Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 51 of 186
Found at i:15582590 original size:19 final size:18
Alignment explanation
Indices: 15582559--15582622 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 18
15582549 GGCCTCTCCA
15582559 TTTTTTTTA-TTTTTTCT
1 TTTTTTTTATTTTTTTCT
15582576 TTTTATTTTATTTTTTTCCT
1 TTTT-TTTTATTTTTTT-CT
*
15582596 TTTATTTTATTTTTTTCCT
1 TTTTTTTTATTTTTTT-CT
15582615 TTTTTTTT
1 TTTTTTTT
15582623 TGAAATAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.10
18 5 0.12
19 28 0.67
20 5 0.12
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTTATTTTTTTCT
Found at i:15582611 original size:13 final size:13
Alignment explanation
Indices: 15582560--15582603 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
15582550 GCCTCTCCAT
15582560 TTTTTTTATTTT-
1 TTTTTTTATTTTA
15582572 TTCTTTTTATTTTA
1 TT-TTTTTATTTTA
*
15582586 TTTTTTTCCTTTTA
1 TTTTTTT-ATTTTA
15582600 TTTT
1 TTTT
15582604 ATTTTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 2 0.07
13 15 0.54
14 11 0.39
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:15588045 original size:14 final size:14
Alignment explanation
Indices: 15588026--15588056 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
15588016 TAAGATAGAC
15588026 GAAGAATAAAATAA
1 GAAGAATAAAATAA
15588040 GAAGAATAAAATAA
1 GAAGAATAAAATAA
15588054 GAA
1 GAA
15588057 CAAACCACAG
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:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (14 bp):
GAAGAATAAAATAA
Found at i:15588279 original size:22 final size:21
Alignment explanation
Indices: 15588249--15588295 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
15588239 TACAAATTAA
15588249 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
15588271 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
15588292 ATCT
1 ATCT
15588296 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:15588289 original size:16 final size:16
Alignment explanation
Indices: 15588268--15588318 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
15588258 ATTACAAGAT
15588268 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
15588284 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
15588303 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
15588319 ATATTTCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:15588301 original size:19 final size:21
Alignment explanation
Indices: 15588266--15588308 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
15588256 AGATTACAAG
15588266 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
15588287 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
15588306 ATC
1 ATC
15588309 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:15599509 original size:20 final size:20
Alignment explanation
Indices: 15599484--15599533 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
15599474 GAAAAATTAA
*
15599484 TTTTGGAAAATATCTATGAT-T
1 TTTTGGAAAA-A-ATATGATAT
*
15599505 TTTGGGAAAAAATATGATAT
1 TTTTGGAAAAAATATGATAT
15599525 TTTTGGAAA
1 TTTTGGAAA
15599534 TTAATTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.24
20 10 0.40
21 9 0.36
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (20 bp):
TTTTGGAAAAAATATGATAT
Found at i:15611842 original size:24 final size:24
Alignment explanation
Indices: 15611814--15611864 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
15611804 GCGAAGACCT
* * *
15611814 ACACGACCGTGTGAGAAGCGAACC
1 ACACGACCGTGGGAAAAGCAAACC
15611838 ACACGACCGTGGGAAAAGCAAACC
1 ACACGACCGTGGGAAAAGCAAACC
15611862 ACA
1 ACA
15611865 TCACACACGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.29, G:0.25, T:0.06
Consensus pattern (24 bp):
ACACGACCGTGGGAAAAGCAAACC
Found at i:15612369 original size:40 final size:40
Alignment explanation
Indices: 15612314--15612393 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
15612304 GGGTATATGA
15612314 CTGCCTTGTTCTCTTGAAAAGCTCTCATATCGTATTTAGG
1 CTGCCTTGTTCTCTTGAAAAGCTCTCATATCGTATTTAGG
*
15612354 CTGCCTTGTTCTCTTGAAAAGCTCTCATATCTTATTTAGG
1 CTGCCTTGTTCTCTTGAAAAGCTCTCATATCGTATTTAGG
15612394 ATAAATTTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (40 bp):
CTGCCTTGTTCTCTTGAAAAGCTCTCATATCGTATTTAGG
Found at i:15614799 original size:258 final size:258
Alignment explanation
Indices: 15614342--15614857 Score: 1032
Period size: 258 Copynumber: 2.0 Consensus size: 258
15614332 ACCCTGTCTA
15614342 AGAGTACAATTGTCATAATTAAGCGGAATTATTTGCGCTCCTAGATATAGGGTGACATGATTTTG
1 AGAGTACAATTGTCATAATTAAGCGGAATTATTTGCGCTCCTAGATATAGGGTGACATGATTTTG
15614407 CCAGATTAGGGTGAAACCTAATAAGGGGATCCATAGATCGAGTTAATGCAACCCTAGGGTGTTAA
66 CCAGATTAGGGTGAAACCTAATAAGGGGATCCATAGATCGAGTTAATGCAACCCTAGGGTGTTAA
15614472 TTAGAGAAAGGTCTCAATTATTCAATATAGGGATTAGACGTTATTAGTCTTGAATCGGGATAATA
131 TTAGAGAAAGGTCTCAATTATTCAATATAGGGATTAGACGTTATTAGTCTTGAATCGGGATAATA
15614537 ACATAACTTAGGGATCTATATGGAACAAGTTAAATGAATAAATCGTCCGATTCGGAGCCAGAG
196 ACATAACTTAGGGATCTATATGGAACAAGTTAAATGAATAAATCGTCCGATTCGGAGCCAGAG
15614600 AGAGTACAATTGTCATAATTAAGCGGAATTATTTGCGCTCCTAGATATAGGGTGACATGATTTTG
1 AGAGTACAATTGTCATAATTAAGCGGAATTATTTGCGCTCCTAGATATAGGGTGACATGATTTTG
15614665 CCAGATTAGGGTGAAACCTAATAAGGGGATCCATAGATCGAGTTAATGCAACCCTAGGGTGTTAA
66 CCAGATTAGGGTGAAACCTAATAAGGGGATCCATAGATCGAGTTAATGCAACCCTAGGGTGTTAA
15614730 TTAGAGAAAGGTCTCAATTATTCAATATAGGGATTAGACGTTATTAGTCTTGAATCGGGATAATA
131 TTAGAGAAAGGTCTCAATTATTCAATATAGGGATTAGACGTTATTAGTCTTGAATCGGGATAATA
15614795 ACATAACTTAGGGATCTATATGGAACAAGTTAAATGAATAAATCGTCCGATTCGGAGCCAGAG
196 ACATAACTTAGGGATCTATATGGAACAAGTTAAATGAATAAATCGTCCGATTCGGAGCCAGAG
15614858 TAACAAGTAC
Statistics
Matches: 258, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
258 258 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (258 bp):
AGAGTACAATTGTCATAATTAAGCGGAATTATTTGCGCTCCTAGATATAGGGTGACATGATTTTG
CCAGATTAGGGTGAAACCTAATAAGGGGATCCATAGATCGAGTTAATGCAACCCTAGGGTGTTAA
TTAGAGAAAGGTCTCAATTATTCAATATAGGGATTAGACGTTATTAGTCTTGAATCGGGATAATA
ACATAACTTAGGGATCTATATGGAACAAGTTAAATGAATAAATCGTCCGATTCGGAGCCAGAG
Found at i:15622679 original size:43 final size:43
Alignment explanation
Indices: 15622632--15622754 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
15622622 TAACACGTAT
*
15622632 CGATGCCACTGTCCCACACAAGGTCTTACACG-AAGTCG-ATTAA
1 CGATGCCACTGTCCCACACAAGGTCTTACACGTAA-TCGTAAT-A
* *
15622675 CGATGCGGA-TGTCCCACACATGGTCTTACACGTAATCGTAATA
1 CGATGC-CACTGTCCCACACAAGGTCTTACACGTAATCGTAATA
* *
15622718 CAATGCCACTGTCCCACACAAGGTCTTACATGTAATC
1 CGATGCCACTGTCCCACACAAGGTCTTACACGTAATC
15622755 ACATCTCAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.01
43 63 0.91
44 5 0.07
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
CGATGCCACTGTCCCACACAAGGTCTTACACGTAATCGTAATA
Found at i:15633796 original size:19 final size:18
Alignment explanation
Indices: 15633768--15633806 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
15633758 AGAGTGAAAG
*
15633768 AAACGAGAAACTGGCCTA
1 AAACGAGAAAATGGCCTA
*
15633786 AAACAGAGAAAATGGGCTA
1 AAAC-GAGAAAATGGCCTA
15633805 AA
1 AA
15633807 GTAAGAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.51, C:0.15, G:0.23, T:0.10
Consensus pattern (18 bp):
AAACGAGAAAATGGCCTA
Found at i:15637741 original size:31 final size:30
Alignment explanation
Indices: 15637703--15637763 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 30
15637693 ATATTGATAG
*
15637703 CAGGAATGAGGAGTATAAACTCCTCGAACC
1 CAGGAATGAGGAGTATAAACTCCTCAAACC
15637733 NCAGGAATGAGGAGTATAAACTCCTCAAACC
1 -CAGGAATGAGGAGTATAAACTCCTCAAACC
15637764 ACCATGATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.16
Consensus pattern (30 bp):
CAGGAATGAGGAGTATAAACTCCTCAAACC
Found at i:15658121 original size:35 final size:34
Alignment explanation
Indices: 15658075--15658143 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 34
15658065 ATATGGGGTA
* * *
15658075 ATATATGTACGCGTAACATACAACAATGGCAGAG
1 ATATATGTACGCATAAAATACAACAATGGAAGAG
*
15658109 NATATATGTACGCATAAAATACGACAATGGAAGAG
1 -ATATATGTACGCATAAAATACAACAATGGAAGAG
15658144 CGGAGGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.20
Consensus pattern (34 bp):
ATATATGTACGCATAAAATACAACAATGGAAGAG
Found at i:15662294 original size:20 final size:20
Alignment explanation
Indices: 15662269--15662309 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15662259 GGCGTGTGAC
15662269 CTTTTAAAATTGGAAAATTT
1 CTTTTAAAATTGGAAAATTT
** *
15662289 CTTTTAAGTTTGGAAACTTT
1 CTTTTAAAATTGGAAAATTT
15662309 C
1 C
15662310 ATATGTTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (20 bp):
CTTTTAAAATTGGAAAATTT
Found at i:15664183 original size:47 final size:46
Alignment explanation
Indices: 15664129--15664228 Score: 159
Period size: 47 Copynumber: 2.2 Consensus size: 46
15664119 AAATGAGGAT
15664129 AGAATCGAGAGAGAGAGATGAGGGTC-GACAAATGAAGGAGGGAAAG
1 AGAATCGAGAGAGAGAGATGAGGG-CGGACAAATGAAGGAGGGAAAG
*
15664175 ANGAATCGAGAGAGAGAGATGAGGGCGGACAAATGAAGGAGTGAAAG
1 A-GAATCGAGAGAGAGAGATGAGGGCGGACAAATGAAGGAGGGAAAG
15664222 AG-ATCGA
1 AGAATCGA
15664229 TGGAATCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
45 5 0.10
46 3 0.06
47 43 0.84
ACGTcount: A:0.43, C:0.07, G:0.40, T:0.09
Consensus pattern (46 bp):
AGAATCGAGAGAGAGAGATGAGGGCGGACAAATGAAGGAGGGAAAG
Found at i:15664888 original size:69 final size:69
Alignment explanation
Indices: 15664777--15664914 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
15664767 CTCAGAAGTC
*
15664777 AGATTCATCATCAAGATTGAAGATCTCTTCTCAATTCCTCTTCAGGAGTTTTGGGTTTTCTTTAT
1 AGATTCATCATCAAGACTGAAGATCTCTTCTCAATTCCTCTTCAGGAGTTTTGGGTTTTCTTTAT
15664842 GTTT
66 GTTT
*
15664846 AGATTCATCATCAAGACTGAATATCTCTTCTCAATTCCTCTTCAGGAGTTTTGGGTTTTCTTTAT
1 AGATTCATCATCAAGACTGAAGATCTCTTCTCAATTCCTCTTCAGGAGTTTTGGGTTTTCTTTAT
15664911 GTTT
66 GTTT
15664915 TGTATTCTTT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (69 bp):
AGATTCATCATCAAGACTGAAGATCTCTTCTCAATTCCTCTTCAGGAGTTTTGGGTTTTCTTTAT
GTTT
Found at i:15673321 original size:67 final size:67
Alignment explanation
Indices: 15673239--15673371 Score: 257
Period size: 67 Copynumber: 2.0 Consensus size: 67
15673229 TTATTTTCTG
15673239 AATTATATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTGATATCCCA
1 AATTATATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTGATATCCCA
15673304 GA
66 GA
*
15673306 AATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTGATATCCCA
1 AATTATATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTGATATCCCA
15673371 G
66 G
15673372 GATACCGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.50
Consensus pattern (67 bp):
AATTATATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTGATATCCCA
GA
Found at i:15675032 original size:43 final size:42
Alignment explanation
Indices: 15674983--15675130 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 42
15674973 TATCGAGATG
* *
15674983 TGATTACATGTAAGACCATGCCTGGAACATTAGCATAGTATTA
1 TGATTACATGTAAGACCATGTCTGG-ACATTGGCATAGTATTA
* * *
15675026 TGATTACGTGTAATACCATGTCTAGGACATTGGCATCATTA-TA
1 TGATTACATGTAAGACCATGTCT-GGACATTGGCAT-AGTATTA
* * ** *
15675069 TGATTTCGTGTAAGACCATGTAAGGGACATTGGCATCGATATT-
1 TGATTACATGTAAGACCATGT-CTGGACATTGGCATAG-TATTA
*
15675112 TGATAACATGTAAGACCAT
1 TGATTACATGTAAGACCAT
15675131 ATTTGGGATA
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
43 80 0.93
44 6 0.07
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGACATTGGCATAGTATTA
Found at i:15680306 original size:15 final size:15
Alignment explanation
Indices: 15680274--15680302 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15680264 ATTTTCTGTG
15680274 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
15680289 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
15680303 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Found at i:15681470 original size:43 final size:43
Alignment explanation
Indices: 15681377--15681475 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 43
15681367 AATAGGATTT
* *
15681377 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACATTGGCA
1 TCGATATGTGATTACGAGTAAGACCACGTCTAAGACATTGGCA
* * * * *
15681420 TCAATATGTGATTACGAGTAAGACCACGTTTAATACGTTTGCA
1 TCGATATGTGATTACGAGTAAGACCACGTCTAAGACATTGGCA
*
15681463 TTGATATGTGATT
1 TCGATATGTGATT
15681476 CCGATATGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (43 bp):
TCGATATGTGATTACGAGTAAGACCACGTCTAAGACATTGGCA
Found at i:15681557 original size:99 final size:99
Alignment explanation
Indices: 15681378--15681564 Score: 252
Period size: 99 Copynumber: 1.9 Consensus size: 99
15681368 ATAGGATTTT
* * *
15681378 CGATATGTGATTACGTGTAAGACCACGTCTAGGACATTGGCATCAATATGTGATTACGAGTAAGA
1 CGATATGTGATTACGAGTAAGACCACGTCTAGGACAGTGGCATCAATATGTAATTACGAGTAAGA
* * *
15681443 CCACGTTTAATACGTTTGCATTGATATGTGATTC
66 CCACGTCTAAGACGTTGGCATTGATATGTGATTC
* * *
15681477 CGATATGTGTTTACGAGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTAATTAC-ATGTAA
1 CGATATGTGATTACGAGTAAGACCAC-GTCTAGGACAGTGGCATCAATATGTAATTACGA-GTAA
*
15681540 GACCACGTCTGAGACGTTGGCATTG
64 GACCACGTCTAAGACGTTGGCATTG
15681565 TACAATATGT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
98 2 0.03
99 74 0.97
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (99 bp):
CGATATGTGATTACGAGTAAGACCACGTCTAGGACAGTGGCATCAATATGTAATTACGAGTAAGA
CCACGTCTAAGACGTTGGCATTGATATGTGATTC
Found at i:15686206 original size:43 final size:43
Alignment explanation
Indices: 15686153--15686273 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
15686143 TACCGAGATG
*
15686153 TGATTACATGTAAGACCATGTCTGGGATATTGGCATCGTTATA
1 TGATTACATGTAAGACCATGTCTGGGATATTGGCATCGGTATA
* * * * *
15686196 TGATTTCATGTAAGACCAGGTCTAGGACATTGGCATCGGTATG
1 TGATTACATGTAAGACCATGTCTGGGATATTGGCATCGGTATA
* * *
15686239 TGATAACATGTAAGACCATATCTGAGATA-TGGCAT
1 TGATTACATGTAAGACCATGTCTGGGATATTGGCAT
15686274 TGTACGAGTT
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 6 0.09
43 59 0.91
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGATATTGGCATCGGTATA
Found at i:15691042 original size:35 final size:35
Alignment explanation
Indices: 15690975--15691054 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
15690965 ATATTCATAG
* * * **
15690975 CTGTATCTGCATCTGAAATGGGCTCAGGCCCGAAT
1 CTGTATCTGTATATGAAATGGGCCCAAACCCGAAT
*
15691010 CTGTATCTGTATATGATATGGGCCCAAACCCGAAT
1 CTGTATCTGTATATGAAATGGGCCCAAACCCGAAT
* *
15691045 ATGAATCTGT
1 CTGTATCTGT
15691055 TTGATTTGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (35 bp):
CTGTATCTGTATATGAAATGGGCCCAAACCCGAAT
Found at i:15697272 original size:41 final size:40
Alignment explanation
Indices: 15697216--15697296 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 40
15697206 TATGAATTTG
*
15697216 TTAGTTTGCATTTTGGTTTACTTTTCTATAT-AAATTCTAA
1 TTAGTTTGCATTTTGGTTTAATTTTCTAT-TCAAATTCTAA
* *
15697256 TTAGTTTTGTATTTTGGTTTAATTTTCTGTTCAAATTCTAA
1 TTAG-TTTGCATTTTGGTTTAATTTTCTATTCAAATTCTAA
15697297 CTTAATTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 5 0.14
41 31 0.86
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (40 bp):
TTAGTTTGCATTTTGGTTTAATTTTCTATTCAAATTCTAA
Found at i:15703021 original size:79 final size:81
Alignment explanation
Indices: 15702887--15703069 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
15702877 GAATGATGTT
*
15702887 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
*
15702951 TGCGAGATACTA-ATTC
66 TGCGAGATACTATA-AC
* * * * **
15702967 TGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTT
*
15703029 GTGCGAGTTACTATAAC
65 GTGCGAGATACTATAAC
*
15703046 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
15703070 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTATAAC
Found at i:15703076 original size:40 final size:40
Alignment explanation
Indices: 15702887--15703069 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
15702877 GAATGATGTT
* * * *
15702887 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
* * *
15702927 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
15702967 TGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
15703006 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
15703046 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
15703070 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:15703091 original size:79 final size:79
Alignment explanation
Indices: 15702938--15703102 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
15702928 GGACTAAGAT
* * **
15702938 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
15703003 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
15703017 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
15703080 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
15703096 CCGAAGG
1 CCGAAGG
15703103 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:15708789 original size:13 final size:13
Alignment explanation
Indices: 15708773--15708803 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15708763 TTTTGAATTT
*
15708773 TAATTAATTTTTA
1 TAATTAATTTTGA
15708786 TAATTAATTTTGA
1 TAATTAATTTTGA
15708799 TAATT
1 TAATT
15708804 TTGGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
TAATTAATTTTGA
Found at i:15710338 original size:5 final size:5
Alignment explanation
Indices: 15710328--15710359 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
15710318 CATGCATGTT
15710328 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
15710360 GTTAGCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:15711598 original size:40 final size:40
Alignment explanation
Indices: 15711505--15711707 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
15711495 GGATGATAAT
* *
15711505 CGGGCTAAGTCCTGAAGGCATTT-TGCGCTAGTCACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATC
* * *
15711546 CGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
15711586 TGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
15711626 CGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
15711666 CGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
15711705 CGG
1 CGG
15711708 TTAAATCTCG
Statistics
Matches: 143, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 16 0.11
40 100 0.70
41 21 0.15
42 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:15717987 original size:42 final size:42
Alignment explanation
Indices: 15717886--15718041 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 42
15717876 TGTGCTATCA
* * *
15717886 TGTAAGACCACGTTTGGGACATTGGCATCG-ACTAATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTA-T-TTGATTT-CG
* *
15717930 TGTATGACCAAGTCTGGGACGTTGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTCG
* * *
15717972 TGTAAGACC-CTGTCTGGGACAG-TGGAATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTGATTTCG
15718015 TGTAAGACCACG-CTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
15718042 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 38 0.40
43 27 0.28
44 28 0.29
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTCG
Found at i:15720798 original size:25 final size:25
Alignment explanation
Indices: 15720759--15720877 Score: 130
Period size: 25 Copynumber: 4.8 Consensus size: 25
15720749 TCATGTACAT
* *
15720759 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTCACACGAGCTATAAATCG
* * *
15720784 GTATGCTCACTCGAGCTGTAGATCG
1 GTATGCTCACACGAGCTATAAATCG
* * *
15720809 GTATGCTCTCACAAGCTATAAATTG
1 GTATGCTCACACGAGCTATAAATCG
*
15720834 GTATGCTCTCACGAGCTATAAATCG
1 GTATGCTCACACGAGCTATAAATCG
* * *
15720859 GTATGGTCTCACAAGCTAT
1 GTATGCTCACACGAGCTAT
15720878 GGAGTATCCG
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 79 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATAAATCG
Found at i:15720837 original size:50 final size:50
Alignment explanation
Indices: 15720759--15720877 Score: 150
Period size: 50 Copynumber: 2.4 Consensus size: 50
15720749 TCATGTACAT
* * * * *
15720759 GTATGCTCAT-ACGAGCTATGAATCGGTATGCTCACTCGAGCTGTAGATCG
1 GTATGCTC-TCACAAGCTATAAATCGGTATGCTCACACGAGCTATAAATCG
* *
15720809 GTATGCTCTCACAAGCTATAAATTGGTATGCTCTCACGAGCTATAAATCG
1 GTATGCTCTCACAAGCTATAAATCGGTATGCTCACACGAGCTATAAATCG
*
15720859 GTATGGTCTCACAAGCTAT
1 GTATGCTCTCACAAGCTAT
15720878 GGAGTATCCG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.02
50 59 0.98
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (50 bp):
GTATGCTCTCACAAGCTATAAATCGGTATGCTCACACGAGCTATAAATCG
Found at i:15730964 original size:119 final size:119
Alignment explanation
Indices: 15730749--15731089 Score: 506
Period size: 119 Copynumber: 2.9 Consensus size: 119
15730739 AACACGTGGA
* * ** * * *
15730749 AGCCAAATC-AGCTATGTCTTCGATTTGTTCCTTGTAAGTACAAGGATACTAAACCATCTTGGAT
1 AGCCAAATCTA-CTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGAT
* * * *
15730813 CTGCTTCAGCATAAACATCTG-AAGGTGGGATCTGCTATATTTGAGAACATCTGAG
65 CTGCTTCAGTATAAACATCTGAAAGCT-AGATCTGCTATATTTGAGAACATCTAAG
15730868 AGCCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
1 AGCCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
*
15730933 TGCTCCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTAAG
66 TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTAAG
* * * *
15730987 AGTCAAATCTGCTATTTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATTATCTTGGATC
1 AGCCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
15731052 TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
15731090 CTGCGGCCTA
Statistics
Matches: 203, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
119 198 0.98
120 5 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (119 bp):
AGCCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTAAG
Found at i:15740431 original size:43 final size:43
Alignment explanation
Indices: 15740383--15740494 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
15740373 CCAGCATTAC
*
15740383 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCAAGAAGGCCCGAATACACATCACCGGCACGAA
15740426 GCCTGCTAGGCAAGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCAAGAAGGCCCGAATACACATCACCGGCACGAA
* * *
15740469 GCCTACTAGGCATGAAGGCCTGAATA
1 GCCTGCTAGGCAAGAAGGCCCGAATA
15740495 TAATACCAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.31, C:0.31, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCAAGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:15740543 original size:38 final size:38
Alignment explanation
Indices: 15740492--15740840 Score: 482
Period size: 38 Copynumber: 9.1 Consensus size: 38
15740482 GAAGGCCTGA
* * * * *
15740492 ATATAATACCAGCACTAGGCCTGCGAGATTTATCCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
15740530 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
** * ** *
15740568 ATATTTTACCAGCACGAAGCCAGCAGGTCTTTAAGCCCCG
1 ATATAATACCAGCACGAAGCCTGC-GGGATTTAA-CCCGG
* **
15740608 ATATAATACCAGCACGAAGCCTACTAGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
15740646 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
15740684 ATATATTACCAGCCCGAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
15740722 ATATAATACCAGCACGAAGCCTGTGGGATTTAACTCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
15740760 ATATATTACCAGCACGAAGCCTGCGGGATTTAACTCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
15740798 ATATAATACCAGCACGAAGCTTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
15740836 ATATA
1 ATATA
15740841 CATCGAATAT
Statistics
Matches: 275, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
38 239 0.87
39 12 0.04
40 24 0.09
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:15747951 original size:25 final size:27
Alignment explanation
Indices: 15747914--15747966 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
15747904 TCAAACATGC
15747914 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
15747940 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
15747966 A
1 A
15747967 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:15749483 original size:26 final size:26
Alignment explanation
Indices: 15749450--15749505 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
15749440 TGAAATTACA
15749450 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACACATT
* *
15749476 ATCATGGAACATTTGCCTAACCCATT
1 ATCATGGAACATTTACCTAACACATT
15749502 ATCA
1 ATCA
15749506 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACACATT
Found at i:15750975 original size:32 final size:32
Alignment explanation
Indices: 15750931--15750994 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
15750921 ATACTCAGCT
15750931 TTCACTTACTGGCATGTCAGACATTTCCCTAC
1 TTCACTTACTGGCATGTCAGACATTTCCCTAC
* *
15750963 TTCACTTGCTGGCATGTCAGACCTTTCCCTAC
1 TTCACTTACTGGCATGTCAGACATTTCCCTAC
15750995 AAACTCCGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.34
Consensus pattern (32 bp):
TTCACTTACTGGCATGTCAGACATTTCCCTAC
Found at i:15755518 original size:55 final size:51
Alignment explanation
Indices: 15755453--15755557 Score: 165
Period size: 55 Copynumber: 2.0 Consensus size: 51
15755443 TTCCCCAAGT
*
15755453 GACCGTACATTCAAGAGCTTTCTCCTCTCCTTCCTCTCCTTTCTCTAACTTTAGG
1 GACCGAACATTCAAGAGCTTTCTCCTCTCCTT--TCT-C-TTCTCTAACTTTAGG
15755508 GACCGAACATTCAAGAGCTTTCTCCTCTCCTTTCTCTTCTCTAACTTTAG
1 GACCGAACATTCAAGAGCTTTCTCCTCTCCTTTCTCTTCTCTAACTTTAG
15755558 TCTATGATGA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
51 14 0.29
52 1 0.02
53 3 0.06
55 31 0.63
ACGTcount: A:0.18, C:0.33, G:0.10, T:0.38
Consensus pattern (51 bp):
GACCGAACATTCAAGAGCTTTCTCCTCTCCTTTCTCTTCTCTAACTTTAGG
Found at i:15755705 original size:26 final size:26
Alignment explanation
Indices: 15755669--15755828 Score: 275
Period size: 26 Copynumber: 6.2 Consensus size: 26
15755659 TGAAATTCCA
15755669 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
15755695 ATCATGGAACAATTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
15755721 ATCATGAAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
15755747 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
15755773 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
15755799 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15755825 ATCA
1 ATCA
15755829 ATTTTTATCA
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 125 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15756315 original size:14 final size:16
Alignment explanation
Indices: 15756283--15756329 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
15756273 NNNNNNNNNA
15756283 ATAATATAAATAATAT
1 ATAATATAAATAATAT
15756299 ATAATA-AAATAATTAT
1 ATAATATAAATAA-TAT
* *
15756315 ATAACATAAAAAATA
1 ATAATATAAATAATA
15756330 AGGTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATATAAATAATAT
Found at i:15760779 original size:47 final size:48
Alignment explanation
Indices: 15760725--15760918 Score: 231
Period size: 47 Copynumber: 4.1 Consensus size: 48
15760715 TTAGGATTTT
* * *
15760725 ATGTGATGAATGTGA-ATGTATATATATGAGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGACATGTACATATATGTGATAAGGCCGAATGGCCA
15760772 ATGTGATGAATGTGAACATG--CATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTG-ACATGTACATATATGTGATAAGGCCGAATGGCCA
* *
15760819 ATGCGATGAATGTGAGCATG--CATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGA-CATGTACATATATGTGATAAGGCCGAATGGCCA
* * * *
15760866 ATGTGATGAATATGAACATGT--ATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTG-ACATGTACATATATGTGATAAGGCCGAATGGCCA
15760913 ATGTGA
1 ATGTGA
15760919 AATAGGTATG
Statistics
Matches: 131, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
46 1 0.01
47 125 0.95
48 2 0.02
49 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.27
Consensus pattern (48 bp):
ATGTGATGAATGTGACATGTACATATATGTGATAAGGCCGAATGGCCA
Found at i:15760827 original size:94 final size:93
Alignment explanation
Indices: 15760729--15760915 Score: 259
Period size: 94 Copynumber: 2.0 Consensus size: 93
15760719 GATTTTATGT
* * *
15760729 GATGAATGTGA-ATGTATATATATGAGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGC
1 GATGAATGTGACATG--CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
*
15760793 ATATATGTGATAAGGCCGAATGGCCAATGC
64 ATATATGTGATAAAGCCGAATGGCCAATGC
* * *
15760823 GATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGTA
1 GATGAATGTGA-CATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCA
* *
15760888 TATATGTGGTAAAGCCGAATGGCTAATG
65 TATATGTGATAAAGCCGAATGGCCAATG
15760916 TGAAATAGGT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
94 79 0.96
96 3 0.04
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (93 bp):
GATGAATGTGACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCAT
ATATGTGATAAAGCCGAATGGCCAATGC
Found at i:15761233 original size:37 final size:37
Alignment explanation
Indices: 15761125--15761233 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
15761115 GGAAATATAT
*
15761125 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
15761162 TCCGGGTAAGACCCGATGACTAAGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
15761199 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
15761234 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:15763784 original size:18 final size:19
Alignment explanation
Indices: 15763756--15763794 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
15763746 TTTAATTTTT
*
15763756 ATGTATTATAAATTACATA
1 ATGTATTATAAATAACATA
15763775 ATGT-TTATAAATAACATA
1 ATGTATTATAAATAACATA
15763793 AT
1 AT
15763795 ATAACATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
ATGTATTATAAATAACATA
Found at i:15764888 original size:13 final size:13
Alignment explanation
Indices: 15764872--15764896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15764862 AGTTTTTTTA
15764872 TTTATAATTAATG
1 TTTATAATTAATG
15764885 TTTATAATTAAT
1 TTTATAATTAAT
15764897 AAATATATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTTATAATTAATG
Found at i:15764938 original size:14 final size:14
Alignment explanation
Indices: 15764907--15764949 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
15764897 AAATATATTG
* *
15764907 TTTTTAAGTTTTTTA
1 TTTTTAA-TTTATAA
15764922 TTTTTAATTTATAA
1 TTTTTAATTTATAA
*
15764936 TTTTTTATTTATAA
1 TTTTTAATTTATAA
15764950 AATAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTTTAATTTATAA
Found at i:15766154 original size:3 final size:3
Alignment explanation
Indices: 15766146--15766186 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
15766136 TAGGAAGCAT
* *
15766146 ATA ATA AT- ATA ATA ATA TTA ATA AAA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15766187 CATACATTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15766266 original size:20 final size:21
Alignment explanation
Indices: 15766221--15766268 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
15766211 ATAAAATATT
*
15766221 AATAATATATATACTATATAG
1 AATAATATATATACGATATAG
15766242 AATAATATA-ATACGATATA-
1 AATAATATATATACGATATAG
15766261 ATATAATA
1 A-ATAATA
15766269 AAATTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 15 0.60
21 9 0.36
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (21 bp):
AATAATATATATACGATATAG
Found at i:15766277 original size:15 final size:15
Alignment explanation
Indices: 15766144--15766277 Score: 52
Period size: 15 Copynumber: 9.1 Consensus size: 15
15766134 TATAGGAAGC
*
15766144 ATATAATAATATAATA
1 ATATAATAAAAT-ATA
15766160 ATATTAATAAAA-ATA
1 ATA-TAATAAAATATA
* *
15766175 ATAATAATAATACATA
1 AT-ATAATAAAATATA
*
15766191 CAT-T-AGAAAATAGTTA
1 -ATATAATAAAATA--TA
*
15766207 AT-TAATAAAATATT
1 ATATAATAAAATATA
*
15766221 A-ATAAT-ATATATA
1 ATATAATAAAATATA
* *
15766234 CTAT-AT-AGA-ATA
1 ATATAATAAAATATA
**
15766246 ATATAATACGATATA
1 ATATAATAAAATATA
*
15766261 ATATAATAAAATTTA
1 ATATAATAAAATATA
15766276 AT
1 AT
15766278 TACATANTTT
Statistics
Matches: 90, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
12 6 0.07
13 11 0.12
14 15 0.17
15 33 0.37
16 16 0.18
17 9 0.10
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (15 bp):
ATATAATAAAATATA
Found at i:15766407 original size:15 final size:15
Alignment explanation
Indices: 15766387--15766448 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
15766377 AAATCAAATA
15766387 ATTATTTCAAATATT
1 ATTATTTCAAATATT
*
15766402 ATTATTTAAAATATGT
1 ATTATTTCAAATAT-T
* **
15766418 AAAATATTTCAAATACC
1 --ATTATTTCAAATATT
15766435 ATTATTTCAAATAT
1 ATTATTTCAAATAT
15766449 GTAAAATATT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
15 25 0.68
16 1 0.03
18 11 0.30
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (15 bp):
ATTATTTCAAATATT
Found at i:15766426 original size:33 final size:33
Alignment explanation
Indices: 15766389--15766470 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
15766379 ATCAAATAAT
*
15766389 TATTTCAAATATTATTATTTAAAATATGTAAAA
1 TATTTCAAATATCATTATTTAAAATATGTAAAA
* *
15766422 TATTTCAAATACCATTATTTCAAATATGTAAAA
1 TATTTCAAATATCATTATTTAAAATATGTAAAA
*
15766455 TATTTAAAATATCATT
1 TATTTCAAATATCATT
15766471 GTTTTTCATC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (33 bp):
TATTTCAAATATCATTATTTAAAATATGTAAAA
Found at i:15767184 original size:23 final size:22
Alignment explanation
Indices: 15767131--15767178 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
15767121 TTTTCTCCTT
15767131 ACTGCAATTGATTTTTGCGTGA
1 ACTGCAATTGATTTTTGCGTGA
15767153 ACTGCAATTGATTTTTGCGTGA
1 ACTGCAATTGATTTTTGCGTGA
15767175 ACTG
1 ACTG
15767179 GGAATTCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (22 bp):
ACTGCAATTGATTTTTGCGTGA
Found at i:15777469 original size:27 final size:27
Alignment explanation
Indices: 15777438--15777615 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15777428 TAAATTGTAC
15777438 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15777465 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15777491 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15777519 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15777547 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15777574 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15777601 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15777616 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15777552 original size:82 final size:81
Alignment explanation
Indices: 15777439--15777594 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15777429 AAATTGTACA
* *
15777439 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15777503 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
15777520 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
15777585 TGCGAGTTGA
65 TGCGAATTGA
15777595 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15777606 original size:82 final size:81
Alignment explanation
Indices: 15777435--15777615 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
15777425 GATTAAATTG
* *
15777435 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
15777500 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
15777516 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
15777580 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15777598 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15777616 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:15785620 original size:27 final size:27
Alignment explanation
Indices: 15785589--15785766 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15785579 TAAATTGTAC
15785589 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15785616 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15785642 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15785670 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15785698 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15785725 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15785752 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15785767 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15785703 original size:82 final size:81
Alignment explanation
Indices: 15785590--15785745 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15785580 AAATTGTACA
* *
15785590 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15785654 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
15785671 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
15785736 TGCGAGTTGA
65 TGCGAATTGA
15785746 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15785757 original size:82 final size:81
Alignment explanation
Indices: 15785586--15785766 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
15785576 GATTAAATTG
* *
15785586 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
15785651 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
15785667 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
15785731 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15785749 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15785767 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:15789967 original size:3 final size:3
Alignment explanation
Indices: 15789959--15789997 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
15789949 CAGTTAAGGA
* *
15789959 CTT CTT CTT CTT CTT TTT CTT TTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
15789998 TAGTGTATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
CTT
Found at i:15797652 original size:3 final size:3
Alignment explanation
Indices: 15797646--15798113 Score: 334
Period size: 3 Copynumber: 153.7 Consensus size: 3
15797636 ACTGTTCACT
* * * *
15797646 TTA TTA TTA TTA GTA TTA TTA TTA GTA TTA TTA TTTA TTA TCA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * * * * * *
15797692 TTA TTA TTA TCA TTG TTA CTG TTT TTA TTT TTA TTA CTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
15797740 TTA TTT TTA TTT TTCG TGTA TATA TTA TTA TT- TATA TTA TTG TTA TTA
1 TTA TTA TTA TTA TT-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * * * * *
15797788 TTA CTA TTA TTA ATA TTA TTA ATA ATC TTA TTA TTA CTG TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
15797836 TTCC TT- TTA TTA TTG TTCA TTA TCA ATA -TA TTA TTA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
15797881 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15797929 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
15797977 TTTA CATG TTA TTA TCTC TTT TTC TTT TTA TTA CGTTC TTA TTA CTA
1 -TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA --TTA TTA TTA TTA
* * * * * * * *
15798024 TTA TTA CTA TTT TTA TTG CTA GTA TCA TTT TTA TT- TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
15798071 TCA TTT TTA TAA TTA TTA TTA CTC TTA -TA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15798114 TAACATACTA
Statistics
Matches: 356, Mismatches: 94, Indels: 30
0.74 0.20 0.06
Matches are distributed among these distances:
2 9 0.03
3 325 0.91
4 19 0.05
5 3 0.01
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:15798062 original size:23 final size:23
Alignment explanation
Indices: 15798044--15798089 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15798034 TTTTATTGCT
15798044 AGTATCATTTTTATTTTATTATC
1 AGTATCATTTTTATTTTATTATC
* *
15798067 ATTATCATTTTTATAATTATTAT
1 AGTATCATTTTTAT-TTTATTAT
15798090 TACTCTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (23 bp):
AGTATCATTTTTATTTTATTATC
Found at i:15798229 original size:15 final size:15
Alignment explanation
Indices: 15798211--15798245 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
15798201 TTACCCTTGG
*
15798211 TATTATTTTTGTTAC
1 TATTATTTTTATTAC
15798226 TATTATTTTTATTAC
1 TATTATTTTTATTAC
15798241 TATTA
1 TATTA
15798246 CTACTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (15 bp):
TATTATTTTTATTAC
Found at i:15798450 original size:18 final size:18
Alignment explanation
Indices: 15798416--15798451 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15798406 GATTTATTAT
*
15798416 TTATTATCACTATTAATA
1 TTATTATCACTACTAATA
*
15798434 TTATTATCATTACTAATA
1 TTATTATCACTACTAATA
15798452 CTATCATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATTATCACTACTAATA
Found at i:15803219 original size:20 final size:21
Alignment explanation
Indices: 15803190--15803237 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
15803180 CATCCTCCAA
* *
15803190 TGCCCTTGA-TTACACTTTCG
1 TGCCCCTGATTTACACTCTCG
*
15803210 TGCCCCTGATTTGCACTCTCG
1 TGCCCCTGATTTACACTCTCG
15803231 TGCCCCT
1 TGCCCCT
15803238 ATATGCACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.10, C:0.38, G:0.17, T:0.35
Consensus pattern (21 bp):
TGCCCCTGATTTACACTCTCG
Found at i:15803246 original size:20 final size:21
Alignment explanation
Indices: 15803202--15803246 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
15803192 CCCTTGATTA
* *
15803202 CACTTTCGTGCCCCTGATTTG
1 CACTCTCGTGCCCCTGATATG
15803223 CACTCTCGTGCCCCT-ATATG
1 CACTCTCGTGCCCCTGATATG
15803243 CACT
1 CACT
15803247 TCTATGCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.13, C:0.38, G:0.16, T:0.33
Consensus pattern (21 bp):
CACTCTCGTGCCCCTGATATG
Found at i:15807382 original size:92 final size:92
Alignment explanation
Indices: 15807225--15807402 Score: 356
Period size: 92 Copynumber: 1.9 Consensus size: 92
15807215 GCCTTGCTGC
15807225 TCAGTTAACAGTAAATTGAGGCAAAACCTCCAGTACGTGGACAAGCCAGTTTCAGTACTTCCTCT
1 TCAGTTAACAGTAAATTGAGGCAAAACCTCCAGTACGTGGACAAGCCAGTTTCAGTACTTCCTCT
15807290 ATCAATATCCCAATCCCATGCATCAGA
66 ATCAATATCCCAATCCCATGCATCAGA
15807317 TCAGTTAACAGTAAATTGAGGCAAAACCTCCAGTACGTGGACAAGCCAGTTTCAGTACTTCCTCT
1 TCAGTTAACAGTAAATTGAGGCAAAACCTCCAGTACGTGGACAAGCCAGTTTCAGTACTTCCTCT
15807382 ATCAATATCCCAATCCCATGC
66 ATCAATATCCCAATCCCATGC
15807403 TGCAGTAAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (92 bp):
TCAGTTAACAGTAAATTGAGGCAAAACCTCCAGTACGTGGACAAGCCAGTTTCAGTACTTCCTCT
ATCAATATCCCAATCCCATGCATCAGA
Found at i:15809006 original size:24 final size:24
Alignment explanation
Indices: 15808978--15809024 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15808968 AAGATAGTAC
*
15808978 AAAAATA-ATACTAACATGGTATTA
1 AAAAATATATA-TAACATAGTATTA
15809002 AAAAATATATATAACATAGTATT
1 AAAAATATATATAACATAGTATT
15809025 TAGGAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (24 bp):
AAAAATATATATAACATAGTATTA
Found at i:15809164 original size:19 final size:19
Alignment explanation
Indices: 15809084--15809164 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 19
15809074 AATATAATTA
*
15809084 ATAATATTGAAA-ATATAT
1 ATAATATTAAAATATATAT
* * *
15809102 GT-ATA-TAATATATATAAC
1 ATAATATTAAAATATAT-AT
*
15809120 ATAATATTAAAATACATAT
1 ATAATATTAAAATATATAT
15809139 A-ATATATTAAAATATATAT
1 ATA-ATATTAAAATATATAT
15809158 ATAATAT
1 ATAATAT
15809165 AATACATAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
16 3 0.06
17 7 0.15
18 4 0.08
19 25 0.52
20 9 0.19
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
ATAATATTAAAATATATAT
Found at i:15809249 original size:9 final size:9
Alignment explanation
Indices: 15809222--15809251 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15809212 CTAAGACATG
15809222 TAATAAATA
1 TAATAAATA
*
15809231 CAATAAATA
1 TAATAAATA
15809240 TAATAAATA
1 TAATAAATA
15809249 TAA
1 TAA
15809252 ATATTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
TAATAAATA
Found at i:15810468 original size:14 final size:15
Alignment explanation
Indices: 15810436--15810477 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
15810426 CCTCTTAGGT
*
15810436 TTGGGCTAGGGTTAG
1 TTGGGCTAGGGTTAA
*
15810451 TTGGG-TAGGTTTAA
1 TTGGGCTAGGGTTAA
15810465 TTGGGCTGAGGGT
1 TTGGGCT-AGGGT
15810478 GTGTTTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 12 0.55
15 6 0.27
16 4 0.18
ACGTcount: A:0.14, C:0.05, G:0.45, T:0.36
Consensus pattern (15 bp):
TTGGGCTAGGGTTAA
Found at i:15811258 original size:75 final size:73
Alignment explanation
Indices: 15811167--15811576 Score: 234
Period size: 73 Copynumber: 5.2 Consensus size: 73
15811157 ATAGACATTA
* * *
15811167 AAACAAAAATTAAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAGT
1 AAACAAAAATTAAAAATACCTCAG--CGTG-GCCTAAGGCTCAACTCACCTCTCGCAATATGAAT
15811231 TGATTTTTGAC
63 TGATTTTTGAC
* * * * *
15811242 AAACAGAAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAATTGA
1 AAACAAAAATTAAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAATTGA
*
15811307 CTCTTTAAAACAGAC
66 -T-TTT-----TGAC
* * * * *
15811322 ATTAA-AACAGGAATTAAAAATAGCTCAGCACATGAGCC-AATGCTCAACTCACTTCTCGTAATA
1 A--AACAA-A--AATTAAAAATACCTCAG--CGTG-GCCTAAGGCTCAACTCACCTCTCGCAATA
*
15811385 TGAGTTGATTTTTGAC
58 TGAATTGATTTTTGAC
* * * * **
15811401 AAACAGAAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCTTAATATGAATTGA
1 AAACAAAAATTAAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAATTGA
*
15811466 CTCTTTAAAACAGAC
66 -T-TTT-----TGAC
* * *
15811481 ATTAAAATAGAAATTAAAAATAGCTCAGCATGTGAGCC-AAGGCTCAACTCACTTCTCGCAATAT
1 A--AACA-A-AAATTAAAAATACCTCAGC--GTG-GCCTAAGGCTCAACTCACCTCTCGCAATAT
* *
15811545 GAGTTGATTTTTGAA
59 GAATTGATTTTTGAC
* *
15811560 AAATATAAATTGAAAAA
1 AAACAAAAATT-AAAAA
15811577 ACAGAAATTG
Statistics
Matches: 258, Mismatches: 44, Indels: 65
0.70 0.12 0.18
Matches are distributed among these distances:
72 4 0.02
73 64 0.25
74 2 0.01
75 47 0.18
76 5 0.02
77 6 0.02
78 1 0.00
79 7 0.03
80 8 0.03
81 1 0.00
82 6 0.02
84 38 0.15
85 2 0.01
86 63 0.24
87 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.27
Consensus pattern (73 bp):
AAACAAAAATTAAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAATTGA
TTTTTGAC
Found at i:15811570 original size:159 final size:159
Alignment explanation
Indices: 15811112--15811558 Score: 788
Period size: 159 Copynumber: 2.8 Consensus size: 159
15811102 TGGCATGTGA
** * *
15811112 TCCTGA-GCTCAACTCATTTCTCGTAATATGAATTGACTCTTTAAAATAGACATTAAAACAAAAA
1 TCCTGAGGCTCAACTCACCTCTCGTAATATGAATTGACTCTTTAAAACAGACATTAAAACAGAAA
15811176 TTAAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
66 TTAAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
15811241 CAAACAGAAATTTAAAATACCTCAGCGTG
131 CAAACAGAAATTTAAAATACCTCAGCGTG
*
15811270 TCCTGAGGCTCAACTCACCTCTCGTAATATGAATTGACTCTTTAAAACAGACATTAAAACAGGAA
1 TCCTGAGGCTCAACTCACCTCTCGTAATATGAATTGACTCTTTAAAACAGACATTAAAACAGAAA
* * *
15811335 TTAAAAATAGCTCAGCACATGAGCCAATGCTCAACTCACTTCTCGTAATATGAGTTGATTTTTGA
66 TTAAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
15811400 CAAACAGAAATTTAAAATACCTCAGCGTG
131 CAAACAGAAATTTAAAATACCTCAGCGTG
* *
15811429 TCCTGAGGCTCAACTCACCTCTCTTAATATGAATTGACTCTTTAAAACAGACATTAAAATAGAAA
1 TCCTGAGGCTCAACTCACCTCTCGTAATATGAATTGACTCTTTAAAACAGACATTAAAACAGAAA
*
15811494 TTAAAAATAGCTCAGCATGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
66 TTAAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
15811559 AAAATATAAA
Statistics
Matches: 273, Mismatches: 15, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
158 6 0.02
159 267 0.98
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (159 bp):
TCCTGAGGCTCAACTCACCTCTCGTAATATGAATTGACTCTTTAAAACAGACATTAAAACAGAAA
TTAAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
CAAACAGAAATTTAAAATACCTCAGCGTG
Found at i:15811710 original size:73 final size:73
Alignment explanation
Indices: 15811575--15811719 Score: 213
Period size: 73 Copynumber: 2.0 Consensus size: 73
15811565 TAAATTGAAA
* *
15811575 AAACAGAAATTGAAAACTCCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAACTCCTCAGCATGT--GCCAAGGCTCAACTCACCTCTCGCAACATGAGTT
15811640 GATTTTTGAC
64 GATTTTTGAC
*
15811650 AAACAGAAATTG-AAATTACCTCAGCATGT-CCTAAGGCTCAACTCACCTCTCGCAACATGAGTT
1 AAACAGAAATTGAAAACT-CCTCAGCATGTGCC-AAGGCTCAACTCACCTCTCGCAACATGAGTT
15811713 GATTTTT
64 GATTTTT
15811720 TCTTTTTTCT
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
72 2 0.03
73 36 0.55
74 4 0.06
75 23 0.35
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (73 bp):
AAACAGAAATTGAAAACTCCTCAGCATGTGCCAAGGCTCAACTCACCTCTCGCAACATGAGTTGA
TTTTTGAC
Found at i:15811736 original size:90 final size:90
Alignment explanation
Indices: 15811642--15811809 Score: 203
Period size: 90 Copynumber: 1.9 Consensus size: 90
15811632 TATGAGTTGA
* * * * *
15811642 TTTTTGACA-AACAGAAATTGAAATTACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAAC
1 TTTTTGAAAGAAC-GAAATTAAAAATACCTCAACATGTCCTAAGGCTCAACTCACCTCTCGAAAC
*
15811706 ATGAGTTGATTTTTTCTTTTTTCTTT
65 ATGAGTTGAATTTTTCTTTTTTCTTT
* * * * ** *
15811732 TTTTTGAAAGAACGAAATTAAAAATACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGAAATA
1 TTTTTGAAAGAACGAAATTAAAAATACCTCAACATGTCCTAAGGCTCAACTCACCTCTCGAAACA
15811797 TGAGTTGAATTTT
66 TGAGTTGAATTTT
15811810 AAAAACAGAA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
90 61 0.95
91 3 0.05
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (90 bp):
TTTTTGAAAGAACGAAATTAAAAATACCTCAACATGTCCTAAGGCTCAACTCACCTCTCGAAACA
TGAGTTGAATTTTTCTTTTTTCTTT
Found at i:15811828 original size:249 final size:243
Alignment explanation
Indices: 15811234--15811828 Score: 554
Period size: 249 Copynumber: 2.4 Consensus size: 243
15811224 TATGAGTTGA
* * * * *
15811234 TTTTTGACAAACAGAAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATA
1 TTTTTGAAAAAC-GAAATTAAAAATACCTCAACGTGT-CTGAGGCTCAACTCACTTCTCGAAATA
* * * * *
15811299 TGAATTGACTCTTT-AAAACAG-ACATTAAAACAGGAATTAAAAATAGCTCAGCACATGAGCCAA
64 TGAGTTGAAT-TTTAAAAACAGAAC-TAAAAACAGAAATTAAAAATACCTCAGCACATGAGCCAA
* * * * *
15811362 TGCTCAACTCACTTCTCGTAATATGAGTTGATTTTTGACAAACAGAAATTTAAAATACCTCAGCG
127 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAATACCTCAGCA
* ** *
15811427 TGTCCTGAGGCTCAACTCACCTCTCTTAATATGAATTGACTCTTTAAAACAG
192 TGTCCTAAGGCTCAACTCACCTCTCGCAACATGAATTGACTCTTTAAAACAG
*** * * * ** *
15811479 ACATT-AAAATA-GAAATTAAAAATAGCTCAGCATGTGAGCCAAGGCTCAACTCACTTCTCGCAA
1 TTTTTGAAAA-ACGAAATTAAAAATACCTCA--ACGTG-TCTGAGGCTCAACTCACTTCTCGAAA
* * * * * **
15811542 TATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAATTGAAAACT-CCTCAGCATGTGA
62 TATGAGTTGAATTTT-AAAAACA-GAACT--AAAAACAGAAATT-AAAAATACCTCAGCACATGA
* *
15811606 GCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCT
122 GCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAATACCT
* * *** **
15811671 CAGCATGTCCTAAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTTCTTT-TTTCTTT
187 CAGCATGTCCTAAGGCTCAACTCACCTCTCGCAACATGAATTGA----CTCTTTAAAAC-AG
* *
15811732 TTTTTGAAAGAACGAAATTAAAAATACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGAAATA
1 TTTTTGAAA-AACGAAATTAAAAATACCTCAACGTGTC-TGAGGCTCAACTCACTTCTCGAAATA
15811797 TGAGTTGAATTTTAAAAACAGAACTAAAAACA
64 TGAGTTGAATTTTAAAAACAGAACTAAAAACA
15811829 TCAAAATATC
Statistics
Matches: 273, Mismatches: 57, Indels: 36
0.75 0.16 0.10
Matches are distributed among these distances:
243 16 0.06
244 6 0.02
245 37 0.14
246 5 0.02
247 1 0.00
248 1 0.00
249 125 0.46
250 5 0.02
251 3 0.01
252 8 0.03
253 44 0.16
254 4 0.01
255 18 0.07
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (243 bp):
TTTTTGAAAAACGAAATTAAAAATACCTCAACGTGTCTGAGGCTCAACTCACTTCTCGAAATATG
AGTTGAATTTTAAAAACAGAACTAAAAACAGAAATTAAAAATACCTCAGCACATGAGCCAAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAATACCTCAGCATGTC
CTAAGGCTCAACTCACCTCTCGCAACATGAATTGACTCTTTAAAACAG
Found at i:15824552 original size:22 final size:22
Alignment explanation
Indices: 15824517--15824560 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15824507 AGATAGTACA
*
15824517 AAAATAATACTAACATGGTATT
1 AAAATAATACTAACATAGTATT
15824539 AAAATATATA-TAACATAGTATT
1 AAAATA-ATACTAACATAGTATT
15824561 TAGGAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (22 bp):
AAAATAATACTAACATAGTATT
Found at i:15824700 original size:19 final size:19
Alignment explanation
Indices: 15824620--15824700 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 19
15824610 AATATAATTA
*
15824620 ATAATATTGAAA-ATATAT
1 ATAATATTAAAATATATAT
* * *
15824638 GT-ATA-TAATATATATAAC
1 ATAATATTAAAATATAT-AT
*
15824656 ATAATATTAAAATACATAT
1 ATAATATTAAAATATATAT
15824675 A-ATATATTAAAATATATAT
1 ATA-ATATTAAAATATATAT
15824694 ATAATAT
1 ATAATAT
15824701 AATACATAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
16 3 0.06
17 7 0.15
18 4 0.08
19 25 0.52
20 9 0.19
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
ATAATATTAAAATATATAT
Found at i:15824785 original size:9 final size:9
Alignment explanation
Indices: 15824758--15824787 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15824748 CTACGACATG
15824758 TAATAAATA
1 TAATAAATA
*
15824767 CAATAAATA
1 TAATAAATA
15824776 TAATAAATA
1 TAATAAATA
15824785 TAA
1 TAA
15824788 ATATTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
TAATAAATA
Found at i:15825763 original size:14 final size:15
Alignment explanation
Indices: 15825731--15825772 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
15825721 CCTCTTAAGT
*
15825731 TTGGGCTAGGGTTAG
1 TTGGGCTAGGGTTAA
*
15825746 TTGGG-TAGGTTTAA
1 TTGGGCTAGGGTTAA
15825760 TTGGGCTGAGGGT
1 TTGGGCT-AGGGT
15825773 GTGTTTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 12 0.55
15 6 0.27
16 4 0.18
ACGTcount: A:0.14, C:0.05, G:0.45, T:0.36
Consensus pattern (15 bp):
TTGGGCTAGGGTTAA
Found at i:15827849 original size:46 final size:46
Alignment explanation
Indices: 15827777--15827909 Score: 149
Period size: 46 Copynumber: 2.9 Consensus size: 46
15827767 ATAATCTCAC
* * * *
15827777 CCATAATGAACTCGAAACGCAACTCAACGAGCTCGGGTGTTTGCAT
1 CCATAATAAACTCGAAACACAACTCAACGAGCTCGGATGCTTGCAT
* * * *
15827823 CCATAATAAACTCGGAACACAGCTCAACGAGTTTGGATGCTTGCAT
1 CCATAATAAACTCGAAACACAACTCAACGAGCTCGGATGCTTGCAT
* * * *
15827869 CCATAAGTGAACTCTAAACGCAACTCAACGAGTTCGGATGC
1 CCATAA-TAAACTCGAAACACAACTCAACGAGCTCGGATGC
15827910 CTCATAATTC
Statistics
Matches: 72, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
46 44 0.61
47 28 0.39
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAATAAACTCGAAACACAACTCAACGAGCTCGGATGCTTGCAT
Found at i:15827899 original size:47 final size:46
Alignment explanation
Indices: 15827777--15827954 Score: 198
Period size: 47 Copynumber: 3.8 Consensus size: 46
15827767 ATAATCTCAC
* * *
15827777 CCATAATGAACTCGAAACGCAACTCAACGAGCTCGGGTGTTTGCAT
1 CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTGCAT
* * * * *
15827823 CCATAATAAACTCGGAACACAGCTCAACGAGTTTGGATGCTTGCAT
1 CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTGCAT
* *
15827869 CCATAAGTGAACTCTAAACGCAACTCAACGAGTTCGGATGCCT-CAT
1 CCATAA-TGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTGCAT
* *
15827915 -AATTCTCATGAACTCGAAACGCAACTCAACGAGTTCGGAT
1 CCA---TAATGAACTCGAAACGCAACTCAACGAGTTCGGAT
15827955 CTCAATTTCC
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
45 1 0.01
46 47 0.43
47 60 0.55
48 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTGCAT
Found at i:15834677 original size:50 final size:50
Alignment explanation
Indices: 15834618--15834717 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
15834608 ATGCAAAGAT
*
15834618 TACTTCAATATTCTTTAAAAAACTTCATAATTACCGCCATCACTCATAGC
1 TACTTCAATATTCTTTAAAAAAATTCATAATTACCGCCATCACTCATAGC
*
15834668 TACTTCAATATTCTTTAAAAAAATTCATAATTACCGCCATCACTCCTAGC
1 TACTTCAATATTCTTTAAAAAAATTCATAATTACCGCCATCACTCATAGC
15834718 AATTCATCTC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (50 bp):
TACTTCAATATTCTTTAAAAAAATTCATAATTACCGCCATCACTCATAGC
Found at i:15838405 original size:47 final size:47
Alignment explanation
Indices: 15838298--15838488 Score: 177
Period size: 47 Copynumber: 3.9 Consensus size: 47
15838288 AATGTGATTT
* * * *
15838298 CCGTATAAGACCATAGCTGGGCTATGGCTTCGGACAAATGTGATATGTGCTT
1 CCGTATAAGACCATATCTGGGATATGGCATCGG-----TGTGATATGTGCTA
*
15838350 CCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTA
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* * * * *
15838397 CTGTATAAGACCATATTTGGGATATGACATCAGTGTGATATGTGAT-
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* ** * *
15838443 CCGTGTAAGACCATGGCTGGGTTATGGCCTCGGTATGTGATATGTG
1 CCGTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG
15838489 ACTATGTGCA
Statistics
Matches: 117, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
46 24 0.21
47 53 0.45
48 11 0.09
52 29 0.25
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (47 bp):
CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
Found at i:15841693 original size:22 final size:20
Alignment explanation
Indices: 15841650--15841688 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15841640 CAATTTAAAA
15841650 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
15841670 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
15841689 ATGTAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:15841819 original size:14 final size:14
Alignment explanation
Indices: 15841776--15841831 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
15841766 AAATACCAGA
* *
15841776 AAAT-ATTTTCAGT
1 AAATCATTTTCTGG
**
15841789 AAATCATTTTCCAG
1 AAATCATTTTCTGG
15841803 AAATCATTTTCTGG
1 AAATCATTTTCTGG
*
15841817 AAAACATTTTACTGG
1 AAATCATTTT-CTGG
15841832 CAAACAAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 4 0.11
14 27 0.77
15 4 0.11
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCTGG
Found at i:15841824 original size:28 final size:28
Alignment explanation
Indices: 15841771--15841826 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
15841761 CATCCAAATA
* *
15841771 CCAGAAAATATTTTCAGTAAATCATTTT
1 CCAGAAAATATTTTCAGGAAAACATTTT
*
15841799 CCAG-AAATCATTTTCTGGAAAACATTTT
1 CCAGAAAAT-ATTTTCAGGAAAACATTTT
15841827 ACTGGCAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (28 bp):
CCAGAAAATATTTTCAGGAAAACATTTT
Found at i:15842564 original size:21 final size:19
Alignment explanation
Indices: 15842517--15842566 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
15842507 TAATTTTAGG
15842517 TTTAAAATTCATAATTATT
1 TTTAAAATTCATAATTATT
15842536 TGTTAAAATT-ATAATATAATAT
1 T-TTAAAATTCATAAT-T-AT-T
15842558 TTTAAAATT
1 TTTAAAATT
15842567 TCTAACTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 6 0.22
20 9 0.33
21 10 0.37
22 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTAAAATTCATAATTATT
Found at i:15846256 original size:21 final size:21
Alignment explanation
Indices: 15846230--15846270 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15846220 ATCTGCTCAA
* *
15846230 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
15846251 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
15846271 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:15856618 original size:13 final size:13
Alignment explanation
Indices: 15856600--15856630 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15856590 GAGTTGGCTC
15856600 CGATTGTGTTCTT
1 CGATTGTGTTCTT
*
15856613 CGATTGTTTTCTT
1 CGATTGTGTTCTT
15856626 CGATT
1 CGATT
15856631 TTCTCTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.16, G:0.19, T:0.55
Consensus pattern (13 bp):
CGATTGTGTTCTT
Found at i:15861578 original size:2 final size:2
Alignment explanation
Indices: 15861573--15861598 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15861563 TATATTAATG
15861573 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
15861599 AAGCTGAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15862399 original size:45 final size:45
Alignment explanation
Indices: 15862335--15862425 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
15862325 CTATTCATGA
15862335 TTCCGGATTTGGATTCAATGTAAAAAAAATTAACAAATTTATGTG
1 TTCCGGATTTGGATTCAATGTAAAAAAAATTAACAAATTTATGTG
*
15862380 TTCCGGATTTGGATTCAATGTAAAAAAAATTAATAAATTTATGTG
1 TTCCGGATTTGGATTCAATGTAAAAAAAATTAACAAATTTATGTG
15862425 T
1 T
15862426 GAATGATATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (45 bp):
TTCCGGATTTGGATTCAATGTAAAAAAAATTAACAAATTTATGTG
Found at i:15863289 original size:38 final size:38
Alignment explanation
Indices: 15863247--15863329 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
15863237 CCCTATTGAG
15863247 TACATGTTAAGCATGTCTACT-GCTAATGTTGAACTGAA
1 TACATGTTAAGCATGTCTACTGGC-AATGTTGAACTGAA
* *
15863285 TACATGTTAAGCATGTCTACTGGCAGTTTTGAACTGAA
1 TACATGTTAAGCATGTCTACTGGCAATGTTGAACTGAA
*
15863323 TATATGT
1 TACATGT
15863330 AAAACATATC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 39 0.95
39 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (38 bp):
TACATGTTAAGCATGTCTACTGGCAATGTTGAACTGAA
Found at i:15868512 original size:49 final size:49
Alignment explanation
Indices: 15868459--15868732 Score: 260
Period size: 49 Copynumber: 5.7 Consensus size: 49
15868449 CTGGTACGCA
* * *
15868459 TAGTAGCTTGCACTTAGTACTACACATGTGACCAATTATCCAGTATACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
* ** *
15868508 TAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCAT-CTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCAG-TACACG
** *
15868558 TAGTAGCCTG--C-----ACTACACACGTGACCTAACCATCTGAG-ACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC-CAGTACACG
** ** * *
15868601 TAGTAGCCTGCACTTAGTACTACACACGTGATTAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAA-TTATCCAGTACACG
* * *
15868651 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
*
15868700 TAGTAGCCCGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
15868733 TCACAATTTG
Statistics
Matches: 186, Mismatches: 26, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
43 37 0.20
45 2 0.01
48 1 0.01
49 77 0.41
50 69 0.37
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
Found at i:15868558 original size:22 final size:22
Alignment explanation
Indices: 15868529--15868601 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
15868519 ACTTAGTACT
15868529 ACACACGTGACCTAACCATCTG
1 ACACACGTGACCTAACCATCTG
* *
15868551 ATACACGTAGTAGCCT--GCA-CT-
1 ACACACGT-G-A-CCTAACCATCTG
15868572 ACACACGTGACCTAACCATCTG
1 ACACACGTGACCTAACCATCTG
*
15868594 AGACACGT
1 ACACACGT
15868602 AGTAGCCTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 14
0.67 0.09 0.24
Matches are distributed among these distances:
18 3 0.08
19 1 0.03
20 3 0.08
21 9 0.23
22 16 0.41
23 3 0.08
24 1 0.03
25 3 0.08
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (22 bp):
ACACACGTGACCTAACCATCTG
Found at i:15868587 original size:43 final size:43
Alignment explanation
Indices: 15868526--15868614 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
15868516 TGTACTTAGT
*
15868526 ACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGC
1 ACTACACACGTGACCTAACCATCTGAGACACGTAGTAGCCTGC
15868569 ACTACACACGTGACCTAACCATCTGAGACACGTAGTAGCCTGC
1 ACTACACACGTGACCTAACCATCTGAGACACGTAGTAGCCTGC
15868612 ACT
1 ACT
15868615 TAGTACTACA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (43 bp):
ACTACACACGTGACCTAACCATCTGAGACACGTAGTAGCCTGC
Found at i:15868655 original size:50 final size:49
Alignment explanation
Indices: 15868569--15868732 Score: 186
Period size: 50 Copynumber: 3.3 Consensus size: 49
15868559 AGTAGCCTGC
** * *
15868569 ACTACACACGTGACCTAACCATCTGAG-ACACGTAGTAGCCTGCACTTAGT
1 ACTACACACGTGACC-AATTATCCG-GTACACATAGTAGCCTGCACTTAGT
** * *
15868619 ACTACACACGTGATTAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGT
1 ACTACACACGTGACCAA-TTATCCGGTACACATAGTAGCCTGCACTTAGT
* * * *
15868669 ACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCCGCACTTAGT
1 ACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTAGT
15868718 ACTACACACGTGACC
1 ACTACACACGTGACC
15868733 TCACAATTTG
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
49 44 0.46
50 51 0.54
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (49 bp):
ACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTAGT
Found at i:15868655 original size:93 final size:95
Alignment explanation
Indices: 15868457--15868733 Score: 249
Period size: 93 Copynumber: 2.9 Consensus size: 95
15868447 ATCTGGTACG
* * ** * * *
15868457 CATAGTAGCTTGCACTTAGTACTACACATGTGACCAATTATCCAGTATACGTAGTAGCCTGTACT
1 CATAGTAGCCTGCAC-T--TACTACACA-GCGACCAACCATCCGGTACACGTAGTAGCCTGCACT
*
15868522 TAGTACTACACACGTGACCTAACCATCTGATACA
62 TAGTACTACACACGTGACCTAACCATCGGATACA
* * *
15868556 CGTAGTAGCCTGCAC-TAC-ACAC-GTGACCTAACCATCTGAG-ACACGTAGTAGCCTGCACTTA
1 CATAGTAGCCTGCACTTACTACACAGCGACC-AACCATCCG-GTACACGTAGTAGCCTGCACTTA
* ** * *
15868617 GTACTACACACGTGA-TTAAGTTATCGGGTACG
64 GTACTACACACGTGACCTAA-CCATCGGATACA
** *
15868649 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCCGCACT
1 CATAGTAGCCTGCAC-T--TACTACACA-GCGACCAACCATCCGGTACACGTAGTAGCCTGCACT
15868714 TAGTACTACACACGTGACCT
62 TAGTACTACACACGTGACCT
15868734 CACAATTTGT
Statistics
Matches: 145, Mismatches: 21, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
92 9 0.06
93 60 0.41
94 5 0.03
95 3 0.02
97 3 0.02
98 5 0.03
99 54 0.37
100 6 0.04
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (95 bp):
CATAGTAGCCTGCACTTACTACACAGCGACCAACCATCCGGTACACGTAGTAGCCTGCACTTAGT
ACTACACACGTGACCTAACCATCGGATACA
Found at i:15871550 original size:26 final size:25
Alignment explanation
Indices: 15871521--15871569 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
15871511 AATTTTCCAA
* *
15871521 TATTTTGAATAATTTATTTTTTATAT
1 TATTTAGAAT-ATTTAATTTTTATAT
*
15871547 TATTTAGAATTTTTAATTTTTAT
1 TATTTAGAATATTTAATTTTTAT
15871570 TTAAGTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (25 bp):
TATTTAGAATATTTAATTTTTATAT
Found at i:15871578 original size:19 final size:20
Alignment explanation
Indices: 15871546--15871586 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
15871536 ATTTTTTATA
*
15871546 TTATTTAGAATTTTTAATTT
1 TTATTTAGAATTTTCAATTT
*
15871566 TTATTTA-AGTTTTCAATTT
1 TTATTTAGAATTTTCAATTT
15871585 TT
1 TT
15871587 TACCATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
TTATTTAGAATTTTCAATTT
Found at i:15873344 original size:10 final size:10
Alignment explanation
Indices: 15873329--15873357 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15873319 GAAATGTTAG
15873329 ATGATATAAT
1 ATGATATAAT
15873339 ATGATATAAT
1 ATGATATAAT
15873349 A-GATATAAT
1 ATGATATAAT
15873358 TGTTTTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATGATATAAT
Found at i:15873618 original size:37 final size:36
Alignment explanation
Indices: 15873555--15873676 Score: 136
Period size: 37 Copynumber: 3.3 Consensus size: 36
15873545 TACTCCCTGT
15873555 TTTGGCATGTTATCTGGTGGATTAGCTCTTATGAGCA
1 TTTGGCATGTTATCTGGTGGA-TAGCTCTTATGAGCA
* * **
15873592 TTTGGCATGTTTTCTGTTGGACTAGCTCTTCGGAGCA
1 TTTGGCATGTTATCTGGTGGA-TAGCTCTTATGAGCA
* * *
15873629 ATTGGCGTGTTATCGGGTGGATAAGCTCTTATGAGCA
1 TTTGGCATGTTATCTGGTGGAT-AGCTCTTATGAGCA
* *
15873666 CTTGGCGTGTT
1 TTTGGCATGTT
15873677 TTCAAATGGA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
36 1 0.01
37 70 0.99
ACGTcount: A:0.16, C:0.16, G:0.30, T:0.39
Consensus pattern (36 bp):
TTTGGCATGTTATCTGGTGGATAGCTCTTATGAGCA
Found at i:15879632 original size:50 final size:52
Alignment explanation
Indices: 15879543--15879648 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 52
15879533 TACTGCAAAA
* *
15879543 CCTTTCCAGATAACTTCACCATTAAGGCTTCCCAAATAATATGCCACATAGG
1 CCTTTCCAGATAACTTCACCATAAAGGCTTCCCAAATAATATGCCACATAAG
* * * * * *
15879595 CCTTT-CAGGTAAC-TCACTATAAAGGCTTTCCAGATAATGTGTCACATAAG
1 CCTTTCCAGATAACTTCACCATAAAGGCTTCCCAAATAATATGCCACATAAG
15879645 CCTT
1 CCTT
15879649 ATTTGGTTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 34 0.74
51 7 0.15
52 5 0.11
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.29
Consensus pattern (52 bp):
CCTTTCCAGATAACTTCACCATAAAGGCTTCCCAAATAATATGCCACATAAG
Found at i:15886798 original size:22 final size:23
Alignment explanation
Indices: 15886772--15886817 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15886762 CAACCAAACC
15886772 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
15886794 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
15886817 A
1 A
15886818 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:15886823 original size:23 final size:23
Alignment explanation
Indices: 15886779--15886823 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15886769 ACCAATTCAA
*
15886779 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
15886802 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
15886824 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:15889220 original size:69 final size:69
Alignment explanation
Indices: 15889136--15889277 Score: 239
Period size: 69 Copynumber: 2.1 Consensus size: 69
15889126 ATTTATCAAT
* *
15889136 TTTCCTGCTGATTTCATACCCTTGCCGTCCAGCCCAAATAACTTTTGGGTCTAATTGCCTTTTAA
1 TTTCCTGCTGATTTCATACCCTTGCCGTCCAGCCCAAATAAATTTTGGGTCTAATTCCCTTTTAA
15889201 ATCC
66 ATCC
* * *
15889205 TTTCCTGCTGATTTCATGCCCTTTCCGTCCAGTCCAAATAAATTTTGGGTCTAATTCCCTTTTAA
1 TTTCCTGCTGATTTCATACCCTTGCCGTCCAGCCCAAATAAATTTTGGGTCTAATTCCCTTTTAA
15889270 ATCC
66 ATCC
15889274 TTTC
1 TTTC
15889278 TCATTAGACT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (69 bp):
TTTCCTGCTGATTTCATACCCTTGCCGTCCAGCCCAAATAAATTTTGGGTCTAATTCCCTTTTAA
ATCC
Found at i:15891577 original size:22 final size:22
Alignment explanation
Indices: 15891508--15891614 Score: 55
Period size: 23 Copynumber: 5.0 Consensus size: 22
15891498 TATACAATAT
* * * *
15891508 AATATTAGAAATATACGTACAAT
1 AATATTA-AAATATATGCATAAC
* *
15891531 AATATAAAAGATATATAGC-TGAC
1 AATATTAAA-ATATAT-GCATAAC
15891554 AATATTAAAATATATGCATAAC
1 AATATTAAAATATATGCATAAC
* *
15891576 AACATATAAGA-ATATG-ATAAC
1 AATAT-TAAAATATATGCATAAC
*
15891597 AA-A--AACATATATGCATAA
1 AATATTAAAATATATGCATAA
15891615 TGATATGAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
17 3 0.04
18 5 0.07
19 4 0.06
20 1 0.01
21 9 0.13
22 20 0.30
23 24 0.36
24 1 0.01
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.27
Consensus pattern (22 bp):
AATATTAAAATATATGCATAAC
Found at i:15892503 original size:23 final size:23
Alignment explanation
Indices: 15892477--15892520 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15892467 TTTTTTTTGT
* *
15892477 TTTCTTTATTTATTTGTTTTATA
1 TTTCCTTATTTATATGTTTTATA
*
15892500 TTTCCTTGTTTATATGTTTTA
1 TTTCCTTATTTATATGTTTTA
15892521 GTGTATGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.70
Consensus pattern (23 bp):
TTTCCTTATTTATATGTTTTATA
Found at i:15904114 original size:24 final size:24
Alignment explanation
Indices: 15904068--15904114 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15904058 ATGTAATGAA
*
15904068 ATGATGAAATGTAAATTGAGTTAT
1 ATGATGAAATGGAAATTGAGTTAT
*
15904092 ATGATGAATTGGATAATTG-GTTA
1 ATGATGAAATGGA-AATTGAGTTA
15904115 CTCTATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (24 bp):
ATGATGAAATGGAAATTGAGTTAT
Found at i:15905845 original size:15 final size:16
Alignment explanation
Indices: 15905825--15905854 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15905815 TGTTTAAAAT
15905825 TTAAAA-TTATTATTG
1 TTAAAATTTATTATTG
15905840 TTAAAATTTATTATT
1 TTAAAATTTATTATT
15905855 AAAAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTAAAATTTATTATTG
Found at i:15905876 original size:16 final size:15
Alignment explanation
Indices: 15905842--15905880 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
15905832 TATTATTGTT
* *
15905842 AAAATTTATTATTAA
1 AAAATTTAATATCAA
15905857 AAAATTATAATATCAA
1 AAAATT-TAATATCAA
15905873 AAAATTTA
1 AAAATTTA
15905881 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTTAATATCAA
Found at i:15905910 original size:9 final size:9
Alignment explanation
Indices: 15905896--15905928 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
15905886 ATAATAAATC
15905896 ATATTTAAT
1 ATATTTAAT
15905905 ATATTTAAT
1 ATATTTAAT
15905914 ATATTTAAT
1 ATATTTAAT
15905923 AATATT
1 -ATATT
15905929 GTACTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATATTTAAT
Found at i:15912840 original size:24 final size:24
Alignment explanation
Indices: 15912808--15912877 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
15912798 TCAGTTCATA
*
15912808 AGAGCTTACTGTTCACAGCTTG-T
1 AGAGCTTACTGTTCACAGCTCGAT
*
15912831 CAGAGTTTACTGTTTC-CAGCTCGAT
1 -AGAGCTTACTG-TTCACAGCTCGAT
15912856 AGAGCTTACTGTTCATCAGCTC
1 AGAGCTTACTGTTCA-CAGCTC
15912878 AGAAGGAGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 3 0.08
24 26 0.67
25 10 0.26
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (24 bp):
AGAGCTTACTGTTCACAGCTCGAT
Found at i:15914597 original size:126 final size:126
Alignment explanation
Indices: 15914371--15914598 Score: 368
Period size: 126 Copynumber: 1.8 Consensus size: 126
15914361 GGATATTCGA
* * *
15914371 ATATTCAAAACAAACAAAGAAAGCGAAGCCCAGTACGTTAGGGCATGATTCTTCGAATTCTTTAA
1 ATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATCCTTCGAATTCTTTAA
* * **
15914436 ATACTGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACCAGTAAAGGGATGTTCTG
66 ATACCGAACATTGCCATTATTTTGAAAAAAATTGAGAGTGAACCAGTAAAGGGATGTTCTG
*
15914497 ATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATCCTTTGAATTCTTTAA
1 ATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATCCTTCGAATTCTTTAA
15914562 ATACCGAACATTGCCATTATTTT-AAAAACAATTGAGA
66 ATACCGAACATTGCCATTATTTTGAAAAA-AATTGAGA
15914599 ATAAATCTGT
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
125 5 0.05
126 88 0.95
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (126 bp):
ATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATCCTTCGAATTCTTTAA
ATACCGAACATTGCCATTATTTTGAAAAAAATTGAGAGTGAACCAGTAAAGGGATGTTCTG
Found at i:15915141 original size:18 final size:18
Alignment explanation
Indices: 15915118--15915159 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
15915108 ATAATGCTAC
*
15915118 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
15915136 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
15915154 AATAAC
1 AATAAC
15915160 AACAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:15915184 original size:3 final size:3
Alignment explanation
Indices: 15915178--15915339 Score: 77
Period size: 3 Copynumber: 54.7 Consensus size: 3
15915168 AATAGAAGAC
* * *
15915178 AAT AAT AAT -AT ATT AAT AAT AAT AAT AAT AAT -AT AAA AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** * * *
15915224 AAT AAC AAT -AT GTT TCT AAT AAA AAA AATT AAT AAT GAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
* * *
15915268 ATAT ATAT AA- AAT AAT AGT AAC AGT AAT AA- AAT AA- ATAT AAT AAT
1 A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
15915313 ATAT AAT AAT AAC AAT ATT AAA AAT AA
1 A-AT AAT AAT AAT AAT AAT AAT AAT AA
15915340 CACTCTCCCT
Statistics
Matches: 119, Mismatches: 29, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
2 12 0.10
3 96 0.81
4 11 0.09
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15915326 original size:36 final size:35
Alignment explanation
Indices: 15915254--15915335 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
15915244 AAAAAAAATT
* *
15915254 AATAATGATAATAAATATATATAAAATAATAGTAAC
1 AATAAT-AAAATAAATATATATAAAATAATAATAAC
*
15915290 AGTAATAAAATAAATATA-ATAATATATAATAATAAC
1 AATAATAAAATAAATATATATAA-A-ATAATAATAAC
*
15915326 AATATTAAAA
1 AATAATAAAA
15915336 ATAACACTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
34 4 0.10
35 12 0.31
36 23 0.59
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (35 bp):
AATAATAAAATAAATATATATAAAATAATAATAAC
Found at i:15915338 original size:15 final size:16
Alignment explanation
Indices: 15915299--15915341 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
15915289 CAGTAATAAA
* *
15915299 ATAAATATAATAATAT
1 ATAAAAATAACAATAT
*
15915315 ATAATAATAACAATAT
1 ATAAAAATAACAATAT
15915331 -TAAAAATAACA
1 ATAAAAATAACA
15915342 CTCTCCCTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAAATAACAATAT
Done.