Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 179 of 345
Found at i:50605093 original size:30 final size:30
Alignment explanation
Indices: 50604911--50605072 Score: 245
Period size: 30 Copynumber: 5.4 Consensus size: 30
50604901 TTGCATTCAC
*
50604911 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
* *
50604942 ATTCTGATTCTGATTCTATTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
50604972 ATTCTGATTCTAATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
50605002 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
50605032 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
50605062 ATTCTGATTCT
1 ATTCTGATTCT
50605073 CATTTTGGTT
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
29 1 0.01
30 97 0.82
31 21 0.18
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:50612491 original size:46 final size:44
Alignment explanation
Indices: 50612437--50612563 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 44
50612427 TTATTTGTGT
* *
50612437 TGCCAGTGTAAGACATGTCTGGGACATGCATTGGACT-CGAGATG
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATG
* *
50612481 TAAGCCAGTGTAAGACATGTCTAGGACATGCATCGGTTACAAGATG
1 T--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATG
*
50612527 TGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
50612564 ACAGATATGT
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
44 12 0.17
45 14 0.20
46 45 0.63
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATG
Found at i:50617311 original size:29 final size:29
Alignment explanation
Indices: 50617279--50617351 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
50617269 CTTCGAGCTC
*
50617279 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
50617308 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
50617337 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
50617352 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:50625281 original size:29 final size:29
Alignment explanation
Indices: 50625249--50625321 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
50625239 CTTCGAGCTC
*
50625249 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
50625278 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
50625307 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
50625322 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:50634023 original size:43 final size:42
Alignment explanation
Indices: 50633962--50634119 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 42
50633952 CGCATCCATT
50633962 ATGAA-TTCGGACCACTCAACGAGCTCGGATGCTCACATCA-ATA
1 ATGAACTT-GGACCACTCAACGAGCTCGGATGCT-ACAT-ATATA
* *
50634005 ATGAACTTGGACCACTCAATGAGCTCGGATGCTACATATATC
1 ATGAACTTGGACCACTCAACGAGCTCGGATGCTACATATATA
* * ** * * * *
50634047 ATGAACTTGGACCACTTAACAATTTTGGGTTCTCACATATATC
1 ATGAACTTGGACCACTCAACGAGCTCGGATGCT-ACATATATA
** *
50634090 ACAAACTCGGACCACTCAACGAGCTCGGAT
1 ATGAACTTGGACCACTCAACGAGCTCGGAT
50634120 TTCTTAATTC
Statistics
Matches: 93, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 31 0.33
43 59 0.63
44 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGAACTTGGACCACTCAACGAGCTCGGATGCTACATATATA
Found at i:50637480 original size:93 final size:93
Alignment explanation
Indices: 50637368--50637539 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
50637358 GCCCATAAGT
* *
50637368 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50637433 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
50637461 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
50637526 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
50637540 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:50637535 original size:46 final size:46
Alignment explanation
Indices: 50637360--50637535 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
50637350 TGTAACCCGC
* *
50637360 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
50637406 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
50637452 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
50637499 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
50637536 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:50639946 original size:28 final size:28
Alignment explanation
Indices: 50639913--50639995 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
50639903 GATAACAAGA
*
50639913 AAACCGAATAAAGAAATCCAAGATAGAG
1 AAACCGAATAAAGAAATCCAAGATAAAG
50639941 AAACCGAATAAAGAAATCC-AGAATAAAG
1 AAACCGAATAAAGAAATCCAAG-ATAAAG
* * *
50639969 AGATCCAGGATAAAGAAACCCAAGATA
1 A-AACC-GAATAAAGAAATCCAAGATA
50639996 CGATACTATG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.04
28 25 0.53
29 3 0.06
30 15 0.32
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.11
Consensus pattern (28 bp):
AAACCGAATAAAGAAATCCAAGATAAAG
Found at i:50639966 original size:15 final size:15
Alignment explanation
Indices: 50639909--50639986 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
50639899 CAAAGATAAC
*
50639909 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
50639923 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
50639938 GAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
50639951 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
50639966 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
50639981 AAGAAA
1 AAGAAA
50639987 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
13 8 0.15
14 14 0.26
15 31 0.58
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:50639995 original size:15 final size:15
Alignment explanation
Indices: 50639920--50639995 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
50639910 AGAAAACCGA
50639920 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
50639935 ATAGAGAAA-CCGA-
1 ATAAAGAAATCCAAG
50639948 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
50639962 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
50639978 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
50639993 ATA
1 ATA
50639996 CGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
13 9 0.18
14 5 0.10
15 34 0.69
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:50649483 original size:17 final size:18
Alignment explanation
Indices: 50649450--50649483 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50649440 ATTTCACATT
50649450 CTAAAATAATAAAATTTG
1 CTAAAATAATAAAATTTG
*
50649468 CTAAAA-AATTAAATTT
1 CTAAAATAATAAAATTT
50649484 ATTTACTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
CTAAAATAATAAAATTTG
Found at i:50651298 original size:50 final size:50
Alignment explanation
Indices: 50651220--50651485 Score: 295
Period size: 50 Copynumber: 5.3 Consensus size: 50
50651210 ATCATTGATT
* *
50651220 TGGCCAAATATACAAGATCAAATATAATATCATATATGTGCTTACCTATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
*
50651270 TGGCCGAATATGCAAGATCAAA-ATTAATATCACATATGTGCTTACCTATA
1 TGGCCGAATATACAAGATCAAATA-TAATATCACATATGTGCTTACCTATA
** * * * * * *
50651320 TGGTTGAATATGCAAGATCAAATTTAACATCCCATATGTACTTACTTATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
* * *
50651370 AGGCCGAATATACAA-ATTCAAATATAATATCACATTTGTGCATACCT-TCA
1 TGGCCGAATATACAAGA-TCAAATATAATATCACATATGTGCTTACCTAT-A
* * * * * * *
50651420 TGGCCGAATATTCAAGATCCAATACAACATCACATATGTACATACCTATG
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
50651470 TGGCCGAATATACAAG
1 TGGCCGAATATACAAG
50651486 GTCATTTAGC
Statistics
Matches: 180, Mismatches: 30, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.02
50 175 0.97
51 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (50 bp):
TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
Found at i:50658547 original size:43 final size:43
Alignment explanation
Indices: 50658499--50658584 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
50658489 TGTTTTTTTC
50658499 AATCCATATGAAAATAGACTAATTAAGCTTCAATTTCATAACT
1 AATCCATATGAAAATAGACTAATTAAGCTTCAATTTCATAACT
50658542 AATCCATATGAAAATAGACTAATTAAGCTTCAATTTCATAACT
1 AATCCATATGAAAATAGACTAATTAAGCTTCAATTTCATAACT
50658585 TACTCATCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (43 bp):
AATCCATATGAAAATAGACTAATTAAGCTTCAATTTCATAACT
Found at i:50660055 original size:40 final size:40
Alignment explanation
Indices: 50660018--50660209 Score: 203
Period size: 40 Copynumber: 4.8 Consensus size: 40
50660008 GGATATAGCT
* *
50660018 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
50660058 TCTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
50660098 ACTCGCACCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * *
50660137 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTA
** *
50660177 ACTTATCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGG
50660210 ATATCATTCG
Statistics
Matches: 126, Mismatches: 18, Indels: 15
0.79 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 66 0.52
41 25 0.20
42 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:50660169 original size:79 final size:80
Alignment explanation
Indices: 50660018--50660213 Score: 218
Period size: 79 Copynumber: 2.5 Consensus size: 80
50660008 GGATATAGCT
* * *
50660018 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTATCTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
50660083 AACCCGGATTTATTA
66 AACCCGGATTTATTA
* *
50660098 ACTCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATC
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-C
** * * *
50660160 TTAGTCCGGATATAGTC
64 TTAACCCGGATTTATTA
** * *
50660177 ACTTATCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 AC-TCGCACAAATGCCTTCGGGACATAGCCCGGATAT
50660214 CATTCGAATA
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
78 4 0.04
79 46 0.47
80 34 0.35
81 12 0.12
82 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
AACCCGGATTTATTA
Found at i:50665016 original size:40 final size:40
Alignment explanation
Indices: 50664942--50665082 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
50664932 CCGCACCAAG
* * * * * *
50664942 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
50664982 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
50665022 GCCTTCGGGTCTT-GCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
50665061 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
50665083 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 33 0.39
40 52 0.61
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:50671050 original size:28 final size:28
Alignment explanation
Indices: 50671018--50671082 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
50671008 ATTTACTAGA
*
50671018 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
50671046 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
50671074 ATACCCCTA
1 ATACCCCTA
50671083 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:50671180 original size:27 final size:27
Alignment explanation
Indices: 50671150--50671240 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
50671140 ATTATATTTG
*
50671150 TCTGGTGGCTATG-CACAAGTTATCTGT
1 TCTGGTGGC-ATGCCACAAATTATCTGT
*
50671177 TCTGGTGGCCTGCCACAAATTATCTGT
1 TCTGGTGGCATGCCACAAATTATCTGT
*
50671204 TCTGGTGGCACTGCCACCAAAATATCTGT
1 TCTGGTGGCA-TGCCA-CAAATTATCTGT
50671233 ATCTGGTG
1 -TCTGGTG
50671241 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.04
27 31 0.55
28 5 0.09
29 11 0.20
30 7 0.12
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (27 bp):
TCTGGTGGCATGCCACAAATTATCTGT
Found at i:50672340 original size:11 final size:11
Alignment explanation
Indices: 50672312--50672344 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
50672302 AGCCTGTAAG
50672312 TATTCTGAAT-
1 TATTCTGAATA
*
50672322 TTTTCTGAATA
1 TATTCTGAATA
50672333 TATTCTGAATA
1 TATTCTGAATA
50672344 T
1 T
50672345 CTGTCTGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (11 bp):
TATTCTGAATA
Found at i:50677721 original size:12 final size:13
Alignment explanation
Indices: 50677693--50677725 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
50677683 TTATTTCTTT
50677693 TTCTCCATCTACC
1 TTCTCCATCTACC
*
50677706 TTCTCC-TCTTCC
1 TTCTCCATCTACC
50677718 TTCTCCAT
1 TTCTCCAT
50677726 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:50678819 original size:28 final size:28
Alignment explanation
Indices: 50678787--50678851 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
50678777 ATTTACTAGA
*
50678787 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
50678815 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
50678843 ATACCCCTA
1 ATACCCCTA
50678852 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:50679058 original size:29 final size:28
Alignment explanation
Indices: 50678957--50679047 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
50678947 AGGAAGCGTC
50678957 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
50678985 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
50679013 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
50679042 CTGGTG
1 CTGGTG
50679048 ACTCTGTCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:50679072 original size:56 final size:55
Alignment explanation
Indices: 50678957--50679072 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 55
50678947 AGGAAGCGTC
* *
50678957 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTT
* * *
50679013 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-T
50679069 CTGG
1 CTGG
50679073 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
55 9 0.17
56 29 0.56
57 14 0.27
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:50679532 original size:19 final size:19
Alignment explanation
Indices: 50679508--50679546 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
50679498 TTTTAATTAT
* *
50679508 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
50679527 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
50679546 T
1 T
50679547 ATGATGACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:50683283 original size:68 final size:67
Alignment explanation
Indices: 50683211--50683360 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
50683201 CATCATGTGT
* * * *
50683211 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
50683273 ATGTAG
62 ATGTAG
** * *
50683279 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
50683344 AG
66 AG
50683346 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
50683361 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:50683316 original size:64 final size:64
Alignment explanation
Indices: 50683235--50683418 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
50683225 AGACATTATG
* *
50683235 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
50683299 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
50683364 AA
63 AA
* * * *
50683366 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
50683419 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:50684502 original size:2 final size:2
Alignment explanation
Indices: 50684495--50684521 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50684485 TCATGACATG
50684495 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
50684522 GACTAGTCTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50686802 original size:29 final size:28
Alignment explanation
Indices: 50686768--50686870 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
50686758 TAATCGATCA
*
50686768 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
50686797 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
50686826 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
50686855 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50686871 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:50694725 original size:29 final size:28
Alignment explanation
Indices: 50694691--50694792 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 28
50694681 TAATCGATCA
*
50694691 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
50694720 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
50694749 C-CACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
50694777 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50694793 ATCTTGTCAC
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.05
28 17 0.29
29 39 0.66
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:50698090 original size:43 final size:43
Alignment explanation
Indices: 50698028--50698158 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 43
50698018 CATCGACTCG
*
50698028 ATATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGT
1 ATATGTGATTACATGTAAGACCATATCTAGGACA-TGGCATTGT
* * * * * *
50698072 AT-TGTGATTTCGTGTAAGACCCTATGTGGGACAATGGCATCG-
1 ATATGTGATTACATGTAAGACCATATCTAGGAC-ATGGCATTGT
* *
50698114 ATATGTGATAACATGTAAGACCATATCTAGGATATGGCATTGT
1 ATATGTGATTACATGTAAGACCATATCTAGGACATGGCATTGT
50698157 AT
1 AT
50698159 GAGTTATATG
Statistics
Matches: 69, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
42 10 0.14
43 56 0.81
44 3 0.04
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
ATATGTGATTACATGTAAGACCATATCTAGGACATGGCATTGT
Found at i:50703038 original size:2 final size:2
Alignment explanation
Indices: 50703031--50703055 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50703021 TCATGACATG
50703031 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
50703056 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50706438 original size:19 final size:19
Alignment explanation
Indices: 50706416--50706452 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50706406 CATGTTATAT
50706416 CATCAAAATAATCACATAA
1 CATCAAAATAATCACATAA
* *
50706435 CATCAAATTATTCACATA
1 CATCAAAATAATCACATA
50706453 TATATACTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (19 bp):
CATCAAAATAATCACATAA
Found at i:50708350 original size:27 final size:28
Alignment explanation
Indices: 50708320--50708389 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
50708310 ATAATAAGTC
*
50708320 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
50708347 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
50708375 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50708390 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:50717732 original size:12 final size:12
Alignment explanation
Indices: 50717717--50717741 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50717707 TAAAAAATAA
50717717 AAAAATAAAAGT
1 AAAAATAAAAGT
50717729 AAAAATAAAAGT
1 AAAAATAAAAGT
50717741 A
1 A
50717742 GTTTTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAATAAAAGT
Found at i:50727631 original size:46 final size:45
Alignment explanation
Indices: 50727475--50727646 Score: 143
Period size: 46 Copynumber: 3.7 Consensus size: 45
50727465 GGTGATTTGT
50727475 GTGCCA-ATGTAAGACATGTCTAGGACATGCTTCAGCCACATTATGA
1 GTGCCAGA-GTAAGACATGTCTAGGACATGCTTCAGCCA-ATTATGA
* * * * * * *
50727521 GAGCCAGTGTAAGACCATGGCTGGGACATGGCATCGGCTTCCAA--ACGA
1 GTGCCAGAGTAAGA-CATGTCTAGGACAT-GCTTCAG---CCAATTATGA
* * *
50727569 GGGCTAGTGTAAGACATGTCTAGGACATGCTTCAGCCATATTATGA
1 GTGCCAGAGTAAGACATGTCTAGGACATGCTTCAGCCA-ATTATGA
* *
50727615 GTGCCAGAGTAAGACATGCCTGGGACATGCTT
1 GTGCCAGAGTAAGACATGTCTAGGACATGCTT
50727647 TGGCCTCAAC
Statistics
Matches: 98, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
46 46 0.47
47 24 0.24
48 20 0.20
50 1 0.01
51 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (45 bp):
GTGCCAGAGTAAGACATGTCTAGGACATGCTTCAGCCAATTATGA
Found at i:50735145 original size:47 final size:46
Alignment explanation
Indices: 50735073--50735379 Score: 198
Period size: 47 Copynumber: 6.6 Consensus size: 46
50735063 TCATTTGTGC
* *
50735073 GCCAGTGTAAGACATGTTTGGGACATGCTTCGGC-CACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCTCACA-GATGAGA
* *
50735119 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC-CAGATGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCTTCGGC-TCACAGATGAGA
* ** * ** *
50735167 GCTAGTGTAAGACATGTCTGGGACATGCTTTAGCTGTA-TTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCT-CACAGATGAGA
* * *
50735213 GCCAGAGTAAGACATGCCTGGGACATGCATT-GGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGC-TTCGG-CTC-ACAGATGAGA
* * * * * * *
50735260 GCCAGTGTAAGACGTCTCTGAGACACGCATCGGCT-A-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCTCACAGATG-AGA
* * * * * * *
50735304 GCTAGTGTAAGACATGTCTAGGACATGCGTCAGCACGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTC-G-GCTCACAGATGAGA
50735352 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
50735380 GCATCGGCAA
Statistics
Matches: 198, Mismatches: 45, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
43 4 0.02
44 25 0.13
45 2 0.01
46 52 0.26
47 59 0.30
48 38 0.19
49 17 0.09
50 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCTCACAGATGAGA
Found at i:50739385 original size:40 final size:40
Alignment explanation
Indices: 50739314--50739506 Score: 275
Period size: 40 Copynumber: 4.8 Consensus size: 40
50739304 TATCTAGCAC
* *
50739314 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCAGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
*
50739353 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCAGCACGA
* *
50739393 AGCCTGCTGGTCTTTAAGCCTGGATACAATTCCAGCACGA
1 AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCAGCACGA
* *
50739433 AGCCTGCAGGTCTTTAAGCCCGGATACGATTCCAGCATGA
1 AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCAGCACGA
*
50739473 AGCCTGC-GAGTCTTTAAGCCCGGATACCATTCCA
1 AGCCTGCAG-GTCTTTAAGCCCGGATACAATTCCA
50739507 CATCAAATAA
Statistics
Matches: 141, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
39 17 0.12
40 124 0.88
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:50746308 original size:40 final size:39
Alignment explanation
Indices: 50746127--50746278 Score: 259
Period size: 39 Copynumber: 3.9 Consensus size: 39
50746117 AATGTTCGAG
50746127 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
50746166 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
50746205 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
50746244 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
50746279 GGTTACCATA
Statistics
Matches: 108, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
39 91 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:50754972 original size:19 final size:19
Alignment explanation
Indices: 50754936--50754974 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
50754926 TAGTCATCAT
* *
50754936 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
50754955 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
50754974 A
1 A
50754975 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:50755485 original size:28 final size:28
Alignment explanation
Indices: 50755437--50755530 Score: 127
Period size: 28 Copynumber: 3.3 Consensus size: 28
50755427 GTGACAGAGT
*
50755437 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
50755466 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
* *
50755494 CACCAGAACAAATAACTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
50755522 CACCAGAAC
1 CACCAGAAC
50755531 GCTTCCTCCA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
28 52 0.88
29 7 0.12
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:50755680 original size:28 final size:28
Alignment explanation
Indices: 50755633--50755697 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
50755623 AAATTAACCC
*
50755633 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
50755661 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
50755689 TAGGGGTAT
1 TAGGGGTAT
50755698 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:50756771 original size:12 final size:13
Alignment explanation
Indices: 50756752--50756784 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
50756742 GGGTTCGGCT
50756752 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
50756765 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
50756777 ATGGAGAA
1 ATGGAGAA
50756785 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:50762797 original size:19 final size:19
Alignment explanation
Indices: 50762761--50762799 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
50762751 TTTTCATCAT
* *
50762761 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
50762780 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
50762799 A
1 A
50762800 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:50763308 original size:28 final size:28
Alignment explanation
Indices: 50763260--50763351 Score: 141
Period size: 28 Copynumber: 3.2 Consensus size: 28
50763250 GTGACAGAGT
*
50763260 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
50763289 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
50763317 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
50763345 CACCAGA
1 CACCAGA
50763352 CAAATTTAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 52 0.88
29 7 0.12
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:50763464 original size:27 final size:28
Alignment explanation
Indices: 50763418--50763481 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
50763408 AAATTAACCC
*
50763418 TAGGGGTATAAAGGTCA-TTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
50763445 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
50763473 TAGGGGTAT
1 TAGGGGTAT
50763482 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:50770597 original size:40 final size:40
Alignment explanation
Indices: 50770517--50770735 Score: 336
Period size: 40 Copynumber: 5.5 Consensus size: 40
50770507 TTTGGATGAC
*
50770517 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
50770556 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
50770596 ATCTGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
50770636 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
50770676 ATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
* *
50770716 ATCC-GGCTAAATCCCAAAGG
1 ATCCGGGCTAAGTCCCGAAGG
50770736 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 37 0.22
40 129 0.77
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:50772634 original size:40 final size:40
Alignment explanation
Indices: 50772569--50772644 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
50772559 TATATAAATA
**
50772569 TAGCCGAAGCTATCTCAAATTGCACACTAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACTAAGTGCCACTTT
* *
50772609 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGCCA
1 TAGCCGAAGCTATCTCAAACCGCACACTAAGTGCCA
50772645 ATTTATCCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCAAACCGCACACTAAGTGCCACTTT
Found at i:50775492 original size:25 final size:25
Alignment explanation
Indices: 50775445--50775492 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
50775435 GCACTCTCTC
***
50775445 GAGCCACATAACAGGATGTTCATGT
1 GAGCCACATAACAGGAAACTCATGT
*
50775470 GAGCCATATAACAGGAAACTCAT
1 GAGCCACATAACAGGAAACTCAT
50775493 AAAAGTTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (25 bp):
GAGCCACATAACAGGAAACTCATGT
Found at i:50776149 original size:21 final size:20
Alignment explanation
Indices: 50776117--50776166 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
50776107 ATATAAATGA
*
50776117 ATTTGACATCAATTTAATCC
1 ATTTCACATCAATTTAATCC
*
50776137 ATTTCACACTCAATTTAATTC
1 ATTTCACA-TCAATTTAATCC
*
50776158 AATTCACAT
1 ATTTCACAT
50776167 ACTAGGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (20 bp):
ATTTCACATCAATTTAATCC
Found at i:50780538 original size:43 final size:43
Alignment explanation
Indices: 50780490--50780576 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
50780480 TTTTACTAAG
50780490 TAGATTTTCATGAAAAAGGCTTTAAGGACTATTTTGTAAAAGT
1 TAGATTTTCATGAAAAAGGCTTTAAGGACTATTTTGTAAAAGT
50780533 TAGATTTTCATGAAAAAGGCTTTAAGGACTATTTTGTAAAAGT
1 TAGATTTTCATGAAAAAGGCTTTAAGGACTATTTTGTAAAAGT
50780576 T
1 T
50780577 GTAGAAAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (43 bp):
TAGATTTTCATGAAAAAGGCTTTAAGGACTATTTTGTAAAAGT
Found at i:50797703 original size:24 final size:25
Alignment explanation
Indices: 50797666--50797729 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
50797656 AGCTCCGGAT
* * * *
50797666 AGCCATATAACAGGAAGTTCAATACG
1 AGCC-TATATCAGGAAGCTCAAGAAG
*
50797692 AGCC-GTATCAGGAAGCTCAAGAAG
1 AGCCTATATCAGGAAGCTCAAGAAG
50797716 AGCCTATATCAGGA
1 AGCCTATATCAGGA
50797730 CGGTTATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 19 0.61
25 8 0.26
26 4 0.13
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.17
Consensus pattern (25 bp):
AGCCTATATCAGGAAGCTCAAGAAG
Found at i:50798263 original size:21 final size:21
Alignment explanation
Indices: 50798224--50798263 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50798214 TTAATTTAAT
*
50798224 TTCAAATTAATCCATTTCATA
1 TTCAAATTAATCCAATTCATA
* *
50798245 TTCAATTTAATTCAATTCA
1 TTCAAATTAATCCAATTCA
50798264 CATCCTAGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (21 bp):
TTCAAATTAATCCAATTCATA
Found at i:50808704 original size:13 final size:13
Alignment explanation
Indices: 50808667--50808704 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
50808657 TATATTTTTA
50808667 TAATATTATTAAT
1 TAATATTATTAAT
*
50808680 TAGT-TTAGTTAAT
1 TAATATTA-TTAAT
50808693 TAATATTATTAA
1 TAATATTATTAA
50808705 CTTTTTAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 3 0.14
13 15 0.71
14 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (13 bp):
TAATATTATTAAT
Found at i:50810181 original size:15 final size:15
Alignment explanation
Indices: 50810157--50810196 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
50810147 TACTATATAC
50810157 TAATAAATAATAAAA
1 TAATAAATAATAAAA
* *
50810172 TAATATATAATGAAA
1 TAATAAATAATAAAA
50810187 TAA-AAATAAT
1 TAATAAATAAT
50810197 GTAAGGGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
TAATAAATAATAAAA
Found at i:50810242 original size:12 final size:14
Alignment explanation
Indices: 50810209--50810235 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50810199 AAGGGTTGAT
50810209 ATATATAATAAAAG
1 ATATATAATAAAAG
50810223 ATATATAATAAAA
1 ATATATAATAAAA
50810236 TTTATAAATA
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:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
ATATATAATAAAAG
Found at i:50810357 original size:37 final size:40
Alignment explanation
Indices: 50810286--50810359 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
50810276 ATAATATATA
* *
50810286 AAAATAATAATATATACTATTTTTACATATAATTAAAAAG
1 AAAATAATAATATATACTATTTTAAAATATAATTAAAAAG
*
50810326 AAAATAATAA-ATATAGTA-TTTAAAATA-AATTAAA
1 AAAATAATAATATATACTATTTTAAAATATAATTAAA
50810360 TATATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 7 0.23
38 7 0.23
39 7 0.23
40 10 0.32
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (40 bp):
AAAATAATAATATATACTATTTTAAAATATAATTAAAAAG
Found at i:50810561 original size:30 final size:30
Alignment explanation
Indices: 50810527--50810585 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
50810517 TATAATGGCC
*
50810527 ATTAGGACTAAATTGAAACAAAAATAAAAG
1 ATTAGGACCAAATTGAAACAAAAATAAAAG
* *
50810557 ATTAGGGCCAAATTGAAATAAAAATAAAA
1 ATTAGGACCAAATTGAAACAAAAATAAAA
50810586 TAAAATTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (30 bp):
ATTAGGACCAAATTGAAACAAAAATAAAAG
Found at i:50811670 original size:2 final size:2
Alignment explanation
Indices: 50811663--50811692 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
50811653 GGCTATTACA
50811663 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50811693 AGTCAATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50815148 original size:14 final size:14
Alignment explanation
Indices: 50815129--50815159 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
50815119 TCAATAAATC
50815129 ATTTAATAACAATA
1 ATTTAATAACAATA
50815143 ATTTAATAACAATA
1 ATTTAATAACAATA
50815157 ATT
1 ATT
50815160 AATGTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTTAATAACAATA
Found at i:50823111 original size:24 final size:24
Alignment explanation
Indices: 50823084--50823243 Score: 117
Period size: 24 Copynumber: 6.5 Consensus size: 24
50823074 AATCGATTTG
*
50823084 GCACACATAGTGCTATTCAAATTC
1 GCACACATAGTGCTATTCAAATCC
* * * * *
50823108 GCACACTTAGTGCCATGCTAACCC
1 GCACACATAGTGCTATTCAAATCC
* **
50823132 GCACATATAGTGCCT-TAGAAATCC
1 GCACACATAGTG-CTATTCAAATCC
* * * *
50823156 ACACACTCGTATTGAC-ATTCAAATCA
1 GCACA--CATAGTG-CTATTCAAATCC
*
50823182 GCACACATAGTGCTATTCAATTCC
1 GCACACATAGTGCTATTCAAATCC
*
50823206 GCACACATAGTGCCATTCAAAATCC
1 GCACACATAGTGCTATTC-AAATCC
*
50823231 GCACACTTAGTGC
1 GCACACATAGTGC
50823244 CAATGTCATT
Statistics
Matches: 101, Mismatches: 29, Indels: 11
0.72 0.21 0.08
Matches are distributed among these distances:
23 1 0.01
24 67 0.66
25 18 0.18
26 15 0.15
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (24 bp):
GCACACATAGTGCTATTCAAATCC
Found at i:50824992 original size:11 final size:11
Alignment explanation
Indices: 50824976--50825002 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50824966 AATTGTGCAT
50824976 ATTAAATTTAA
1 ATTAAATTTAA
50824987 ATTAAATTTAA
1 ATTAAATTTAA
50824998 ATTAA
1 ATTAA
50825003 CTACTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:50828856 original size:11 final size:11
Alignment explanation
Indices: 50828840--50828872 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
50828830 TTTCCACCAT
50828840 AATTTTAATAA
1 AATTTTAATAA
50828851 AATTTTAA-AA
1 AATTTTAATAA
50828861 AATATTTAATAA
1 AAT-TTTAATAA
50828873 CAAGAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.25
11 13 0.65
12 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTTTAATAA
Found at i:50831621 original size:48 final size:48
Alignment explanation
Indices: 50831550--50831651 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
50831540 GTCCGTATAT
* * *
50831550 CGATGCCATATCCCAAATATGGTCTTATATGA-AGTCTCATATCGATGC
1 CGATGTCATATCCCAAATATGGTCTTATACGAGA-CCTCATATCGATGC
* *
50831598 CGATGTCATATCCTAGAA-ATGGTCTTATACGGGACCTCATATCGATGC
1 CGATGTCATATCCCA-AATATGGTCTTATACGAGACCTCATATCGATGC
50831646 C-ATGTC
1 CGATGTC
50831652 CCAGACATGG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
47 5 0.11
48 39 0.83
49 3 0.06
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (48 bp):
CGATGTCATATCCCAAATATGGTCTTATACGAGACCTCATATCGATGC
Found at i:50831663 original size:42 final size:41
Alignment explanation
Indices: 50831512--50831664 Score: 128
Period size: 42 Copynumber: 3.5 Consensus size: 41
50831502 GAGTACCAAA
* *
50831512 GCCATGTCCCAGACATGGTCTTACATGGGTCCGT-ATATCGAT
1 GCCATGTCCCAGACATGGTCTTATA-GGGACC-TCATATCGAT
* * * * * *
50831554 GCCATATCCCAAATATGGTCTTATATGAAGTCTCATATCGAT
1 GCCATGTCCCAGACATGGTCTTATAGGGA-CCTCATATCGAT
*
50831596 GCCGATGTCATATCCTAGAAATGGTCTTATACGGGACCTCATATCGAT
1 GCC-ATGTC----CC-AGACATGGTCTTATA-GGGACCTCATATCGAT
50831644 GCCATGTCCCAGACATGGTCT
1 GCCATGTCCCAGACATGGTCT
50831665 CATATGAAAT
Statistics
Matches: 87, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
41 2 0.02
42 43 0.49
43 6 0.07
47 7 0.08
48 27 0.31
49 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (41 bp):
GCCATGTCCCAGACATGGTCTTATAGGGACCTCATATCGAT
Found at i:50831687 original size:90 final size:90
Alignment explanation
Indices: 50831546--50831760 Score: 229
Period size: 90 Copynumber: 2.3 Consensus size: 90
50831536 ATGGGTCCGT
* * * * * * *
50831546 ATATCGATGCCATATCCCAAATATGGTCTTATATGAAGTCTCATATCGATGCCGATGTCATATC-
1 ATATCGATGCCATGTCCCAGACATGGTCTCATATGAAATCTCATATCGATGCCGAAGCCATATCT
* *
50831610 CTAGAAATGGTCTTATACGGGACCTC
66 CT-GAAATGGTCTTATACAGGACCAC
50831636 ATATCGATGCCATGTCCCAGACATGGTCTCATATGAAATCACTCA-AT-GATGCCGAAGCCATAT
1 ATATCGATGCCATGTCCCAGACATGGTCTCATATGAAAT--CTCATATCGATGCCGAAGCCATAT
* *
50831699 CTCTGATATGGTCTTATACAGGATCAC
64 CTCTGAAATGGTCTTATACAGGACCAC
50831726 ATATTGGTGCCGATGCCATGTCCCAGACATGGTCT
1 ATA----T--CGATGCCATGTCCCAGACATGGTCT
50831761 TACATTGGCT
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
90 71 0.68
91 4 0.04
92 4 0.04
94 1 0.01
96 25 0.24
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (90 bp):
ATATCGATGCCATGTCCCAGACATGGTCTCATATGAAATCTCATATCGATGCCGAAGCCATATCT
CTGAAATGGTCTTATACAGGACCAC
Found at i:50831795 original size:49 final size:49
Alignment explanation
Indices: 50831733--50831873 Score: 192
Period size: 49 Copynumber: 2.9 Consensus size: 49
50831723 CACATATTGG
** * *
50831733 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATCTCAGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATATCATCTCAGA
* *
50831782 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGATATCATCTCGGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATATCATCTCAGA
* * * *
50831831 TGCCGATACCATGTCCCAAACATGGTCTTACACGAGATCTCAT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATATCAT
50831874 TAACCATGGT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 81 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATATCATCTCAGA
Found at i:50833418 original size:50 final size:50
Alignment explanation
Indices: 50833343--50833445 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 50
50833333 TATCATATAG
50833343 TGAGCTCACACCTCATACATTTCAAATAGGTACCTGTACCACTCACAACA
1 TGAGCTCACACCTCATACATTTCAAATAGGTACCTGTACCACTCACAACA
* * *
50833393 TGAGCTTACATCTCATACATTTCAAATAGGTACCTGTACCACTCATAACA
1 TGAGCTCACACCTCATACATTTCAAATAGGTACCTGTACCACTCACAACA
50833443 TGA
1 TGA
50833446 TTATACTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (50 bp):
TGAGCTCACACCTCATACATTTCAAATAGGTACCTGTACCACTCACAACA
Found at i:50833754 original size:14 final size:14
Alignment explanation
Indices: 50833735--50833762 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50833725 TGATTTATAT
50833735 TTAATTTAAATTTA
1 TTAATTTAAATTTA
50833749 TTAATTTAAATTTA
1 TTAATTTAAATTTA
50833763 CTAAGATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAATTTAAATTTA
Found at i:50837856 original size:41 final size:39
Alignment explanation
Indices: 50837756--50837856 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 39
50837746 GTTAGAGCTA
* *
50837756 TAGTGGCGCTTGTAAAACAAATGCCGCAAAAGATCACTAT
1 TAGTGGCGCTTATGAAA-AAATGCCGCAAAAGATCACTAT
* *
50837796 TAGCGGCTCTTATGTAAAAAATGCCGCAAAAGATCAAGC-AT
1 TAGTGGCGCTTATG-AAAAAATGCCGCAAAAGATC-A-CTAT
*
50837837 TAGTGGCGCTTCTTGAAAAA
1 TAGTGGCGCTT-ATGAAAAA
50837857 CGCCACTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
40 27 0.54
41 20 0.40
42 3 0.06
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (39 bp):
TAGTGGCGCTTATGAAAAAATGCCGCAAAAGATCACTAT
Found at i:50838041 original size:40 final size:38
Alignment explanation
Indices: 50837947--50838052 Score: 113
Period size: 38 Copynumber: 2.7 Consensus size: 38
50837937 AGCTTTAATG
* *
50837947 GCATTAGCGGCGCTTTTGGAAAAATGCCGCTATAAATA
1 GCATTAGCGGCGCTTTTAGAAAAACGCCGCTATAAATA
* * * * *
50837985 GCATTAGTGGCACTTTTATAAAAGCGCCGCTATAGATTAA
1 GCATTAGCGGCGCTTTTAGAAAAACGCCGCTATA-AAT-A
* *
50838025 GCATTAGCAGCGCTTTTTGAAAAACGCC
1 GCATTAGCGGCGCTTTTAGAAAAACGCC
50838053 ACAAAACGTT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
38 28 0.53
39 2 0.04
40 23 0.43
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (38 bp):
GCATTAGCGGCGCTTTTAGAAAAACGCCGCTATAAATA
Found at i:50839882 original size:40 final size:40
Alignment explanation
Indices: 50839812--50839916 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 40
50839802 GGGCTAAGTC
* * *
50839812 CCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGAT
50839852 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
*
50839892 CCGAAGGCATTTGTGCGAGCTACTA
1 CCGAAGGCATTTGTGCGAGTTACTA
50839917 TAACCAGGCT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 53 0.88
41 7 0.12
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
Found at i:50841371 original size:21 final size:21
Alignment explanation
Indices: 50841342--50841415 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
50841332 ATTACTATTA
*
50841342 TTAGAGTTTATGGGTTATGGT
1 TTAGGGTTTATGGGTTATGGT
* * *
50841363 TTAGGGTTTATAGTTTATAGT
1 TTAGGGTTTATGGGTTATGGT
* * *
50841384 TTAGGGCTTA-GAGTTTTGGGT
1 TTAGGGTTTATGGGTTAT-GGT
*
50841405 TTATGGTTTAT
1 TTAGGGTTTAT
50841416 AGTTTGAGAT
Statistics
Matches: 39, Mismatches: 12, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.08
21 36 0.92
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (21 bp):
TTAGGGTTTATGGGTTATGGT
Found at i:50841373 original size:14 final size:14
Alignment explanation
Indices: 50841347--50841455 Score: 71
Period size: 14 Copynumber: 7.8 Consensus size: 14
50841337 TATTATTAGA
50841347 GTTTATGGG-TTATG
1 GTTTA-GGGTTTATG
*
50841361 GTTTAGGGTTTATA
1 GTTTAGGGTTTATG
** *
50841375 GTTTATAGTTTAGG
1 GTTTAGGGTTTATG
* *
50841389 GCTTAGAGTTT-TGG
1 GTTTAGGGTTTAT-G
* *
50841403 GTTTATGGTTTATA
1 GTTTAGGGTTTATG
*
50841417 GTTT-GAGATTTATG
1 GTTTAG-GGTTTATG
* *
50841431 GTTTGGGGTTTGTG
1 GTTTAGGGTTTATG
50841445 GTTTAGGGTTT
1 GTTTAGGGTTT
50841456 GTGATTTGGG
Statistics
Matches: 72, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
13 3 0.04
14 67 0.93
15 2 0.03
ACGTcount: A:0.16, C:0.01, G:0.33, T:0.50
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:50841419 original size:21 final size:21
Alignment explanation
Indices: 50841360--50841420 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
50841350 TATGGGTTAT
50841360 GGTTTAGGGTTTATAGTTTAT-
1 GGTTTAGGGTTTATAGTTT-TG
* * *
50841381 AGTTTAGGGCTTAGAGTTTTG
1 GGTTTAGGGTTTATAGTTTTG
*
50841402 GGTTTATGGTTTATAGTTT
1 GGTTTAGGGTTTATAGTTT
50841421 GAGATTTATG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.51
Consensus pattern (21 bp):
GGTTTAGGGTTTATAGTTTTG
Found at i:50841441 original size:21 final size:20
Alignment explanation
Indices: 50841417--50841482 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
50841407 ATGGTTTATA
50841417 GTTTGAGATTTATGGTTTGGG
1 GTTTGAGATTTA-GGTTTGGG
* * *
50841438 GTTTGTGGTTTAGGGTTTGTG
1 GTTTGAGATTTA-GGTTTGGG
* *
50841459 ATTTGGGATTTAGGATTTGGG
1 GTTTGAGATTTAGG-TTTGGG
50841480 GTT
1 GTT
50841483 AGGGGTTTAA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.12, C:0.00, G:0.39, T:0.48
Consensus pattern (20 bp):
GTTTGAGATTTAGGTTTGGG
Found at i:50841491 original size:21 final size:21
Alignment explanation
Indices: 50841432--50841491 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
50841422 AGATTTATGG
* *
50841432 TTTGGGGTTTGTGGTTTAGGG
1 TTTGGGGTTTGGGGTTTAGGA
* * *
50841453 TTTGTGATTTGGGATTTAGGA
1 TTTGGGGTTTGGGGTTTAGGA
*
50841474 TTTGGGGTTAGGGGTTTA
1 TTTGGGGTTTGGGGTTTA
50841492 AGGGTAAATA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.47
Consensus pattern (21 bp):
TTTGGGGTTTGGGGTTTAGGA
Found at i:50841805 original size:14 final size:14
Alignment explanation
Indices: 50841783--50841827 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
50841773 CTAATTATCA
*
50841783 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
50841797 TTATGGTTTAGGAG-
1 TTATGGTTTAGG-GT
*
50841811 GTATGGTTTAGGGT
1 TTATGGTTTAGGGT
50841825 TTA
1 TTA
50841828 AAGTGCATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:50841875 original size:7 final size:7
Alignment explanation
Indices: 50841846--50841936 Score: 53
Period size: 7 Copynumber: 12.7 Consensus size: 7
50841836 GAGTTACTAT
*
50841846 TTTAAGG
1 TTTAGGG
*
50841853 TTTATGG
1 TTTAGGG
*
50841860 ATTATGGG
1 TTTA-GGG
50841868 TTTAGGG
1 TTTAGGG
*
50841875 TTTATGG
1 TTTAGGG
* *
50841882 TGTATGG
1 TTTAGGG
50841889 TTTAAGGG
1 TTT-AGGG
50841897 -TT-GGAG
1 TTTAGG-G
*
50841903 TTTAAGG
1 TTTAGGG
50841910 TTTAGAGG
1 TTTAG-GG
50841918 -TTAGGGG
1 TTTA-GGG
50841925 TTTAGGG
1 TTTAGGG
50841932 TTTAG
1 TTTAG
50841937 AGATTGATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 2 0.03
6 1 0.02
7 48 0.73
8 15 0.23
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:50841896 original size:22 final size:23
Alignment explanation
Indices: 50841846--50841898 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
50841836 GAGTTACTAT
50841846 TTTAA-GGTTTATGGATTATGGG
1 TTTAAGGGTTTATGGATTATGGG
50841868 TTT-AGGGTTTATGG-TGTAT-GG
1 TTTAAGGGTTTATGGAT-TATGGG
50841889 TTTAAGGGTT
1 TTTAAGGGTT
50841899 GGAGTTTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (23 bp):
TTTAAGGGTTTATGGATTATGGG
Found at i:50842482 original size:114 final size:113
Alignment explanation
Indices: 50842334--50842972 Score: 673
Period size: 114 Copynumber: 5.6 Consensus size: 113
50842324 TGACATCATT
* * *
50842334 TTTTTTGGATTTTTAGTGGCCTTTTAGGTTAAAACGCCGCAATAGGTTTGATTTAGCGGCGCTAG
1 TTTTATGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTTGATTTAGCGGCGCTAG
* *
50842399 GTTATAAACACCACTAATGGTTATTTTGTTTATATCAAAATGGTGCAG
66 GGTATAAACGCCACTAATGGTTATTTTGTTTATATCAAAATGGTGCAG
* *
50842447 TTTATATGGATTTTTAGTGGCGTTTTTGGGTAAAACGCCGCAATAGGTTTGATTTAGCGGTGCTA
1 TTT-TATGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTTGATTTAGCGGCGCTA
* * * *
50842512 GGTTATAAACGCCATTAATGGTTATTTTGTTTATATCAAAACGGTGTAG
65 GGGTATAAACGCCACTAATGGTTATTTTGTTTATATCAAAATGGTGCAG
** * * *
50842561 CTTTTATGGATTTTTAGTCTCGTTTTTGGTTAAAACGCCGCAATAGGTTTAATTTAGCGGCGCTA
1 -TTTTATGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTTGATTTAGCGGCGCTA
* *
50842626 GGGTATAAACGCAACTAATGGTTATTTTGTTTATATCAAAATGGTGTAG
65 GGGTATAAACGCCACTAATGGTTATTTTGTTTATATCAAAATGGTGCAG
* * *
50842675 TTTTATTGGATTTTTAGTGGCATTTTAGGGTAAAACGCCGCAATA-GTTTCACCTTTAGTGGCGC
1 TTTTA-TGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTTGA--TTTAGCGGCGC
* * * **
50842739 TTGGAG-ATAAAACGGCACTAAAT-GTTATTTTGTTTATATGAAAATGCCGT-CTT
63 TAGG-GTAT-AAACGCCACT-AATGGTTATTTTGTTTATATCAAAATG--GTGCAG
* * * * * *
50842792 TTTTTTGGATTTTTAGTGGCATTTTAGGGTTAAACGCCACAATAGATTTGCCTTTAGCGGCGCTA
1 TTTTATGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTTG-ATTTAGCGGCGCTA
* * * * * *
50842857 GGGGAAAAACGCCACTAAAT-TTTATTCTATTTATATCAAAA-CG-GCATCG
65 GGGTATAAACGCCACT-AATGGTTATTTTGTTTATATCAAAATGGTGCA--G
* * * * * * *
50842906 TTTTGTTTGATTTTTAGTGGCG-TTTATGTTAAAACGCCGCAATTGGTTTGCCTTTAGCGCCGCT
1 TTTT-ATGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTTG-ATTTAGCGGCGCT
50842970 AGG
64 AGG
50842973 AGAAAACGCC
Statistics
Matches: 451, Mismatches: 58, Indels: 33
0.83 0.11 0.06
Matches are distributed among these distances:
112 2 0.00
113 13 0.03
114 278 0.62
115 64 0.14
116 82 0.18
117 10 0.02
118 2 0.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (113 bp):
TTTTATGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTTGATTTAGCGGCGCTAG
GGTATAAACGCCACTAATGGTTATTTTGTTTATATCAAAATGGTGCAG
Found at i:50843152 original size:59 final size:59
Alignment explanation
Indices: 50843060--50843181 Score: 156
Period size: 59 Copynumber: 2.1 Consensus size: 59
50843050 TATTCATTTT
* ** *
50843060 CCCCCTTCTCCCTAGTTTATTTCCCCTATTTTCCCTCCT-TCGAATCCCTAAAATAATCA
1 CCCCCTTCTCCCTAGTTTATTTCCCCCATTTTCCCTAATCT-GAAACCCTAAAATAATCA
** * *
50843119 CCCCCTTCTCTTTAGTTTATTTCCCCCCTTTTCCCTAATCTGAAACCCTAAAATAATTA
1 CCCCCTTCTCCCTAGTTTATTTCCCCCATTTTCCCTAATCTGAAACCCTAAAATAATCA
50843178 CCCC
1 CCCC
50843182 TTTTTCCCCA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
59 53 0.98
60 1 0.02
ACGTcount: A:0.21, C:0.39, G:0.03, T:0.37
Consensus pattern (59 bp):
CCCCCTTCTCCCTAGTTTATTTCCCCCATTTTCCCTAATCTGAAACCCTAAAATAATCA
Found at i:50846060 original size:10 final size:9
Alignment explanation
Indices: 50846020--50846061 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
50846010 ATTTCCTTTA
50846020 TCAATATTT
1 TCAATATTT
*
50846029 TAAATATATT
1 TCAATAT-TT
50846039 TCAATA-TT
1 TCAATATTT
50846047 TCAATATTT
1 TCAATATTT
50846056 ATCAAT
1 -TCAAT
50846062 TAATATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 8 0.29
9 8 0.29
10 12 0.43
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (9 bp):
TCAATATTT
Found at i:50846428 original size:25 final size:25
Alignment explanation
Indices: 50846357--50846428 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
50846347 TTATTTTGGC
*
50846357 TTAATCAAGACACAATTTTTTTAAA-
1 TTAATCACGACACAA-TTTTTTAAAT
* **
50846382 -T--T-ACGACACAAATTTTGCAAT
1 TTAATCACGACACAATTTTTTAAAT
50846403 TTAATCACGACACAATTTTTTAAAT
1 TTAATCACGACACAATTTTTTAAAT
50846428 T
1 T
50846429 ACATATTTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
20 6 0.17
21 8 0.23
22 2 0.06
24 2 0.06
25 17 0.49
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (25 bp):
TTAATCACGACACAATTTTTTAAAT
Found at i:50846538 original size:9 final size:9
Alignment explanation
Indices: 50846526--50846556 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50846516 ATATCATATA
50846526 ATAACTTAC
1 ATAACTTAC
50846535 ATAACTTAC
1 ATAACTTAC
*
50846544 AAAACTTAC
1 ATAACTTAC
50846553 ATAA
1 ATAA
50846557 TACATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:50846581 original size:13 final size:13
Alignment explanation
Indices: 50846559--50846602 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
50846549 TTACATAATA
50846559 CATAAATATATAT
1 CATAAATATATAT
*
50846572 CATAATTATATAT
1 CATAAATATATAT
50846585 CATAAATATATAT
1 CATAAATATATAT
50846598 CATAA
1 CATAA
50846603 CTTACACAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:50846604 original size:64 final size:65
Alignment explanation
Indices: 50846511--50846639 Score: 192
Period size: 64 Copynumber: 2.0 Consensus size: 65
50846501 CTTAATGTTT
*
50846511 ATTATATATCATATAATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATA
1 ATTATATATCATATAATAACTTACATAACTTACAAAACTAACATAATACATAAATATATATCATA
* *
50846576 ATTATATATCATA-AAT-A-TATATCATAACTTACACAACTAACATGATACATAAATATATATCA
1 ATTATATATCATATAATAACT-TA-CATAACTTACAAAACTAACATAATACATAAATATATATCA
50846638 TA
64 TA
50846640 TCATAACTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
62 1 0.02
63 3 0.05
64 42 0.71
65 13 0.22
ACGTcount: A:0.50, C:0.14, G:0.01, T:0.35
Consensus pattern (65 bp):
ATTATATATCATATAATAACTTACATAACTTACAAAACTAACATAATACATAAATATATATCATA
Found at i:50846642 original size:43 final size:43
Alignment explanation
Indices: 50846590--50846682 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
50846580 TATATCATAA
* *
50846590 ATAT-ATATCATAACTTACACAACTAACATGATACATAAATAT
1 ATATCATATCATAACTTACACAACTAACATAAAACATAAATAT
*
50846632 ATATCATATCATAACTTACACAACTTACATAAAACATAAATAT
1 ATATCATATCATAACTTACACAACTAACATAAAACATAAATAT
50846675 ATATCATA
1 ATATCATA
50846683 AATATATATC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 4 0.09
43 43 0.91
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (43 bp):
ATATCATATCATAACTTACACAACTAACATAAAACATAAATAT
Found at i:50846683 original size:56 final size:53
Alignment explanation
Indices: 50846532--50846738 Score: 192
Period size: 56 Copynumber: 3.8 Consensus size: 53
50846522 TATAATAACT
* *
50846532 TACATAACTTACAAAACTTACATAATACATAAATATATATCATAATTATATATCA
1 TACAT-ACTTAC-AAACTTACATAAAACATAAATATATATCATAAATATATATCA
* * *
50846587 TAAATA-TATATCATAACTTAC--ACAAC-TAACAT-GATA-CATAAATATATATCA
1 TACATACT-TA-CA-AACTTACATAAAACATAA-ATATATATCATAAATATATATCA
*
50846638 TATCATAACTTACACAACTTACATAAAACATAAATATATATCATAAATATATATCT
1 TA-CAT-ACTTACA-AACTTACATAAAACATAAATATATATCATAAATATATATCA
* *
50846694 TATCACTACTTGCACAACTTACATAATACATAAATATATATCATA
1 TA-CA-TACTTACA-AACTTACATAAAACATAAATATATATCATA
50846739 TCATAACTTA
Statistics
Matches: 127, Mismatches: 12, Indels: 25
0.77 0.07 0.15
Matches are distributed among these distances:
51 16 0.13
52 17 0.13
53 9 0.07
54 11 0.09
55 18 0.14
56 55 0.43
57 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.33
Consensus pattern (53 bp):
TACATACTTACAAACTTACATAAAACATAAATATATATCATAAATATATATCA
Found at i:50846684 original size:13 final size:13
Alignment explanation
Indices: 50846666--50846692 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50846656 TTACATAAAA
50846666 CATAAATATATAT
1 CATAAATATATAT
50846679 CATAAATATATAT
1 CATAAATATATAT
50846692 C
1 C
50846693 TTATCACTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:50846740 original size:99 final size:94
Alignment explanation
Indices: 50846572--50846763 Score: 285
Period size: 99 Copynumber: 2.0 Consensus size: 94
50846562 AAATATATAT
* *
50846572 CATAATTATATATCATAAATATATATCATAACTTACACAACTAACATGATACATAAATATATATC
1 CATAAATATATATCATAAATATATATCATAACTTACACAACTAACATAATACATAAATATATATC
50846637 ATATCATAACTTACACAACTTACATAAAA
66 ATATCATAACTTACACAACTTACATAAAA
* *
50846666 CATAAATATATATCATAAATATATATCTTATCACTACTTGCACAACTTACATAATACATAAATAT
1 CATAAATATATATCATAAATATATATC--AT-A--ACTTACACAACTAACATAATACATAAATAT
* *
50846731 ATATCATATCATAACTTACATACCTTACATAAA
61 ATATCATATCATAACTTACACAACTTACATAAA
50846764 TGTATATCAT
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
94 26 0.30
96 2 0.02
97 1 0.01
99 58 0.67
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (94 bp):
CATAAATATATATCATAAATATATATCATAACTTACACAACTAACATAATACATAAATATATATC
ATATCATAACTTACACAACTTACATAAAA
Found at i:50846752 original size:9 final size:9
Alignment explanation
Indices: 50846740--50846812 Score: 51
Period size: 9 Copynumber: 8.1 Consensus size: 9
50846730 TATATCATAT
50846740 CATAACTTA
1 CATAACTTA
*
50846749 CATACCTTA
1 CATAACTTA
*
50846758 CATAAATGTA
1 CATAACT-TA
* * *
50846768 TATCA-TAA
1 CATAACTTA
*
50846776 GATAACTTA
1 CATAACTTA
50846785 CATAACTTA
1 CATAACTTA
50846794 CA-AAGCTTA
1 CATAA-CTTA
*
50846803 CTTAACTTA
1 CATAACTTA
50846812 C
1 C
50846813 GTAATACATA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 6 0.12
9 36 0.73
10 7 0.14
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:50846758 original size:43 final size:43
Alignment explanation
Indices: 50846679--50846762 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
50846669 AAATATATAT
* *
50846679 CATAAATATATATCTTATCACTACTTGCACAACTTACATAATA
1 CATAAATATATATCATATCACTACTTACACAACTTACATAATA
* *
50846722 CATAAATATATATCATATCA-TAACTTACATACCTTACATAA
1 CATAAATATATATCATATCACT-ACTTACACAACTTACATAA
50846763 ATGTATATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.35
Consensus pattern (43 bp):
CATAAATATATATCATATCACTACTTACACAACTTACATAATA
Found at i:50846770 original size:36 final size:36
Alignment explanation
Indices: 50846709--50846795 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
50846699 CTACTTGCAC
*
50846709 AACTTACATAA--TACATAAATATATATCATATCAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
* * *
50846743 AACTTACATACCTTACATAAATGTATATCATAAGAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
50846779 AACTTACATAACTTACA
1 AACTTACATAACTTACA
50846796 AAGCTTACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 10 0.22
36 36 0.78
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.33
Consensus pattern (36 bp):
AACTTACATAACTTACATAAATATATATCATAACAT
Found at i:50851793 original size:13 final size:14
Alignment explanation
Indices: 50851777--50851805 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50851767 TTATAAATAT
50851777 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
50851790 TTATAATGGTTTAA
1 TTATAATGGTTTAA
50851804 TT
1 TT
50851806 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:50852265 original size:21 final size:21
Alignment explanation
Indices: 50852215--50852269 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
50852205 ACTTAGAGAG
*
50852215 GAGGCAGCAGCGAGGGAGGTA
1 GAGGCAGCAGCGAGGGAGCTA
* **
50852236 GTGATAGCAGCGAGGGAGCTA
1 GAGGCAGCAGCGAGGGAGCTA
50852257 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
50852270 TGGCAGTAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.47, T:0.07
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGCTA
Found at i:50852279 original size:21 final size:20
Alignment explanation
Indices: 50852215--50852280 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
50852205 ACTTAGAGAG
50852215 GAGGCAGCAGCGAGGGAGGTA
1 GAGGCAGCAGCGAGGGA-GTA
* **
50852236 GTGATAGCAGCGAGGGAGCTA
1 GAGGCAGCAGCGAGGGAG-TA
*
50852257 GAGGCAGCAGCGATGGCAGTA
1 GAGGCAGCAGCGA-GGGAGTA
50852278 GAG
1 GAG
50852281 CAGAGTAGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
20 1 0.03
21 31 0.86
22 4 0.11
ACGTcount: A:0.29, C:0.15, G:0.47, T:0.09
Consensus pattern (20 bp):
GAGGCAGCAGCGAGGGAGTA
Found at i:50852557 original size:31 final size:31
Alignment explanation
Indices: 50852522--50852587 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
50852512 TGTATTTTTT
* *
50852522 ATGCTACATTTGCTATTTTTGGTTGGATTTC
1 ATGCTACATTTGCTATTTTTGGCTGGATTTA
* *
50852553 ATGCTATATTTGCTGTTTTTGGCTGGATTTA
1 ATGCTACATTTGCTATTTTTGGCTGGATTTA
50852584 ATGC
1 ATGC
50852588 AGGAAGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.21, T:0.50
Consensus pattern (31 bp):
ATGCTACATTTGCTATTTTTGGCTGGATTTA
Found at i:50854569 original size:27 final size:27
Alignment explanation
Indices: 50854539--50854641 Score: 138
Period size: 27 Copynumber: 3.8 Consensus size: 27
50854529 GGCTGCTAGA
* *
50854539 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
50854566 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
50854593 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
50854621 -CAGATAATTGTGGCATAGCCA
1 ACAGATAA-TGTGGCAGAGCCA
50854642 TCAGGACGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
26 1 0.01
27 51 0.74
28 17 0.25
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:50854626 original size:54 final size:54
Alignment explanation
Indices: 50854536--50854641 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
50854526 CATGGCTGCT
*
50854536 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACC
1 AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
* * *
50854590 AGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 AGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
50854642 TCAGGACGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.17
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
Found at i:50863603 original size:34 final size:33
Alignment explanation
Indices: 50863523--50863611 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 33
50863513 CTGCTATTGT
* * *
50863523 ATACTATTACTATGATGGGCTAAAGCCCTACTG
1 ATACCATTACTGTGATGGGCTAAAGCCCAACTG
* *
50863556 ATTACTGA-GACTGTGATGGGCTAAAGCCCAAACTG
1 A-TAC-CATTACTGTGATGGGCTAAAGCCC-AACTG
*
50863591 ATACCATTACTGTGAAGGGCT
1 ATACCATTACTGTGATGGGCT
50863612 TAGGCCCGGT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
33 2 0.04
34 37 0.82
35 6 0.13
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (33 bp):
ATACCATTACTGTGATGGGCTAAAGCCCAACTG
Found at i:50875345 original size:28 final size:27
Alignment explanation
Indices: 50875282--50875351 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
50875272 ATAGTGAGTC
50875282 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
50875309 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
50875337 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50875352 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:50889498 original size:46 final size:46
Alignment explanation
Indices: 50889419--50889534 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 46
50889409 TAAGTGAATG
* * *
50889419 CAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACT
1 CAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACT
* * *
50889465 CGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACT
1 CAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACT
*
50889511 CAAACTCAACTCAACGAGTTCGGA
1 CAGACTCAACTCAACGAGTTCGGA
50889535 TGCTCAACCA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
CAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACT
Found at i:50891996 original size:15 final size:15
Alignment explanation
Indices: 50891929--50892006 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
50891919 CAAAGATAAC
*
50891929 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
50891943 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
50891958 GAGAAACCCAGAAT-
1 AAGAAATCCAGAATA
50891972 AA-AAATCCAGAATA
1 AAGAAATCCAGAATA
* *
50891986 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
50892001 AAGAAA
1 AAGAAA
50892007 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
13 10 0.20
14 12 0.24
15 28 0.55
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:50892015 original size:15 final size:15
Alignment explanation
Indices: 50891940--50892015 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
50891930 AGAAAACCGA
50891940 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
50891955 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
50891969 A-ATAA-AAATCC-AG
1 ATA-AAGAAATCCAAG
* *
50891982 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
50891998 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
50892013 ATA
1 ATA
50892016 CGATACTATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
13 6 0.13
14 11 0.23
15 29 0.62
16 1 0.02
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:50894255 original size:40 final size:40
Alignment explanation
Indices: 50894210--50894376 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
50894200 CGGAATATAA
50894210 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
50894250 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
50894290 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50894330 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
50894369 CCGGATAT
1 CCGGATAT
50894377 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50894360 original size:80 final size:79
Alignment explanation
Indices: 50894210--50894376 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
50894200 CGGAATATAA
* *
50894210 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
50894275 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
50894290 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
50894352 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
50894369 CCGGATAT
1 CCGGATAT
50894377 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:50901446 original size:40 final size:40
Alignment explanation
Indices: 50901401--50901567 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
50901391 CGGAATATAA
50901401 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
50901441 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
50901481 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50901521 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
50901560 CCGGATAT
1 CCGGATAT
50901568 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50901551 original size:80 final size:79
Alignment explanation
Indices: 50901401--50901567 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
50901391 CGGAATATAA
* *
50901401 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
50901466 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
50901481 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
50901543 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
50901560 CCGGATAT
1 CCGGATAT
50901568 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:50908881 original size:29 final size:29
Alignment explanation
Indices: 50908721--50908881 Score: 173
Period size: 29 Copynumber: 5.6 Consensus size: 29
50908711 TACTCGATTT
* *
50908721 CGCACACTTAGTGCCAT-TCGATTT-AAGCC
1 CGCACACTTAGTGCCATAT--ATTTCCAGCA
* *** * *
50908750 CGCACACATAGTGCCATAGCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** *
50908779 CGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
50908808 TGCACACTTAGTGCGATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50908837 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50908866 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50908882 ATCTCGTCAC
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.02
29 107 0.98
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:50916035 original size:29 final size:29
Alignment explanation
Indices: 50915946--50916104 Score: 169
Period size: 29 Copynumber: 5.5 Consensus size: 29
50915936 CTCGATTTCA
* *
50915946 CACACTTAGTGCCAT-TCAATTT-AAGCCCG
1 CACACTTAGTGCCATAT--ATTTCCAGCACG
* *** * *
50915975 CACACATAGTGCCATAGCCTTCGAGCTCG
1 CACACTTAGTGCCATATATTTCCAGCACG
** * *
50916004 CACACCCAGTGCCGTATATTTCCAGCATG
1 CACACTTAGTGCCATATATTTCCAGCACG
50916033 CACACTTAGTGCCATATATTTCCAGCACG
1 CACACTTAGTGCCATATATTTCCAGCACG
50916062 CACACTTAGTGCCATATATTTCCAGCACG
1 CACACTTAGTGCCATATATTTCCAGCACG
*
50916091 CACACGTAGTGCCA
1 CACACTTAGTGCCA
50916105 ATCTCGTCAC
Statistics
Matches: 108, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
28 2 0.02
29 106 0.98
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (29 bp):
CACACTTAGTGCCATATATTTCCAGCACG
Found at i:50931651 original size:27 final size:27
Alignment explanation
Indices: 50931603--50931917 Score: 382
Period size: 27 Copynumber: 11.7 Consensus size: 27
50931593 AGGGCAAAAT
* *
50931603 AGTAATTTTACCCCAC-GAGGGTATCTT-
1 AGTAATTCTACCCTACAG-GGGTAT-TTC
*
50931630 AGTAATTCAACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* * * *
50931657 AGTATTTCTACCCTACAAGGATATTTT
1 AGTAATTCTACCCTACAGGGGTATTTC
*
50931684 GGTAATTCTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
50931711 AATAATTCTACCCTATAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* ** * * *
50931738 GGTAATTCTACTTTATAAGGGTATTTA
1 AGTAATTCTACCCTACAGGGGTATTTC
50931765 AGTAATTCTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
50931792 AGTAATTCTACCTTACAAGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
*
50931819 AGTAATTCTACCTTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
*
50931846 AATAATTCTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
50931873 GGTAATTCTACCTTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
50931900 AGTAATGCTAGCCTACAG
1 AGTAATTCTACCCTACAG
50931918 ATATGTGATT
Statistics
Matches: 246, Mismatches: 40, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 243 0.99
28 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
AGTAATTCTACCCTACAGGGGTATTTC
Found at i:50933950 original size:31 final size:27
Alignment explanation
Indices: 50933875--50933955 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
50933865 AAGCTGCCAG
*
50933875 ATATTGTGACGAAGCCACCAGATACAA
1 ATATTGTGGCGAAGCCACCAGATACAA
* *
50933902 ATATTGTGGCTAGGCCACCAGA-ACAGATA
1 ATATTGTGGCGAAGCCACCAGATAC--A-A
50933931 TATATATGTGGCGAAGCCACCAGAT
1 -ATAT-TGTGGCGAAGCCACCAGAT
50933956 TGCAGCGAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 2 0.05
27 19 0.44
28 1 0.02
29 1 0.02
30 4 0.09
31 16 0.37
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (27 bp):
ATATTGTGGCGAAGCCACCAGATACAA
Found at i:50934027 original size:67 final size:67
Alignment explanation
Indices: 50933932--50934105 Score: 312
Period size: 67 Copynumber: 2.6 Consensus size: 67
50933922 GAACAGATAT
*
50933932 ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAAATATTGTGACAAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAAATATTGTGACAAAGTCACCAGAAC
50933997 AG
66 AG
*
50933999 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAAATATTGTGACAAAGTCACCAGAAC
50934064 AG
66 AG
* *
50934066 ATAAATGTGGCGAGGCCACCAAATTGCAGCGAGGCTGCCA
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCA
50934106 GAACGCTTCC
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 103 1.00
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAAATATTGTGACAAAGTCACCAGAAC
AG
Found at i:50934732 original size:27 final size:26
Alignment explanation
Indices: 50934702--50934987 Score: 254
Period size: 27 Copynumber: 10.6 Consensus size: 26
50934692 GGGGTAAAAT
* * *
50934702 AGTAATTTTACCCCATGAGGGTATCTC
1 AGTAATTCTACCCTAT-AGGGTATTTC
* *
50934729 AGTAATTCTACCCTACAGGGGTATTTG
1 AGTAATTCTACCCTATA-GGGTATTTC
50934756 AGGTAATTCTACCCTATAGGGGTATTTC
1 A-GTAATTCTACCCTATA-GGGTATTTC
*
50934784 AGTAATTCTACCCTACAAGGGTATTTC
1 AGTAATTCTACCCTA-TAGGGTATTTC
*
50934811 -GATAATTCTACCTTATAGGGGTATTTC
1 AG-TAATTCTACCCTATA-GGGTATTTC
* *
50934838 AGTAATTTTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTATA-GGGTATTTC
*
50934865 -GATAATTCTACCTTATAGGGGTATTTC
1 AG-TAATTCTACCCTATA-GGGTATTTC
* * *
50934892 GGTAATTCTACCTTACAGAGGTATTTC
1 AGTAATTCTACCCTATAG-GGTATTTC
* *
50934919 AATAATTCTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTATA-GGGTATTTC
* * *
50934946 GGTAATTCTACCTTACAGGGGTATTTC
1 AGTAATTCTACCCTATA-GGGTATTTC
*
50934973 -GATAATTCTAGCCTA
1 AG-TAATTCTACCCTA
50934988 CAAATATGTG
Statistics
Matches: 223, Mismatches: 25, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.03
27 188 0.84
28 29 0.13
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (26 bp):
AGTAATTCTACCCTATAGGGTATTTC
Found at i:50934840 original size:54 final size:54
Alignment explanation
Indices: 50934720--50934987 Score: 394
Period size: 54 Copynumber: 4.9 Consensus size: 54
50934710 TACCCCATGA
*
50934720 GGGTATCTCAGTAATTCTACCCTACAGGGGTATTT-GAGGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA--TAATTCTACCCTATAG
* *
50934775 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCTTATAG
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAG
* *
50934829 GGGTATTTCAGTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCTTATAG
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAG
* * * * *
50934883 GGGTATTTCGGTAATTCTACCTTACAGAGGTATTTCAATAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAG
* * *
50934937 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGATAATTCTAGCCTA
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTA
50934988 CAAATATGTG
Statistics
Matches: 197, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
54 162 0.82
55 33 0.17
56 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAG
Found at i:50934874 original size:81 final size:81
Alignment explanation
Indices: 50934731--50934982 Score: 371
Period size: 81 Copynumber: 3.1 Consensus size: 81
50934721 GGTATCTCAG
* * *
50934731 TAATTCTACCCTACAGGGGTATTTGAGGTAATTCTACCCTATAGGGGTATTTC-AGTAATTCTAC
1 TAATTCTACCTTACAGGGGTATTTCA-GTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTAC
* *
50934795 CCTACAAGGGTATTTCGA
64 CTTACAGGGGTATTTCGA
* *
50934813 TAATTCTACCTTATAGGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCT
1 TAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCT
* *
50934878 TATAGGGGTATTTCGG
66 TACAGGGGTATTTCGA
* * *
50934894 TAATTCTACCTTACAGAGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
1 TAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCT
50934959 TACAGGGGTATTTCGA
66 TACAGGGGTATTTCGA
50934975 TAATTCTA
1 TAATTCTA
50934983 GCCTACAAAT
Statistics
Matches: 153, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
81 129 0.84
82 24 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (81 bp):
TAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCT
TACAGGGGTATTTCGA
Found at i:50934989 original size:27 final size:27
Alignment explanation
Indices: 50934731--50934989 Score: 335
Period size: 27 Copynumber: 9.6 Consensus size: 27
50934721 GGTATCTCAG
50934731 TAATTCTACCCTACAGGGGTATTT-GA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
50934757 GGTAATTCTACCCTATAGGGGTATTTC-A
1 --TAATTCTACCCTACAGGGGTATTTCGA
*
50934785 GTAATTCTACCCTACAAGGGTATTTCGA
1 -TAATTCTACCCTACAGGGGTATTTCGA
* *
50934813 TAATTCTACCTTATAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
*
50934839 GTAATTTTACCCTACAGGGGTATTTCGA
1 -TAATTCTACCCTACAGGGGTATTTCGA
* * *
50934867 TAATTCTACCTTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
50934894 TAATTCTACCTTACAGAGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
50934921 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
50934948 TAATTCTACCTTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
50934975 TAATTCTAGCCTACA
1 TAATTCTACCCTACA
50934990 AATATGTGAT
Statistics
Matches: 202, Mismatches: 25, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
26 1 0.00
27 175 0.87
28 26 0.13
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:50936232 original size:54 final size:53
Alignment explanation
Indices: 50936142--50936254 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 53
50936132 TTGATCGCAA
* * *
50936142 ACCGTGTGTAGGCCGTGTGACTCACTAACTTGATACACACAATCGTGTCATAG
1 ACCGTGTGCAGGCCGTGTGACTCACTAACTTAATACACACAATCGTGTCACAG
* * *
50936195 ACCGTGTGCCAGGTCGTGTGACTCACTGACTTAATACACACGATCGTGTCACAG
1 ACCGTGTG-CAGGCCGTGTGACTCACTAACTTAATACACACAATCGTGTCACAG
50936249 -CCGTGT
1 ACCGTGT
50936255 CTCAAACTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 14 0.26
54 39 0.74
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (53 bp):
ACCGTGTGCAGGCCGTGTGACTCACTAACTTAATACACACAATCGTGTCACAG
Found at i:50937167 original size:40 final size:40
Alignment explanation
Indices: 50937105--50937207 Score: 134
Period size: 40 Copynumber: 2.6 Consensus size: 40
50937095 GAACATTATA
* *
50937105 ATGCATTCAGGGGTACCAAAGTACAAATAGAAGCACGTAT
1 ATGCATTCAGGGGTATCGAAGTACAAATAGAAGCACGTAT
* * * **
50937145 ATTCATTTAGGGGTATCGAAGTATAAATAGGGGCACGTAT
1 ATGCATTCAGGGGTATCGAAGTACAAATAGAAGCACGTAT
*
50937185 GTGCATTCAGGGGTATCGAAGTA
1 ATGCATTCAGGGGTATCGAAGTA
50937208 AATTCACACA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (40 bp):
ATGCATTCAGGGGTATCGAAGTACAAATAGAAGCACGTAT
Found at i:50952031 original size:41 final size:41
Alignment explanation
Indices: 50951980--50952077 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
50951970 TGCAGTTACT
* *
50951980 TGACAGCTTGTGTGAGCAGCA-CTGAGTCTCTACGTCTTGAC
1 TGACAGCTTGTGTGAGCAGCATC-GAGTCGCTACATCTTGAC
50952021 TGACAGCTTGTGTGAGCAGCATCGAGTCGCTACATCTTGAC
1 TGACAGCTTGTGTGAGCAGCATCGAGTCGCTACATCTTGAC
* *
50952062 TGTCAACTTGTGTGAG
1 TGACAGCTTGTGTGAG
50952078 TAGGCCCGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 51 0.98
42 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (41 bp):
TGACAGCTTGTGTGAGCAGCATCGAGTCGCTACATCTTGAC
Done.