
Found at i:23668956 original size:31 final size:31
Alignment explanation
Indices: 23668912--23669026 Score: 169
Period size: 31 Copynumber: 3.7 Consensus size: 31
23668902 TTAGTCTTGA
*
23668912 CATAT-ACTAGGCCGAAGCCTTTCCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
*
23668942 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
* *
23668973 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
* *
23669004 CGTATCACTAGGCCAAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
23669027 ACTGTAAACG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:23669097 original size:42 final size:42
Alignment explanation
Indices: 23669050--23669141 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
23669040 TGGCCCTTAG
* *
23669050 GCCCATTTTAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
23669092 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
23669134 GCCCATTT
1 GCCCATTT
23669142 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:23670283 original size:27 final size:27
Alignment explanation
Indices: 23670253--23670337 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
23670243 GTAAATCTAC
23670253 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
23670280 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* **
23670306 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
23670336 AA
1 AA
23670338 CTTAGGGGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.47
28 6 0.13
29 17 0.36
30 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:23670453 original size:27 final size:27
Alignment explanation
Indices: 23670384--23670460 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
23670374 ATTTCTGCAT
* * *
23670384 AAACTAGTGGTATTTCGATAATTTTAC
1 AAACTAGAGGTATTTTGGTAATTTTAC
23670411 AAACTA-AGGGTATTTTGGTAATTTTAC
1 AAACTAGA-GGTATTTTGGTAATTTTAC
23670438 AAACTAGAGGTATTTTGGTAATT
1 AAACTAGAGGTATTTTGGTAATT
23670461 CTATCCTACA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
27 44 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (27 bp):
AAACTAGAGGTATTTTGGTAATTTTAC
Found at i:23670476 original size:27 final size:27
Alignment explanation
Indices: 23670384--23670487 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 27
23670374 ATTTCTGCAT
* * * *
23670384 AAACTAGTGGTATTTCGATAATTTTAC
1 AAACTAGGGGTATTTTGGTAATTCTAC
* *
23670411 AAACTAAGGGTATTTTGGTAATTTTAC
1 AAACTAGGGGTATTTTGGTAATTCTAC
*
23670438 AAACTAGAGGTATTTTGGTAATTCTATC
1 AAACTAGGGGTATTTTGGTAATTCTA-C
** *
23670466 CTAC-AGGGGTATTTTAGTAATT
1 AAACTAGGGGTATTTTGGTAATT
23670488 TCACAATCGA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 62 0.95
28 3 0.05
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
AAACTAGGGGTATTTTGGTAATTCTAC
Found at i:23670566 original size:54 final size:54
Alignment explanation
Indices: 23670492--23670623 Score: 167
Period size: 54 Copynumber: 2.4 Consensus size: 54
23670482 GTAATTTCAC
* * * *
23670492 AATCGAGGGTAAAACAATAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATAATAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTATA
* *
23670546 AATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
* **
23670600 AATCGAGGATAAAATCGTAATTCT
1 AATCGAGGGTAAAATAATAATTCT
23670624 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 67 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
Found at i:23670622 original size:27 final size:27
Alignment explanation
Indices: 23670492--23670635 Score: 134
Period size: 27 Copynumber: 5.3 Consensus size: 27
23670482 GTAATTTCAC
* * *
23670492 AATCGAGGGTAAAA-CAATAATTTTGTA
1 AATCGAGGGTAAAATC-GTAATTCTATA
* *
23670519 AA-CTGAGGGTAAAATGGTAATTTTATA
1 AATC-GAGGGTAAAATCGTAATTCTATA
*
23670546 AATCGAGGGTAAAAT-GATAATTCTGTA
1 AATCGAGGGTAAAATCG-TAATTCTATA
*
23670573 AATCGAGGGTGAAA-CGGTAATTCTATA
1 AATCGAGGGTAAAATC-GTAATTCTATA
* *
23670600 AATCGAGGATAAAATCGTAATTCTACA
1 AATCGAGGGTAAAATCGTAATTCTATA
*
23670627 AATTGAGGG
1 AATCGAGGG
23670636 CATTTCAGTA
Statistics
Matches: 98, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
26 2 0.02
27 93 0.95
28 3 0.03
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATCGTAATTCTATA
Found at i:23670635 original size:54 final size:54
Alignment explanation
Indices: 23670522--23670635 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
23670512 TTTTGTAAAC
* * * **
23670522 TGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGATAATTCTGTAAAT
1 TGAGGGTAAAACGGTAATTCTATAAATCGAGGATAAAATGATAATTCTACAAAT
* *
23670576 CGAGGGTGAAACGGTAATTCTATAAATCGAGGATAAAATCG-TAATTCTACAAAT
1 TGAGGGTAAAACGGTAATTCTATAAATCGAGGATAAAAT-GATAATTCTACAAAT
23670630 TGAGGG
1 TGAGGG
23670636 CATTTCAGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 50 0.98
55 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
TGAGGGTAAAACGGTAATTCTATAAATCGAGGATAAAATGATAATTCTACAAAT
Found at i:23672876 original size:68 final size:70
Alignment explanation
Indices: 23672804--23673001 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
23672794 ACACCCTGTA
* * * *
23672804 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
23672866 ATAAAT
65 ATAAAT
* *
23672872 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
23672937 ATAAAT
65 ATAAAT
* *
23672943 GTAGCTAGGTCTCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
23673002 AGACAAATCG
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 23 0.19
69 3 0.03
70 1 0.01
71 92 0.77
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:23672926 original size:71 final size:71
Alignment explanation
Indices: 23672838--23673001 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
23672828 GAGATGTATC
23672838 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23672903 AGGACA
66 AGGACA
*
23672909 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCTCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23672974 AGGACA
66 AGGACA
23672980 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23673002 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23675693 original size:31 final size:31
Alignment explanation
Indices: 23675653--23675797 Score: 213
Period size: 31 Copynumber: 4.7 Consensus size: 31
23675643 TTAGTCTTGA
* *
23675653 CATAT-ACTAGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
23675683 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
23675714 CATGTCACTGGGTCGAAGCCTTTT-ATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
23675744 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
23675775 CATATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
23675798 ACTGTAAACG
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
30 32 0.31
31 72 0.69
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:23675747 original size:61 final size:62
Alignment explanation
Indices: 23675653--23675797 Score: 213
Period size: 61 Copynumber: 2.4 Consensus size: 62
23675643 TTAGTCTTGA
* *
23675653 CATAT-ACTAGGCCGAAGCCTTTCCATAAATCATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAATCATATCACTAGGCCAAAGCCTTTTCATAAAT
* * * *
23675714 CATGTCACTGGGTCGAAGCCTTT-TATAAATCATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAATCATATCACTAGGCCAAAGCCTTTTCATAAAT
*
23675775 CATATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
23675798 ACTGTAAACG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
61 59 0.80
62 15 0.20
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (62 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAATCATATCACTAGGCCAAAGCCTTTTCATAAAT
Found at i:23675868 original size:42 final size:42
Alignment explanation
Indices: 23675821--23675912 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
23675811 TGGCCCTTAG
*
23675821 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
23675863 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
23675905 GCCCATTT
1 GCCCATTT
23675913 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:23676129 original size:25 final size:25
Alignment explanation
Indices: 23676060--23676129 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
23676050 CTCTTTTAAT
* *
23676060 AACTGGGGCAAACCCCTTTCTGATA
1 AACTGGGGCAAGCCCTTTTCTGATA
* *
23676085 AACTGGGGCAAAGCCTTTTTC-GGTA
1 AACTGGGGC-AAGCCCTTTTCTGATA
23676110 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCA-AGCCCTTTT
23676130 AGCACTTCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 29 0.76
26 8 0.21
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAGCCCTTTTCTGATA
Found at i:23677066 original size:27 final size:27
Alignment explanation
Indices: 23677028--23677296 Score: 136
Period size: 27 Copynumber: 9.9 Consensus size: 27
23677018 GTAAATCTAC
*
23677028 AAATCAAGGGTATTTCAGTAATTTTGT
1 AAATCAAGGGTATTTCAGTAATTTTAT
* * *
23677055 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAATCAAGGGTATTTC-AGTAA-TTTTAT
* *
23677083 AAAGTCAAGGGTATTTCTGTAATTTTGT
1 AAA-TCAAGGGTATTTCAGTAATTTTAT
* * *
23677111 AAATTAGGGGTATTTTAGTAATTTTAT
1 AAATCAAGGGTATTTCAGTAATTTTAT
** * * *
23677138 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAATCAAGGGTATTTCAGTAATTTTAT
* * *
23677165 AAA-CCAGTGGTATTTCGGTAATTTTAC
1 AAATCAAG-GGTATTTCAGTAATTTTAT
* * ** *
23677192 AAA-CTAGGGGTCTTTTGGTAATTTTAC
1 AAATC-AAGGGTATTTCAGTAATTTTAT
* ** *
23677219 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AAGGGTATTTCAGTAATTTTAT
** *
23677246 AAA-CTAAGGGTATTTTGGTAATTCTAT
1 AAATC-AAGGGTATTTCAGTAATTTTAT
** *
23677273 -CCTACAGGGGTATTTCAGTAATTT
1 AAAT-CAAGGGTATTTCAGTAATTT
23677297 CACAATCGAG
Statistics
Matches: 197, Mismatches: 37, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.01
27 164 0.83
28 17 0.09
29 14 0.07
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAATCAAGGGTATTTCAGTAATTTTAT
Found at i:23677177 original size:54 final size:54
Alignment explanation
Indices: 23677025--23677301 Score: 218
Period size: 54 Copynumber: 5.1 Consensus size: 54
23677015 TTGGTAAATC
* ** **
23677025 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACT-AAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTT-TAGTAA-TTT
* * * ** **
23677080 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTAGTAATTT
1 TACAAACT-AAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGTAATTT
* * * * * **
23677135 TATAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTT
1 TACAAACTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGTAATTT
* * * * *
23677189 TACAAACTAGGGGTCTTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGTAATTT
* * ** *
23677243 TACAAACTAAGGGTATTTTGGTAATTCTATCCTA-CAGGGGTATTTCAGTAATTT
1 TACAAACTAAGGGTATTTCGGTAATTTTA-CAAACCAGGGGTATTTTAGTAATTT
*
23677297 CACAA
1 TACAA
23677302 TCGAGGGTAA
Statistics
Matches: 182, Mismatches: 37, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
54 127 0.70
55 18 0.10
56 37 0.20
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
TACAAACTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGTAATTT
Found at i:23677213 original size:81 final size:81
Alignment explanation
Indices: 23677089--23677301 Score: 225
Period size: 81 Copynumber: 2.6 Consensus size: 81
23677079 TTAGAAAGTC
* ** * * *
23677089 AAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTAGTAATTTTATAAA-TTGAGGGTATTT
1 AAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAG-GGGTATTT
23677153 CGGTAATTTCACAAAC-
65 CGGTAATTTCACAAACT
* * *
23677169 CAGTGGTATTTCGGTAATTTTACAAACTAGGGGTCTTTTGGTAATTTTACAAACTAGGGGTATTT
1 AAG-GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTT
* *
23677234 TGGTAATTTTACAAACT
65 CGGTAATTTCACAAACT
* * ** * *
23677251 AAGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 AAGGGTATTTCGGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAA
23677302 TCGAGGGTAA
Statistics
Matches: 109, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
80 2 0.02
81 100 0.92
82 7 0.06
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
AAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTC
GGTAATTTCACAAACT
Found at i:23677362 original size:27 final size:27
Alignment explanation
Indices: 23677300--23677442 Score: 166
Period size: 27 Copynumber: 5.3 Consensus size: 27
23677290 GTAATTTCAC
*
23677300 AATCGAGGGTAAAACAGTAATTTT-TA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
23677326 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* *
23677353 AATCGAGGGTAAAACAGTAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
23677380 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * **
23677407 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
23677434 AATCGAGGG
1 AATCGAGGG
23677443 CATTTCAGTA
Statistics
Matches: 101, Mismatches: 11, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
25 1 0.01
26 21 0.21
27 77 0.76
28 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:23677428 original size:54 final size:54
Alignment explanation
Indices: 23677300--23677420 Score: 217
Period size: 54 Copynumber: 2.3 Consensus size: 54
23677290 GTAATTTCAC
* *
23677300 AATCGAGGGTAAAACAGTAA-TTTTTAAACTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTTTAAACTGAGGGTAAAACGGTAATTCTGTA
23677353 AATCGAGGGTAAAACAGTAATTTTTTAAACTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTTTTTAAACTGAGGGTAAAACGGTAATTCTGTA
23677407 AATCGAGGGTAAAA
1 AATCGAGGGTAAAA
23677421 TGGTAATTCT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
53 20 0.31
54 45 0.69
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACAGTAATTTTTTAAACTGAGGGTAAAACGGTAATTCTGTA
Found at i:23677463 original size:81 final size:80
Alignment explanation
Indices: 23677304--23677464 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 80
23677294 TTTCACAATC
* * ** *
23677304 GAGGGTAAAACAGTAATTTTTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACA
1 GAGGGTAAAACAGTAATTTGTAAACTGAGGGTAAAATGGTAATTCTACAAATCGAGGGCAAAACA
**
23677369 GTAATTTTTTAAACT
66 GTAATTTGGTAAACT
* ***
23677384 GAGGGTAAAACGGTAATTCTGTAAA-TCGAGGGTAAAATGGTAATTCTACAAATCGAGGGCATTT
1 GAGGGTAAAACAGTAATT-TGTAAACT-GAGGGTAAAATGGTAATTCTACAAATCGAGGGCAAAA
23677448 CAGTAATTTGGTAAACT
64 CAGTAATTTGGTAAACT
23677465 AAAGTATTCT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
80 18 0.26
81 50 0.74
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (80 bp):
GAGGGTAAAACAGTAATTTGTAAACTGAGGGTAAAATGGTAATTCTACAAATCGAGGGCAAAACA
GTAATTTGGTAAACT
Found at i:23685155 original size:40 final size:40
Alignment explanation
Indices: 23685100--23685286 Score: 320
Period size: 40 Copynumber: 4.7 Consensus size: 40
23685090 CAATTGAGGA
23685100 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
23685140 TTATATCCGGGTTAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
23685180 TTATATCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
23685220 TTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
23685260 TTATATTCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
23685287 ATTGGGTTGG
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:23691287 original size:40 final size:40
Alignment explanation
Indices: 23691242--23691408 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
23691232 CGGAATATAA
23691242 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
23691282 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
23691322 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
23691362 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
23691401 CCGGATAT
1 CCGGATAT
23691409 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23691392 original size:80 final size:79
Alignment explanation
Indices: 23691258--23691408 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
23691248 ATAATCACGT
*
23691258 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
23691323 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
23691338 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
23691401 CCGGATAT
64 CCGGATAT
23691409 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:23699007 original size:40 final size:40
Alignment explanation
Indices: 23698962--23699128 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
23698952 CGGAATATAA
23698962 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
23699002 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
23699042 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
23699082 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
23699121 CCGGATAT
1 CCGGATAT
23699129 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23699112 original size:80 final size:79
Alignment explanation
Indices: 23698978--23699128 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
23698968 ATAATCACGT
*
23698978 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
23699043 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
23699058 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
23699121 CCGGATAT
64 CCGGATAT
23699129 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:23703828 original size:40 final size:40
Alignment explanation
Indices: 23703773--23703959 Score: 320
Period size: 40 Copynumber: 4.7 Consensus size: 40
23703763 CAATTGAGGA
23703773 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
23703813 TTATATCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
23703853 TTATATCTGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
23703893 TTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
23703933 TTATATCCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
23703960 ATTGGGTTGG
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:23708360 original size:49 final size:49
Alignment explanation
Indices: 23708298--23708430 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 49
23708288 TGAGATCCCA
*
23708298 TGTAAGACTATGTCTGGGACATGGCATCGGCATCCAAGATGAGAGCCAG
1 TGTAAGACAATGTCTGGGACATGGCATCGGCATCCAAGATGAGAGCCAG
* * ** * * * *
23708347 TGTAAGACCATGTCTGGGACATGGCATCGACAT-TGATATGTGTGCTAG
1 TGTAAGACAATGTCTGGGACATGGCATCGGCATCCAAGATGAGAGCCAG
* *
23708395 TGTAAGACAATGTATGGGACATGGCATTGGCA-CCAA
1 TGTAAGACAATGTCTGGGACATGGCATCGGCATCCAA
23708431 TATATGATCC
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
48 38 0.55
49 31 0.45
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (49 bp):
TGTAAGACAATGTCTGGGACATGGCATCGGCATCCAAGATGAGAGCCAG
Found at i:23715748 original size:43 final size:42
Alignment explanation
Indices: 23715686--23715844 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 42
23715676 TATGTGTTTT
23715686 CGTGTAAGACCACGTCTGGGACGTTGGCATTGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGA-TT-TGATTTA
*
23715730 CGTGTAAGA-CACGTCTGGGACGTCGGCATTGTATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTG-ATTTGATTTA
* * *
23715771 TGTGTAAGGCC-CTGTCTGGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATTG--ATTTGATTTA
* * *
23715814 CATGTAAGACCACGCCTGGGACGTTGTCATT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATT
23715845 ATACAAGCTT
Statistics
Matches: 96, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
41 8 0.08
42 25 0.26
43 52 0.54
44 11 0.11
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATTGATTTGATTTA
Found at i:23718180 original size:2 final size:2
Alignment explanation
Indices: 23718173--23718210 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
23718163 GGGTGTTACA
*
23718173 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23718211 TTTGGTCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23720561 original size:49 final size:49
Alignment explanation
Indices: 23720485--23720584 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
23720475 TTAGTGAAAT
* *
23720485 ATTTTGACCTTAAGCTGCATCAGATGAATATTAAGTTAATAATTTCTCA
1 ATTTTGACCTTAAACTGCATCAAATGAATATTAAGTTAATAATTTCTCA
* * *
23720534 ATTTTGACTTTAAACTGCATTAAATGAATATTAAGTTAATAGTTTCTCA
1 ATTTTGACCTTAAACTGCATCAAATGAATATTAAGTTAATAATTTCTCA
23720583 AT
1 AT
23720585 GGTAACATTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (49 bp):
ATTTTGACCTTAAACTGCATCAAATGAATATTAAGTTAATAATTTCTCA
Found at i:23722556 original size:46 final size:46
Alignment explanation
Indices: 23722375--23722556 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
23722365 TTTGACATGA
* * * * * *
23722375 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
23722421 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
23722467 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
23722513 TATCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
23722557 AGAGCACACT
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 118 0.97
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:23724705 original size:11 final size:11
Alignment explanation
Indices: 23724689--23724718 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23724679 ACTAAAAATT
*
23724689 AATAATAATGA
1 AATAATAATAA
23724700 AATAATAATAA
1 AATAATAATAA
23724711 AATAATAA
1 AATAATAA
23724719 AATATCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
AATAATAATAA
Found at i:23724745 original size:20 final size:21
Alignment explanation
Indices: 23724685--23724767 Score: 73
Period size: 20 Copynumber: 4.0 Consensus size: 21
23724675 TTATACTAAA
* *
23724685 AATTAATAATAATGAAATA-AT
1 AATTAA-AATAATAAAATATCT
23724706 AA-TAAAATAATAAAATATCT
1 AATTAAAATAATAAAATATCT
* *
23724726 CATTAAAATAAT-ATATATCT
1 AATTAAAATAATAAAATATCT
*
23724746 AATTAAATAATCATAAAATATC
1 AATT-AA-AATAATAAAATATC
23724768 ATCAACATCA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
19 11 0.22
20 15 0.30
21 13 0.26
22 5 0.10
23 6 0.12
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (21 bp):
AATTAAAATAATAAAATATCT
Found at i:23727695 original size:46 final size:46
Alignment explanation
Indices: 23727643--23727813 Score: 254
Period size: 46 Copynumber: 3.7 Consensus size: 46
23727633 TACCATAGTG
* * * *
23727643 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGATA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTA
***
23727689 TCTTTCAACCATGGTCTTGTTCATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
*
23727735 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
23727781 TCTTTCAACCATGGTCTTACACATTTCATATCA
1 TCTTTCAACCATGGTCTTACACATTTCATATCA
23727814 GAGAGTACAC
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.03
46 111 0.97
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
Found at i:23729934 original size:11 final size:11
Alignment explanation
Indices: 23729915--23729950 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
23729905 TCTTTTATAC
23729915 TAATAAAATAA
1 TAATAAAATAA
*
23729926 TAATGAAATAA
1 TAATAAAATAA
23729937 TAATAAAATAA
1 TAATAAAATAA
23729948 TAA
1 TAA
23729951 AATATCTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:23729939 original size:19 final size:19
Alignment explanation
Indices: 23729915--23729954 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23729905 TCTTTTATAC
*
23729915 TAATAAAATAATAATGAAA
1 TAATAAAATAATAATAAAA
23729934 TAATAATAA-AATAATAAAA
1 TAATAA-AATAATAATAAAA
23729953 TA
1 TA
23729955 TCTCATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
TAATAAAATAATAATAAAA
Found at i:23729977 original size:20 final size:21
Alignment explanation
Indices: 23729924--23729999 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
23729914 CTAATAAAAT
* *
23729924 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
23729943 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
23729964 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
23729985 TAATCATAAAATATC
1 -AATAATAAAATATC
23730000 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:23736796 original size:29 final size:31
Alignment explanation
Indices: 23736764--23736831 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 31
23736754 GTATTTACTT
*
23736764 TTTAAATATAT-TAATTAATATTTTTATT-A
1 TTTAAATATATATAATTAAGATTTTTATTAA
* *
23736793 TTTAAA-ATATATATTTAAGATTTTTTTTAA
1 TTTAAATATATATAATTAAGATTTTTATTAA
23736823 TTTATAATA
1 TTTA-AATA
23736832 AAAATATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.12
29 20 0.62
30 5 0.16
31 2 0.06
32 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (31 bp):
TTTAAATATATATAATTAAGATTTTTATTAA
Found at i:23736803 original size:30 final size:30
Alignment explanation
Indices: 23736767--23736831 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
23736757 TTTACTTTTT
*
23736767 AAATATATTAATTAATATTTTTATT-ATTTA
1 AAATATA-TAATTAAGATTTTTATTAATTTA
* *
23736797 AAATATATATTTAAGATTTTTTTTAATTTA
1 AAATATATAATTAAGATTTTTATTAATTTA
*
23736827 TAATA
1 AAATA
23736832 AAAATATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
AAATATATAATTAAGATTTTTATTAATTTA
Found at i:23737056 original size:3 final size:3
Alignment explanation
Indices: 23737050--23737096 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
23737040 ATTTAAATTA
23737050 AAT AAT AA- AACT ATAT AAT -AT AA- AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AA-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23737094 AAT
1 AAT
23737097 TAAACATCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 6 0.15
3 29 0.74
4 3 0.08
5 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23737074 original size:15 final size:13
Alignment explanation
Indices: 23737050--23737100 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
23737040 ATTTAAATTA
*
23737050 AATAATA-AAACT
1 AATAATATAAAAT
23737062 ATATAATATAAAAT
1 A-ATAATATAAAAT
23737076 AATAATAATAATAAT
1 AATAAT-ATAA-AAT
23737091 AATAAT-TAAA
1 AATAATATAAA
23737101 CATCTGATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 2 0.06
13 14 0.41
14 9 0.26
15 9 0.26
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAATATAAAAT
Found at i:23737274 original size:40 final size:38
Alignment explanation
Indices: 23737230--23737311 Score: 105
Period size: 36 Copynumber: 2.2 Consensus size: 38
23737220 GCATATATTT
*
23737230 ATAATACTAAATATTAGTTTTAATTGATAATCAAGCTAAA
1 ATAATA-TAAAT-GTAGTTTTAATTGATAATCAAGCTAAA
* *
23737270 AT-A-ATAAGTGTAGTTTTAATTGATAATTAAGCTAAA
1 ATAATATAAATGTAGTTTTAATTGATAATCAAGCTAAA
23737306 ATAATA
1 ATAATA
23737312 AATATAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
36 27 0.73
37 5 0.14
38 2 0.05
39 1 0.03
40 2 0.05
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (38 bp):
ATAATATAAATGTAGTTTTAATTGATAATCAAGCTAAA
Found at i:23737285 original size:36 final size:36
Alignment explanation
Indices: 23737244--23737312 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
23737234 TACTAAATAT
23737244 TAGTTTTAATTGATAATCAAGCTAAAATAATAAGTG
1 TAGTTTTAATTGATAATCAAGCTAAAATAATAAGTG
*
23737280 TAGTTTTAATTGATAATTAAGCTAAAATAATAA
1 TAGTTTTAATTGATAATCAAGCTAAAATAATAA
23737313 ATATAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (36 bp):
TAGTTTTAATTGATAATCAAGCTAAAATAATAAGTG
Found at i:23738901 original size:6 final size:6
Alignment explanation
Indices: 23738890--23738919 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
23738880 ATAAAGTAAT
23738890 ATTTTA ATTTTA ATTTTA ATTTTA TATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA -ATTTT
23738920 TTAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:23738907 original size:12 final size:13
Alignment explanation
Indices: 23738888--23738919 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
23738878 TTATAAAGTA
23738888 ATATTTTAATTTT
1 ATATTTTAATTTT
23738901 A-ATTTTAATTTT
1 ATATTTTAATTTT
23738913 ATATTTT
1 ATATTTT
23738920 TTAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTTAATTTT
Found at i:23747165 original size:46 final size:46
Alignment explanation
Indices: 23747112--23747235 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
23747102 TATGTGTGCT
* * *
23747112 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-TATTATAAGAACC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCATTA-GACAAGAACC
* * *
23747158 AGTGTAAGACATGTCTAGGACATGCATCAG-CATTGAGACAAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCATT-AGACAAGAACC
*
23747204 AGTGTAAGACATGTCTAGAACATGCATCGGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCC
23747236 TCGAGATATC
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
45 2 0.03
46 63 0.94
47 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCATTAGACAAGAACC
Found at i:23747382 original size:49 final size:49
Alignment explanation
Indices: 23747294--23747420 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 49
23747284 TGTTGTGTGT
*
23747294 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAAATGAAAGG
1 CAGTGTAAGACCTGTCTGGGACACGGCATCGACACCGATAAATGAAAGG
* * * * *
23747343 CAGTTTAAGACCTGTCTGGGACACGGTATCGGC-CTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACACGGCATCGACAC-CGATAAATGAAAGG
* * *
23747392 TAGTGTAAGACCTGTTTGGGACATGGCAT
1 CAGTGTAAGACCTGTCTGGGACACGGCAT
23747421 TGACTTTGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.02
49 65 0.98
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACACGGCATCGACACCGATAAATGAAAGG
Found at i:23749251 original size:12 final size:13
Alignment explanation
Indices: 23749234--23749266 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23749224 AGTGTTGATT
23749234 ACACGGGCT-GAG
1 ACACGGGCTGGAG
*
23749246 ACACGGCCTGGAG
1 ACACGGGCTGGAG
23749259 ACACGGGC
1 ACACGGGC
23749267 GTGTACCGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.24, C:0.30, G:0.39, T:0.06
Consensus pattern (13 bp):
ACACGGGCTGGAG
Found at i:23752524 original size:27 final size:28
Alignment explanation
Indices: 23752494--23752563 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
23752484 ATAATAAGTC
*
23752494 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
23752521 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
23752549 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23752564 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23760444 original size:27 final size:28
Alignment explanation
Indices: 23760414--23760483 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
23760404 ATAATAAGTC
*
23760414 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
23760441 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
23760469 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23760484 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23767613 original size:39 final size:39
Alignment explanation
Indices: 23767563--23767702 Score: 235
Period size: 39 Copynumber: 3.6 Consensus size: 39
23767553 GCTCTGGTGA
*
23767563 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
23767602 GCTTCAATTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
23767641 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
** *
23767680 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAATTAGCCTTCGGGCTTC
23767703 AGATCACGAT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (39 bp):
GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:23772040 original size:37 final size:37
Alignment explanation
Indices: 23771985--23772075 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
23771975 TTATTACGAA
* *
23771985 GTCTTACCCGGCCATAATCTCCACACGTAGTCATCGG
1 GTCTCACCCGGACATAATCTCCACACGTAGTCATCGG
23772022 GTCTCACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTCACCCGGACATAATCTCCACACGTAGTCATCGG
23772059 GTCTCACCCGGAACATA
1 GTCTCACCCGG-ACATA
23772076 TTTCTAAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 46 0.90
38 5 0.10
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTCACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:23772215 original size:49 final size:49
Alignment explanation
Indices: 23772144--23772394 Score: 448
Period size: 49 Copynumber: 5.1 Consensus size: 49
23772134 TTTACCACAT
* * *
23772144 ATATATATACACTTTAACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
23772193 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
23772242 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
23772291 ATATGTATACATTTTCACATTCATCACGTCGACCATTAGGCCTTATCAC
1 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
23772340 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
23772389 ATATGT
1 ATATGT
23772395 TATTATGTAC
Statistics
Matches: 195, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 195 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.35
Consensus pattern (49 bp):
ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
Found at i:23775673 original size:18 final size:19
Alignment explanation
Indices: 23775650--23775689 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
23775640 CATTAATTCC
23775650 TCTTTCAAT-AATTTTTTT
1 TCTTTCAATAAATTTTTTT
23775668 TCTTTCAATAAATTTTTTT
1 TCTTTCAATAAATTTTTTT
23775687 TCT
1 TCT
23775690 CCACGAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (19 bp):
TCTTTCAATAAATTTTTTT
Found at i:23780006 original size:49 final size:49
Alignment explanation
Indices: 23779953--23780177 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
23779943 CTGGTACGCA
23779953 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * ** * *
23780002 TAGTAGCCTGCACTTAGTACAACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * * * *
23780052 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
*
23780103 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*
23780152 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
23780178 CGTGACCTCA
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 66 0.44
50 46 0.31
51 38 0.25
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:23780128 original size:101 final size:98
Alignment explanation
Indices: 23779953--23780184 Score: 313
Period size: 101 Copynumber: 2.3 Consensus size: 98
23779943 CTGGTACGCA
* * *
23779953 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
23780018 GTACAACACATGTGACCTAACCAT-CTGATACACG
66 GTACAACACATGCGACC-AACCATCCAG-TACACG
* * *
23780052 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* **
23780117 TAGTACTACACATGCGACCAATTATCCAGTACACG
64 TAGTACAACACATGCGACCAACCATCCAGTACACG
*
23780152 TAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
23780185 TCATAATAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
99 30 0.26
100 43 0.37
101 44 0.38
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACAACACATGCGACCAACCATCCAGTACACG
Found at i:23783688 original size:27 final size:28
Alignment explanation
Indices: 23783632--23783701 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
23783622 AAACTTGTAC
23783632 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
23783660 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
23783687 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
23783702 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:23783712 original size:27 final size:27
Alignment explanation
Indices: 23783632--23783713 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
23783622 AAACTTGTAC
* *
23783632 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
23783660 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
23783687 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
23783714 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:23791548 original size:23 final size:23
Alignment explanation
Indices: 23791518--23791564 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
23791508 CAGCACTAAG
23791518 TGTGCGAGTTTGATCAT-TAGCAC
1 TGTGCGAG-TTGATCATATAGCAC
*
23791541 TGTGCGAGTTGATTATATAGCAC
1 TGTGCGAGTTGATCATATAGCAC
23791564 T
1 T
23791565 AAGTGTGCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (23 bp):
TGTGCGAGTTGATCATATAGCAC
Found at i:23795600 original size:46 final size:46
Alignment explanation
Indices: 23795428--23795600 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
23795418 AACCCGCCCC
* * * *
23795428 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
23795474 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAAGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-A--C-ATTTGCATCCA
* *
23795522 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
23795567 TGAGTGAACACGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23795601 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 61 0.58
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:23796970 original size:52 final size:52
Alignment explanation
Indices: 23796908--23797012 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
23796898 GTCTAATGTG
*
23796908 TTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAATCGTTA
1 TTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAATCATTA
23796960 TTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAATCATTA
1 TTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAATCATTA
23797012 T
1 T
23797013 CGACCAGGTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (52 bp):
TTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAATCATTA
Found at i:23797579 original size:2 final size:2
Alignment explanation
Indices: 23797572--23797603 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23797562 GCTTCGCCAC
23797572 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23797604 CTCTGTTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23805252 original size:51 final size:50
Alignment explanation
Indices: 23805185--23805320 Score: 150
Period size: 49 Copynumber: 2.7 Consensus size: 50
23805175 AGCTAGGCCG
* *
23805185 CATGTCTAGTACTAAGTGCAGGCTATTATGCGTACCCGACAACT-TCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG--AACTGTCGATCA
* * * * * * * *
23805236 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGTATTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAACTGTCGATCA
23805285 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
23805321 AGATAGCTTC
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
48 2 0.03
49 35 0.50
50 4 0.06
51 29 0.41
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAACTGTCGATCA
Done.