Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 144 of 425
Found at i:43821662 original size:47 final size:47
Alignment explanation
Indices: 43821608--43821844 Score: 332
Period size: 47 Copynumber: 5.0 Consensus size: 47
43821598 GATTTTATGA
** * * *
43821608 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
43821655 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
43821702 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* ** *
43821749 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * * *
43821796 GATAAACGTGGAA-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
43821843 GA
1 GA
43821845 GATATGTATG
Statistics
Matches: 170, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 167 0.98
48 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:43821681 original size:25 final size:24
Alignment explanation
Indices: 43821652--43821776 Score: 63
Period size: 25 Copynumber: 5.2 Consensus size: 24
43821642 TAATGGCCAA
43821652 TGTGATGAATGTGAACATGCATAT
1 TGTGATGAATGTGAACATGCATAT
* *
43821676 GTGTGAT-AAGGCCG-A-ATGGCCA-A-
1 -TGTGATGAATG-TGAACAT-G-CATAT
43821699 TGTGATGAATGTGAACATGCATAT
1 TGTGATGAATGTGAACATGCATAT
* *
43821723 ATGTGAT-AAGGCCG-A-ATGGCCA-A-
1 -TGTGATGAATG-TGAACAT-G-CATAT
43821746 TGTGATGAATGTGAACATGCATAT
1 TGTGATGAATGTGAACATGCATAT
43821770 GTGTGAT
1 -TGTGAT
43821777 AAGGTAGAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 18 0.24
23 16 0.22
24 16 0.22
25 24 0.32
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (24 bp):
TGTGATGAATGTGAACATGCATAT
Found at i:43821704 original size:22 final size:22
Alignment explanation
Indices: 43821677--43821751 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
43821667 CATGCATATG
43821677 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
43821699 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
43821724 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
43821746 TGTGAT
1 TGTGAT
43821752 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:43821709 original size:94 final size:93
Alignment explanation
Indices: 43821608--43821844 Score: 366
Period size: 94 Copynumber: 2.5 Consensus size: 93
43821598 GATTTTATGA
* *
43821608 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
*
43821673 TATGTGTGATAAGGCCGAATGGCCAATGT
65 TATGTGTGATAAGGCAGAATGGCCAATGT
* *
43821702 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
43821767 TATGTGTGATAAGGTAGAATGGCTAATGT
65 TATGTGTGATAAGGCAGAATGGCCAATGT
* *
43821796 GATAAACGTGGAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
1 GATGAATGT-GAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
43821845 GATATGTATG
Statistics
Matches: 130, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
94 127 0.98
95 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCAT
ATGTGTGATAAGGCAGAATGGCCAATGT
Found at i:43822807 original size:2 final size:2
Alignment explanation
Indices: 43822802--43822831 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43822792 TTATTAAAAA
43822802 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
43822832 TCGAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43826345 original size:29 final size:29
Alignment explanation
Indices: 43826284--43826473 Score: 240
Period size: 29 Copynumber: 6.6 Consensus size: 29
43826274 TACTCGATTT
* *
43826284 CGCACACTTAGTGCCAT-TCGATTT-AAGCC
1 CGCACACTTAGTGCCATAT--ATTTCCAGCA
* *** * *
43826313 CGCACACATAGTGCCATAGCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** *
43826342 CGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
43826371 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43826400 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43826429 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43826458 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
43826474 ATCTCGTCAC
Statistics
Matches: 140, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
28 2 0.01
29 138 0.99
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:43833627 original size:29 final size:29
Alignment explanation
Indices: 43833536--43833724 Score: 222
Period size: 29 Copynumber: 6.6 Consensus size: 29
43833526 TACTCGATTT
* *
43833536 CGCACACTTAGTGCCAT-TCGATTT-AAGCC
1 CGCACACTTAGTGCCATAT--ATTTCCAGCA
* *** * *
43833565 CGCACACATAGTGCCATAGCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** *
43833594 CGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
43833623 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43833652 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
43833681 TGCACACTTAGTGCCA-ATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43833709 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
43833725 ATCTCGTCAC
Statistics
Matches: 137, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
28 29 0.21
29 108 0.79
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:43837107 original size:18 final size:19
Alignment explanation
Indices: 43837073--43837108 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
43837063 ACACATATAT
43837073 TTTTATAATTTATAATTTA
1 TTTTATAATTTATAATTTA
*
43837092 TTTTATATTTTA-AATTT
1 TTTTATAATTTATAATTT
43837109 TTTATGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTATAATTTA
Found at i:43842005 original size:68 final size:70
Alignment explanation
Indices: 43841933--43842091 Score: 186
Period size: 67 Copynumber: 2.3 Consensus size: 70
43841923 CATCATGTGT
* * * * *
43841933 ACAAGAGAGCTATGAGATAAAATGTGGTAGCTAGGTCACATGTGT-GAT-AAGG-GATGTATACC
1 ACAAGAGAGCTACGAGATAAAATGT-GTAGCTAGGTCACATCTGTGGATCAAGGTGAAGGACACC
43841995 ATGTAG
65 ATGTAG
* * * *
43842001 ACAAGAGAGCTACGGGAT-AAA--TGTAGCTAGGTCGCATCTGTGGTTCCAGGTGAAGGACACCA
1 ACAAGAGAGCTACGAGATAAAATGTGTAGCTAGGTCACATCTGTGGATCAAGGTGAAGGACACCA
43842063 TGTAG
66 TGTAG
43842068 ACAAGAGAGCTACGAGATAAAATG
1 ACAAGAGAGCTACGAGATAAAATG
43842092 GCTAGGTCAC
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
64 17 0.23
65 3 0.04
66 3 0.04
67 33 0.44
68 19 0.25
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (70 bp):
ACAAGAGAGCTACGAGATAAAATGTGTAGCTAGGTCACATCTGTGGATCAAGGTGAAGGACACCA
TGTAG
Found at i:43843572 original size:93 final size:93
Alignment explanation
Indices: 43843465--43843635 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
43843455 GCCCCTAAGT
* *
43843465 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43843530 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43843558 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43843623 CGAGTTCGGATGC
66 CGAGTTCGGATGC
43843636 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43843632 original size:46 final size:46
Alignment explanation
Indices: 43843460--43843632 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
43843450 AACCCGCCCC
* * *
43843460 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
43843506 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
43843554 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
43843599 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43843633 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:43844089 original size:30 final size:30
Alignment explanation
Indices: 43844055--43844114 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
43844045 ATTTAATACG
43844055 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
43844085 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
43844115 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:43851153 original size:93 final size:93
Alignment explanation
Indices: 43851042--43851212 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
43851032 GCCCCTAAGT
*
43851042 GAACTCAGAATCAACTCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGAATCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43851106 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
43851135 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43851200 CGAGTTCGGATGC
66 CGAGTTCGGATGC
43851213 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43851209 original size:46 final size:46
Alignment explanation
Indices: 43851037--43851209 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
43851027 AACCCGCCCC
* * * *
43851037 TAAGTGAACTCAGAATCAACTCAACGAGCTCGGGA-GTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
*
43851083 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
43851131 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
43851176 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43851210 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 5 0.05
46 57 0.53
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:43851665 original size:30 final size:30
Alignment explanation
Indices: 43851631--43851690 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
43851621 ATTTAATACG
43851631 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
43851661 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
43851691 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:43852980 original size:19 final size:19
Alignment explanation
Indices: 43852956--43852995 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
43852946 CTCGCTCCCC
*
43852956 TTCTTTTTGTTCTTTTCTT
1 TTCTTTTTGTTCTCTTCTT
43852975 TTCTTTTTGTTCTCTTCTT
1 TTCTTTTTGTTCTCTTCTT
43852994 TT
1 TT
43852996 TTTGCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (19 bp):
TTCTTTTTGTTCTCTTCTT
Found at i:43854422 original size:22 final size:22
Alignment explanation
Indices: 43854384--43854448 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
43854374 GGGTAGGAAA
*
43854384 CTGCATTTG-ATTCTGATCTATT
1 CTGCATCTGTATT-TGATCTATT
*
43854406 CTGCATCTGTATTTGATCTGTT
1 CTGCATCTGTATTTGATCTATT
* *
43854428 CTGCATCT-TATCTGAACTATT
1 CTGCATCTGTATTTGATCTATT
43854449 ACGATTATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.27
22 24 0.65
23 3 0.08
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (22 bp):
CTGCATCTGTATTTGATCTATT
Found at i:43859482 original size:3 final size:3
Alignment explanation
Indices: 43859474--43859532 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
43859464 AGATATTTAC
43859474 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43859521 TT- TTA TCTA TTA
1 TTA TTA T-TA TTA
43859533 ATTGATATAG
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:43860495 original size:28 final size:28
Alignment explanation
Indices: 43860441--43860495 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
43860431 GTATACATGT
*
43860441 GTGAAATTGAATTGTGTAATGATTTGTA
1 GTGAAATTGAATTGTGTAATGAATTGTA
* *
43860469 GTGAATTTGAAATTGTG-ATTGAATTGT
1 GTGAAATTG-AATTGTGTAATGAATTGT
43860496 TATTGCGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (28 bp):
GTGAAATTGAATTGTGTAATGAATTGTA
Found at i:43861144 original size:13 final size:13
Alignment explanation
Indices: 43861122--43861171 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
43861112 TGATAGTTTG
*
43861122 GTATGAATTTATAT
1 GTATG-ATTTGTAT
43861136 GTATGATTTGTAT
1 GTATGATTTGTAT
*
43861149 GTATGATTTGCAT
1 GTATGATTTGTAT
43861162 GTATGATTTG
1 GTATGATTTG
43861172 CTAATTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
13 29 0.85
14 5 0.15
ACGTcount: A:0.26, C:0.02, G:0.22, T:0.50
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:43865382 original size:46 final size:48
Alignment explanation
Indices: 43865274--43865442 Score: 245
Period size: 48 Copynumber: 3.6 Consensus size: 48
43865264 AAGCTGACGC
43865274 CATGTCCCAGACA-GTTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATG-TCTTACACTAGCTTGTATATCTCGAGGCCGATG
* ** * *
43865322 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* *
43865368 CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
43865416 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
43865443 ACACATATCA
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
46 38 0.36
47 4 0.04
48 62 0.59
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:43868791 original size:20 final size:19
Alignment explanation
Indices: 43868755--43868804 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
43868745 TATAACAACT
*
43868755 CACATTTTCAATTATTTCA
1 CACATTTACAATTATTTCA
*
43868774 CACATTTACAACTTATTTTA
1 CACATTTACAA-TTATTTCA
43868794 CA-ACTTTACAA
1 CACA-TTTACAA
43868805 AATAGCCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (19 bp):
CACATTTACAATTATTTCA
Found at i:43871937 original size:14 final size:14
Alignment explanation
Indices: 43871918--43871944 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43871908 TACTCATTTT
43871918 TGTTTGTTTGTTTG
1 TGTTTGTTTGTTTG
43871932 TGTTTGTTTGTTT
1 TGTTTGTTTGTTT
43871945 TCTATTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (14 bp):
TGTTTGTTTGTTTG
Found at i:43873611 original size:26 final size:25
Alignment explanation
Indices: 43873576--43873638 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
43873566 TTTACCCAAT
*
43873576 TAAAATTTTTGACAATTTTACGCTCGA
1 TAAAA-TTTTGACAATGTTA-GCTCGA
** *
43873603 TAAAATTTTGATGATGTTATCTCGA
1 TAAAATTTTGACAATGTTAGCTCGA
43873628 TAAAATTTTGA
1 TAAAATTTTGA
43873639 GAAAATTCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 16 0.50
26 11 0.34
27 5 0.16
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (25 bp):
TAAAATTTTGACAATGTTAGCTCGA
Found at i:43881973 original size:30 final size:30
Alignment explanation
Indices: 43881918--43882077 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
43881908 ATAGTGAATC
43881918 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
43881947 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
43881977 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
43882006 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
43882034 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
43882064 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43882078 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:43882010 original size:59 final size:57
Alignment explanation
Indices: 43881918--43882077 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
43881908 ATAGTGAATC
*
43881918 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
43881977 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
43882034 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
43882078 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:43887388 original size:24 final size:24
Alignment explanation
Indices: 43887361--43887407 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
43887351 ATATTGTGTC
*
43887361 GGTGTATTTATCGGGCTTTGTGCT
1 GGTGTATTTATCGAGCTTTGTGCT
*
43887385 GGTGTGTTTATCGAGCTTTGTGC
1 GGTGTATTTATCGAGCTTTGTGC
43887408 CTAGCGGGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.09, C:0.13, G:0.34, T:0.45
Consensus pattern (24 bp):
GGTGTATTTATCGAGCTTTGTGCT
Found at i:43887663 original size:110 final size:109
Alignment explanation
Indices: 43887444--43887668 Score: 270
Period size: 110 Copynumber: 2.1 Consensus size: 109
43887434 TATCAGGACT
* * * * *** *
43887444 TGAGTCGGTGATCGTTTAATAAGTACTATGTACCTGTGATACAGACCATAGTGATGGCTGAGATC
1 TGAGTCGGTGATCATTTAACAAGTACTATGTACCAGTGATACAAACCATAACAATAGCTGAGATC
* *
43887509 CTGCATCTGTTGCAGATTTTCTACAGCTTGTGTGAGCAGTATCG
66 CTGCATCTGTTGCAGATTTTCTACAGCTTGTGAGAGCAGCATCG
* * *
43887553 TGAGTCGGTGATTATTTAGCAAGTACTATGTATCAGTGATACAAACCATAACAATAGCTTGAGAT
1 TGAGTCGGTGATCATTTAACAAGTACTATGTACCAGTGATACAAACCATAACAATAGC-TGAGAT
* ** * *
43887618 CTTGCATCTGTTGTGGATTTTCTATAGCTTGTGAGAGTAGCATCG
65 CCTGCATCTGTTGCAGATTTTCTACAGCTTGTGAGAGCAGCATCG
*
43887663 TAAGTC
1 TGAGTC
43887669 AATCAAAGTT
Statistics
Matches: 96, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
109 47 0.49
110 49 0.51
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (109 bp):
TGAGTCGGTGATCATTTAACAAGTACTATGTACCAGTGATACAAACCATAACAATAGCTGAGATC
CTGCATCTGTTGCAGATTTTCTACAGCTTGTGAGAGCAGCATCG
Found at i:43906040 original size:40 final size:40
Alignment explanation
Indices: 43905995--43906124 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
43905985 CGGAATATAA
43905995 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
43906035 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
43906075 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
43906115 CCGGATATAA
1 CCGGATATAA
43906125 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:43906139 original size:40 final size:39
Alignment explanation
Indices: 43906011--43906161 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
43906001 ATAACCATGT
* * *
43906011 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
43906051 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
43906091 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
43906130 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
43906162 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:43906145 original size:80 final size:79
Alignment explanation
Indices: 43905995--43906161 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
43905985 CGGAATATAA
*
43905995 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
43906060 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
43906075 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
43906137 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
43906154 CCGGATAT
1 CCGGATAT
43906162 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:43908559 original size:29 final size:29
Alignment explanation
Indices: 43908525--43908602 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
43908515 GTGACGAGAT
* *
43908525 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
43908554 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
43908583 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
43908603 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:43916415 original size:29 final size:29
Alignment explanation
Indices: 43916381--43916458 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
43916371 GTGACGAGAT
* *
43916381 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
43916410 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
43916439 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
43916459 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:43936232 original size:31 final size:30
Alignment explanation
Indices: 43936196--43936256 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
43936186 ATGCAAAAGC
*
43936196 ATATATTGAGTCCGCACACTTAGTGCTATAT
1 ATATATTCAG-CCGCACACTTAGTGCTATAT
*
43936227 ATATATTCAGCTGCACACTTAGTGCTATAT
1 ATATATTCAGCCGCACACTTAGTGCTATAT
43936257 GATCAAACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (30 bp):
ATATATTCAGCCGCACACTTAGTGCTATAT
Found at i:43947524 original size:40 final size:39
Alignment explanation
Indices: 43947359--43947542 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
43947349 AAATTGAATG
* * *
43947359 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
43947399 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
43947439 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
43947479 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
43947518 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
43947543 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:43947567 original size:80 final size:81
Alignment explanation
Indices: 43947399--43947587 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
43947389 GCTGGAAATT
* * * *
43947399 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
43947464 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
43947480 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
43947543 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
43947559 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
43947588 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:43955644 original size:40 final size:39
Alignment explanation
Indices: 43955479--43955662 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
43955469 AAATTGAATG
* * *
43955479 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
43955519 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
43955559 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
43955599 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
43955638 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
43955663 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:43955687 original size:80 final size:81
Alignment explanation
Indices: 43955519--43955707 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
43955509 GCTGGAAATT
* * * *
43955519 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
43955584 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
43955600 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
43955663 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
43955679 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
43955708 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:43962574 original size:2 final size:2
Alignment explanation
Indices: 43962567--43962593 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43962557 GCTCTTGCAC
43962567 AT 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 AT A
43962594 GTTTGCACAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43963396 original size:40 final size:40
Alignment explanation
Indices: 43963302--43963446 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
43963292 TACTCGAATG
*
43963302 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
43963343 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
43963383 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
43963423 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
43963447 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:43971425 original size:40 final size:40
Alignment explanation
Indices: 43971331--43971475 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
43971321 TACTCGAATG
*
43971331 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAT-CGACT
* * *
43971372 ACATCCGGACTAAGAT-CTGAAGGCATTTGTGCTATCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTATCGACT
* *
43971412 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGT-GACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TCGACT
* *
43971452 ATATTCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
43971476 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 58 0.64
41 30 0.33
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATCGACT
Found at i:43979826 original size:44 final size:42
Alignment explanation
Indices: 43979754--43979860 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 42
43979744 TGTGTTTTCA
* * **
43979754 TGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATTTATG
1 TGTAAGACCATGTCTGGGACATCAGCATCGTA-TT-TGATTT-TG
*
43979798 TGTAAGACCATGTCTGGGATATCAGCATCGTATTTGATTTTG
1 TGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATTTTG
*
43979840 TGTAAGACCCTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
43979861 GTGGCATCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 21 0.38
43 6 0.11
44 27 0.49
45 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATTTTG
Found at i:43979868 original size:42 final size:44
Alignment explanation
Indices: 43979754--43979868 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 44
43979744 TGTGTTTTCA
43979754 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACTTATGATTTATG
1 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGACTTATGATTTATG
* * *
43979798 TGTAAGACCATGTCTGGGATA-TCAGCATCGTA-TT-TGATTT-TG
1 TGTAAGACCCTGTCTGGGACAGT-GGCATCG-ACTTATGATTTATG
43979840 TGTAAGACCCTGTCTGGGACAGTGGCATC
1 TGTAAGACCCTGTCTGGGACAGTGGCATC
43979869 AATATATGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
42 26 0.43
43 8 0.13
44 25 0.42
45 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (44 bp):
TGTAAGACCCTGTCTGGGACAGTGGCATCGACTTATGATTTATG
Found at i:43981436 original size:12 final size:12
Alignment explanation
Indices: 43981419--43981456 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
43981409 TTATTATAGT
43981419 AAATGATAATTA
1 AAATGATAATTA
43981431 AAATGATAATT-
1 AAATGATAATTA
*
43981442 AAATGA-AAATA
1 AAATGATAATTA
43981453 AAAT
1 AAAT
43981457 ACAAAATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 3 0.12
11 10 0.42
12 11 0.46
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (12 bp):
AAATGATAATTA
Found at i:43988165 original size:18 final size:21
Alignment explanation
Indices: 43988127--43988165 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 21
43988117 AGTATGTCAG
43988127 TTGTGGAATATGAACGTAAGT
1 TTGTGGAATATGAACGTAAGT
43988148 TTGT-GAATAT-AA-GTAAGT
1 TTGTGGAATATGAACGTAAGT
43988166 ATGCTCGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 6 0.33
21 4 0.22
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (21 bp):
TTGTGGAATATGAACGTAAGT
Found at i:43997317 original size:55 final size:54
Alignment explanation
Indices: 43997162--43997368 Score: 245
Period size: 53 Copynumber: 3.8 Consensus size: 54
43997152 TTCCTTTTTA
* * *
43997162 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
43997215 AACTCACCATTGTCATGCCTTGGCATGGTCTTACATGGTATCTTTGCCTTATAG
1 AACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
43997269 TAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAA
1 -AACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
43997324 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTT
43997369 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
53 47 0.37
54 37 0.29
55 43 0.34
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:43999257 original size:5 final size:5
Alignment explanation
Indices: 43999247--43999321 Score: 53
Period size: 5 Copynumber: 13.6 Consensus size: 5
43999237 TCACCCCCAT
* *
43999247 TTTTA TTTTA TTTTA TTTTA TTTATTA TTTGTT TTATTA TTTATT TTTTA
1 TTTTA TTTTA TTTTA TTTTA -TT-TTA TTT-TA TT-TTA TTT-TA TTTTA
43999297 TTTTA CTAATTT- TTTTA TTTTA TTT
1 TTTTA -T--TTTA TTTTA TTTTA TTT
43999322 ATTATTCTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
4 3 0.05
5 31 0.54
6 16 0.28
7 4 0.07
8 3 0.05
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:43999327 original size:12 final size:12
Alignment explanation
Indices: 43999245--43999316 Score: 64
Period size: 12 Copynumber: 6.3 Consensus size: 12
43999235 AATCACCCCC
43999245 ATTT-TTATTTT
1 ATTTATTATTTT
43999256 A-TT-TTATTTT
1 ATTTATTATTTT
43999266 ATTTATTATTTGT
1 ATTTATTATTT-T
43999279 -TTTATTA-TTT
1 ATTTATTATTTT
*
43999289 ATTTTTTATTTT
1 ATTTATTATTTT
* * *
43999301 ACTAATTTTTTT
1 ATTTATTATTTT
43999313 ATTT
1 ATTT
43999317 TATTTATTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
10 11 0.22
11 11 0.22
12 26 0.53
13 1 0.02
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (12 bp):
ATTTATTATTTT
Found at i:44001223 original size:55 final size:55
Alignment explanation
Indices: 44001033--44001287 Score: 280
Period size: 55 Copynumber: 4.8 Consensus size: 55
44001023 ACATGGGTAC
* * * *
44001033 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-T-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * *
44001082 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * *
44001135 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAGAAA
* * *
44001190 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCC-T-TAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
*
44001243 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
44001288 AAATCCTAAT
Statistics
Matches: 175, Mismatches: 20, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
49 37 0.21
50 1 0.01
52 2 0.01
53 51 0.29
54 11 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (55 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
Found at i:44001224 original size:108 final size:110
Alignment explanation
Indices: 44001078--44001280 Score: 331
Period size: 108 Copynumber: 1.9 Consensus size: 110
44001068 GTATCCTTTT
* *
44001078 GAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACC
44001141 AA-TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* * *
44001186 GAAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
44001251 ATTGCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTGGCATGGTCTTACATGG
44001281 TATCCTTAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 51 0.59
109 7 0.08
110 28 0.32
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:44004640 original size:46 final size:46
Alignment explanation
Indices: 44004568--44004740 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 46
44004558 GTAACCCGCC
44004568 CATAAGTGAACTC-AGACTCAACTCAACGAGCTCGGGCGTTCGCATT
1 CATAAGTGAACTCGA-ACTCAACTCAACGAGCTCGGGCGTTCGCATT
* * *
44004614 CATAGGTGAACTCGAACTCAACTCAACGAGCTTGGATGCCTAGTT-ACA-T
1 CATAAGTGAACTCGAACTCAACTCAACGAGCTCGG--G-C--GTTCGCATT
* * * * * *
44004663 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATC
1 CATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATT
* *
44004707 CATAAGTGAACTCCAACTCAACTCAATGAGCTCG
1 CATAAGTGAACTCGAACTCAACTCAACGAGCTCG
44004741 AATGCCTAGT
Statistics
Matches: 99, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
42 3 0.03
43 2 0.02
44 2 0.02
45 2 0.02
46 54 0.55
47 26 0.26
48 2 0.02
49 3 0.03
50 2 0.02
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATT
Found at i:44004685 original size:47 final size:47
Alignment explanation
Indices: 44004621--44004783 Score: 158
Period size: 47 Copynumber: 3.5 Consensus size: 47
44004611 ATTCATAGGT
44004621 GAACTCGAACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCAC
1 GAACTCGAACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCAC
* * * *
44004668 GAACTCGGACTCAACTCAACGAG-TTCGGA---C--GTTCGCATCCATAAGT
1 GAACTCGAACTCAACTCAACGAGCTT-GGATGCCTAGTT-ACAT-C-TCA-C
* * * *
44004714 GAACTCCAACTCAACTCAATGAGCTCGAATGCCTAGTTACATCTCAC
1 GAACTCGAACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCAC
*
44004761 GAACTCGGACTCAACTCAACGAG
1 GAACTCGAACTCAACTCAACGAG
44004784 TTCAGACGTT
Statistics
Matches: 90, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 24 0.27
47 46 0.51
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (47 bp):
GAACTCGAACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCAC
Found at i:44004738 original size:93 final size:93
Alignment explanation
Indices: 44004575--44004826 Score: 380
Period size: 93 Copynumber: 2.7 Consensus size: 93
44004565 GCCCATAAGT
* * * * * *
44004575 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATTCATAGGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCCAACTCAACTCAA
* *
44004640 CGAGCTTGGATGCCTAGTTACATCTCAC
66 CGAGCTCGAATGCCTAGTTACATCTCAC
44004668 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCCAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCCAACTCAACTCAA
*
44004733 TGAGCTCGAATGCCTAGTTACATCTCAC
66 CGAGCTCGAATGCCTAGTTACATCTCAC
* * *
44004761 GAACTCGGACTCAACTCAACGAGTTCAGACGTTTGCATCCATAAATGAACT-CAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCCA-ACTCAACTCA
44004825 AC
65 AC
44004827 AAGTTCGGAT
Statistics
Matches: 145, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
92 2 0.01
93 143 0.99
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCCAACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCAC
Found at i:44004818 original size:46 final size:45
Alignment explanation
Indices: 44004567--44004833 Score: 136
Period size: 46 Copynumber: 5.8 Consensus size: 45
44004557 TGTAACCCGC
* * * *
44004567 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAATGAACTCAGACTCAACTCAACGAGTTC-GACGTTTGCAT
* ** * * *
44004613 TCATAGGTGAACTC-GAACTCAACTCAACGAGCTTGGATGCCTAGTTACAT
1 CCATAAATGAACTCAG-ACTCAACTCAACGAG-TTCGA--CGT--TTGCAT
* * * *
44004663 -C-T-CACGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAATGAACTCAGACTCAACTCAACGAGTTC-GACGTTTGCAT
* * * * *
44004706 CCATAAGTGAACTCCA-ACTCAACTCAATGAGCTCGAATGCCTAGTTACAT
1 CCATAAATGAACT-CAGACTCAACTCAACGAGTTCG-A--CGT--TTGCAT
* * *
44004756 -C-T-CACGAACTCGGACTCAACTCAACGAGTTCAGACGTTTGCAT
1 CCATAAATGAACTCAGACTCAACTCAACGAGTTC-GACGTTTGCAT
*
44004799 CCATAAATGAACTCAGACTCAACTCAACAAGTTCG
1 CCATAAATGAACTCAGACTCAACTCAACGAGTTCG
44004834 GATGCCCAAA
Statistics
Matches: 163, Mismatches: 36, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
43 9 0.06
44 2 0.01
45 9 0.06
46 78 0.48
47 47 0.29
48 8 0.05
49 2 0.01
50 8 0.05
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (45 bp):
CCATAAATGAACTCAGACTCAACTCAACGAGTTCGACGTTTGCAT
Found at i:44010886 original size:16 final size:16
Alignment explanation
Indices: 44010850--44010887 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
44010840 CATTCTAAAC
44010850 CATTGCAGATATTCAG
1 CATTGCAGATATTCAG
* *
44010866 TATTGCAGATATTTAG
1 CATTGCAGATATTCAG
44010882 CATTGC
1 CATTGC
44010888 GATGTGAACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (16 bp):
CATTGCAGATATTCAG
Found at i:44013269 original size:40 final size:40
Alignment explanation
Indices: 44013214--44013377 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
44013204 TGAATGATAC
* * *
44013214 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
44013254 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
44013294 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
44013334 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
44013374 CCGG
1 CCGG
44013378 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:44013347 original size:80 final size:80
Alignment explanation
Indices: 44013214--44013391 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
44013204 TGAATGATAC
* * * * * *
44013214 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
44013278 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
44013294 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
44013359 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
44013374 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
44013392 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:44021390 original size:40 final size:40
Alignment explanation
Indices: 44021335--44021498 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
44021325 TGAATGATAC
* * *
44021335 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
44021375 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
44021415 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
44021455 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
44021495 CCGG
1 CCGG
44021499 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:44021468 original size:80 final size:80
Alignment explanation
Indices: 44021335--44021512 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
44021325 TGAATGATAC
* * * * * *
44021335 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
44021399 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
44021415 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
44021480 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
44021495 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
44021513 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:44027885 original size:37 final size:37
Alignment explanation
Indices: 44027843--44027994 Score: 128
Period size: 37 Copynumber: 4.1 Consensus size: 37
44027833 ATCCGACCGA
44027843 AACATGCCAATCGC-CTATAAGTGCTAATCCACCCAAT
1 AACATGCCAATCGCTC-ATAAGTGCTAATCCACCCAAT
* *
44027880 AACATGCCAATTGCTCATAAGAT-CTAATCCACCCGAT
1 AACATGCCAATCGCTCATAAG-TGCTAATCCACCCAAT
*** * * *
44027917 AACCCACTAATCGGTCATAAGAGCTAATCCACCCAAT
1 AACATGCCAATCGCTCATAAGTGCTAATCCACCCAAT
* * * * ** * *
44027954 AACACGACAATTGCTCACAAAAGCCAATCCACCCGAT
1 AACATGCCAATCGCTCATAAGTGCTAATCCACCCAAT
44027991 AACA
1 AACA
44027995 CACCAAAACA
Statistics
Matches: 92, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
37 90 0.98
38 2 0.02
ACGTcount: A:0.38, C:0.32, G:0.11, T:0.19
Consensus pattern (37 bp):
AACATGCCAATCGCTCATAAGTGCTAATCCACCCAAT
Found at i:44027995 original size:37 final size:37
Alignment explanation
Indices: 44027859--44027995 Score: 150
Period size: 37 Copynumber: 3.7 Consensus size: 37
44027849 CCAATCGCCT
* * *
44027859 ATAAGTGCTAATCCACCCAATAACATGCCAATTGCTC
1 ATAAGAGCTAATCCACCCAATAACACGACAATTGCTC
* * * * *
44027896 ATAAGATCTAATCCACCCGATAAC-CCACTAATCGGTC
1 ATAAGAGCTAATCCACCCAATAACACGAC-AATTGCTC
44027933 ATAAGAGCTAATCCACCCAATAACACGACAATTGCTC
1 ATAAGAGCTAATCCACCCAATAACACGACAATTGCTC
* * * *
44027970 ACAAAAGCCAATCCACCCGATAACAC
1 ATAAGAGCTAATCCACCCAATAACAC
44027996 ACCAAAACAG
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
36 1 0.01
37 77 0.95
38 3 0.04
ACGTcount: A:0.39, C:0.32, G:0.10, T:0.19
Consensus pattern (37 bp):
ATAAGAGCTAATCCACCCAATAACACGACAATTGCTC
Found at i:44028891 original size:36 final size:36
Alignment explanation
Indices: 44028844--44028913 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
44028834 GTGTATTCGG
44028844 TTATGAAGAAGAGAAATGAAAAAGAAAGTAGCTTAT
1 TTATGAAGAAGAGAAATGAAAAAGAAAGTAGCTTAT
*
44028880 TTATGAAGAAGAGAAATGAAGAAGAAAGTAGCTT
1 TTATGAAGAAGAGAAATGAAAAAGAAAGTAGCTT
44028914 TTACTTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.24, T:0.21
Consensus pattern (36 bp):
TTATGAAGAAGAGAAATGAAAAAGAAAGTAGCTTAT
Found at i:44034418 original size:29 final size:29
Alignment explanation
Indices: 44034385--44034536 Score: 214
Period size: 29 Copynumber: 5.2 Consensus size: 29
44034375 TGACTTAATA
* * *
44034385 CACACAGCCATGTCACATGTCGTGTGTGG
1 CACACAGACATGTTACAGGTCGTGTGTGG
* ** *
44034414 CACACGGACATGTCGCAGGTCGTGTATGG
1 CACACAGACATGTTACAGGTCGTGTGTGG
*
44034443 CACACGGACATGTTACAGGTCGTGTGTGG
1 CACACAGACATGTTACAGGTCGTGTGTGG
44034472 CACACAGACATGTTACAGGTCGTGTGTGG
1 CACACAGACATGTTACAGGTCGTGTGTGG
* *
44034501 CACACGGACATGTTACAGGTTGTGTGTGG
1 CACACAGACATGTTACAGGTCGTGTGTGG
44034530 CACACAG
1 CACACAG
44034537 CCAAGTGGCA
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 111 1.00
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (29 bp):
CACACAGACATGTTACAGGTCGTGTGTGG
Found at i:44035541 original size:37 final size:35
Alignment explanation
Indices: 44035438--44035558 Score: 102
Period size: 37 Copynumber: 3.3 Consensus size: 35
44035428 ATCCAACCGA
*
44035438 AACACGCCAAT-CATTCATAAGAGCAAATCCACTCGAT
1 AACACGCCAATGC--TCAAAAGAGC-AATCCACTCGAT
*
44035475 AACATGCCAAATGCTCAAAAGAGCTAATCCACTCGAT
1 AACACGCC-AATGCTCAAAAGAGC-AATCCACTCGAT
* * *
44035512 AACACGCCAATCGCTCCTAAAAGTG-AATCCTCTTGAT
1 AACACGCCAAT-GCT-C-AAAAGAGCAATCCACTCGAT
*
44035549 AACTCGCCAA
1 AACACGCCAA
44035559 AACAGGGAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
36 3 0.04
37 57 0.80
38 4 0.06
39 7 0.10
ACGTcount: A:0.38, C:0.30, G:0.12, T:0.20
Consensus pattern (35 bp):
AACACGCCAATGCTCAAAAGAGCAATCCACTCGAT
Found at i:44036882 original size:16 final size:16
Alignment explanation
Indices: 44036863--44036897 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
44036853 GCTGATACAA
44036863 AAACATAAGTTTAATG
1 AAACATAAGTTTAATG
* *
44036879 AAACATAATTTTATTG
1 AAACATAAGTTTAATG
44036895 AAA
1 AAA
44036898 AGGAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (16 bp):
AAACATAAGTTTAATG
Found at i:44037619 original size:39 final size:39
Alignment explanation
Indices: 44037524--44037621 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 39
44037514 TTCACTTTTG
* * *
44037524 AGCATGTATCACATTACACATATAATCACATAACATTTA
1 AGCATATATCACAATACTCATATAATCACATAACATTTA
* *
44037563 GGCATACATCACAATACTCATATAATCACATAACATTTA
1 AGCATATATCACAATACTCATATAATCACATAACATTTA
44037602 AGCATATATCACAATACTCA
1 AGCATATATCACAATACTCA
44037622 AAATCATGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (39 bp):
AGCATATATCACAATACTCATATAATCACATAACATTTA
Found at i:44043499 original size:47 final size:47
Alignment explanation
Indices: 44043382--44043584 Score: 298
Period size: 47 Copynumber: 4.3 Consensus size: 47
44043372 TACATGATAG
*
44043382 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TA
*
44043431 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
44043478 TATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * *
44043525 TATATGTGATAGGGCCGAGTGGTCAACGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
44043572 TAAATGTGATAAG
1 TATATGTGATAAG
44043585 TCCCGAAGGG
Statistics
Matches: 144, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
47 99 0.69
49 45 0.31
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:44045975 original size:46 final size:46
Alignment explanation
Indices: 44045903--44046050 Score: 215
Period size: 46 Copynumber: 3.2 Consensus size: 46
44045893 CAGATCAATT
** *
44045903 GATTGAAGAAGCCACAAATCCTATACCCCTGAGCTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
* *
44045949 GATTGAAGAAGATACAAATCCCATACCCCTGAGTTGCAGTAGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
* * * *
44045995 GATTAAAGATGATACAAATCCTATACCCTTGAGTTGTAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
44046041 GATTGAAGAA
1 GATTGAAGAA
44046051 ACCAAATTTT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
Found at i:44046577 original size:54 final size:48
Alignment explanation
Indices: 44046403--44047150 Score: 313
Period size: 44 Copynumber: 15.8 Consensus size: 48
44046393 GAATCCATAA
* *
44046403 ATCTTATC-TCCTTAAAGTTGCAGTGGAGCAGATTGAAGC-C-A-CCAG
1 ATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCACAATGCAG
* * * * * *
44046448 -CCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAG-ACAGTG-A-
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACAATGCAG
* * *
44046492 ATCTTA-CTTCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAATTATGGCAG
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGC-AC--A--AT-GCAG
44046545 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGC-C-AT-CAG
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACAATGCAG
* * ** * *
44046590 -TCTTATCTCCCTGAAGTTACAGCAGAGCAGACTGAAG-ACAGTG-A-
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACAATGCAG
** * * *
44046634 ATCTTA-CTTTCCT-AACGTTGCAGTGGAATAAATTAAAGCTACAAATTATGGCGG
1 ATCTTATC-TTCCTGAA-GTTGCAGTGGAGCAGATTGAAGC-AC--A--AT-GCAG
* *
44046688 ATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGC-C-A-CCAG
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACAATGCAG
* * * * *
44046733 -CCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ACAACG-A-
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACAATGCAG
* * * ** *
44046777 ATCTTATCTCCCTGAAGTTGGAGTGAAATAGATTGAAGCTACAAATTATGGCAA
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGC-AC--A--AT-GCAG
* * *
44046831 ATCTTATCTTCCTGATGTTGCAGTGGAGGAGATTGAAGC-C-A-CCAG
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACAATGCAG
* * * ** *
44046876 -CCTCATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAG-AC-A-GC-G
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACAATGCAG
* *
44046919 AATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCAA
1 -ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGC-AC--A--AT-GCAG
* * *
44046974 ATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTTAAG--CAA-CCA-
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACAATGCAG
* * * * *
44047018 A-CTTTATCTCCCTGAAGTTGCAGCGAAGAAGACTGAAG-AC-A-GC-G
1 ATC-TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACAATGCAG
* * * ** *
44047062 AATCCTAT-TTCCCTGAAGTTACAGTGAAATAGATTGAAGCTACAAGTCGCAA
1 -ATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGC-ACAA-T-GCAG
* * * *
44047114 ACCTTATCTCCCTGAAGTTGAAGTGGAGCAGGTTGAA
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAA
44047151 ATTACCAATT
Statistics
Matches: 521, Mismatches: 110, Indels: 138
0.68 0.14 0.18
Matches are distributed among these distances:
43 2 0.00
44 186 0.36
45 131 0.25
46 3 0.01
47 13 0.02
48 2 0.00
49 3 0.01
50 1 0.00
51 32 0.06
52 8 0.02
53 7 0.01
54 130 0.25
55 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (48 bp):
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCACAATGCAG
Found at i:44046723 original size:143 final size:142
Alignment explanation
Indices: 44046401--44047150 Score: 999
Period size: 143 Copynumber: 5.3 Consensus size: 142
44046391 ATGAATCCAT
*
44046401 AAATCTTATC-TCCTTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGT
1 AAATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGT
* * * * * * *
44046465 TGCAGCGGAGTAGACTGAAGACAGTGAATCTTACTTCCTGAAGTTGTAGTGGAACAGATTAAAGC
65 TGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCTGAAGTTGCAGTGGAATAGATTGAAGC
44046530 TACAAATTATGGC
130 TACAAATTATGGC
* * *
44046543 AGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGTCTTATCTCCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * * *
44046608 ACAGCAGAGCAGACTGAAGACAGTGAATCTTACTTTCCT-AACGTTGCAGTGGAATAAATTAAAG
66 GCAGCAGAGCAGACTGAAGACAGCGAATCTTA-TTTCCTGAA-GTTGCAGTGGAATAGATTGAAG
44046672 CTACAAATTATGGC
129 CTACAAATTATGGC
** * *
44046686 GGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAGCCTCATCTCCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
** * * * *
44046751 GCAGTGGAGCAGACTGAAGACAACGAATCTTATCTCCCTGAAGTTGGAGTGAAATAGATTGAAGC
66 GCAGCAGAGCAGACTGAAGACAGCGAATCTTAT-TTCCTGAAGTTGCAGTGGAATAGATTGAAGC
44046816 TACAAATTATGGC
130 TACAAATTATGGC
* * *
44046829 AAATCTTATCTTCCTGATGTTGCAGTGGAGGAGATTGAAGCCACCAGCCTCATCTCCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
*
44046894 GCAGCAGAGCAGACTGAAGACAGCGAATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGC
66 GCAGCAGAGCAGACTGAAGACAGCGAATCTTAT-TTCCTGAAGTTGCAGTGGAATAGATTGAAGC
44046959 TACAAATTATGGC
130 TACAAATTATGGC
* * * * *
44046972 AAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTTAAGCAACCAACTTTATCTCCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * * *
44047037 GCAGC-GAAGAAGACTGAAGACAGCGAATCCTATTTCCCTGAAGTTACAGTGAAATAGATTGAAG
66 GCAGCAG-AGCAGACTGAAGACAGCGAATCTTATTT-CCTGAAGTTGCAGTGGAATAGATTGAAG
* *
44047101 CTAC-AA--GTCGC
129 CTACAAATTATGGC
* * * *
44047112 AAACCTTATCTCCCTGAAGTTGAAGTGGAGCAGGTTGAA
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAA
44047151 ATTACCAATT
Statistics
Matches: 542, Mismatches: 59, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
140 36 0.07
142 94 0.17
143 410 0.76
144 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (142 bp):
AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
GCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCTGAAGTTGCAGTGGAATAGATTGAAGCT
ACAAATTATGGC
Found at i:44050640 original size:13 final size:13
Alignment explanation
Indices: 44050622--44050684 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
44050612 AACAATATGA
44050622 TATTTTATATTAT
1 TATTTTATATTAT
*
44050635 TATTTTACATTAT
1 TATTTTATATTAT
**
44050648 TA-TTTATATGGT
1 TATTTTATATTAT
* *
44050660 TATTATATTTTACT
1 TATTTTATATTA-T
*
44050674 TATATTATATT
1 TATTTTATATT
44050685 TGTATATACT
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
12 9 0.24
13 19 0.51
14 9 0.24
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (13 bp):
TATTTTATATTAT
Found at i:44050733 original size:10 final size:10
Alignment explanation
Indices: 44050715--44050783 Score: 50
Period size: 10 Copynumber: 6.6 Consensus size: 10
44050705 TTTACATACA
44050715 TATTATATAT
1 TATTATATAT
*
44050725 TATTCTATAT
1 TATTATATAT
*
44050735 TATTATGTCAT
1 TATTATAT-AT
*
44050746 TTTTATACTAT
1 TATTATA-TAT
*
44050757 CA-TATATATT
1 TATTATATA-T
*
44050767 TATCTATATGT
1 TAT-TATATAT
44050778 TATTAT
1 TATTAT
44050784 CACTAAAGGC
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
9 2 0.04
10 24 0.53
11 13 0.29
12 6 0.13
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (10 bp):
TATTATATAT
Found at i:44050966 original size:15 final size:15
Alignment explanation
Indices: 44050930--44050976 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
44050920 TTACTTATTT
44050930 TATATTATACTTAACTTA
1 TATATTATA--TAA-TTA
44050948 TAT-TTATAT-ATTA
1 TATATTATATAATTA
44050961 TATATTATATAATTA
1 TATATTATATAATTA
44050976 T
1 T
44050977 TTTATTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 6 0.22
14 7 0.26
15 6 0.22
17 5 0.19
18 3 0.11
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTATATAATTA
Found at i:44059837 original size:14 final size:15
Alignment explanation
Indices: 44059800--44059858 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 15
44059790 TCTATTTAAA
*
44059800 TATTTTTT-ATATAT
1 TATTTTTTCAAATAT
44059814 TATTTATTTCAAAT-T
1 TATTT-TTTCAAATAT
44059829 TATTTTTTC--ATAT
1 TATTTTTTCAAATAT
*
44059842 TATTTATTCTAAATAT
1 TATTTTTTC-AAATAT
44059858 T
1 T
44059859 TTTATACGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 2 0.05
13 9 0.24
14 9 0.24
15 9 0.24
16 8 0.22
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTTTCAAATAT
Found at i:44059896 original size:26 final size:24
Alignment explanation
Indices: 44059784--44059915 Score: 90
Period size: 26 Copynumber: 5.1 Consensus size: 24
44059774 AGTCATATAC
44059784 ATATT-TTCTATTTAAATATTTTTTAT
1 ATATTATT-TATTTAAATA--TTTTAT
*
44059810 ATATTATTTATTTCAAATTTATTTTTT
1 ATATTATTTATTT-AAA--TATTTTAT
44059837 CATATTATTTATTCTAAATATTTT-T
1 -ATATTATTTATT-TAAATATTTTAT
*
44059862 ATACGTTATTTATGTTAAACCATTTTAT
1 ATA--TTATTTAT-TTAAA-TATTTTAT
* *
44059890 ATATTATCTATTTTAAGT-TTTTAT
1 ATATTATTTA-TTTAAATATTTTAT
44059914 AT
1 AT
44059916 GTCATTCTGT
Statistics
Matches: 89, Mismatches: 5, Indels: 26
0.74 0.04 0.22
Matches are distributed among these distances:
24 11 0.12
25 1 0.01
26 38 0.43
27 17 0.19
28 19 0.21
29 3 0.03
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (24 bp):
ATATTATTTATTTAAATATTTTAT
Found at i:44060143 original size:46 final size:46
Alignment explanation
Indices: 44060085--44060183 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 46
44060075 ACTTTCTATG
* *
44060085 TTTTCTTTTAAATTGTTATATATACT-ATTCATTTTA-AGTTGTATTA
1 TTTTATTTTAAATTATTATATATACTAATT-ATTTTAGA-TTGTATTA
* * *
44060131 TTTTATTTTAAATTATTATGTGTATTAATTATTTTAGATTGTATTA
1 TTTTATTTTAAATTATTATATATACTAATTATTTTAGATTGTATTA
*
44060177 TTCTATT
1 TTTTATT
44060184 CCCTTTAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
46 41 0.91
47 4 0.09
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (46 bp):
TTTTATTTTAAATTATTATATATACTAATTATTTTAGATTGTATTA
Found at i:44062318 original size:15 final size:15
Alignment explanation
Indices: 44062298--44062327 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44062288 ACAAATCTCA
44062298 GACTAAGGTTTCCTT
1 GACTAAGGTTTCCTT
44062313 GACTAAGGTTTCCTT
1 GACTAAGGTTTCCTT
44062328 TTCTACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
GACTAAGGTTTCCTT
Found at i:44064699 original size:14 final size:14
Alignment explanation
Indices: 44064682--44064747 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
44064672 TCTCTTTATT
44064682 TTTCCTTATTTTTC
1 TTTCCTTATTTTTC
* *
44064696 TTTCTTTCTTTTTC
1 TTTCCTTATTTTTC
*
44064710 TAT-CTTA-TTTT-
1 TTTCCTTATTTTTC
*
44064721 TTTCC-TATTCTTC
1 TTTCCTTATTTTTC
*
44064734 TTCTTCTTATTTTT
1 TT-TCCTTATTTTT
44064748 TTCCACAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
11 4 0.11
12 8 0.21
13 4 0.11
14 16 0.42
15 6 0.16
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTCCTTATTTTTC
Found at i:44064722 original size:38 final size:39
Alignment explanation
Indices: 44064651--44064735 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
44064641 TTTAAAATAT
* * *
44064651 TTTTTCTTTTTTTTTCTTTTCTCTC-TTTATTTTTCCTTA
1 TTTTTCTTTCTTTCTCTTTTCTATCTTTTATTTTTCC-TA
44064690 TTTTTCTTTCTTTCT-TTTTCTATCTTATT-TTTTTCCTA
1 TTTTTCTTTCTTTCTCTTTTCTATCTT-TTATTTTTCCTA
*
44064728 TTCTTCTT
1 TTTTTCTT
44064736 CTTCTTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 17 0.43
39 21 0.52
40 2 0.05
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (39 bp):
TTTTTCTTTCTTTCTCTTTTCTATCTTTTATTTTTCCTA
Found at i:44064741 original size:26 final size:26
Alignment explanation
Indices: 44064686--44064751 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
44064676 TTTATTTTTC
* *
44064686 CTTATTTTTCTTTCTTTCTTTTTCTAT
1 CTTATTTTT-TTCCTTTCTTCTTCTAT
44064713 CTTATTTTTTTCCTATTCTTCTTCT-T
1 CTTATTTTTTTCCT-TTCTTCTTCTAT
44064739 CTTATTTTTTTCC
1 CTTATTTTTTTCC
44064752 ACAAAAACTC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 18 0.50
27 18 0.50
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (26 bp):
CTTATTTTTTTCCTTTCTTCTTCTAT
Found at i:44064874 original size:20 final size:19
Alignment explanation
Indices: 44064834--44064878 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
44064824 ATGTGCACTC
* *
44064834 TTCCCTCCTTCCTCTTTTTT
1 TTCCCTCCTTCCTC-CTCTT
*
44064854 TTCCCTCTTTCCTCCTCTT
1 TTCCCTCCTTCCTCCTCTT
44064873 TTCCCT
1 TTCCCT
44064879 TCAGTTCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (19 bp):
TTCCCTCCTTCCTCCTCTT
Found at i:44073331 original size:40 final size:40
Alignment explanation
Indices: 44073286--44073453 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
44073276 CGGAATATAA
44073286 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44073326 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44073366 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
44073406 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
44073446 CCGGATAT
1 CCGGATAT
44073454 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44073436 original size:80 final size:80
Alignment explanation
Indices: 44073302--44073451 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
44073292 ATAACCACGT
* *
44073302 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
44073367 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
44073382 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
44073445 CCCGGAT
64 CCCGGAT
44073452 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:44081746 original size:20 final size:18
Alignment explanation
Indices: 44081702--44081740 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
44081692 GTCTTAGTAC
44081702 ATGTTTAGAGTATTATAT
1 ATGTTTAGAGTATTATAT
*
44081720 ATGTTTATAGTATTATAT
1 ATGTTTAGAGTATTATAT
44081738 ATG
1 ATG
44081741 GTTTTAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (18 bp):
ATGTTTAGAGTATTATAT
Found at i:44085730 original size:64 final size:64
Alignment explanation
Indices: 44085662--44085795 Score: 241
Period size: 64 Copynumber: 2.1 Consensus size: 64
44085652 TAATATTTCT
* *
44085662 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
*
44085726 ATATTTCTATCACGATTTTTGATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
44085790 ATATTT
1 ATATTT
44085796 AATAAAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.47
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
Found at i:44085808 original size:64 final size:64
Alignment explanation
Indices: 44085675--44085809 Score: 193
Period size: 64 Copynumber: 2.1 Consensus size: 64
44085665 TTTCTATCAC
* * * * *
44085675 GATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATACAAATATTTCTATCAC
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
*
44085739 GATTTTTGATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTA-ATAAA
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
44085802 -ATATTTTA
1 GAT-TTTTA
44085810 TATAGTTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
62 2 0.03
63 7 0.11
64 54 0.86
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (64 bp):
GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
Found at i:44085880 original size:23 final size:24
Alignment explanation
Indices: 44085854--44085912 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
44085844 AATATGCTCT
* *
44085854 TCCGTTTTATCAC-AATTTTATTG
1 TCCGTTTTATCACAAATATTATCG
44085877 TCCGTTTTATCACAAATATTATCG
1 TCCGTTTTATCACAAATATTATCG
*
44085901 TCTGTTTTATCA
1 TCCGTTTTATCA
44085913 TTTAAGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (24 bp):
TCCGTTTTATCACAAATATTATCG
Found at i:44086386 original size:240 final size:240
Alignment explanation
Indices: 44085954--44086614 Score: 1241
Period size: 240 Copynumber: 2.7 Consensus size: 240
44085944 ATACCTTTTT
* *
44085954 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTATCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
44086019 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACC-TTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
*
44086084 CTGGAAACCTGACGGGTTGCCTTATATCAAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
130 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
*
44086149 AACGCCAGGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
195 AACGCCAGGTATGATGAATCTTAAAAAAATCAAAAAGACTTGAAAA
*
44086195 AAGTTCTATCGAACTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
44086260 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGC
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGC
44086325 TGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACA
131 TGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACA
*
44086390 ATGCCAGGTATGATGAATCTTAAAAAAATCAAAAAGACTTGAAAA
196 ACGCCAGGTATGATGAATCTTAAAAAAATCAAAAAGACTTGAAAA
44086435 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
44086500 TACAACAATAGCTGACCTTCTCTCCAACCTTGTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTT-TTTTAAATATTTTAAAGATTCAAAGTATATAGG
*
44086565 CTGGAAGCCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
130 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
44086615 AAATTTCATA
Statistics
Matches: 411, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
240 238 0.58
241 173 0.42
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (240 bp):
AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGC
TGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACA
ACGCCAGGTATGATGAATCTTAAAAAAATCAAAAAGACTTGAAAA
Found at i:44089505 original size:46 final size:46
Alignment explanation
Indices: 44089438--44089612 Score: 221
Period size: 46 Copynumber: 3.8 Consensus size: 46
44089428 TGTAACCCGC
* *
44089438 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* *
44089484 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * * *
44089534 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
44089577 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
44089613 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:44089553 original size:93 final size:93
Alignment explanation
Indices: 44089446--44089616 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
44089436 GCCCATAAGT
* * *
44089446 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44089511 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
44089539 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44089604 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44089617 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44095787 original size:28 final size:29
Alignment explanation
Indices: 44095755--44095853 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
44095745 ATAATAAGCC
*
44095755 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
44095783 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
44095811 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
44095840 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44095854 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:44103844 original size:28 final size:28
Alignment explanation
Indices: 44103777--44103846 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
44103767 TAAGCCCGCA
* *
44103777 CACTTAGTGCT-TAATAGTCGAACTCACG
1 CACTTAGTGCTAT-ATAATCAAACTCACG
*
44103805 CACTTAGTGCTATATAATCAAACTCGCG
1 CACTTAGTGCTATATAATCAAACTCACG
44103833 CACTTAGTGCTATA
1 CACTTAGTGCTATA
44103847 CAATTTGAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (28 bp):
CACTTAGTGCTATATAATCAAACTCACG
Found at i:44105474 original size:30 final size:30
Alignment explanation
Indices: 44105438--44105568 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
44105428 GACAAGATTG
* * * * *
44105438 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
44105468 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
44105496 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44105526 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44105555 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44105569 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:44105529 original size:58 final size:58
Alignment explanation
Indices: 44105438--44105568 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
44105428 GACAAGATTG
* * * * * *
44105438 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
44105496 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
44105555 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44105569 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:44109577 original size:33 final size:33
Alignment explanation
Indices: 44109535--44109616 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
44109525 TTAGAATTAA
* *
44109535 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
* *
44109568 TGTTTTTGGTTGCA--TTTTATACTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
* *
44109599 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
44109617 AATGCAGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 26 0.63
33 15 0.37
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.61
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
Found at i:44109743 original size:43 final size:43
Alignment explanation
Indices: 44109693--44109929 Score: 274
Period size: 43 Copynumber: 5.7 Consensus size: 43
44109683 TGGGAAAAGT
44109693 GCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTACCCACAAAC
* **
44109736 GCTGCTAAAAGCCGTGACTTTTAATGGCGCTTTACCCACAAAC
1 GCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTACCCACAAAC
* ** *
44109779 GCCGCTAAAAGCCGTG-------GCGGCGCTTTTCATACAAAT
1 GCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTACCCACAAAC
*
44109815 GCCGCTAAAAAG-CATGACTTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCT-AAAAGCCGTGACTTTTAGCGGCGCTTTACCCACAAAC
* * * * *
44109858 GCCGCTAAAAGCTGTGACTTTTAGCAGCGCTTTGCCCAAAAAT
1 GCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTACCCACAAAC
* *
44109901 GCCGCTAAAATCCTTGACTTTTAGCGGCG
1 GCCGCTAAAAGCCGTGACTTTTAGCGGCG
44109930 TTTTTTTCAA
Statistics
Matches: 160, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
36 23 0.14
37 5 0.03
42 5 0.03
43 127 0.79
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTACCCACAAAC
Found at i:44110916 original size:27 final size:28
Alignment explanation
Indices: 44110864--44110922 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
44110854 ATCAAATTTA
* *
44110864 ATAACTAACAAAAATATTTCA-TAAAAT
1 ATAACTAACAAAAATATTACACAAAAAT
*
44110891 ATAACTAACTAAAAT-TTAACACAAAAAT
1 ATAACTAACAAAAATATT-ACACAAAAAT
44110919 ATAA
1 ATAA
44110923 AGAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 16 0.59
28 9 0.33
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (28 bp):
ATAACTAACAAAAATATTACACAAAAAT
Found at i:44120878 original size:18 final size:19
Alignment explanation
Indices: 44120857--44120892 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44120847 AATACATAAA
44120857 AAATT-TAAAATATAAAAT
1 AAATTATAAAATATAAAAT
*
44120875 AAATTATAAATTATAAAA
1 AAATTATAAAATATAAAA
44120893 ATATATGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTATAAAATATAAAAT
Found at i:44124281 original size:29 final size:29
Alignment explanation
Indices: 44124248--44124437 Score: 231
Period size: 29 Copynumber: 6.6 Consensus size: 29
44124238 GTGACGAGAT
44124248 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44124277 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
44124306 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44124335 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
44124364 CGGCACTGGGTGTGCGAGCTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
44124393 TGGCACTATGTGTGCGGGCT-TAAATCGA-A
1 TGGCACTAAGTGTGCGTGCTGGAAAT--ATA
44124422 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44124438 AAATCGAGTA
Statistics
Matches: 138, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.01
29 136 0.99
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44131539 original size:42 final size:42
Alignment explanation
Indices: 44131492--44131598 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
44131482 TATTGGTCTC
44131492 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
44131534 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
44131576 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
44131599 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:44131663 original size:27 final size:28
Alignment explanation
Indices: 44131606--44131675 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
44131596 AAAATTGTAC
**
44131606 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
44131634 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
44131661 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44131676 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:44136147 original size:40 final size:40
Alignment explanation
Indices: 44136035--44136187 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
44136025 GGATATAGCG
* * * * ***
44136035 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
44136075 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
44136115 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
44136155 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
44136188 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:44149620 original size:40 final size:40
Alignment explanation
Indices: 44149565--44149712 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 40
44149555 TGAATGATAC
* * * *
44149565 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTACAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTAAAT
* * *
44149605 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGATTAAAT
* **
44149645 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTAAAT
* *
44149685 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
44149713 TTGTGGTTAT
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 90 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTAAAT
Found at i:44149722 original size:80 final size:80
Alignment explanation
Indices: 44149565--44149726 Score: 209
Period size: 80 Copynumber: 2.0 Consensus size: 80
44149555 TGAATGATAC
* * ** *
44149565 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCG
*
44149630 TGCGAGTTGTTATAT
66 TGCGAGTGGTTATAT
* * *
44149645 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGC-ATTC
**
44149709 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
44149725 CC
1 CC
44149727 AGCTAAATTC
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
80 67 0.96
81 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTGGTTATAT
Found at i:44151461 original size:40 final size:40
Alignment explanation
Indices: 44151411--44151636 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 40
44151401 GCTACTCGTT
* * * *
44151411 CAAATACCTTCGGGA-CATAGCCCGG-TTATGGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
* * *
44151451 CAAATGCCTTCGGGA-CTTATCCCAGATTTAGTAACTCACA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
* * *
44151491 CAAATTCCTTCGGATCTTAGTCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
44151531 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * *
44151571 CAATTGCCTTCGGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
44151612 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
44151637 CATCATTCAA
Statistics
Matches: 163, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.02
40 148 0.91
41 12 0.07
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:44151636 original size:80 final size:80
Alignment explanation
Indices: 44151448--44151636 Score: 276
Period size: 80 Copynumber: 2.4 Consensus size: 80
44151438 ATGGTAGCTC
* *
44151448 GCACAAATGCCTTCGGGACTTATCCCAGATTTAGTAACTCACACAAATTCCTTCGGATCTTAGTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAATTCCTTCGGATCTTAGTC
* *
44151513 TGGATTTAGTAACTC
66 CGGATTTAGTAACTA
* *
44151528 GCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCAC-AATTGCCTTCGGATCTTAG
1 GCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCACACAAATT-CCTTCGGATCTTAG
44151591 TCCGGATTTAGTAACTTA
64 TCCGGATTTAGTAAC-TA
44151609 GCACAAA-GCCTTCGGGACTTAGCCCGGA
1 GCACAAATGCCTTCGGGACTTAGCCCGGA
44151637 CATCATTCAA
Statistics
Matches: 98, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
79 7 0.07
80 80 0.82
81 11 0.11
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAATTCCTTCGGATCTTAGTC
CGGATTTAGTAACTA
Found at i:44156702 original size:46 final size:46
Alignment explanation
Indices: 44156598--44156820 Score: 251
Period size: 47 Copynumber: 4.8 Consensus size: 46
44156588 CCATATTATG
* * *
44156598 AGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGTATTGAGAC
1 AGAGTCAGTGTAAGACCATGTCTGGGACATG-CATCGGCATCGAGAC
*
44156645 -GAGTGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGAC
1 AGAGT-C-AGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGAC
*
44156691 AGAAGTCAGTGTAAGA-CATGTCTGGGACATGCATCGGC-TACGAGATG
1 AG-AGTCAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-CGAGA-C
* *
44156738 ATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-GAGAT
1 AGAGTCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGAC
44156784 ATGAG-CTAGTGTAAGACCATGTCTGGGACATAGCATC
1 A-GAGTC-AGTGTAAGACCATGTCTGGGACAT-GCATC
44156821 AGCACTTTAC
Statistics
Matches: 156, Mismatches: 9, Indels: 22
0.83 0.05 0.12
Matches are distributed among these distances:
45 1 0.01
46 66 0.42
47 68 0.44
48 20 0.13
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
AGAGTCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGAC
Found at i:44156814 original size:140 final size:141
Alignment explanation
Indices: 44156562--44156820 Score: 373
Period size: 140 Copynumber: 1.8 Consensus size: 141
44156552 TGAGCTATTA
* *
44156562 TAAGACATGTCTGAGACATGCATCGGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACA
1 TAAGACATGTCTGAGACATGCATCGGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGGGACA
* *
44156627 TGACATCGGTATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGAC
66 TGACATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATAGCATCGGCCTCGAGAC
44156691 AGAAGTCAGTG
131 AGAAGTCAGTG
* * * *
44156702 TAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTGGGAC
1 TAAGACATGTCTGAGACATGCATCGGCCA-GATGATGAGAGCCAGTGTAAGACCATGTCTGGGAC
* *
44156766 ATGGCATCGGCA-TGAGA-TATGAGCTAGTGTAAGACCATGTCTGGGACATAGCATC
65 ATGACATCGGCATTGAGACGA-GAGCTAGTGTAAGA-CATGTCTGGGACATAGCATC
44156821 AGCACTTTAC
Statistics
Matches: 105, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 80 0.76
141 6 0.06
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
TAAGACATGTCTGAGACATGCATCGGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGGGACA
TGACATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATAGCATCGGCCTCGAGAC
AGAAGTCAGTG
Found at i:44161249 original size:3 final size:3
Alignment explanation
Indices: 44161243--44161275 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
44161233 GTAAAAAAAT
44161243 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
44161276 CAAATATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:44162729 original size:21 final size:21
Alignment explanation
Indices: 44162703--44162744 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
44162693 TATATATATA
44162703 TATATATATATAAAAGTTGAT
1 TATATATATATAAAAGTTGAT
44162724 TATATATATATAAAAGTTGAT
1 TATATATATATAAAAGTTGAT
44162745 AATCAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (21 bp):
TATATATATATAAAAGTTGAT
Found at i:44162734 original size:2 final size:2
Alignment explanation
Indices: 44162688--44162714 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44162678 AATCAAATGA
44162688 AT 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 AT A
44162715 AAAGTTGATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44163321 original size:9 final size:10
Alignment explanation
Indices: 44163293--44163320 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
44163283 TCAAAACTCA
44163293 AAAAAAAAAT
1 AAAAAAAAAT
44163303 AAAAAAAAAT
1 AAAAAAAAAT
44163313 AAAAAAAA
1 AAAAAAAA
44163321 TTGTAGCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:44163547 original size:24 final size:24
Alignment explanation
Indices: 44163528--44163580 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
44163518 TATTATAATC
*
44163528 TATA-ATATAATAATAGTTATAAA
1 TATATATATAATAATACTTATAAA
*
44163551 TATATATATATTAATACTTATAAA
1 TATATATATAATAATACTTATAAA
44163575 -ATATAT
1 TATATAT
44163581 TATTTCATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TATATATATAATAATACTTATAAA
Found at i:44163597 original size:20 final size:19
Alignment explanation
Indices: 44163550--44163597 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
44163540 ATAGTTATAA
44163550 ATATATATATATTAATACTT
1 ATATA-ATATATTAATACTT
* * *
44163570 ATAAAATATATTATTTCATT
1 ATATAATATATTAATAC-TT
44163590 ATATAATA
1 ATATAATA
44163598 CTATATCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATAATATATTAATACTT
Found at i:44163651 original size:20 final size:20
Alignment explanation
Indices: 44163625--44163665 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
44163615 GTAGTACATA
44163625 ATATATTA--GTT-ATTATC
1 ATATATTATTGTTGATTATC
*
44163642 ATATATTATTGTTGATTATT
1 ATATATTATTGTTGATTATC
44163662 ATAT
1 ATAT
44163666 TGGTTAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (20 bp):
ATATATTATTGTTGATTATC
Found at i:44163867 original size:16 final size:17
Alignment explanation
Indices: 44163841--44163873 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
44163831 TATTATAATC
44163841 TATATTATAATAATAGT
1 TATATTATAATAATAGT
*
44163858 TATA-TATAATAGTAGT
1 TATATTATAATAATAGT
44163874 ACATTATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
TATATTATAATAATAGT
Found at i:44168398 original size:40 final size:40
Alignment explanation
Indices: 44168290--44168463 Score: 167
Period size: 40 Copynumber: 4.3 Consensus size: 40
44168280 CATGAGAAAT
* * *
44168290 TGAATGATATCCGGGCTAAGCCCCGAAGACAATTATGCT-G
1 TGAAT-ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG
*
44168330 -GAAATGATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG
1 TG-AAT-ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG
** *
44168371 TGGCTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAG
1 TGAATATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG
* * * *
44168411 TTATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACG
1 TGAATATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-G
*
44168451 TGATTATATCCGG
1 TGAATATATCCGG
44168464 TTATATTCCG
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
39 5 0.04
40 103 0.91
41 4 0.04
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TGAATATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG
Found at i:44172671 original size:40 final size:41
Alignment explanation
Indices: 44172627--44172784 Score: 184
Period size: 40 Copynumber: 4.0 Consensus size: 41
44172617 GGCCTGGTTA
*
44172627 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGT-CCGGATT
*
44172667 TAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
** *
44172707 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCTAGATA
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
* * *
44172747 TAGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGATCTTAGTCCGGA
44172785 CATCATTCGA
Statistics
Matches: 103, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.03
40 88 0.85
41 12 0.12
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (41 bp):
TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
Found at i:44172768 original size:80 final size:80
Alignment explanation
Indices: 44172599--44172784 Score: 193
Period size: 80 Copynumber: 2.3 Consensus size: 80
44172589 GCCACTCATT
* * * * * *
44172599 CAAATACCTTCGGGACATGGCCTGG-TTATAGTAGCTCGCACAAATGCCTTCGGGACTTATCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTATCCCA
*
44172663 GATTTAGTAACTCACA
65 GATATAGTAACTCACA
*
44172679 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-C
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTA-TCC
* * *
44172741 TAGATATAGTCACTTAGCA
63 CAGATATAGTAACTCA-CA
44172760 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44172785 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
79 6 0.07
80 70 0.80
81 12 0.14
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTATCCCAG
ATATAGTAACTCACA
Found at i:44180611 original size:46 final size:46
Alignment explanation
Indices: 44180558--44180779 Score: 263
Period size: 46 Copynumber: 4.8 Consensus size: 46
44180548 TATTTGGGCA
44180558 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
44180604 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
44180650 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
44180695 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * **
44180743 CCCGAGCTCATTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44180780 GCGGGTTACA
Statistics
Matches: 151, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
45 3 0.02
46 105 0.70
47 27 0.18
48 3 0.02
50 4 0.03
51 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Done.