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 98 of 186
Found at i:32095030 original size:38 final size:38
Alignment explanation
Indices: 32094988--32095073 Score: 145
Period size: 38 Copynumber: 2.3 Consensus size: 38
32094978 TACCAATTTT
* *
32094988 ACTGCTTCTGCCCTACTGAGTACATGTTAAGCCTGTCC
1 ACTGCTTCTGCCCTACTGAGTACATGTGAAGCATGTCC
*
32095026 ACTGCTTCTGCCCTACTGAGTACATGTGAAGCATGTCT
1 ACTGCTTCTGCCCTACTGAGTACATGTGAAGCATGTCC
32095064 ACTGCTTCTG
1 ACTGCTTCTG
32095074 TTGAACTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.33
Consensus pattern (38 bp):
ACTGCTTCTGCCCTACTGAGTACATGTGAAGCATGTCC
Found at i:32095082 original size:38 final size:38
Alignment explanation
Indices: 32094987--32095102 Score: 133
Period size: 38 Copynumber: 3.1 Consensus size: 38
32094977 TTACCAATTT
* * *
32094987 TACTGCTTCTGCCCTACTGAGTACATGTTAAGCCTGTC
1 TACTGCTTCTGCCCAACTGAGTACATGTCAAGCATGTC
* * *
32095025 CACTGCTTCTGCCCTACTGAGTACATGTGAAGCATGTC
1 TACTGCTTCTGCCCAACTGAGTACATGTCAAGCATGTC
*** * *
32095063 TACTGCTTCTGTTGAACTGAATATATGTCAAGCATGTC
1 TACTGCTTCTGCCCAACTGAGTACATGTCAAGCATGTC
32095101 TA
1 TA
32095103 TTATTTCTGC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (38 bp):
TACTGCTTCTGCCCAACTGAGTACATGTCAAGCATGTC
Found at i:32096488 original size:43 final size:42
Alignment explanation
Indices: 32096432--32096606 Score: 156
Period size: 43 Copynumber: 4.1 Consensus size: 42
32096422 ACATAGGATT
32096432 TTGATTTGTGATTTCGTGTAAGACCACATCTGGGACATTGGCA
1 TTGATTT-TGATTTCGTGTAAGACCACATCTGGGACATTGGCA
* ** *
32096475 TTGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCA
1 TTGATTT-TGATTT-CGTGTAAGACCACATCTGGGACATTGGCA
* * * *
32096519 -TCATATTTGATTTCGTGTAAGACC-CTATTTAGGACAGTGGCA
1 TTGAT-TTTGATTTCGTGTAAGACCAC-ATCTGGGACATTGGCA
* * * ** *
32096561 TCGATATTTGATTACATGTAAGACCATGTCTGGGACGTTGGCA
1 TTGAT-TTTGATTTCGTGTAAGACCACATCTGGGACATTGGCA
32096604 TTG
1 TTG
32096607 TACGAGCTCT
Statistics
Matches: 104, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
42 22 0.21
43 54 0.52
44 28 0.27
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
TTGATTTTGATTTCGTGTAAGACCACATCTGGGACATTGGCA
Found at i:32096529 original size:50 final size:44
Alignment explanation
Indices: 32096431--32096542 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
32096421 GACATAGGAT
* *
32096431 TTTGATTTGTGATTTCGTGTAAGACCACATCTGGGACATTGGCA
1 TTTGATTTGAGATTTCGTGTAAGACCACATCTGGGACATCGGCA
**
32096475 -TTGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCA
1 TTTGATTTGAGATTT-CGTGTAAGACCACATCTGGGACATCGGCA
*
32096519 TCAT-ATTT--GATTTCGTGTAAGACC
1 T-TTGATTTGAGATTTCGTGTAAGACC
32096543 CTATTTAGGA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
42 11 0.18
43 18 0.30
44 26 0.43
45 4 0.07
46 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (44 bp):
TTTGATTTGAGATTTCGTGTAAGACCACATCTGGGACATCGGCA
Found at i:32100106 original size:13 final size:13
Alignment explanation
Indices: 32100088--32100114 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32100078 GCTCGGGAAG
32100088 GACACGCCCGTGT
1 GACACGCCCGTGT
32100101 GACACGCCCGTGT
1 GACACGCCCGTGT
32100114 G
1 G
32100115 CGATTACTTC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:32104569 original size:20 final size:20
Alignment explanation
Indices: 32104544--32104582 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
32104534 TATACTCCTC
32104544 ATTCCTACTATCAATCTTAA
1 ATTCCTACTATCAATCTTAA
*
32104564 ATTCCTGCTATCAATCTTA
1 ATTCCTACTATCAATCTTA
32104583 GAATAGGGTT
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:0.31, C:0.26, G:0.03, T:0.41
Consensus pattern (20 bp):
ATTCCTACTATCAATCTTAA
Found at i:32111400 original size:42 final size:42
Alignment explanation
Indices: 32111353--32111516 Score: 161
Period size: 42 Copynumber: 3.9 Consensus size: 42
32111343 ATTGGCATCA
* *
32111353 ATATGAG-TTATCATGTAAGACCATATCTGGGATATGGCGTTG
1 ATATGAGATT-TCATGTAAGACCATATCTGGGACATGGCGTCG
* **
32111395 ATATGAGATTTCGTGTAAGACCACGTCTGGGACATGGCGTCG
1 ATATGAGATTTCATGTAAGACCATATCTGGGACATGGCGTCG
* * * * * *
32111437 AAATGAGAATTT-GTATAAGACCATATCTGGGATATGACATCG
1 ATATGAG-ATTTCATGTAAGACCATATCTGGGACATGGCGTCG
* ** *
32111479 ATGTGAGATCCCATGTAAGACCATGTCTGGGACATGGC
1 ATATGAGATTTCATGTAAGACCATATCTGGGACATGGC
32111517 ATTGGCATCT
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.02
42 90 0.92
43 6 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (42 bp):
ATATGAGATTTCATGTAAGACCATATCTGGGACATGGCGTCG
Found at i:32113485 original size:6 final size:5
Alignment explanation
Indices: 32113467--32113523 Score: 51
Period size: 6 Copynumber: 10.0 Consensus size: 5
32113457 GAAGTATAAG
32113467 AAAAT AACAAT AAACAT AAAAAT ACAAAT ACAAAT AAAAAT AAAAAT AAAAT
1 AAAAT AA-AAT AAA-AT -AAAAT A-AAAT A-AAAT -AAAAT -AAAAT AAAAT
32113519 AAAAT
1 AAAAT
32113524 GAATGGACTT
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
5 14 0.30
6 29 0.62
7 4 0.09
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:32113490 original size:12 final size:11
Alignment explanation
Indices: 32113467--32113522 Score: 67
Period size: 12 Copynumber: 4.8 Consensus size: 11
32113457 GAAGTATAAG
*
32113467 AAAATAACAAT
1 AAAATAAAAAT
32113478 AAACATAAAAAT
1 AAA-ATAAAAAT
*
32113490 ACAAATACAAAT
1 A-AAATAAAAAT
32113502 AAAAATAAAAAT
1 -AAAATAAAAAT
32113514 AAAATAAAA
1 AAAATAAAA
32113523 TGAATGGACT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
11 12 0.31
12 24 0.62
13 3 0.08
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:32113490 original size:18 final size:17
Alignment explanation
Indices: 32113467--32113522 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
32113457 GAAGTATAAG
32113467 AAAATAACAATAAACATA
1 AAAATAACAATAAA-ATA
32113485 AAAAT-ACAAATACAAATA
1 AAAATAAC-AATA-AAATA
*
32113503 AAAATAAAAATAAAATA
1 AAAATAACAATAAAATA
32113520 AAA
1 AAA
32113523 TGAATGGACT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 10 0.29
18 21 0.62
19 3 0.09
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAACAATAAAATA
Found at i:32115177 original size:18 final size:18
Alignment explanation
Indices: 32115156--32115192 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32115146 GCTAAAATTG
32115156 AAATAAA-ATAACAAATAA
1 AAATAAATA-AACAAATAA
32115174 AAATAAATAAACAAATAA
1 AAATAAATAAACAAATAA
32115192 A
1 A
32115193 TAAATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (18 bp):
AAATAAATAAACAAATAA
Found at i:32125654 original size:90 final size:90
Alignment explanation
Indices: 32125523--32125701 Score: 261
Period size: 90 Copynumber: 2.0 Consensus size: 90
32125513 AATTTTCGGC
* *
32125523 AATCCAGTTGTCACACCCTAGAATATATATAGTTAAAAAATAAGATTAAACAAGAAATAAGCTAC
1 AATCCAGTTGTCACACCCGAGAATAAATATAGTTAAAAAATAAGATTAAACAAGAAATAAGCTAC
32125588 AGGCTCAATGGTTAAATGATAGTAG
66 AGGCTCAATGGTTAAATGATAGTAG
* * * *
32125613 AATCCAGTTGTCACACCTCGA-AATAAATATGGTTAAGAAATAAGATTAAAGAAGAAATGAGCTA
1 AATCCAGTTGTCACACC-CGAGAATAAATATAGTTAAAAAATAAGATTAAACAAGAAATAAGCTA
* * *
32125677 TATGCTCAATGGTTAAGTGATAGTA
65 CAGGCTCAATGGTTAAATGATAGTA
32125702 CATCCATTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 77 0.97
91 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.26
Consensus pattern (90 bp):
AATCCAGTTGTCACACCCGAGAATAAATATAGTTAAAAAATAAGATTAAACAAGAAATAAGCTAC
AGGCTCAATGGTTAAATGATAGTAG
Found at i:32126604 original size:22 final size:22
Alignment explanation
Indices: 32126579--32126622 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32126569 TCTTATAGGG
*
32126579 TAAATTATCATTTTCTACACGA
1 TAAATTATCATTTTCCACACGA
32126601 TAAATTATCATTTTCCACACGA
1 TAAATTATCATTTTCCACACGA
32126623 CGTCAGGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (22 bp):
TAAATTATCATTTTCCACACGA
Found at i:32129072 original size:64 final size:63
Alignment explanation
Indices: 32128965--32129093 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 63
32128955 GGGATCGGCT
* *
32128965 TGGATAGCTTTTTTTTATAAAAATATTTAGACTTATTATTTGAAATTTCTAATATTTGGAAAC
1 TGGATAGCTTTTTTTTATAAAAATATTTAGACTTATTAGTTGAAATTTCTAATATTTAGAAAC
* *
32129028 TGGATAGCTTTTTCTTTATAAAAATATTTAGACTTGTTAGTTGAAATTTCTATTATTTAGAAAC
1 TGGATAGCTTTTT-TTTATAAAAATATTTAGACTTATTAGTTGAAATTTCTAATATTTAGAAAC
32129092 TG
1 TG
32129094 TATTGTTCTA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 13 0.21
64 48 0.79
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (63 bp):
TGGATAGCTTTTTTTTATAAAAATATTTAGACTTATTAGTTGAAATTTCTAATATTTAGAAAC
Found at i:32130302 original size:16 final size:16
Alignment explanation
Indices: 32130277--32130308 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32130267 TCAAGTGAGA
32130277 TAATTAATTGATGTAT
1 TAATTAATTGATGTAT
*
32130293 TAATTCATTGATGTAT
1 TAATTAATTGATGTAT
32130309 ATATATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.50
Consensus pattern (16 bp):
TAATTAATTGATGTAT
Found at i:32143665 original size:56 final size:56
Alignment explanation
Indices: 32143581--32143867 Score: 470
Period size: 56 Copynumber: 5.2 Consensus size: 56
32143571 CATGGCATCG
32143581 ATATATGTGTG--AGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCA
1 ATATATGTGTGCAAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCA
32143635 ATATATGTGTGCAAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCA
1 ATATATGTGTGCAAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCA
32143691 ATATATGTGTGCAAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCA
1 ATATATGTGTGCAAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCA
*
32143747 ATATATGTGTGCAAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCG
1 ATATATGTGTGCAAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCA
* * * * * * * * *
32143803 ATATTTATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGGTTTCG
1 ATATATGTGTGCAAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCA
32143859 ATATATGTG
1 ATATATGTG
32143868 ATTACATGTA
Statistics
Matches: 220, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
54 11 0.05
56 209 0.95
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (56 bp):
ATATATGTGTGCAAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCA
Found at i:32150067 original size:12 final size:13
Alignment explanation
Indices: 32150045--32150074 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
32150035 ATTTTATGTT
32150045 TTTTTCTTTTTTA
1 TTTTTCTTTTTTA
32150058 TTTTTC-TTTTTA
1 TTTTTCTTTTTTA
32150070 TTTTT
1 TTTTT
32150075 TAGCAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTCTTTTTTA
Found at i:32171304 original size:18 final size:19
Alignment explanation
Indices: 32171263--32171305 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
32171253 CCGTGCATCA
*
32171263 TGCCCGTGTGGGCCCACAC
1 TGCCCATGTGGGCCCACAC
*
32171282 -ACCCATGT-GGCCCACAC
1 TGCCCATGTGGGCCCACAC
32171299 TGCCCAT
1 TGCCCAT
32171306 CTTGGTCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.16, C:0.44, G:0.23, T:0.16
Consensus pattern (19 bp):
TGCCCATGTGGGCCCACAC
Found at i:32180246 original size:20 final size:20
Alignment explanation
Indices: 32180217--32180254 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32180207 GCTCCATAGA
* *
32180217 CAAGGGACACGGGTGTGTCC
1 CAAGGCACACGGGCGTGTCC
32180237 CAAGGCACACGGGCGTGT
1 CAAGGCACACGGGCGTGT
32180255 GCAATCCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.39, T:0.13
Consensus pattern (20 bp):
CAAGGCACACGGGCGTGTCC
Found at i:32182415 original size:27 final size:27
Alignment explanation
Indices: 32182356--32182479 Score: 194
Period size: 27 Copynumber: 4.6 Consensus size: 27
32182346 TAAATTGTAC
*
32182356 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
32182384 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
32182411 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
32182438 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
32182465 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32182480 GACTTAATAT
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 72 0.80
28 18 0.20
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:32188032 original size:13 final size:13
Alignment explanation
Indices: 32188014--32188039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32188004 ATAGCTGGTG
32188014 GTATCGCACGGCC
1 GTATCGCACGGCC
32188027 GTATCGCACGGCC
1 GTATCGCACGGCC
32188040 ATGTAGCCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GTATCGCACGGCC
Found at i:32193040 original size:20 final size:20
Alignment explanation
Indices: 32193015--32193054 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32193005 ATTGGGCCTT
32193015 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTTGG
*
32193035 GCCCATTTCAATACAGTTGG
1 GCCCATTTCAACACAGTTGG
32193055 CTCCGTCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
GCCCATTTCAACACAGTTGG
Found at i:32195263 original size:15 final size:15
Alignment explanation
Indices: 32195229--32195260 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
32195219 TTTTTCTATC
32195229 TAATAATAATTATTA
1 TAATAATAATTATTA
32195244 TAATAATAATT-TTA
1 TAATAATAATTATTA
32195258 TAA
1 TAA
32195261 ATATATCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATAATAATTATTA
Found at i:32195383 original size:19 final size:18
Alignment explanation
Indices: 32195346--32195389 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
32195336 ATACATACAG
32195346 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
32195363 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
32195382 TACTAATT
1 TAATAATT
32195390 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:32196238 original size:21 final size:21
Alignment explanation
Indices: 32196199--32196238 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32196189 GTTTGGTTGT
*
32196199 CTACACACTCATGTAGAGGCC
1 CTACACACCCATGTAGAGGCC
* *
32196220 CTACACACCCGTGTGGAGG
1 CTACACACCCATGTAGAGG
32196239 GGACAGACGC
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:0.25, C:0.33, G:0.25, T:0.17
Consensus pattern (21 bp):
CTACACACCCATGTAGAGGCC
Found at i:32202798 original size:13 final size:13
Alignment explanation
Indices: 32202780--32202805 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32202770 TCTCAATTCG
32202780 GTGGAAAATGAGC
1 GTGGAAAATGAGC
32202793 GTGGAAAATGAGC
1 GTGGAAAATGAGC
32202806 ACCAGGGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.38, T:0.15
Consensus pattern (13 bp):
GTGGAAAATGAGC
Found at i:32209004 original size:25 final size:25
Alignment explanation
Indices: 32208976--32209024 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
32208966 CCAGTAGGAG
*
32208976 TGTAACTCTTCCATTGATCAACCAA
1 TGTAACTCTTCCACTGATCAACCAA
32209001 TGTAACTCTTCCACTGATCAACCA
1 TGTAACTCTTCCACTGATCAACCA
32209025 CCGATAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (25 bp):
TGTAACTCTTCCACTGATCAACCAA
Found at i:32209398 original size:13 final size:13
Alignment explanation
Indices: 32209382--32209406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32209372 TTTTTCAAGA
32209382 AAATTCTTTAATC
1 AAATTCTTTAATC
32209395 AAATTCTTTAAT
1 AAATTCTTTAAT
32209407 TGAATAATTC
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:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTCTTTAATC
Found at i:32238110 original size:72 final size:72
Alignment explanation
Indices: 32238000--32238201 Score: 248
Period size: 72 Copynumber: 2.8 Consensus size: 72
32237990 CCACATATTT
* * * * *
32238000 TGTAATGCCCG-T-ATTTGAGCTACTCAAGGGTTTGTACACAAAGTCAGCACCTGGACCCTAAAG
1 TGTAATGCCCGCTCA-TTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGGACCCCAAAG
*
32238063 CATTACCA
65 CATTAACA
* *
32238071 TGTAATGCCCGCTCATTGAGCTATTCACGAGTTTATACACAAAGTCAGTACCCGGACCCCAAAGC
1 TGTAATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGC
32238136 ATTAACA
66 ATTAACA
* *** *
32238143 TG-ACATGCTCGCTCAGCAAGTTACTCACGGGTTTATACACAAAGTCAGTACCCGGACCC
1 TGTA-ATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGGACCC
32238202 ACATTACATA
Statistics
Matches: 113, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
71 12 0.11
72 100 0.88
73 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (72 bp):
TGTAATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGC
ATTAACA
Found at i:32241538 original size:72 final size:72
Alignment explanation
Indices: 32241457--32241599 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
32241447 ACATATACAN
32241457 AAAGCATTAACATGATATGCTCGCTTAGCGAGTTACTCACGGGTTTATACACAAAGTCAATACCC
1 AAAGCATTAACATGATATGCTCGCTTAGCGAGTTACTCACGGGTTTATACACAAAGTCAATACCC
32241522 GGACCCC
66 GGACCCC
*
32241529 AAAGCATTAACATGATATGCTCGCTTAGCGAGTTACTCACGGGTTTATACACAAAGTCAGTACCC
1 AAAGCATTAACATGATATGCTCGCTTAGCGAGTTACTCACGGGTTTATACACAAAGTCAATACCC
32241594 GGACCC
66 GGACCC
32241600 ACATTACATA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (72 bp):
AAAGCATTAACATGATATGCTCGCTTAGCGAGTTACTCACGGGTTTATACACAAAGTCAATACCC
GGACCCC
Found at i:32251591 original size:7 final size:7
Alignment explanation
Indices: 32251573--32251602 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
32251563 TTTGTGGTTG
32251573 TGGACTTT
1 TGGAC-TT
32251581 TGGACTT
1 TGGACTT
32251588 TGGACTT
1 TGGACTT
32251595 TGGACTT
1 TGGACTT
32251602 T
1 T
32251603 ACCTCTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.47
Consensus pattern (7 bp):
TGGACTT
Found at i:32267124 original size:36 final size:36
Alignment explanation
Indices: 32267057--32267130 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
32267047 GGAGGAGCAC
*
32267057 ATCAGTCAGAATAGATCCAAAATACAGCTGAACTGA
1 ATCAGTCAGAATAGATCCAAAAGACAGCTGAACTGA
**
32267093 ATCAGTCAGAATAGATCTGAAAGACTA-CTGAACTGA
1 ATCAGTCAGAATAGATCCAAAAGAC-AGCTGAACTGA
32267129 AT
1 AT
32267131 AGAGTTTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.22
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCCAAAAGACAGCTGAACTGA
Found at i:32268069 original size:16 final size:16
Alignment explanation
Indices: 32268048--32268084 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
32268038 TATAATAAAA
*
32268048 AAATTAAATTAATGCT
1 AAATTAAATTAACGCT
32268064 AAATTAAATTAACGCT
1 AAATTAAATTAACGCT
32268080 AAATT
1 AAATT
32268085 TGAACCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.35
Consensus pattern (16 bp):
AAATTAAATTAACGCT
Found at i:32275965 original size:20 final size:20
Alignment explanation
Indices: 32275940--32275984 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
32275930 AGGATCAAAA
*
32275940 ATGAAAAGTT-GAAAATTTT
1 ATGAAAAATTCGAAAATTTT
*
32275959 GATGAAAAATTCTAAAATTTT
1 -ATGAAAAATTCGAAAATTTT
32275980 ATGAA
1 ATGAA
32275985 TACATGTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCGAAAATTTT
Found at i:32278118 original size:66 final size:66
Alignment explanation
Indices: 32278008--32278140 Score: 205
Period size: 66 Copynumber: 2.0 Consensus size: 66
32277998 TTTTGAATGT
* *
32278008 TTTGGTAATGCTTCGAAACCCTGTTTCAGCGACGGATACGAGTTAAGGATGTTATATTTAGTGGT
1 TTTGGTAATGCTTCGAAACCCTATTTCAGCGACGGATACAAGTTAAGGATGTTATATTTAGTGGT
32278073 A
66 A
* * *
32278074 TTTGGTAATGC-TCTGAAACCCTATTTTAGTGACGGATACAAGTTAAGGGTGTTATATTTAGTGG
1 TTTGGTAATGCTTC-GAAACCCTATTTCAGCGACGGATACAAGTTAAGGATGTTATATTTAGTGG
32278138 TA
65 TA
32278140 T
1 T
32278141 CAGAGCTATT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 2 0.03
66 59 0.97
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (66 bp):
TTTGGTAATGCTTCGAAACCCTATTTCAGCGACGGATACAAGTTAAGGATGTTATATTTAGTGGT
A
Found at i:32282071 original size:164 final size:164
Alignment explanation
Indices: 32281800--32282127 Score: 656
Period size: 164 Copynumber: 2.0 Consensus size: 164
32281790 AGGTGAGTTT
32281800 GTAACCATGTATGCATGAAATGGTATGCCTTGATGAATGATGAAATTGCCAAATTCAATGCTTGA
1 GTAACCATGTATGCATGAAATGGTATGCCTTGATGAATGATGAAATTGCCAAATTCAATGCTTGA
32281865 AATGGTTGGAATCGATTGAGTGTTTCATGTGCAGGTTTTTGGGTGATTTTGGGTGAGAAATGAAG
66 AATGGTTGGAATCGATTGAGTGTTTCATGTGCAGGTTTTTGGGTGATTTTGGGTGAGAAATGAAG
32281930 CTAGAAATGGCTTCATTTTGCCCACACAGGCGTA
131 CTAGAAATGGCTTCATTTTGCCCACACAGGCGTA
32281964 GTAACCATGTATGCATGAAATGGTATGCCTTGATGAATGATGAAATTGCCAAATTCAATGCTTGA
1 GTAACCATGTATGCATGAAATGGTATGCCTTGATGAATGATGAAATTGCCAAATTCAATGCTTGA
32282029 AATGGTTGGAATCGATTGAGTGTTTCATGTGCAGGTTTTTGGGTGATTTTGGGTGAGAAATGAAG
66 AATGGTTGGAATCGATTGAGTGTTTCATGTGCAGGTTTTTGGGTGATTTTGGGTGAGAAATGAAG
32282094 CTAGAAATGGCTTCATTTTGCCCACACAGGCGTA
131 CTAGAAATGGCTTCATTTTGCCCACACAGGCGTA
32282128 TGTCTAGACC
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 164 1.00
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (164 bp):
GTAACCATGTATGCATGAAATGGTATGCCTTGATGAATGATGAAATTGCCAAATTCAATGCTTGA
AATGGTTGGAATCGATTGAGTGTTTCATGTGCAGGTTTTTGGGTGATTTTGGGTGAGAAATGAAG
CTAGAAATGGCTTCATTTTGCCCACACAGGCGTA
Found at i:32284274 original size:13 final size:13
Alignment explanation
Indices: 32284256--32284280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32284246 CTAATATTTT
32284256 TCAAATTCTTTAA
1 TCAAATTCTTTAA
32284269 TCAAATTCTTTA
1 TCAAATTCTTTA
32284281 GTTGAATGAA
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:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TCAAATTCTTTAA
Found at i:32285500 original size:4 final size:4
Alignment explanation
Indices: 32285499--32285593 Score: 118
Period size: 4 Copynumber: 23.8 Consensus size: 4
32285489 TAGTGTGTGT
* * * *
32285499 GTGC GTGC GTGC GTGT GTGC GTGC GTGC GTGT GTGC ATGC GTGC GAGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
** * *
32285547 AAGC GTGC GTGC GTGC GTGC TTGC GTGC GTGC GTGC ATGC GTGC GTG
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTG
32285594 TGTGTGTGTG
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 77 1.00
ACGTcount: A:0.05, C:0.22, G:0.46, T:0.26
Consensus pattern (4 bp):
GTGC
Found at i:32285516 original size:16 final size:16
Alignment explanation
Indices: 32285495--32285610 Score: 128
Period size: 16 Copynumber: 7.4 Consensus size: 16
32285485 AATATAGTGT
32285495 GTGTGTGCGTGCGTGC
1 GTGTGTGCGTGCGTGC
32285511 GTGTGTGCGTGCGTGC
1 GTGTGTGCGTGCGTGC
*
32285527 GTGTGTGCATGCGTGC
1 GTGTGTGCGTGCGTGC
* ***
32285543 GAGCAAGCGTGCGTGC
1 GTGTGTGCGTGCGTGC
* *
32285559 GTGCGTGCTTGCGTGC
1 GTGTGTGCGTGCGTGC
* *
32285575 GTGCGTGCATGCGTGC
1 GTGTGTGCGTGCGTGC
*
32285591 GTGTGT--GTGTGTGC
1 GTGTGTGCGTGCGTGC
32285605 GTGTGT
1 GTGTGT
32285611 ATTCTTGGCC
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
14 12 0.14
16 74 0.86
ACGTcount: A:0.04, C:0.19, G:0.47, T:0.30
Consensus pattern (16 bp):
GTGTGTGCGTGCGTGC
Found at i:32286479 original size:12 final size:12
Alignment explanation
Indices: 32286462--32286486 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32286452 ATCCCTTCTC
32286462 TTTATTTATATA
1 TTTATTTATATA
32286474 TTTATTTATATA
1 TTTATTTATATA
32286486 T
1 T
32286487 AATTGGAATA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTTATATA
Found at i:32290346 original size:13 final size:13
Alignment explanation
Indices: 32290330--32290361 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
32290320 ATTAAAAATC
*
32290330 ATAAACAAAAGTT
1 ATAAAAAAAAGTT
32290343 ATAAAAAAAAGTT
1 ATAAAAAAAAGTT
32290356 ATAAAA
1 ATAAAA
32290362 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (13 bp):
ATAAAAAAAAGTT
Found at i:32290517 original size:23 final size:25
Alignment explanation
Indices: 32290475--32290520 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
32290465 ATCGAAATTA
32290475 TTCTTTTCTAATAAAAAATTATAAC
1 TTCTTTTCTAATAAAAAATTATAAC
32290500 TTCTTTT-TAA-AAAAAATTATA
1 TTCTTTTCTAATAAAAAATTATA
32290521 GTTTTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 11 0.52
24 3 0.14
25 7 0.33
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTTTTCTAATAAAAAATTATAAC
Found at i:32293455 original size:15 final size:15
Alignment explanation
Indices: 32293435--32293463 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32293425 AGCAATTCAG
32293435 GTATGGATCATTGGT
1 GTATGGATCATTGGT
32293450 GTATGGATCATTGG
1 GTATGGATCATTGG
32293464 AAAGTAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.34, T:0.38
Consensus pattern (15 bp):
GTATGGATCATTGGT
Found at i:32294652 original size:44 final size:43
Alignment explanation
Indices: 32294256--32294699 Score: 255
Period size: 43 Copynumber: 10.3 Consensus size: 43
32294246 TTTGAACGGA
* * * *
32294256 AAACGCCGCTAAAAGTAGATACCTTTAGCGACGCTTT-ACCAT
1 AAACGCCGCTAAAAGTACAGACCTTTAGCGACGCTTTCTCCAC
* * * * **
32294298 AAACGCCGCTAAGAGTATAGACCTTTAGCGGCGCTTAGC-AAAC
1 AAACGCCGCTAAAAGTACAGACCTTTAGCGACGCTT-TCTCCAC
* * * * **
32294341 AAACGCCACTAAAAGCACATACCTTTAGCGGCGCTTTGC-AAAC
1 AAACGCCGCTAAAAGTACAGACCTTTAGCGACGCTTT-CTCCAC
* * ** * *
32294384 AAACGTCG-TTAAAGCTGTAGACCTTTAGCGGCGTTTTAC-CCAC
1 AAACGCCGCTAAAAG-TACAGACCTTTAGCGACGCTTT-CTCCAC
* * * ***
32294427 AAACGCCACTAAAGGTATAGACCTTTAGC-A-GCGTTTC-CGGGG
1 AAACGCCGCTAAAAGTACAGACCTTTAGCGACGC-TTTCTC-CAC
* * * *
32294469 AAAGCGCCGCTAAAAGTGCAGACCTTTAGCGACGTTTGTTTGCA-
1 AAA-CGCCGCTAAAAGTACAGACCTTTAGCGACGCTT-TCTCCAC
*
32294513 AAGCGCCGCTAAAAGTACAGACCTTTAGCGGA-GCTTT-TGCC-C
1 AAACGCCGCTAAAAGTACAGACCTTTAGC-GACGCTTTCT-CCAC
* ** * * * * *
32294555 GAAAAGGCCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAA
1 --AAACGCCGCTAAAAGTACAGACCTTTAGCGACGCTTTCTCCAC
*
32294600 AAACGCCGCCAAAAGTACAGACCTTTTAGCGACGCTTTCTCCAC
1 AAACGCCGCTAAAAGTACAGACC-TTTAGCGACGCTTTCTCCAC
* * * * * *
32294644 AAATGCCGCCAAAAGTAGAGTCCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAAGTACAGACCTTTAGCGACGCTTTCTCCAC
32294687 AAACGCCGCTAAA
1 AAACGCCGCTAAA
32294700 TTTACAGATT
Statistics
Matches: 308, Mismatches: 73, Indels: 41
0.73 0.17 0.10
Matches are distributed among these distances:
41 4 0.01
42 45 0.15
43 181 0.59
44 76 0.25
45 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAAGTACAGACCTTTAGCGACGCTTTCTCCAC
Found at i:32294652 original size:87 final size:86
Alignment explanation
Indices: 32294516--32294695 Score: 195
Period size: 87 Copynumber: 2.1 Consensus size: 86
32294506 GTTTGCAAAG
* * **
32294516 CGCCGCTAAAAGTACAGACCTTTAGCGGAGCTTTTGCCCGAAAAGGCCGCTAAATTTACAGACCT
1 CGCCGCCAAAAGTACAGACCTTTAGCGGAGCTTTTGCCC-AAAAGGCCGCCAAAAGTACAGACCT
32294581 ATAGCGGCGCTTACACCAAAAA
65 ATAGCGGCGCTTACACCAAAAA
* * *
32294603 CGCCGCCAAAAGTACAGACCTTTTAGC-GACGC-TTT-CTCCACAAATGCCGCCAAAAGTAGAGT
1 CGCCGCCAAAAGTACAGACC-TTTAGCGGA-GCTTTTGC-CCA-AAAGGCCGCCAAAAGTACAGA
* * * *
32294665 CCTTTAGCGGCGCTTTCCCCACAAA
62 CCTATAGCGGCGCTTACACCAAAAA
32294690 CGCCGC
1 CGCCGC
32294696 TAAATTTACA
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
86 2 0.03
87 68 0.87
88 8 0.10
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.19
Consensus pattern (86 bp):
CGCCGCCAAAAGTACAGACCTTTAGCGGAGCTTTTGCCCAAAAGGCCGCCAAAAGTACAGACCTA
TAGCGGCGCTTACACCAAAAA
Found at i:32295082 original size:21 final size:21
Alignment explanation
Indices: 32295027--32295083 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
32295017 GCTCTGCTCC
* * *
32295027 GCCTCTCTCGCTACTGCCGCT
1 GCCTCCCTCGCTGCTACCGCT
32295048 GCCTCCCTCGCTGCTACCGCT
1 GCCTCCCTCGCTGCTACCGCT
*
32295069 GCCTCCCTCTCTGCT
1 GCCTCCCTCGCTGCT
32295084 GCATCGGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.04, C:0.51, G:0.18, T:0.28
Consensus pattern (21 bp):
GCCTCCCTCGCTGCTACCGCT
Found at i:32300671 original size:9 final size:9
Alignment explanation
Indices: 32300657--32300789 Score: 76
Period size: 9 Copynumber: 14.6 Consensus size: 9
32300647 ATGTATTAGT
32300657 TAAGTTATG
1 TAAGTTATG
32300666 TAAGTTATG
1 TAAGTTATG
*
32300675 TGAGTTATG
1 TAAGTTATG
*
32300684 TAAGTTGTTATA
1 TAA---GTTATG
*
32300696 TACGTTATG
1 TAAGTTATG
* *
32300705 TGAGTTATA
1 TAAGTTATG
*
32300714 TAAATTATG
1 TAAGTTATG
32300723 T-A---ATG
1 TAAGTTATG
32300728 TAAGTTATG
1 TAAGTTATG
*
32300737 TAGGTTGTTATG
1 TA---AGTTATG
*
32300749 TAAATTATG
1 TAAGTTATG
*
32300758 TAAGTTACG
1 TAAGTTATG
*
32300767 TGAGTTATG
1 TAAGTTATG
* *
32300776 TAACTTATT
1 TAAGTTATG
32300785 TAAGT
1 TAAGT
32300790 AATGATCAAT
Statistics
Matches: 92, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
5 4 0.04
6 1 0.01
8 1 0.01
9 71 0.77
12 15 0.16
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:32305053 original size:15 final size:15
Alignment explanation
Indices: 32305035--32305103 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 15
32305025 ATCTTGGGTT
*
32305035 TCTTTATCCTGGATC
1 TCTTTATTCTGGATC
*
32305050 TCTTTATTCTGGATT
1 TCTTTATTCTGGATC
* *
32305065 TCTTTATTCTGGGTT
1 TCTTTATTCTGGATC
* *
32305080 TCTCTATAT-TGGATT
1 TCTTTAT-TCTGGATC
32305095 TCTTTATTC
1 TCTTTATTC
32305104 GGTTTTCTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
14 1 0.02
15 44 0.96
16 1 0.02
ACGTcount: A:0.13, C:0.17, G:0.13, T:0.57
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:32305102 original size:30 final size:29
Alignment explanation
Indices: 32305028--32305111 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 29
32305018 GTATTGTATC
* * * *
32305028 TTGGGTTTCTTTATCCTGGATCTCTTTAT
1 TTGGATTTCTTTATTCTGGATTTCTCTAT
*
32305057 TCTGGATTTCTTTATTCTGGGTTTCTCTAT
1 T-TGGATTTCTTTATTCTGGATTTCTCTAT
*
32305087 ATTGGATTTCTTTATTC-GGTTTTCT
1 -TTGGATTTCTTTATTCTGGATTTCT
32305112 TGTTATCTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 8 0.17
30 38 0.81
31 1 0.02
ACGTcount: A:0.11, C:0.15, G:0.17, T:0.57
Consensus pattern (29 bp):
TTGGATTTCTTTATTCTGGATTTCTCTAT
Found at i:32313082 original size:11 final size:10
Alignment explanation
Indices: 32313050--32313124 Score: 75
Period size: 11 Copynumber: 7.5 Consensus size: 10
32313040 CATGAGATTT
32313050 TGATAT-ACA
1 TGATATGACA
*
32313059 TGATTTGACA
1 TGATATGACA
32313069 TGATATGCACA
1 TGATATG-ACA
*
32313080 TGATATG-TA
1 TGATATGACA
32313089 TGATATGTACA
1 TGATATG-ACA
*
32313100 TGATATG-TA
1 TGATATGACA
32313109 TGATATGCACA
1 TGATATG-ACA
32313120 TGATA
1 TGATA
32313125 AACTCATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
9 21 0.39
10 9 0.17
11 24 0.44
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (10 bp):
TGATATGACA
Found at i:32313093 original size:9 final size:9
Alignment explanation
Indices: 32313079--32313115 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
32313069 TGATATGCAC
32313079 ATGATATGT
1 ATGATATGT
32313088 ATGATATGT
1 ATGATATGT
32313097 ACATGATATGT
1 --ATGATATGT
32313108 ATGATATG
1 ATGATATG
32313116 CACATGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 17 0.65
11 9 0.35
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (9 bp):
ATGATATGT
Found at i:32313093 original size:20 final size:20
Alignment explanation
Indices: 32313068--32313124 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
32313058 ATGATTTGAC
32313068 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
*
32313088 ATGATATGTACATGATATGT
1 ATGATATGCACATGATATGT
32313108 ATGATATGCACATGATA
1 ATGATATGCACATGATA
32313125 AACTCATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:32313269 original size:25 final size:25
Alignment explanation
Indices: 32313172--32313256 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
32313162 GAGGAAGTGC
* * *
32313172 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
32313197 AAAATGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
32313222 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
32313247 AAAAGGGCTT
1 AAAAGGGCTT
32313257 GTCCTCCAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:32313533 original size:31 final size:31
Alignment explanation
Indices: 32313462--32313536 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
32313452 CGTTTACAGT
*
32313462 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
32313493 AAAGGCTTCGGCCCAGTGGTTTGA-TTAGTGA
1 AAAGGCTTCGGCCCAGTGATATGATTTA-TGA
*
32313524 AAATGCTTCGGCC
1 AAAGGCTTCGGCC
32313537 AAGTAACCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:32315857 original size:27 final size:27
Alignment explanation
Indices: 32315826--32315927 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
32315816 CCCCAAAATA
* *
32315826 GGTAAAATAACCATAATGCCCCTATAG
1 GGTAAAATGACCATAATGCCCCTGTAG
*
32315853 GGTAAAATGACCATAATGCCCTTGTAG
1 GGTAAAATGACCATAATGCCCCTGTAG
* *
32315880 GGTAAAATGACCATAATGCCTCTGTAT
1 GGTAAAATGACCATAATGCCCCTGTAG
* *
32315907 GGTAAAATGACGATTATGCCC
1 GGTAAAATGACCATAATGCCC
32315928 TTATGTTTAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCATAATGCCCCTGTAG
Found at i:32316110 original size:27 final size:26
Alignment explanation
Indices: 32316053--32316144 Score: 71
Period size: 27 Copynumber: 3.5 Consensus size: 26
32316043 ATGGAGGAAG
* * * *
32316053 TACTGTACTGGTGACTATGTCAC-AT
1 TACTGTTCTGGTGGCTTTGCCACAAT
32316078 TCACTGTTGCTGGTGG-TTATGCCACAAT
1 T-ACTGTT-CTGGTGGCTT-TGCCACAAT
* * *
32316106 TACTGATACTAGTGGCTTTGCCACACT
1 TACTG-TTCTGGTGGCTTTGCCACAAT
32316133 TACTGTTCTGGT
1 TACTGTTCTGGT
32316145 AGCTATGTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
25 1 0.02
26 11 0.21
27 34 0.65
28 6 0.12
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TACTGTTCTGGTGGCTTTGCCACAAT
Found at i:32316312 original size:27 final size:26
Alignment explanation
Indices: 32316275--32316325 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
32316265 ATTACACTGT
* *
32316275 ACTATACTGTATTGGGCTTAGGCCAC
1 ACTATACTGTATAGGGCTAAGGCCAC
32316301 ACTATTACTGTATAGGGCTAAGGCC
1 ACTA-TACTGTATAGGGCTAAGGCC
32316326 CAAACTGTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (26 bp):
ACTATACTGTATAGGGCTAAGGCCAC
Found at i:32316344 original size:33 final size:33
Alignment explanation
Indices: 32316306--32316400 Score: 129
Period size: 33 Copynumber: 2.9 Consensus size: 33
32316296 GCCACACTAT
32316306 TACTGTATAGGGCTAAGGCCCAAACTGTGCTGA
1 TACTGTATAGGGCTAAGGCCCAAACTGTGCTGA
* *
32316339 TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
1 TACTGTATAGGGCTAAGGCCCAAACTGTGCTGA
** *
32316372 TACTAAATAGGGCTCAA-GCCCAAATTGTG
1 TACTGTATAGGGCT-AAGGCCCAAACTGTG
32316401 TTATTCACTG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 52 0.96
34 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (33 bp):
TACTGTATAGGGCTAAGGCCCAAACTGTGCTGA
Found at i:32322644 original size:79 final size:78
Alignment explanation
Indices: 32322542--32322764 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
32322532 GCTCCTCGTT
* *
32322542 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
32322607 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
32322622 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
32322685 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
32322700 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
32322763 GA
63 GA
32322765 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:32322659 original size:39 final size:40
Alignment explanation
Indices: 32322542--32322764 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
32322532 GCTCCTCGTT
* *
32322542 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
32322582 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
32322622 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
32322661 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
32322700 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
32322741 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32322765 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:32330687 original size:80 final size:80
Alignment explanation
Indices: 32330569--32330754 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
32330559 AGTAACTCAT
* * * *
32330569 ACAATGCCTTCGGGACTTAACCCGGATTTTAAACCTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
32330633 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
32330648 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
32330712 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
32330729 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
32330755 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.12
80 71 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:32330714 original size:40 final size:40
Alignment explanation
Indices: 32330571--32330754 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
32330561 TAACTCATAC
* * *
32330571 AATGCCTTCGGGACTTAACCCGGATTTTAA-ACCTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
32330611 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
32330651 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
32330691 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
32330732 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32330755 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:32334836 original size:30 final size:29
Alignment explanation
Indices: 32334800--32334860 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
32334790 AAATGGAAGT
* *
32334800 TTTGGCACTGAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAATGTGCGATTT-AACTAGC
32334830 TTTGGCACTAAATGTGCGATTTAACTAGC
1 TTTGGCACTAAATGTGCGATTTAACTAGC
32334859 TT
1 TT
32334861 CGGCTACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAATGTGCGATTTAACTAGC
Found at i:32348399 original size:30 final size:30
Alignment explanation
Indices: 32348347--32348516 Score: 85
Period size: 30 Copynumber: 5.7 Consensus size: 30
32348337 TTAACAATCG
* * * *
32348347 ATAGCCGAAGCTAACTCATTTCATAATTCA
1 ATAGCCGAACCTATCCCTTTTCATAATTCA
* * * **
32348377 ATAGTCGAAGCTATCCTTTTTCATAATTTG
1 ATAGCCGAACCTATCCCTTTTCATAATTCA
* * *
32348407 ATAGCCGAACCTATCCCTTTGCATAGTTTA
1 ATAGCCGAACCTATCCCTTTTCATAATTCA
** * **
32348437 ATATTC-ATCACC-ATCCCTTTTCATTATTTG
1 ATAGCCGA--ACCTATCCCTTTTCATAATTCA
* * * **
32348467 ATGGTCGTCACC-ATCCCTTTTCATAATTTG
1 ATAGCCG-AACCTATCCCTTTTCATAATTCA
*
32348497 ATAGCTGAACCTATCCCTTT
1 ATAGCCGAACCTATCCCTTT
32348517 CATTGTTCGA
Statistics
Matches: 108, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
29 4 0.04
30 101 0.94
31 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (30 bp):
ATAGCCGAACCTATCCCTTTTCATAATTCA
Found at i:32348485 original size:60 final size:58
Alignment explanation
Indices: 32348419--32348618 Score: 213
Period size: 60 Copynumber: 3.4 Consensus size: 58
32348409 AGCCGAACCT
* * * *
32348419 ATCCCTTTGCATAGTTTAATATTCATCACCATCCCTTTTCATTATTTGATGGTCGTCACC
1 ATCCCTTTTCATAGTTTGATA-TC-TCACCATCCCTTTTCATTGTTCGATGGTCGTCACC
* * * *
32348479 ATCCCTTTTCATAATTTGATAGCTGAACCTATCCC-TTTCATTGTTCGATGGTCTTCACC
1 ATCCCTTTTCATAGTTTGATATCT-CACC-ATCCCTTTTCATTGTTCGATGGTCGTCACC
* * * * *
32348538 ATCCCTTTTCATTGTTTGATGGTCGTCACCATCCCTTTTCATTGTTCGGTGGTAGACACC
1 ATCCCTTTTCATAGTTTGAT-ATC-TCACCATCCCTTTTCATTGTTCGATGGTCGTCACC
*
32348598 ATCCCTTTTCATAATTTGATA
1 ATCCCTTTTCATAGTTTGATA
32348619 GCCGAAGCTA
Statistics
Matches: 115, Mismatches: 20, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
58 1 0.01
59 48 0.42
60 65 0.57
61 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.41
Consensus pattern (58 bp):
ATCCCTTTTCATAGTTTGATATCTCACCATCCCTTTTCATTGTTCGATGGTCGTCACC
Found at i:32348550 original size:30 final size:30
Alignment explanation
Indices: 32348444--32348609 Score: 194
Period size: 30 Copynumber: 5.6 Consensus size: 30
32348434 TTAATATTCA
*
32348444 TCACCATCCCTTTTCATTATTTGATGGTCG
1 TCACCATCCCTTTTCATTGTTTGATGGTCG
** *
32348474 TCACCATCCCTTTTCATAATTTGATAG-C-
1 TCACCATCCCTTTTCATTGTTTGATGGTCG
* * *
32348502 TGAACCTATCCC-TTTCATTGTTCGATGGTCT
1 T-CACC-ATCCCTTTTCATTGTTTGATGGTCG
32348533 TCACCATCCCTTTTCATTGTTTGATGGTCG
1 TCACCATCCCTTTTCATTGTTTGATGGTCG
* * *
32348563 TCACCATCCCTTTTCATTGTTCGGTGGTAG
1 TCACCATCCCTTTTCATTGTTTGATGGTCG
*
32348593 ACACCATCCCTTTTCAT
1 TCACCATCCCTTTTCAT
32348610 AATTTGATAG
Statistics
Matches: 117, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.01
29 21 0.18
30 94 0.80
31 1 0.01
ACGTcount: A:0.17, C:0.28, G:0.13, T:0.41
Consensus pattern (30 bp):
TCACCATCCCTTTTCATTGTTTGATGGTCG
Found at i:32348565 original size:89 final size:90
Alignment explanation
Indices: 32348389--32348579 Score: 294
Period size: 89 Copynumber: 2.1 Consensus size: 90
32348379 AGTCGAAGCT
* * *
32348389 ATCCTTTTTCATAATTTGATAGCCGAACCTATCCCTTTGCATAGTTTAATATTCATCACCATCCC
1 ATCCCTTTTCATAATTTGATAGCCGAACCTATCCCTTTGCATAGTTCAATAGTCATCACCATCCC
32348454 TTTTCATTATTTGATGGTCGTCACC
66 TTTTCATTATTTGATGGTCGTCACC
* * * * *
32348479 ATCCCTTTTCATAATTTGATAGCTGAACCTATCCCTTT-CATTGTTCGATGGTCTTCACCATCCC
1 ATCCCTTTTCATAATTTGATAGCCGAACCTATCCCTTTGCATAGTTCAATAGTCATCACCATCCC
*
32348543 TTTTCATTGTTTGATGGTCGTCACC
66 TTTTCATTATTTGATGGTCGTCACC
32348568 ATCCCTTTTCAT
1 ATCCCTTTTCAT
32348580 TGTTCGGTGG
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 56 0.61
90 36 0.39
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.42
Consensus pattern (90 bp):
ATCCCTTTTCATAATTTGATAGCCGAACCTATCCCTTTGCATAGTTCAATAGTCATCACCATCCC
TTTTCATTATTTGATGGTCGTCACC
Found at i:32348632 original size:60 final size:59
Alignment explanation
Indices: 32348449--32348648 Score: 224
Period size: 60 Copynumber: 3.4 Consensus size: 59
32348439 ATTCATCACC
* * *
32348449 ATCCCTTTTCATTATTTGATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAACCT
1 ATCCCTTTTCATTGTTCGATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCGAA-CT
* ** * * * *
32348509 ATCCC-TTTCATTGTTCGATGGTCTTCACCATCCCTTTTCATTGTTTGATGGTCGTCACC
1 ATCCCTTTTCATTGTTCGATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCG-AACT
* * *
32348568 ATCCCTTTTCATTGTTCGGTGGTAGACACCATCCCTTTTCATAATTTGATAGCCGAAGCT
1 ATCCCTTTTCATTGTTCGATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCGAA-CT
*
32348628 ATCCCTTTCCATTAG-TCGATG
1 ATCCCTTTTCATT-GTTCGATG
32348649 ATTGTTGATA
Statistics
Matches: 114, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
59 48 0.42
60 65 0.57
61 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (59 bp):
ATCCCTTTTCATTGTTCGATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCGAACT
Found at i:32350738 original size:45 final size:45
Alignment explanation
Indices: 32350689--32350778 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
32350679 ACAACATTTG
32350689 ATCCCAAGCATAGTACATTTACGATTTTTTGTGAATGATTGTCAA
1 ATCCCAAGCATAGTACATTTACGATTTTTTGTGAATGATTGTCAA
32350734 ATCCCAAGCATAGTACATTTACGATTTTTTGTGAATGATTGTCAA
1 ATCCCAAGCATAGTACATTTACGATTTTTTGTGAATGATTGTCAA
32350779 TAAATTTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (45 bp):
ATCCCAAGCATAGTACATTTACGATTTTTTGTGAATGATTGTCAA
Found at i:32356614 original size:28 final size:29
Alignment explanation
Indices: 32356583--32356671 Score: 110
Period size: 28 Copynumber: 3.1 Consensus size: 29
32356573 CCTACTCTCT
* *
32356583 TTTATATGGCCCATTAGGCCC-ATTTACA
1 TTTATATGGCCCATTAGGCCCAAATCACA
*
32356611 TTTATGTGGCCCATTAGGCCCAAATCACA
1 TTTATATGGCCCATTAGGCCCAAATCACA
* * *
32356640 TTCATATGG-CCACTAGCCCCAAATCACA
1 TTTATATGGCCCATTAGGCCCAAATCACA
32356668 TTTA
1 TTTA
32356672 CAGTCATGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 40 0.77
29 12 0.23
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (29 bp):
TTTATATGGCCCATTAGGCCCAAATCACA
Found at i:32356920 original size:8 final size:8
Alignment explanation
Indices: 32356885--32356927 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
32356875 GTAGCCCAAC
32356885 TTTCGGCT
1 TTTCGGCT
*
32356893 TTTCAGCT
1 TTTCGGCT
*
32356901 TTTTGGCT
1 TTTCGGCT
*
32356909 TTTCGGCA
1 TTTCGGCT
*
32356917 TTTCGACT
1 TTTCGGCT
32356925 TTT
1 TTT
32356928 GCCGATTCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.07, C:0.21, G:0.19, T:0.53
Consensus pattern (8 bp):
TTTCGGCT
Found at i:32366867 original size:27 final size:27
Alignment explanation
Indices: 32366837--32366916 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
32366827 TCTGATACTG
*
32366837 ATTCTGTACTGGGCTTAGGCCCACCTT
1 ATTCTGTACTGGGCTTAGGCCCACCTC
32366864 ATTCTGTACTGGGCTTAGGCCCACCTC
1 ATTCTGTACTGGGCTTAGGCCCACCTC
* * **
32366891 ATTTTGTATTACGCTTAGGCCCACCT
1 ATTCTGTACTGGGCTTAGGCCCACCT
32366917 GATTTTGTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.16, C:0.30, G:0.20, T:0.34
Consensus pattern (27 bp):
ATTCTGTACTGGGCTTAGGCCCACCTC
Found at i:32366936 original size:27 final size:27
Alignment explanation
Indices: 32366841--32366933 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
32366831 ATACTGATTC
* * *
32366841 TGTACTGGGCTTAGGCCCACCTTATTC
1 TGTAATGGGCTTAGGCCCACCTCATTT
*
32366868 TGTACTGGGCTTAGGCCCACCTCATTT
1 TGTAATGGGCTTAGGCCCACCTCATTT
* ** *
32366895 TGTATTACGCTTAGGCCCACCTGATTT
1 TGTAATGGGCTTAGGCCCACCTCATTT
32366922 TGTTAATGGGCT
1 TG-TAATGGGCT
32366934 AGGACCAACT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
27 50 0.89
28 6 0.11
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (27 bp):
TGTAATGGGCTTAGGCCCACCTCATTT
Found at i:32369200 original size:77 final size:78
Alignment explanation
Indices: 32369106--32369253 Score: 217
Period size: 77 Copynumber: 1.9 Consensus size: 78
32369096 CAGTGATGTT
* * ** *
32369106 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATTTCAGGACTTAGGGTCC-CAGGCTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACAGGACTTAAGGTCCGCAGGCTA
*
32369170 TGTGCTAGAATTA
66 CGTGCTAGAATTA
* *
32369183 TATCCGGACTTAAGGTCCGCAGGCTTTGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACAGGACTTAAGGTCCGCAGGCTA
32369248 CGTGCT
66 CGTGCT
32369254 GGAAATATGT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
77 50 0.81
78 12 0.19
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (78 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACAGGACTTAAGGTCCGCAGGCTA
CGTGCTAGAATTA
Found at i:32369220 original size:39 final size:39
Alignment explanation
Indices: 32369106--32369257 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
32369096 CAGTGATGTT
* *
32369106 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
32369145 TTTCAGGACTTAGGGTCC-CAGGCTATGTGCTAGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
32369183 TATCCGGACTTAAGGTCCGCAGGCTTTGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* *
32369222 TAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
32369258 ATATGTTCGG
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
38 34 0.34
39 67 0.66
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:32376971 original size:39 final size:39
Alignment explanation
Indices: 32376909--32377057 Score: 208
Period size: 39 Copynumber: 3.8 Consensus size: 39
32376899 CAGTGATGTT
* *
32376909 TATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* *
32376948 TATCAGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
32376987 TATCCGAACTTAAGGTCCGCAGGCTATGTACTAGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
32377026 TAACCGGACTTAAGGTCTGCAGGCTACGTGCT
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCT
32377058 AGAAATATGT
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 98 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:32379862 original size:26 final size:26
Alignment explanation
Indices: 32379833--32379883 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
32379823 CCAACACACC
* *
32379833 AATATCGTAGCAAAGATGCCAGTAAT
1 AATATCGCAGCAAAGATACCAGTAAT
*
32379859 AATATCGCAGCAAAGCTACCAGTAA
1 AATATCGCAGCAAAGATACCAGTAA
32379884 CAGTAATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (26 bp):
AATATCGCAGCAAAGATACCAGTAAT
Found at i:32387904 original size:48 final size:48
Alignment explanation
Indices: 32387833--32388214 Score: 345
Period size: 48 Copynumber: 8.0 Consensus size: 48
32387823 ATGACATTTG
*
32387833 GTTGATATGTGTGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGA
1 GTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGA
* * *
32387881 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGGCATGGCATCGGCC
1 GTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-A
* * * * * *
32387930 G--CATTATGAGAGCCAGTGTAAGACCATCTTTAGGACATGGCAT-GG-
1 GTTGA-TATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGA
*** * * *
32387975 GCCACATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC--A
1 G-TTGA-TATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGA
* *
32388023 GTAATGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCA
1 GT--TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--A
** * * *
32388075 CAT--TATGAG-GCCAGTGTAAGACCATGTCTGTGACATGGCATCAGA
1 GTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGA
* * * *
32388120 GTTAATATGTGTGCTAGTATAAGACCATGTCTGGGACATGGCATTGGCA
1 GTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-A
*
32388169 -TTGATATGTGTGCTAGTGTAAGACCATGTCTAGGG-CATGGCATCGG
1 GTTGATATGTGTGCCAGTGTAAGACCATGTCT-GGGACATGGCATCGG
32388215 TAATTGACGC
Statistics
Matches: 276, Mismatches: 40, Indels: 36
0.78 0.11 0.10
Matches are distributed among these distances:
45 3 0.01
47 39 0.14
48 226 0.82
49 6 0.02
50 1 0.00
52 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
GTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGA
Found at i:32389866 original size:79 final size:82
Alignment explanation
Indices: 32389755--32389939 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
32389745 GCTACTCGTT
* *
32389755 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
32389818 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
32389835 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
32389898 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
32389915 CAAA-GCCTTCGGGACTTAGGCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32389940 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:32389939 original size:40 final size:40
Alignment explanation
Indices: 32389736--32389939 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
32389726 CGGAATTTAA
** *
32389736 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32389776 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
32389816 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32389855 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
32389895 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGG
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
32389935 CCGGA
1 CCGGA
32389940 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:32398883 original size:48 final size:48
Alignment explanation
Indices: 32398811--32399030 Score: 228
Period size: 48 Copynumber: 4.6 Consensus size: 48
32398801 ATGTGTGCTT
32398811 GTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCA
* * * * * * *
32398859 ATGTAAGATCATGTTTGGGACATGGAATCAGCCACATTTTGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCA
* *** * * *
32398907 GTGTAAGACCATGTCTAGGACATGGCATCGGTGTTAATATGTGTA-CTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAG-AGCCA
* * * * * *
32398955 GTGTAAGACCATGTGTGGAACATGGCCTAGGCCAGAGTATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCA
*
32399003 GTGTAAGACCATG-ATGGGACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
32399031 AGTGTTGATA
Statistics
Matches: 133, Mismatches: 37, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
47 12 0.09
48 120 0.90
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCA
Found at i:32398978 original size:96 final size:96
Alignment explanation
Indices: 32398811--32399073 Score: 289
Period size: 96 Copynumber: 2.8 Consensus size: 96
32398801 ATGTGTGCTT
*** * * * *
32398811 GTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAG-AGCCAATGTAAGATCATGTTT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTAATATGTGTA-CTAATGTAAGACCATGTTT
* *
32398875 GGGACATGGAATCA-GCCACATTTTGAGAGCCA
65 GGGACATGGAAT-AGGCCACAGTATGAGAGCCA
* * *
32398907 GTGTAAGACCATGTCTAGGACATGGCATCGGTGTTAATATGTGTACTAGTGTAAGACCATGTGTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTAATATGTGTACTAATGTAAGACCATGTTTG
* ** *
32398972 GAACATGGCCTAGGCCAGAGTATGAGAGCCA
66 GGACATGGAATAGGCCACAGTATGAGAGCCA
* * * * * *
32399003 GTGTAAGACCATG-ATGGGACATGGCATCAGTGTTGATATGTGTGCTACTGTAAGACAATGTTTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTAATATGTGTACTAATGTAAGACCATGTTTG
32399067 GGACATG
66 GGACATG
32399074 CCATCGGCGT
Statistics
Matches: 140, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
95 50 0.36
96 89 0.64
97 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (96 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTAATATGTGTACTAATGTAAGACCATGTTTG
GGACATGGAATAGGCCACAGTATGAGAGCCA
Found at i:32399086 original size:48 final size:47
Alignment explanation
Indices: 32399004--32399106 Score: 134
Period size: 48 Copynumber: 2.2 Consensus size: 47
32398994 TGAGAGCCAG
* * *
32399004 TGTAAGACCATGATGGGACATGGCATCAGTGTTGATATGTGTGCTAC
1 TGTAAGACAATGATGGGACATGCCATCAGCGTTGATATGTGTGCTAC
* * * *
32399051 TGTAAGACAATGTTTGGGACATGCCATCGGCGTTGATATGTTTGCTAG
1 TGTAAGACAATG-ATGGGACATGCCATCAGCGTTGATATGTGTGCTAC
32399099 TGTAAGAC
1 TGTAAGAC
32399107 CGTGTCTGGG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 11 0.23
48 37 0.77
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (47 bp):
TGTAAGACAATGATGGGACATGCCATCAGCGTTGATATGTGTGCTAC
Found at i:32399107 original size:95 final size:96
Alignment explanation
Indices: 32398898--32399073 Score: 264
Period size: 95 Copynumber: 1.8 Consensus size: 96
32398888 AGCCACATTT
* * *
32398898 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTGTTAATATGTGTACTAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTATAGGACATGGCATCAGTGTTAATATGTGTACTACTGTAAGA
*
32398963 CCATGTGTGGAACATGGCCTAGGCCAGAGTA
66 CAATGTGTGGAACATGGCCTAGGCCAGAGTA
* * *
32398994 TGAGAGCCAGTGTAAGACCATG-ATGGGACATGGCATCAGTGTTGATATGTGTGCTACTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTATAGGACATGGCATCAGTGTTAATATGTGTACTACTGTAAGA
* *
32399058 CAATGTTTGGGACATG
66 CAATGTGTGGAACATG
32399074 CCATCGGCGT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 49 0.69
96 22 0.31
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (96 bp):
TGAGAGCCAGTGTAAGACCATGTATAGGACATGGCATCAGTGTTAATATGTGTACTACTGTAAGA
CAATGTGTGGAACATGGCCTAGGCCAGAGTA
Found at i:32399122 original size:143 final size:144
Alignment explanation
Indices: 32398795--32399123 Score: 365
Period size: 143 Copynumber: 2.3 Consensus size: 144
32398785 ATGACATTTG
* * * *
32398795 GTTGATATGTGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAA
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATAGGCCAGAGTATGAGAGCCAA
* * * * *
32398860 TGTAAGATCATGTTTGGGACATGGAATCAGCCACATTTTGAGAGCCAGTGTAAGACCATGTCTAG
66 TGTAAGACCATGTATGGGACATGGAATCAGCCACATTATGAGAGCCACTGTAAGACAATGTCTAG
* *
32398925 GACATGGCATCGGT
131 GACATGCCATCGGC
* * * * * *
32398939 GTTAATATGTGTACTAGTGTAAGACCATGTGTGGAACATGGCCTAGGCCAGAGTATGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATAGGCCAGAGTATGAGAGCCAA
* **** * * * * *
32399004 TGTAAGACCATG-ATGGGACATGGCATCAGTGTTGA-TATGTGTGCTACTGTAAGACAATGTTTG
66 TGTAAGACCATGTATGGGACATGGAATCAG-CCACATTATGAGAGCCACTGTAAGACAATGTCTA
32399067 GGACATGCCATCGGC
130 GGACATGCCATCGGC
* * *
32399082 GTTGATATGTTTGCTAGTGTAAGACCGTGTCTGGGGCATGGC
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGC
32399124 GTCGACAATT
Statistics
Matches: 150, Mismatches: 34, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
143 83 0.55
144 67 0.45
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (144 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATAGGCCAGAGTATGAGAGCCAA
TGTAAGACCATGTATGGGACATGGAATCAGCCACATTATGAGAGCCACTGTAAGACAATGTCTAG
GACATGCCATCGGC
Found at i:32401775 original size:17 final size:18
Alignment explanation
Indices: 32401749--32401782 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32401739 ATACATCACA
32401749 ATAATAAGACAT-TAATC
1 ATAATAAGACATATAATC
*
32401766 ATAATTAGACATATAAT
1 ATAATAAGACATATAAT
32401783 TAAAACTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (18 bp):
ATAATAAGACATATAATC
Found at i:32423017 original size:14 final size:14
Alignment explanation
Indices: 32422998--32423025 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32422988 AAAGGAGGGT
32422998 TATCTTCTTCAACC
1 TATCTTCTTCAACC
32423012 TATCTTCTTCAACC
1 TATCTTCTTCAACC
32423026 GACGTGAAAG
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:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (14 bp):
TATCTTCTTCAACC
Found at i:32424996 original size:20 final size:20
Alignment explanation
Indices: 32424968--32425021 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
32424958 AACAGGGGTC
*
32424968 ACACACCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
32424988 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
32425008 ACACGCCCGTGTGG
1 ACACGCCCGTGTGG
32425022 GTAGGCCGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.13, C:0.31, G:0.37, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:32427292 original size:23 final size:20
Alignment explanation
Indices: 32427235--32427276 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
32427225 GTACCTTAGC
32427235 CAAATTACCCAAAAAAATAT
1 CAAATTACCCAAAAAAATAT
32427255 CAAATTACCCAAAAAAATAT
1 CAAATTACCCAAAAAAATAT
32427275 CA
1 CA
32427277 TAAGTGTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (20 bp):
CAAATTACCCAAAAAAATAT
Found at i:32429244 original size:12 final size:14
Alignment explanation
Indices: 32429227--32429263 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
32429217 TGGTGATATT
32429227 TATATATGT-ATA-
1 TATATATGTGATAC
32429239 TATATATGTGATAC
1 TATATATGTGATAC
32429253 TATAT-TGTGAT
1 TATATATGTGAT
32429264 TTTCGAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.39
13 9 0.39
14 5 0.22
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.49
Consensus pattern (14 bp):
TATATATGTGATAC
Found at i:32439778 original size:30 final size:30
Alignment explanation
Indices: 32439744--32439804 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
32439734 TCCTTAACTC
32439744 AAACTTTGGACA-AATTACAATTTTGCCCCT
1 AAACTTTGG-CATAATTACAATTTTGCCCCT
* * *
32439774 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCATAATTACAATTTTGCCCCT
32439804 A
1 A
32439805 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCATAATTACAATTTTGCCCCT
Found at i:32448078 original size:35 final size:35
Alignment explanation
Indices: 32448029--32448099 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
32448019 CCAACCATAG
*
32448029 TCTAAATCATCTCAACCCATAGAAACAGAATAAGT
1 TCTAAATCAGCTCAACCCATAGAAACAGAATAAGT
32448064 TCTAAATCAGCTCAACCCATAGAAACAGAATAAGT
1 TCTAAATCAGCTCAACCCATAGAAACAGAATAAGT
32448099 T
1 T
32448100 GGCCTTAGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.23
Consensus pattern (35 bp):
TCTAAATCAGCTCAACCCATAGAAACAGAATAAGT
Found at i:32448328 original size:27 final size:26
Alignment explanation
Indices: 32448290--32448434 Score: 96
Period size: 27 Copynumber: 5.4 Consensus size: 26
32448280 GCGAGGCAGC
*
32448290 CAGATATTGTGAC-GAAGTCAACAGATA
1 CAGATATTGTGACAG-AGCCAACAGA-A
*
32448317 CAGATATTGTGACAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCAACAGAA
** *
32448343 CAGATATATGTGGTAGAGCC-ACTAGAT
1 CAGATAT-TGTGACAGAGCCAAC-AGAA
* * * *
32448370 CAGATAATTGTGGCATAGCCACCAGGA
1 CAGAT-ATTGTGACAGAGCCAACAGAA
* * * *
32448397 CAGATATATGTGGCAGAGCTACCAGAT
1 CAGATAT-TGTGACAGAGCCAACAGAA
32448424 CAGATAATTGT
1 CAGAT-ATTGT
32448435 AGCATAGCCA
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
26 11 0.11
27 79 0.82
28 6 0.06
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCAACAGAA
Found at i:32448392 original size:54 final size:54
Alignment explanation
Indices: 32448311--32448445 Score: 191
Period size: 54 Copynumber: 2.5 Consensus size: 54
32448301 ACGAAGTCAA
* * *
32448311 CAGATACAGAT-ATTGTGACAGAGCCACCAGAACAGATATATGTGGTAGAGCCAC
1 CAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCAC
* * *
32448365 TAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCTAC
1 CAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCAC
*
32448419 CAGATCAGATAATTGTAGCATAGCCAC
1 CAGATCAGATAATTGTGGCATAGCCAC
32448446 TAGGACGCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 5 0.07
54 67 0.93
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (54 bp):
CAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCAC
Found at i:32448615 original size:28 final size:26
Alignment explanation
Indices: 32448554--32448616 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
32448544 AAATTAACCC
* * * *
32448554 TAGGGGTACAACGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
32448580 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
32448608 TAGGGGTAT
1 TAGGGGTAT
32448617 TGTAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:32449550 original size:60 final size:60
Alignment explanation
Indices: 32449457--32449576 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
32449447 AATTTATTCA
32449457 GCTTCTAACTCATCTCCCACAATTTATGGTGATTTTCCAAAGTCACATTACTGCTGCTGT
1 GCTTCTAACTCATCTCCCACAATTTATGGTGATTTTCCAAAGTCACATTACTGCTGCTGT
* *
32449517 GCTTCTAACTCATCTCCCACAATTTATGGTGATTTTCCAAAGTCACGTTATTGCTGCTGT
1 GCTTCTAACTCATCTCCCACAATTTATGGTGATTTTCCAAAGTCACATTACTGCTGCTGT
32449577 CCCAAGCAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.38
Consensus pattern (60 bp):
GCTTCTAACTCATCTCCCACAATTTATGGTGATTTTCCAAAGTCACATTACTGCTGCTGT
Found at i:32450169 original size:26 final size:26
Alignment explanation
Indices: 32450138--32450191 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
32450128 TGAAATGCCC
32450138 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
32450164 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
32450190 AT
1 AT
32450192 TATTGTAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:32451626 original size:40 final size:40
Alignment explanation
Indices: 32451578--32451761 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 40
32451568 TCCTCGTTCA
* * * *
32451578 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
32451618 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * *
32451658 AATGCCTTCGGGACTTAACCCAGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* ** * * * *
32451698 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACG
* *
32451738 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32451762 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 110 0.91
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:32451770 original size:41 final size:41
Alignment explanation
Indices: 32451693--32451770 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32451683 TTAGTATCTC
* * *
32451693 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
32451734 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
32451771 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:32453283 original size:26 final size:26
Alignment explanation
Indices: 32453253--32453305 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
32453243 TGTCACAATT
* *
32453253 ATGGAATATTTACCTAATCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
32453279 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
32453305 A
1 A
32453306 ATTTGTACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:32459553 original size:27 final size:27
Alignment explanation
Indices: 32459505--32459662 Score: 164
Period size: 27 Copynumber: 5.9 Consensus size: 27
32459495 GCAAGACTGC
* *
32459505 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
32459532 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
32459558 CAGATATATGTGGCAGTGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
32459585 CAGATAATTGTGGCATAACCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
32459612 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
32459639 CAAATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
32459663 AGACGCTTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:32459595 original size:54 final size:54
Alignment explanation
Indices: 32459523--32459662 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
32459513 GTGACGAAGT
* *
32459523 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGTGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
32459577 CACCAGATCAGATAATTGTGGCATAACCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
32459631 CACCAGATCAAATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
32459663 AGACGCTTCC
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:32461315 original size:26 final size:26
Alignment explanation
Indices: 32461285--32461340 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
32461275 TGAAATGCCC
*
32461285 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
32461311 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
32461337 ATCA
1 ATCA
32461341 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:32467560 original size:27 final size:26
Alignment explanation
Indices: 32467522--32467626 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 26
32467512 GCGAGGCTGC
*
32467522 CAGATATTGTGACGA-AGTCACCAGATA
1 CAGATATTGTGA-GAGAGCCACCAGA-A
*
32467549 CAGATATTGTGATAGAGCCACCAGAA
1 CAGATATTGTGAGAGAGCCACCAGAA
*
32467575 CAGATATATGTG-GCAGAGCCACCAGAT
1 CAGATAT-TGTGAG-AGAGCCACCAGAA
* *
32467602 CAAATAATTGTG-GCATAGCCACCAG
1 CAGAT-ATTGTGAG-AGAGCCACCAG
32467627 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.13
27 57 0.84
28 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGAGAGAGCCACCAGAA
Found at i:32469304 original size:52 final size:52
Alignment explanation
Indices: 32469227--32470062 Score: 1654
Period size: 52 Copynumber: 16.1 Consensus size: 52
32469217 TGAAATGCCC
* *
32469227 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469279 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469331 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469383 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469435 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469487 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469539 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469591 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469643 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469695 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469747 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469799 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469851 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469903 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32469955 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32470007 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
32470059 ATCA
1 ATCA
32470063 ATTTGTACCA
Statistics
Matches: 782, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 782 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:32471598 original size:25 final size:25
Alignment explanation
Indices: 32471539--32471601 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
32471529 GACCCACAAC
* * *
32471539 TTGTGTGAGCATACCAATTTATAGC
1 TTGTGTGAGCATACCAATCTACAGA
* * *
32471564 TCGTGAGAGCATACCGATCTACAGA
1 TTGTGTGAGCATACCAATCTACAGA
32471589 TTGTGTGAGCATA
1 TTGTGTGAGCATA
32471602 TATACCGATT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (25 bp):
TTGTGTGAGCATACCAATCTACAGA
Found at i:32471628 original size:29 final size:29
Alignment explanation
Indices: 32471574--32471630 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
32471564 TCGTGAGAGC
*
32471574 ATACCGATCTACAGATTGTGTGAGCATAT
1 ATACCGATCTACAGATCGTGTGAGCATAT
* *
32471603 ATACCGATTTACAGCTCGTGAT-AGCATA
1 ATACCGATCTACAGATCGTG-TGAGCATA
32471631 CCGATCTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (29 bp):
ATACCGATCTACAGATCGTGTGAGCATAT
Found at i:32471631 original size:25 final size:25
Alignment explanation
Indices: 32471546--32471645 Score: 76
Period size: 25 Copynumber: 3.8 Consensus size: 25
32471536 AACTTGTGTG
* * * *
32471546 AGCATACCAATTTATAGCTCGTGAG
1 AGCATACCGATCTACAGCTCGTGAT
* *
32471571 AGCATACCGATCTACAGATTGTG-T
1 AGCATACCGATCTACAGCTCGTGAT
*
32471595 GAGCATATATACCGATTTACAGCTCGTGAT
1 -AGC----ATACCGATCTACAGCTCGTGAT
*
32471625 AGCATACCGATCTATAGCTCG
1 AGCATACCGATCTACAGCTCG
32471646 AGTAAGCATA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
25 37 0.64
29 20 0.34
30 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCATACCGATCTACAGCTCGTGAT
Found at i:32471653 original size:25 final size:25
Alignment explanation
Indices: 32471603--32471656 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
32471593 GTGAGCATAT
* *
32471603 ATACCGATTTACAGCTCGTGATAGC
1 ATACCGATCTACAGCTCGAGATAGC
*
32471628 ATACCGATCTATAGCTCGAG-TAAGC
1 ATACCGATCTACAGCTCGAGAT-AGC
32471653 ATAC
1 ATAC
32471657 AGGTTCACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (25 bp):
ATACCGATCTACAGCTCGAGATAGC
Found at i:32471654 original size:54 final size:54
Alignment explanation
Indices: 32471549--32471655 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
32471539 TTGTGTGAGC
* * * *
32471549 ATACCAATTTATAGCTCGTGAGAGCATACCGATCTACAGATTGTGTGAGCATAT
1 ATACCAATTTACAGCTCGTGAGAGCATACCGATCTACAGATCGAGTAAGCATAT
* * * *
32471603 ATACCGATTTACAGCTCGTGATAGCATACCGATCTATAGCTCGAGTAAGCATA
1 ATACCAATTTACAGCTCGTGAGAGCATACCGATCTACAGATCGAGTAAGCATA
32471656 CAGGTTCACA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (54 bp):
ATACCAATTTACAGCTCGTGAGAGCATACCGATCTACAGATCGAGTAAGCATAT
Found at i:32472809 original size:20 final size:20
Alignment explanation
Indices: 32472776--32472814 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32472766 ACCATATGAT
32472776 TTGGCTTGTGTTATAGTATC
1 TTGGCTTGTGTTATAGTATC
*
32472796 TTGG-TTGTGATTATGGTAT
1 TTGGCTTGTG-TTATAGTAT
32472815 TTTGAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.15, C:0.05, G:0.28, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATAGTATC
Found at i:32474001 original size:18 final size:18
Alignment explanation
Indices: 32473962--32474003 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
32473952 ACTGATCCCA
32473962 TACAAAATTTTTCGAAGC
1 TACAAAATTTTTCGAAGC
* * *
32473980 TACACAATTTTTCTAAGT
1 TACAAAATTTTTCGAAGC
32473998 TACAAA
1 TACAAA
32474004 GGTCATACAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (18 bp):
TACAAAATTTTTCGAAGC
Found at i:32475339 original size:43 final size:42
Alignment explanation
Indices: 32475306--32475387 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
32475296 TTATATGTAA
* *
32475306 TCAAATATCAATGCCACTGTCCCAGACAGGGTCTTACACGAAG
1 TCAAATAT-AATGCCAATGTCCCAAACAGGGTCTTACACGAAG
* *
32475349 TCAAATATGATGCCAATGTCCCAAACATGGTCTTACACG
1 TCAAATATAATGCCAATGTCCCAAACAGGGTCTTACACG
32475388 TAAATCTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 27 0.77
43 8 0.23
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
TCAAATATAATGCCAATGTCCCAAACAGGGTCTTACACGAAG
Found at i:32475414 original size:44 final size:43
Alignment explanation
Indices: 32475273--32475439 Score: 146
Period size: 44 Copynumber: 3.9 Consensus size: 43
32475263 AACTCGTAAA
** * * * *
32475273 ATGCCAACGTCCCAGATGTGGTCTTATATGTAATC-AAATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCTCAA-ATCG
* * *
32475316 ATGCC-ACTGTCCCAGACAGGGTCTTACACG-AA-GTCAAATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCTCAAAT-CG
* *
32475358 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATCTCAAATCG
*
32475402 ATGCCAACGTCCCAGACTTGGTCTTACACGATAA-CTCA
1 ATGCCAACGTCCCAGACATGGTCTTACACG-TAATCTCA
32475440 TATTGGAATC
Statistics
Matches: 99, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.02
42 31 0.31
43 27 0.27
44 32 0.32
45 7 0.07
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCTCAAATCG
Found at i:32491890 original size:40 final size:40
Alignment explanation
Indices: 32491841--32492061 Score: 315
Period size: 40 Copynumber: 5.5 Consensus size: 40
32491831 CTCATACAAT
32491841 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
32491881 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
32491921 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
* * *
32491961 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAAT
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
** *
32492001 GCCTTC-GGATCTTAGTCCGG-ATATAGTCA-CTTAGCACAAA-
1 GCCTTCGGGA-CTTAACCCGGAAT-TAGT-ATC-TCGCACAAAG
*
32492041 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
32492062 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
39 5 0.03
40 150 0.90
41 12 0.07
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
Found at i:32499910 original size:79 final size:82
Alignment explanation
Indices: 32499799--32499983 Score: 249
Period size: 79 Copynumber: 2.3 Consensus size: 82
32499789 GCTCCTCGTT
*
32499799 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAATC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGT-ATCTCGCACAAATGCCTTC-GGATCTTAATC
* *
32499861 CGGATTTAGTAAC-TCGCA
64 CGGATATAGTAACTTAGCA
*
32499879 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAATCCG
* *
32499942 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
32499959 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32499984 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 6, Indels: 10
0.85 0.05 0.09
Matches are distributed among these distances:
78 5 0.05
79 55 0.59
80 34 0.36
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAATCCG
GATATAGTAACTTAGCA
Found at i:32499983 original size:40 final size:40
Alignment explanation
Indices: 32499799--32499983 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
32499789 GCTCCTCGTT
* *
32499799 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
** *
32499839 CAAATGCCTTCGGGACTTAATCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
32499879 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
32499918 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
32499959 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32499984 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
38 3 0.02
39 29 0.24
40 76 0.62
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:32503307 original size:42 final size:42
Alignment explanation
Indices: 32503248--32503330 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
32503238 TGGCTATGTA
*
32503248 TGATGATGGTTCGATAATAGCTGATTTGAAAGCAAGATCGTC
1 TGATGATGGTTCGATAATAGCTGAATTGAAAGCAAGATCGTC
32503290 TGATGATGGTTCGATAATAGCTGAATTGAAAGCAAGATCGT
1 TGATGATGGTTCGATAATAGCTGAATTGAAAGCAAGATCGT
32503331 TATTTATTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.30
Consensus pattern (42 bp):
TGATGATGGTTCGATAATAGCTGAATTGAAAGCAAGATCGTC
Found at i:32508034 original size:47 final size:47
Alignment explanation
Indices: 32507958--32508175 Score: 301
Period size: 47 Copynumber: 4.6 Consensus size: 47
32507948 TTAAACCCAT
32507958 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
32508007 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
32508054 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
32508103 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
32508150 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
32508176 TCCCGAAGGG
Statistics
Matches: 151, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
47 96 0.64
49 55 0.36
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:32508124 original size:96 final size:96
Alignment explanation
Indices: 32507958--32508175 Score: 332
Period size: 96 Copynumber: 2.3 Consensus size: 96
32507948 TTAAACCCAT
32507958 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
32508023 GTGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGACAAGGCCGAATAGCCAATGTGATGA
*
32508054 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
32508119 ATGTGACAGGGCCGAGTGGCCAATGTGATGG
66 ATGTGACAAGGCCGAATAGCCAATGTGATGA
*
32508150 ATGTGAAAGTGCATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
32508176 TCCCGAAGGG
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 10 0.09
95 1 0.01
96 101 0.90
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGACAAGGCCGAATAGCCAATGTGATGA
Done.