Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 122 of 328
Found at i:34863466 original size:40 final size:40
Alignment explanation
Indices: 34863298--34863489 Score: 210
Period size: 40 Copynumber: 4.8 Consensus size: 40
34863288 ATAACCACGT
* *
34863298 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGTCTC
*
34863338 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGTCTC
* **** *
34863378 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGTCTC
* *
34863418 GCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATGTCTC
* * *
34863457 AGCA-TAATTGTCTTCGGGGCTTAGCCCGGATAT
1 -GCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT
34863490 CATTCAATTT
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
39 2 0.02
40 129 0.98
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGTCTC
Found at i:34867287 original size:15 final size:15
Alignment explanation
Indices: 34867267--34867330 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
34867257 GTATCTTGGG
34867267 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
34867282 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
34867297 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
34867312 TTT-TTTATT-TGGT
1 TTTCTTTATTCTGGA
34867325 TTTCTT
1 TTTCTT
34867331 GTTATCTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
13 6 0.14
14 8 0.19
15 28 0.67
ACGTcount: A:0.09, C:0.11, G:0.14, T:0.66
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:34867299 original size:30 final size:29
Alignment explanation
Indices: 34867262--34867330 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
34867252 GTATCGTATC
34867262 TTGGGTTTCTT-TAT-TCTGGATTTCTTTAT
1 TTGGGTTTCTTCTATCT-TGGATTT-TTTAT
34867291 TCTGGGTTT-TTCTATCTTGGATTTTTTAT
1 T-TGGGTTTCTTCTATCTTGGATTTTTTAT
*
34867320 TTGGTTTTCTT
1 TTGGGTTTCTT
34867331 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
28 6 0.17
29 11 0.31
30 17 0.49
31 1 0.03
ACGTcount: A:0.09, C:0.10, G:0.17, T:0.64
Consensus pattern (29 bp):
TTGGGTTTCTTCTATCTTGGATTTTTTAT
Found at i:34869633 original size:49 final size:49
Alignment explanation
Indices: 34869467--34869691 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
34869457 TGAGGTCGCA
* * * * *
34869467 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * * **
34869518 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
*
34869568 TGTGTAGTACTAAGTGCAGACTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * * *
34869617 TGTGTAGTACTAAGTGCAGGCTACAACGTGTTCCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
34869666 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
34869692 TGCGTACTAG
Statistics
Matches: 153, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
49 76 0.50
50 43 0.28
51 34 0.22
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:34872753 original size:49 final size:49
Alignment explanation
Indices: 34872677--34872787 Score: 145
Period size: 49 Copynumber: 2.3 Consensus size: 49
34872667 ACATCTGTGC
*
34872677 CACA-AGCCGTGTGCCTGATCGCGTGAACCTGCACTAAAATTTACAAGA
1 CACACAGCCGTGTGCCTAATCGCGTGAACCTGCACTAAAATTTACAAGA
* * * *
34872725 TACGCAGCCGTGTGCCTAA-CTGTGTGAACCTGCACTAAAATTTGCAAGA
1 CACACAGCCGTGTGCCTAATC-GCGTGAACCTGCACTAAAATTTACAAGA
*
34872774 CACACGGCCGTGTG
1 CACACAGCCGTGTG
34872788 ATAGACCGTG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
48 3 0.06
49 50 0.94
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (49 bp):
CACACAGCCGTGTGCCTAATCGCGTGAACCTGCACTAAAATTTACAAGA
Found at i:34874803 original size:2 final size:2
Alignment explanation
Indices: 34874796--34874824 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
34874786 GAGACTAGTC
34874796 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34874825 CATGTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34885909 original size:20 final size:20
Alignment explanation
Indices: 34885852--34886118 Score: 85
Period size: 20 Copynumber: 13.4 Consensus size: 20
34885842 AGATGCATAA
* *
34885852 CAGGGGCACCAAAGTGAAAT
1 CAGGGGCACCGAAGTGCAAT
* * *
34885872 CAGGAGCA-TGAATATGCAAT
1 CAGGGGCACCGAA-GTGCAAT
*
34885892 CAGGGGCACCGAAGTGCAAA
1 CAGGGGCACCGAAGTGCAAT
* * * *
34885912 CAAGGGCACAGATGTGCATT
1 CAGGGGCACCGAAGTGCAAT
* * * * *
34885932 CTGGGGTACCGAACTACAAC
1 CAGGGGCACCGAAGTGCAAT
** * *
34885952 CAGGGGCATAGATGTGCATT
1 CAGGGGCACCGAAGTGCAAT
34885972 CAGGGGCACC-AAGTGCAAAT
1 CAGGGGCACCGAAGTGC-AAT
* * * *
34885992 -A-GGGAACAGATGTGCATT
1 CAGGGGCACCGAAGTGCAAT
* * * *
34886010 CTGGGGCACCAAAGTACAAA
1 CAGGGGCACCGAAGTGCAAT
* * * *
34886030 AAGGGGCACAGATGTGCATT
1 CAGGGGCACCGAAGTGCAAT
* * * * *
34886050 CAAGGGTACTGAAGTCCAAA
1 CAGGGGCACCGAAGTGCAAT
** * * *
34886070 CAGGGGCATAGATGTGTATT
1 CAGGGGCACCGAAGTGCAAT
* *
34886090 CAGGGGTACCGAAGTACAAAT
1 CAGGGGCACCGAAGTGC-AAT
34886111 -AGGGGCAC
1 CAGGGGCAC
34886119 AGATGTACAA
Statistics
Matches: 159, Mismatches: 81, Indels: 14
0.63 0.32 0.06
Matches are distributed among these distances:
18 7 0.04
19 13 0.08
20 134 0.84
21 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (20 bp):
CAGGGGCACCGAAGTGCAAT
Found at i:34886040 original size:118 final size:120
Alignment explanation
Indices: 34885894--34886124 Score: 324
Period size: 118 Copynumber: 1.9 Consensus size: 120
34885884 TATGCAATCA
* * ** *
34885894 GGGGCACCGAAGTGCAAACAAGGGCACAGATGTGCATTCTGGGGTACCGAACTACAACCAGGGGC
1 GGGGCACCAAAGTACAAACAAGGGCACAGATGTGCATTCAAGGGTACCGAACTACAAACAGGGGC
*
34885959 ATAGATGTGCATTCAGGGGCACC-AAGTGCAAATA-GGGAACAGATGTGCATTCT
66 ATAGATGTGCATTCAGGGGCACCGAAGTACAAATAGGGGAACAGATGTGCATTCT
* * *
34886012 GGGGCACCAAAGTACAAA-AAGGGGCACAGATGTGCATTCAAGGGTACTGAAGTCCAAACAGGGG
1 GGGGCACCAAAGTACAAACAA-GGGCACAGATGTGCATTCAAGGGTACCGAACTACAAACAGGGG
* * *
34886076 CATAGATGTGTATTCAGGGGTACCGAAGTACAAATAGGGGCACAGATGT
65 CATAGATGTGCATTCAGGGGCACCGAAGTACAAATAGGGGAACAGATGT
34886125 ACAAACAGGG
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
117 2 0.02
118 75 0.77
119 10 0.10
120 11 0.11
ACGTcount: A:0.32, C:0.19, G:0.32, T:0.17
Consensus pattern (120 bp):
GGGGCACCAAAGTACAAACAAGGGCACAGATGTGCATTCAAGGGTACCGAACTACAAACAGGGGC
ATAGATGTGCATTCAGGGGCACCGAAGTACAAATAGGGGAACAGATGTGCATTCT
Found at i:34886134 original size:40 final size:40
Alignment explanation
Indices: 34885886--34886124 Score: 266
Period size: 40 Copynumber: 6.0 Consensus size: 40
34885876 AGCATGAATA
* * *
34885886 TGCAATCAGGGGCACCGAAGTGCAAACAAGGGCACAGATG
1 TGCATTCAGGGGCACCGAAGTACAAACAGGGGCACAGATG
* * * * *
34885926 TGCATTCTGGGGTACCGAACTACAACCAGGGGCATAGATG
1 TGCATTCAGGGGCACCGAAGTACAAACAGGGGCACAGATG
* * *
34885966 TGCATTCAGGGGCACC-AAGTGCAAATA-GGGAACAGATG
1 TGCATTCAGGGGCACCGAAGTACAAACAGGGGCACAGATG
* * *
34886004 TGCATTCTGGGGCACCAAAGTACAAAAAGGGGCACAGATG
1 TGCATTCAGGGGCACCGAAGTACAAACAGGGGCACAGATG
* * * * *
34886044 TGCATTCAAGGGTACTGAAGTCCAAACAGGGGCATAGATG
1 TGCATTCAGGGGCACCGAAGTACAAACAGGGGCACAGATG
* * *
34886084 TGTATTCAGGGGTACCGAAGTACAAATAGGGGCACAGATG
1 TGCATTCAGGGGCACCGAAGTACAAACAGGGGCACAGATG
34886124 T
1 T
34886125 ACAAACAGGG
Statistics
Matches: 163, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
38 24 0.15
39 16 0.10
40 123 0.75
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.17
Consensus pattern (40 bp):
TGCATTCAGGGGCACCGAAGTACAAACAGGGGCACAGATG
Found at i:34888585 original size:45 final size:44
Alignment explanation
Indices: 34888522--34888611 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 44
34888512 TAAAGCATCA
34888522 TAGGAAAAAACAAATTCTTTCTCGAATTTATATTGAGTCAACAT
1 TAGGAAAAAACAAATTCTTTCTCGAATTTATATTGAGTCAACAT
34888566 TAGGAAAAAAACAAATTCTTTCTCGAATTTATATTGAGTCAACAT
1 TAGG-AAAAAACAAATTCTTTCTCGAATTTATATTGAGTCAACAT
34888611 T
1 T
34888612 TGGGCTTCTG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 4 0.09
45 41 0.91
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (44 bp):
TAGGAAAAAACAAATTCTTTCTCGAATTTATATTGAGTCAACAT
Found at i:34894485 original size:24 final size:24
Alignment explanation
Indices: 34894452--34894525 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
34894442 AAGTCTGTCT
*
34894452 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
34894476 GGAGAGGATTTAGGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
34894500 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
34894524 GG
1 GG
34894526 TGAACTGTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:34895997 original size:27 final size:26
Alignment explanation
Indices: 34895957--34896068 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
34895947 AGGAAGCGTC
*
34895957 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
34895984 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
34896011 CTGGTGGTTCTGCCACGATTATTTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * * *
34896039 CTAGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
34896065 CTGG
1 CTGG
34896069 CAGCCATGTT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.09
27 49 0.70
28 15 0.21
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:34896061 original size:54 final size:54
Alignment explanation
Indices: 34895957--34896068 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
34895947 AGGAAGCGTC
* *
34895957 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * * * *
34896011 CTGGTGGTTCTGCCACGATTATTTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
34896065 CTGG
1 CTGG
34896069 CAGCCATGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:34902339 original size:24 final size:24
Alignment explanation
Indices: 34902306--34902379 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
34902296 AAGTCTGTCT
*
34902306 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
34902330 GGAGAGGATTTAAGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
34902354 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
34902378 GG
1 GG
34902380 TGAACTGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:34903905 original size:28 final size:27
Alignment explanation
Indices: 34903809--34903913 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
34903799 AGGAAGCGTC
* *
34903809 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGTCAC-ATTATCTGTAT
*
34903836 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGTCACAT-TATCTGTAT
*
34903863 CTGGTGGTTCTGTCACGATTATCTGTAT
1 CTGGTGGCTCTGTCAC-ATTATCTGTAT
* *
34903891 CTAGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGTCACATTATCT
34903914 ATTCTAGCAG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.03
27 50 0.74
28 16 0.24
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGTCACATTATCTGTAT
Found at i:34906681 original size:21 final size:21
Alignment explanation
Indices: 34906614--34906683 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 21
34906604 CTACACACAC
34906614 CAAAT-AGT-GGCACTGAAGTG
1 CAAATCAGTAGGCAC-GAAGTG
* *
34906634 CGAATCAGTAGGCACCATAGTG
1 CAAATCAGTAGGCACGA-AGTG
*
34906656 TAAATCAGTAGGCACGAAGTG
1 CAAATCAGTAGGCACGAAGTG
34906677 CAAATCA
1 CAAATCA
34906684 CATACGAGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
20 4 0.10
21 14 0.34
22 23 0.56
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (21 bp):
CAAATCAGTAGGCACGAAGTG
Found at i:34907351 original size:13 final size:14
Alignment explanation
Indices: 34907333--34907366 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
34907323 GCAGGGACAT
34907333 GCCCGTGTCCT-CA
1 GCCCGTGTCCTCCA
34907346 GCCCGTGTCCTCCA
1 GCCCGTGTCCTCCA
34907360 -CCCGTGT
1 GCCCGTGT
34907367 GTAATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 18 0.90
14 2 0.10
ACGTcount: A:0.06, C:0.47, G:0.24, T:0.24
Consensus pattern (14 bp):
GCCCGTGTCCTCCA
Found at i:34908523 original size:46 final size:48
Alignment explanation
Indices: 34908434--34908569 Score: 147
Period size: 46 Copynumber: 2.9 Consensus size: 48
34908424 ATGGAGTAAG
* *
34908434 ATGTCAATGCCATGTCCCAAACATGGTCTTACACTA--ACACATCTC-
1 ATGTCAATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCA
* *
34908479 GTAGTCAATG-CATGTCCCAGACAT-GTCTTACACTAGCGCTCATCTCA
1 AT-GTCAATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCA
* * * * *
34908526 ATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT
1 ATGTCAATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT
34908570 AATATGGCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
44 11 0.15
45 14 0.19
46 19 0.25
47 14 0.19
48 17 0.23
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (48 bp):
ATGTCAATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCA
Found at i:34908548 original size:47 final size:48
Alignment explanation
Indices: 34908486--34908609 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 48
34908476 CTCGTAGTCA
*
34908486 ATGCATGTCCCAGACATGTCTTACACTAGCGCTCATC-TCA-AT-GCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCGCTC-TCATAATATGGCCG
*
34908532 ATGCCATGTCCTAGACATGGTCTTACACT-G-GCTCTCATAATATGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCGCTCTCATAATATGGCCG
*
34908580 ATGCATGCCCCA-AGCATGTCTTACACTAGC
1 ATGCATGTCCCAGA-CATGTCTTACACTAGC
34908610 TCACAATAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
45 2 0.03
46 20 0.30
47 27 0.41
48 17 0.26
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCGCTCTCATAATATGGCCG
Found at i:34920131 original size:26 final size:26
Alignment explanation
Indices: 34920100--34920207 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
34920090 TGAAATGCCC
*
34920100 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
34920126 ATCATGGAAAATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
34920152 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
34920178 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34920204 ATCA
1 ATCA
34920208 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34920699 original size:43 final size:43
Alignment explanation
Indices: 34920644--34920823 Score: 243
Period size: 43 Copynumber: 4.2 Consensus size: 43
34920634 TGAAAAAATC
* * *
34920644 CCGCTATAGAACATGAACTTTAGCGGCGCTTTCCCCACAAACA
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAACG
* *
34920687 CTGCTAAAGAACATGACCTTTAGTGGCGCTTTCCCCACAAACG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAACG
* *
34920730 CCGCGAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAATCG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAACG
* * * * *
34920773 CCGCTAAAGAACATGACCTTTAGCAGTGCTTTTCCCAAAAATG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAACG
*
34920816 CCACTAAA
1 CCGCTAAA
34920824 TGTCATGAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
CCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAACG
Found at i:34921488 original size:23 final size:23
Alignment explanation
Indices: 34921439--34921552 Score: 126
Period size: 23 Copynumber: 5.0 Consensus size: 23
34921429 TGGCACATAA
34921439 ACTT-AATTT-CAGCAAC-TAAAC
1 ACTTCAATTTGCAGC-ACTTAAAC
* * *
34921460 AATTCAATTTGCAGTACTTAAAA
1 ACTTCAATTTGCAGCACTTAAAC
* * *
34921483 ACTTCAATTTACAACATTTAAAC
1 ACTTCAATTTGCAGCACTTAAAC
*
34921506 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTGCAGCACTTAAAC
*
34921529 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTGCAGCACTTAAAC
34921552 A
1 A
34921553 TCTCTGTTAG
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
21 3 0.04
22 7 0.09
23 67 0.87
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (23 bp):
ACTTCAATTTGCAGCACTTAAAC
Found at i:34926456 original size:23 final size:23
Alignment explanation
Indices: 34926415--34927395 Score: 560
Period size: 23 Copynumber: 42.9 Consensus size: 23
34926405 ATAAAACATC
*
34926415 TCAATTTCCAGCAAC-TAAACACT
1 TCAATTTACAGC-ACTTAAACACT
* * *
34926438 TCAATTTGCAGTACTTAAACAAT
1 TCAATTTACAGCACTTAAACACT
* * * *
34926461 TCAATTTGCGGTACTTAAAAACT
1 TCAATTTACAGCACTTAAACACT
* *
34926484 TCAATTTACAACATTTAAACACT
1 TCAATTTACAGCACTTAAACACT
* *
34926507 TCAATTTTCAGCACTTTAACACT
1 TCAATTTACAGCACTTAAACACT
** * *
34926530 TCAATTTGTAGCATTTTAACA-T
1 TCAATTTACAGCACTTAAACACT
* * * * * *
34926552 CTCAATTAACAACATTTATACTCC
1 -TCAATTTACAGCACTTAAACACT
*
34926576 TCAA-TTACAGCGA-TAAAACA-T
1 TCAATTTACAGC-ACTTAAACACT
*
34926597 CTCAATTTCCAGCAAC-TAAACACT
1 -TCAATTTACAGC-ACTTAAACACT
** *
34926621 TCAATTTGTAGTACTTAAACACT
1 TCAATTTACAGCACTTAAACACT
* *
34926644 TCAATTTACAACATTTAAACACT
1 TCAATTTACAGCACTTAAACACT
*
34926667 TCAATTTACAACA-TTCAAACACT
1 TCAATTTACAGCACTT-AAACACT
* *
34926690 TCAATTTGCAGCACTTTAACACT
1 TCAATTTACAGCACTTAAACACT
* *
34926713 TCAATTTGCAGCACTTTAACACT
1 TCAATTTACAGCACTTAAACACT
* *
34926736 TCAATTTATAGCACTTTAACA-T
1 TCAATTTACAGCACTTAAACACT
* * * * * *
34926758 CTCAATTAACAACATTTATACTCC
1 -TCAATTTACAGCACTTAAACACT
* *
34926782 TCAA-TTATAGCGA-TAAAACA-T
1 TCAATTTACAGC-ACTTAAACACT
*
34926803 CTCAATTTCCAGCAAC-TAAACACT
1 -TCAATTTACAGC-ACTTAAACACT
* * *
34926827 TCAATTTGCAGTACTTAAACAAT
1 TCAATTTACAGCACTTAAACACT
* * *
34926850 TCAATTTGCAGTACTTAAAAACT
1 TCAATTTACAGCACTTAAACACT
* *
34926873 TCAATTTACAACATTTAAACACT
1 TCAATTTACAGCACTTAAACACT
* *
34926896 TCAATTTGCAGCACTTTAACACT
1 TCAATTTACAGCACTTAAACACT
* * * *
34926919 TCAATTTGCAGTATTTTAACA-T
1 TCAATTTACAGCACTTAAACACT
* * * * * *
34926941 CTCAATTAACAACATTTATACTCC
1 -TCAATTTACAGCACTTAAACACT
*
34926965 TCAA-TTACAGCGA-TAAAACA-T
1 TCAATTTACAGC-ACTTAAACACT
** *
34926986 CTCAATTTATGGCATTTAAACACT
1 -TCAATTTACAGCACTTAAACACT
** *
34927010 TCAATTTATGGCA-TTTAACACT
1 TCAATTTACAGCACTTAAACACT
* * *
34927032 TTAATTTGCAGCACTTTAACACT
1 TCAATTTACAGCACTTAAACACT
* * *
34927055 TCAATTTGCTGCATTTAAACACT
1 TCAATTTACAGCACTTAAACACT
* * *
34927078 TCAATTTGCTGCACTTTAACA-T
1 TCAATTTACAGCACTTAAACACT
* * * * *
34927100 CTCAATTAACAACATTTATACACC
1 -TCAATTTACAGCACTTAAACACT
*
34927124 TCAA-TTACAGCGA-TAAAACA-T
1 TCAATTTACAGC-ACTTAAACACT
* *
34927145 CTCAATTTCCAGCAAC-TAAGCACT
1 -TCAATTTACAGC-ACTTAAACACT
* **
34927169 TCAATTTGCAATACTTAAACACT
1 TCAATTTACAGCACTTAAACACT
* *
34927192 TCAATTTACTA-CATTTAAGCACT
1 TCAATTTAC-AGCACTTAAACACT
* *
34927215 TTAATTTACAGCATTTAAACACT
1 TCAATTTACAGCACTTAAACACT
* *
34927238 TCAATTTGCAGCACTTTAACA-T
1 TCAATTTACAGCACTTAAACACT
* * * **
34927260 CTCAATTAACAACATTTATGCACCT
1 -TCAATTTACAGCACTTAAACA-CT
* * *
34927285 T-AA-TTACAACAATAAAACA-T
1 TCAATTTACAGCACTTAAACACT
*
34927305 CTCAATTTCCAGCAAC-TAAACACT
1 -TCAATTTACAGC-ACTTAAACACT
* * *
34927329 TCAATTTTCAGTATTTAAACACT
1 TCAATTTACAGCACTTAAACACT
*
34927352 TCAATTTACAGCATTTAAACACT
1 TCAATTTACAGCACTTAAACACT
*
34927375 TCAATTTACAGCATTTAAACA
1 TCAATTTACAGCACTTAAACA
34927396 GCAGCAACCA
Statistics
Matches: 748, Mismatches: 164, Indels: 92
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.00
21 1 0.00
22 100 0.13
23 635 0.85
24 10 0.01
25 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (23 bp):
TCAATTTACAGCACTTAAACACT
Found at i:34926675 original size:183 final size:183
Alignment explanation
Indices: 34926367--34927395 Score: 919
Period size: 183 Copynumber: 5.6 Consensus size: 183
34926357 ATTTTTCACA
34926367 ATCTCAATTAACAACATTTATACTCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTA
1 ATCTCAATTAACAACATTTATACTCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTA
* * * * * * *
34926432 AACACTTCAATTTGCAGTACTTAAACAATTCAATTTGCGGTACTTAAAAACTTCAATTTACAACA
66 AACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA
* * *
34926497 TTTAAACACTTCAATTTTCAGCACTTTAACACTTCAATTTGTAGCATTTTAAC
131 TTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAAC
34926550 ATCTCAATTAACAACATTTATACTCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTA
1 ATCTCAATTAACAACATTTATACTCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTA
* * *
34926615 AACACTTCAATTTGTAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACA
66 AACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA
*
34926680 TTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAAC
131 TTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAAC
* * * * * *
34926733 A-CTTCAATTTATAGCACTTTA-ACAT-CTCAATTAACAAC-ATTTATAC-TCCTCAATTAT--A
1 ATC-TCAATTAACAACA-TTTATAC-TCCTCAATT-ACAGCGA-TAAAACAT-CTCAATT-TCCA
* * * * * * *
34926791 GCGA-TAAA-ACATCTCAATTTCCAGCAAC-TAAACACTTCAATTTGCAGTACTTAAACAATTCA
59 GCAACTAAACAC-T-TCAATTTGCAG-TACTTAAACACTTCAATTTACAGCATTTAAACACTTCA
* * * * * *
34926853 ATTTGCAGTACTTAAAAACTTCAATTTACAACA-TTTAAACACTTCAATTTGCAGCACTTTAAC
121 ATTTACAGCATTTAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTGCAGCACTTTAAC
** ** * * * *
34926916 A-CTTCAATTTGCAGTATTT-TAACAT-CTCAATTAACAAC-ATTTATAC-TCCTCAA-TTACAG
1 ATC-TCAATTAACAACATTTAT-AC-TCCTCAATT-ACAGCGA-TAAAACAT-CTCAATTTCCAG
* *** * * ** *
34926975 CGA-TAAA-ACATCTCAATTTATGGCATTTAAACACTTCAATTTATGGCATTT-AACACTTTAAT
60 CAACTAAACAC-T-TCAATTTGCAGTACTTAAACACTTCAATTTACAGCATTTAAACACTTCAAT
* * *
34927037 TTGCAGCACTTT-AACACTTCAATTTGCTGCA-TTTAAACACTTCAATTTGCTGCACTTTAAC
123 TTACAGCA-TTTAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTGCAGCACTTTAAC
*
34927098 ATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTA
1 ATCTCAATTAACAACATTTATACTCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTA
* * * *
34927163 AGCACTTCAATTTGCAATACTTAAACACTTCAATTTACTA-CATTTAAGCACTTTAATTTACAGC
66 AACACTTCAATTTGCAGTACTTAAACACTTCAATTTAC-AGCATTTAAACACTTCAATTTACAGC
** * *
34927227 ATTTAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACA-TTTATGC
130 ATTTAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTGCAGCACTTTA-AC
* * * * * * * * *
34927281 ACCTTAATT-ACAACAATAAAACAT-CTCAATTTCCAGCAACT-AAACA-CTTCAATTTTCAGTA
1 ATCTCAATTAACAACATTTATAC-TCCTCAA-TTACAGCGA-TAAAACATC-TCAATTTCCAGCA
** * * *
34927342 TTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTAAACA
62 ACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAGCATTTAAACA
34927396 GCAGCAACCA
Statistics
Matches: 708, Mismatches: 102, Indels: 72
0.80 0.12 0.08
Matches are distributed among these distances:
181 16 0.02
182 160 0.23
183 503 0.71
184 28 0.04
185 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (183 bp):
ATCTCAATTAACAACATTTATACTCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTA
AACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA
TTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAAC
Found at i:34926970 original size:206 final size:206
Alignment explanation
Indices: 34926430--34926971 Score: 772
Period size: 206 Copynumber: 2.6 Consensus size: 206
34926420 TTCCAGCAAC
* *** * * *
34926430 TAAACACTTCAATTTGCAGTACTTAAACAA-TTCAATTTGCGGTACTTAAAAACTTCAATTTACA
1 TAAACACTTCAATTTGCAGTACTTAAA-AACTTCAATTTACAACATTTAAACACTTCAATTTGCA
* * *
34926494 ACA-TTTAAACACTTCAATTTTCAGCACTTTAACACTTCAATTTGTAGCATTT-TAACATCTCAA
65 GCACTTT-AACACTTCAATTTGCAGCACTTTAACACTTCAATTTATAGCATTTAT-ACATCTCAA
34926557 TTAACAACATTTATACTCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTT
128 TTAACAACATTTATACTCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTT
*
34926622 CAATTTGTAGTACT
193 CAATTTGCAGTACT
* ** * * *
34926636 TAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
34926701 CACTTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTATAGCACTTTA-ACATCTCAATT
66 CACTTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTATAGCA-TTTATACATCTCAATT
*
34926765 AACAACATTTATACTCCTCAATTATAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCA
130 AACAACATTTATACTCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCA
34926830 ATTTGCAGTACT
195 ATTTGCAGTACT
*
34926842 TAAACAATTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
* * * * *
34926907 CACTTTAACACTTCAATTTGCAGTATTTTAACA-TCTCAATTAACAACATTTATAC-TCCTCAAT
66 CACTTTAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTATAGCATTTATACAT-CTCAAT
34926970 TA
129 TA
34926972 CAGCGATAAA
Statistics
Matches: 299, Mismatches: 30, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
205 7 0.02
206 286 0.96
207 6 0.02
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (206 bp):
TAAACACTTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
CACTTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTATAGCATTTATACATCTCAATTA
ACAACATTTATACTCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAA
TTTGCAGTACT
Found at i:34927393 original size:160 final size:160
Alignment explanation
Indices: 34926683--34927395 Score: 779
Period size: 160 Copynumber: 4.5 Consensus size: 160
34926673 TACAACATTC
* * * *
34926683 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTATAG
1 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAGCA-TTTAAACACTTCAATTTACAG
** * * * * * *
34926747 CACTTT-AACA-TCTCAATTAACAACA-TTTATAC-TCCTCAATT-ATAGCGA-TAAAACATCTC
65 CA-TTTAAACACT-TCAATTTGCAGCACTTTA-ACAT-CTCAATTAACAAC-ATTTATACACCTC
* * * *
34926806 AATTTCCAGCAACT-AAACA-CTTCAATTTGCAG-TACTT
125 AA-TTACAGCGA-TAAAACATC-TCAATTTCCAGCAAC-T
* * * *
34926843 AAACAATTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGC
* * *
34926908 ACTTT-AACACTTCAATTTGCAGTATTTTAACATCTCAATTAACAACATTTATACTCCTCAATTA
66 A-TTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
*** **
34926972 CAGCGATAAAACATCTCAATTTATGGCATTT
130 CAGCGATAAAACATCTCAATTTCCAGCAACT
*** * * * * * *
34927003 AAACACTTCAATTTATGGCA-TTTAACACTTTAATTTGCAGCACTTT-AACACTTCAATTTGCTG
1 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAGCA-TTTAAACACTTCAATTTACAG
*
34927066 CATTTAAACACTTCAATTTGCTGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
65 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
34927131 CAGCGATAAAACATCTCAATTTCCAGCAACT
130 CAGCGATAAAACATCTCAATTTCCAGCAACT
* * * *
34927162 AAGCACTTCAATTTGCAATACTTAAACACTTCAATTTACTA-CATTTAAGCACTTTAATTTACAG
1 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTAC-AGCATTTAAACACTTCAATTTACAG
* *
34927226 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATGCACCTTAATTA
65 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
* *
34927291 CAACAATAAAACATCTCAATTTCCAGCAACT
130 CAGCGATAAAACATCTCAATTTCCAGCAACT
* *
34927322 AAACACTTCAATTTTCAGTATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGC
1 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGC
34927387 ATTTAAACA
66 ATTTAAACA
34927396 GCAGCAACCA
Statistics
Matches: 468, Mismatches: 70, Indels: 30
0.82 0.12 0.05
Matches are distributed among these distances:
158 3 0.01
159 138 0.29
160 307 0.66
161 20 0.04
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (160 bp):
AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGC
ATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTAC
AGCGATAAAACATCTCAATTTCCAGCAACT
Found at i:34928608 original size:10 final size:10
Alignment explanation
Indices: 34928593--34928626 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
34928583 TAATGTACAG
34928593 AACATTATTT
1 AACATTATTT
34928603 AACATTATTT
1 AACATTATTT
34928613 AACATTATTT
1 AACATTATTT
34928623 AACA
1 AACA
34928627 AAAGAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (10 bp):
AACATTATTT
Found at i:34930309 original size:3 final size:3
Alignment explanation
Indices: 34930303--34930349 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
34930293 TTTTTCTCTT
34930303 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34930350 TACTAAAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34930747 original size:7 final size:7
Alignment explanation
Indices: 34930733--34930798 Score: 55
Period size: 7 Copynumber: 9.4 Consensus size: 7
34930723 GGTTTTATGG
34930733 TTTA-GA
1 TTTAGGA
34930739 TTTAGGA
1 TTTAGGA
*
34930746 TTTAGGG
1 TTTAGGA
*
34930753 CTTAGGA
1 TTTAGGA
34930760 TTTAAGG-
1 TTT-AGGA
* *
34930767 TTTAAAGT
1 TTT-AGGA
*
34930775 TTTATGA
1 TTTAGGA
34930782 TTTAGGA
1 TTTAGGA
34930789 TTTAGGA
1 TTTAGGA
34930796 TTT
1 TTT
34930799 TGTATTTAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
6 4 0.08
7 39 0.80
8 6 0.12
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (7 bp):
TTTAGGA
Found at i:34931235 original size:40 final size:40
Alignment explanation
Indices: 34931144--34931275 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
34931134 AATGTTTTTT
* * *
34931144 GCGGCGTTTTTCAGAAAGCGCCGCTAATGCTTCAATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGC-TCGATCTATA
* *
34931185 GCTGCATTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
* * *
34931225 GCGGCGTTTTTTAAAAAGCGCTGCTAATACTCGATTTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
34931265 GCGGCGTTTTT
1 GCGGCGTTTTT
34931276 AATCCAAATG
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 55 0.68
41 26 0.32
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (40 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:34939284 original size:24 final size:23
Alignment explanation
Indices: 34939257--34939320 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
34939247 ACATTGTTTG
34939257 TGAACATGTTCAATTATATATTCA
1 TGAACATGTTCAATTA-ATATTCA
* * *
34939281 TGAACATGTTCATTTAATGTTCG
1 TGAACATGTTCAATTAATATTCA
* *
34939304 TAAACATGTTCGATTAA
1 TGAACATGTTCAATTAA
34939321 GTTAAATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 19 0.56
24 15 0.44
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (23 bp):
TGAACATGTTCAATTAATATTCA
Found at i:34941342 original size:24 final size:26
Alignment explanation
Indices: 34941315--34941376 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
34941305 TATTTCATTA
34941315 TATCCTACTATTT-TTTTAGT-TTTT
1 TATCCTACTATTTATTTTAGTATTTT
* *
34941339 TATCCTACCATTTATTTTATTATTTT
1 TATCCTACTATTTATTTTAGTATTTT
**
34941365 TATTATACTATT
1 TATCCTACTATT
34941377 ATCCATTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 12 0.39
25 6 0.19
26 13 0.42
ACGTcount: A:0.23, C:0.13, G:0.02, T:0.63
Consensus pattern (26 bp):
TATCCTACTATTTATTTTAGTATTTT
Found at i:34946129 original size:21 final size:21
Alignment explanation
Indices: 34946105--34946146 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
34946095 GGATCAAATA
*
34946105 CTGGAGTCCCAGAAAAACATG
1 CTGGAGTCACAGAAAAACATG
*
34946126 CTGGAGTCACAGAACAACATG
1 CTGGAGTCACAGAAAAACATG
34946147 ATGAGCCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (21 bp):
CTGGAGTCACAGAAAAACATG
Found at i:34953931 original size:43 final size:43
Alignment explanation
Indices: 34953879--34954328 Score: 178
Period size: 43 Copynumber: 10.2 Consensus size: 43
34953869 CAATCATCAG
34953879 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGA
* * * * * *
34953922 TATTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTA-GAGAA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAG-GCTAA--ATACCAG-A
* * *** * *
34953968 TCTTATC-TCTA-TGTACCAGCGA-TAGAGCAAATTCCAATCATCAG-
1 TCTTATCTTC-ACTG-AGCAG-GAGTGGAGCAGGCT-AAAT-ACCAGA
*
34954012 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAAA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGA
* ** *
34954055 TCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACT-TTTA-GAGAA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAG---G-CTAAATACCAG-A
* * ** * *
34954101 TCTTATC-TCTA-TGTA-CCGGCGATGGAGCAGATTCCAATCATCAG-
1 TCTTATCTTC-ACTG-AGCAGGAG-TGGAGCAGGCT-AAAT-ACCAGA
*
34954145 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAAA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGA
* * * ** *
34954188 TCTTATCTTTACTGAGTAGGAGTGAAGCAGATCGACT-TTTA-GAGAA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAG---G-CTAAATACCAG-A
* * ** * *
34954234 TCTTATC-TCTAC-GTACCGACGA-TGGAGCAGATTCCAATCATCAG-
1 TCTTATCTTC-ACTG-AGC-AGGAGTGGAGCAGGCT-AAAT-ACCAGA
*
34954278 CCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGA
34954321 TCTTATCT
1 TCTTATCT
34954329 CCACGTATCG
Statistics
Matches: 291, Mismatches: 70, Indels: 92
0.64 0.15 0.20
Matches are distributed among these distances:
42 12 0.04
43 105 0.36
44 62 0.21
45 36 0.12
46 67 0.23
47 9 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGA
Found at i:34954097 original size:133 final size:132
Alignment explanation
Indices: 34953856--34954328 Score: 829
Period size: 133 Copynumber: 3.6 Consensus size: 132
34953846 CCAATGGACA
*
34953856 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAG
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
* *
34953921 ATATTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTAGAGAATCTTATCTCTATGTACCA
66 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTATGTACC-
34953986 GCG
130 GCG
* *
34953989 ATAGAGCAAATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
34954054 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTATGTACCG
66 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTATGTACC-
34954119 GCG
130 GCG
34954122 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
* * *
34954187 ATCTTATCTTTACTGAGTAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTACGTACCG
66 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTATGTACCG
34954252 ACG
131 -CG
* *
34954255 ATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAG
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
34954320 ATCTTATCT
66 ATCTTATCT
34954329 CCACGTATCG
Statistics
Matches: 326, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
132 1 0.00
133 325 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (132 bp):
ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTATGTACCG
CG
Found at i:34954591 original size:45 final size:45
Alignment explanation
Indices: 34954491--34954743 Score: 359
Period size: 45 Copynumber: 5.7 Consensus size: 45
34954481 GTAGACCAGT
* *
34954491 TTATCTCCCTGAAGTTGCAGTGGAGCA-ACTAAAGATAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCAAGTC
* **
34954535 TTATCTCCCTGAAGTTACAGTGAAGCAGACTGAAGGCAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCAAGTC
* *
34954580 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCAAGTC
* **
34954625 TTATCTCCCTGAAGTT-AAGTGAAGCAGACTGAAGGCAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCAAGTC
* *
34954669 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCAAGTC
* *
34954714 TTATCTTCCTAAAGTTGCAG-GAAGCAGACT
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACT
34954744 AAAATTACAG
Statistics
Matches: 184, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
44 73 0.40
45 111 0.60
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCAAGTC
Found at i:34954647 original size:89 final size:89
Alignment explanation
Indices: 34954491--34954743 Score: 431
Period size: 89 Copynumber: 2.8 Consensus size: 89
34954481 GTAGACCAGT
34954491 TTATCTCCCTGAAGTTGCAGTGGAGCA-ACTAAAGATAGCAAGTCTTATCTCCCTGAAGTTACAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTCCCTGAAGTTA-AG
34954555 TGAAGCAGACTGAAGGCAGCAAGTC
65 TGAAGCAGACTGAAGGCAGCAAGTC
34954580 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTCCCTGAAGTTAAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTCCCTGAAGTTAAGT
34954645 GAAGCAGACTGAAGGCAGCAAGTC
66 GAAGCAGACTGAAGGCAGCAAGTC
* * *
34954669 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA-ATAGCAAGTCTTATCTTCCTAAAGTTGCA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAGATAGCAAGTCTTATCTCCCTGAAGTT-AA
34954733 G-GAAGCAGACT
64 GTGAAGCAGACT
34954744 AAAATTACAG
Statistics
Matches: 158, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
89 119 0.75
90 39 0.25
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (89 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTCCCTGAAGTTAAGT
GAAGCAGACTGAAGGCAGCAAGTC
Found at i:34954731 original size:134 final size:133
Alignment explanation
Indices: 34954491--34954746 Score: 370
Period size: 134 Copynumber: 1.9 Consensus size: 133
34954481 GTAGACCAGT
* * *
34954491 TTATCTCCCTGAAGTTGCAGTGGAGCAACTAAAGATAGCAAGTCTTATCTCCCTGAAGTTACAGT
1 TTATCTCCCTGAAGTTGAAGTGAAGCAACTAAAGACAGCAAGTCTTATCTCCCTGAAGTTACAGT
** * *
34954556 GAAGCAGACTGAAGGCAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCA
66 GAAGCAGACTGAAAACAGCAAGTCTTATCTCCCTAAAGTTGCAG-GAAGCAGACTAAAGATAGCA
34954621 AGTC
130 AGTC
* * *
34954625 TTATCTCCCTGAAGTT-AAGTGAAGCAGACTGAAGGCAGCAAGTCTTATCTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGAAGTGAAGCA-ACTAAAGACAGCAAGTCTTATCTCCCTGAAGTTACAG
* * *
34954689 TGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTAAA
65 TGAAGCAGACTGAAAACAGCAAGTCTTATCTCCCTAAAGTTGCAGGAAGCAGACTAAA
34954747 ATTACAGATC
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
133 20 0.19
134 88 0.81
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (133 bp):
TTATCTCCCTGAAGTTGAAGTGAAGCAACTAAAGACAGCAAGTCTTATCTCCCTGAAGTTACAGT
GAAGCAGACTGAAAACAGCAAGTCTTATCTCCCTAAAGTTGCAGGAAGCAGACTAAAGATAGCAA
GTC
Found at i:34954819 original size:87 final size:88
Alignment explanation
Indices: 34954710--34954883 Score: 273
Period size: 88 Copynumber: 2.0 Consensus size: 88
34954700 GAAAATAGCA
* *
34954710 AGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACT-AAAATTACAGATCTTATCTCCATGTACC-A
1 AGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATACCGA
34954773 GCTATGGAGCAGATCTCAGCTACT
66 -CTATGGAGCAGATCTCAGCTACT
*
34954797 AGTCTTATCTTCCTGAAA-TTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATATCG
1 AGTCTTATCTTCCT-AAAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATACCG
*
34954861 ACTATGGAGCAGCTCTCAGCTAC
65 ACTATGGAGCAGATCTCAGCTAC
34954884 CAACCTTATC
Statistics
Matches: 80, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
87 30 0.38
88 49 0.61
89 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (88 bp):
AGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATACCGA
CTATGGAGCAGATCTCAGCTACT
Found at i:34956222 original size:24 final size:26
Alignment explanation
Indices: 34956195--34956256 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
34956185 TATTTCATTA
34956195 TATCTTACTATTT-TTTTAGT-TTTT
1 TATCTTACTATTTATTTTAGTATTTT
* * *
34956219 TATCCTACCATTTATTTTATTATTTT
1 TATCTTACTATTTATTTTAGTATTTT
34956245 TAT-TATACTATT
1 TATCT-TACTATT
34956257 ATCCATTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 11 0.37
25 6 0.20
26 13 0.43
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.65
Consensus pattern (26 bp):
TATCTTACTATTTATTTTAGTATTTT
Found at i:34961017 original size:21 final size:21
Alignment explanation
Indices: 34960993--34961034 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
34960983 GGATCAAATA
*
34960993 CTGGAGTCCCAGAAAAACATG
1 CTGGAGTCACAGAAAAACATG
*
34961014 CTGGAGTCACAGAACAACATG
1 CTGGAGTCACAGAAAAACATG
34961035 ATGAGCCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (21 bp):
CTGGAGTCACAGAAAAACATG
Found at i:34968987 original size:133 final size:132
Alignment explanation
Indices: 34968746--34969218 Score: 820
Period size: 133 Copynumber: 3.6 Consensus size: 132
34968736 CCAATGGACA
*
34968746 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAG
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
* *
34968811 ATATTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTAGAGAATCTTATCTCTATGTACCA
66 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTATGTACC-
34968876 GCG
130 GCG
* *
34968879 ATAGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGAAGTGGAGCAGGCTAAATACCAA
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
*
34968944 ATCTTATCTTCACTGAGCAGAAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTATGTACCG
66 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTATGTACC-
34969009 GCG
130 GCG
34969012 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
* * *
34969077 ATCTTATCTTTACTGAGTAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTACGTACCG
66 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTATGTACCG
34969142 ACG
131 -CG
* *
34969145 ATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAG
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
34969210 ATCTTATCT
66 ATCTTATCT
34969219 CCACGTATCG
Statistics
Matches: 324, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
132 1 0.00
133 323 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (132 bp):
ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTATGTACCG
CG
Found at i:34969447 original size:45 final size:45
Alignment explanation
Indices: 34969381--34969638 Score: 376
Period size: 45 Copynumber: 5.8 Consensus size: 45
34969371 GTAGACTAGT
*
34969381 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGATAGCAAGTC
* * **
34969426 TTATCTCCCTGAAGTTACAGTGAAGCAGACTGAAGGCAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGATAGCAAGTC
*
34969471 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGATAGCAAGTC
* * **
34969516 TTATCTCCCTGAAGTTACAGTGAAGCAGACTGAAGGCAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGATAGCAAGTC
*
34969561 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA-ATAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACT-AAAGATAGCAAGTC
* *
34969606 TTATCTTCCTGAAGTTGCAG-GAAGTAGACTAAA
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAA
34969639 ATTACAGATC
Statistics
Matches: 189, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
43 3 0.02
44 8 0.04
45 176 0.93
46 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGATAGCAAGTC
Found at i:34969534 original size:90 final size:90
Alignment explanation
Indices: 34969381--34969635 Score: 460
Period size: 90 Copynumber: 2.8 Consensus size: 90
34969371 GTAGACTAGT
34969381 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTCCCTGAAGTTACAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTCCCTGAAGTTACAG
34969446 TGAAGCAGACTGAAGGCAGCAAGTC
66 TGAAGCAGACTGAAGGCAGCAAGTC
34969471 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTCCCTGAAGTTACAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTCCCTGAAGTTACAG
34969536 TGAAGCAGACTGAAGGCAGCAAGTC
66 TGAAGCAGACTGAAGGCAGCAAGTC
* *
34969561 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA-ATAGCAAGTCTTATCTTCCTGAAGTTGCA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAGATAGCAAGTCTTATCTCCCTGAAGTTACA
*
34969625 G-GAAGTAGACT
65 GTGAAGCAGACT
34969636 AAAATTACAG
Statistics
Matches: 161, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
89 9 0.06
90 149 0.93
91 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (90 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTCCCTGAAGTTACAG
TGAAGCAGACTGAAGGCAGCAAGTC
Found at i:34969711 original size:87 final size:88
Alignment explanation
Indices: 34969602--34969775 Score: 271
Period size: 88 Copynumber: 2.0 Consensus size: 88
34969592 GAAAATAGCA
* * * *
34969602 AGTCTTATCTTCCTGAAGTTGCAGGAAGTAGACT-AAAATTACAGATCTTATCTCCATGTACC-A
1 AGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATACCGA
34969665 GCTATGGAGCAGATCTCAGCTACT
66 -CTATGGAGCAGATCTCAGCTACT
*
34969689 AGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATATCGA
1 AGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATACCGA
*
34969754 CTATGGAGCAGCTCTCAGCTAC
66 CTATGGAGCAGATCTCAGCTAC
34969776 CAACCTTATC
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
87 32 0.41
88 46 0.58
89 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (88 bp):
AGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATACCGA
CTATGGAGCAGATCTCAGCTACT
Found at i:34971115 original size:24 final size:26
Alignment explanation
Indices: 34971088--34971149 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
34971078 TATTTCATTA
34971088 TATCTTACTATTT-TTTTAGT-TTTT
1 TATCTTACTATTTATTTTAGTATTTT
* * *
34971112 TATCCTACCATTTATTTTATTATTTT
1 TATCTTACTATTTATTTTAGTATTTT
34971138 TAT-TATACTATT
1 TATCT-TACTATT
34971150 ATCCATTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 11 0.37
25 6 0.20
26 13 0.43
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.65
Consensus pattern (26 bp):
TATCTTACTATTTATTTTAGTATTTT
Found at i:34978153 original size:4 final size:4
Alignment explanation
Indices: 34978144--34978177 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
34978134 TTTCTAAAAT
34978144 ATTA ATTA ATTA ATTA ATTA ATTA ATTCA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT-A ATTA A
34978178 ATTATTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:34981188 original size:2 final size:2
Alignment explanation
Indices: 34981181--34981219 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
34981171 AAGCTTTTAA
34981181 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34981220 ACTTAACTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34988024 original size:29 final size:30
Alignment explanation
Indices: 34987976--34988055 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
34987966 GTGGTGGTGG
34987976 AGCAAGTGTGGCTAGTGGAGTAGGTAGTGA
1 AGCAAGTGTGGCTAGTGGAGTAGGTAGTGA
* * *
34988006 AGCAAGTGT-GCTAGTGGAGTTGGTGGTGG
1 AGCAAGTGTGGCTAGTGGAGTAGGTAGTGA
* *
34988035 AGTAATTGTGGCTAGTGGAGT
1 AGCAAGTGTGGCTAGTGGAGT
34988056 TGGTGGTGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 24 0.55
30 20 0.45
ACGTcount: A:0.23, C:0.06, G:0.44, T:0.28
Consensus pattern (30 bp):
AGCAAGTGTGGCTAGTGGAGTAGGTAGTGA
Found at i:34988056 original size:30 final size:30
Alignment explanation
Indices: 34987967--34988064 Score: 144
Period size: 30 Copynumber: 3.3 Consensus size: 30
34987957 TAGGTACAAG
34987967 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
34987997 AGGTAGTGAAGCAAGTGT-GCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
34988026 TGGTGGTGGAGTAATTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
34988056 TGGTGGTGG
1 TGGTGGTGG
34988065 CAAAGGCTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
29 24 0.41
30 35 0.59
ACGTcount: A:0.18, C:0.05, G:0.48, T:0.29
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:34988904 original size:87 final size:88
Alignment explanation
Indices: 34988719--34989309 Score: 425
Period size: 87 Copynumber: 6.6 Consensus size: 88
34988709 GTGATCCTGA
** * * * * * *
34988719 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAACAGACATT-AAAAATAGAAA-TTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACATAAATTGAAAAACA-AAATTTG
* * * *
34988782 AACATAGCTCAGCACGTGAGCCAAG
64 AAAATACCTCAGCATGTGACCCAAG
* * * *
34988807 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-AAAACA-AAATTTGTAAAACAGATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAA-TTGAAAAACAAAATTTGA
* *
34988870 AAATACCTCGGTATGTGACCCAAG
65 AAATACCTCAGCATGTGACCCAAG
* * * *
34988894 GCTTAACTCACCTCTCGTAATATGAGTTGATTTTTGCAAAGCATAAATTGAAAAAAAAAATATCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACATAAATTG-AAAAACAAA-AT--
* **
34988959 ATTGAAAATACCTCGGCATGTGACCTGAG
61 -TTGAAAATACCTCAGCATGTGACCCAAG
* *
34988988 GCTCAGCTCACCTCTCGTAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAA-AAAA-TT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA-AAACATAAATTGAAAAACAAAATTT
* * ***
34989051 GAAAATGCCTCAGC--GTGTCTTGAG
63 GAAAATACCTCAGCATGTGACCCAAG
* *
34989075 GCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACA-AAATTTGAAAAACAGAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-G-AAAACATAAA-TTGAAAAACAAAAT
* **
34989139 TTGAAAATACCTCAGCGTGTGAGTCAAG
61 TTGAAAATACCTCAGCATGTGACCCAAG
* * * * * * *
34989167 GCTCAATTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAAAAATG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACATAAATTGAAAAACAAAATTT
* ***
34989232 GAAAACACCTCAGC--GT--CTTGAG
63 GAAAATACCTCAGCATGTGACCCAAG
* * *
34989254 GTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACATAAATTGAAAA
34989310 TACCTCAACG
Statistics
Matches: 422, Mismatches: 58, Indels: 47
0.80 0.11 0.09
Matches are distributed among these distances:
85 2 0.00
86 9 0.02
87 162 0.38
88 42 0.10
89 28 0.07
90 27 0.06
91 30 0.07
92 42 0.10
93 1 0.00
94 56 0.13
95 6 0.01
96 17 0.04
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (88 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAAAACAAAATTTGAA
AATACCTCAGCATGTGACCCAAG
Found at i:34989145 original size:13 final size:14
Alignment explanation
Indices: 34989113--34989145 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
34989103 GATTTTTTTG
34989113 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
34989127 GAAAAACAGAATTT
1 GAAAAACAAAATTT
34989141 GAAAA
1 GAAAA
34989146 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:34989203 original size:179 final size:180
Alignment explanation
Indices: 34988892--34989309 Score: 476
Period size: 179 Copynumber: 2.3 Consensus size: 180
34988882 ATGTGACCCA
* * * * *
34988892 AGGCTTAACTCACCTCTCGTAATATGAGTTGA--TTTTTGCAAAGCATAAATTGAAAAAAAAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAAAAAAT
* * * * * *
34988955 ATCAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAGCTCACCTCTCGTAATATGAGTTGATT
65 AT--ATTGAAAATACCTCAGCATGTGACCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATT
* * **
34989020 TTTTTGACAA-ACATAAATTGAA-AA-AAAAATTGAAAATGCCTCAGCGTGTCTTG
128 TTTTTGA-AACACAGAAATTGAAGAACAAAAATGGAAAACACCTCAGC--GTCTTG
* * *
34989073 AGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACA-AAATTTGAAAAACAGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-GAAAAACAGAAA-TTGAAAAAAAAA
* * *
34989137 -AT-TTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAATTCACCACTCGCAATATGAGCTGATT
64 TATATTGAAAATACCTCAGCATGTGACCT-AAGGCTCAACTCACCACTCGCAATATGAGCTGATT
34989199 TTTTTGAAACACAGAAATTGAAGAACAAAAATGGAAAACACCTCAGCGTCTTG
128 TTTTTGAAACACAGAAATTGAAGAACAAAAATGGAAAACACCTCAGCGTCTTG
* * *
34989252 AGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
34989310 TACCTCAACG
Statistics
Matches: 205, Mismatches: 23, Indels: 21
0.82 0.09 0.08
Matches are distributed among these distances:
178 17 0.08
179 112 0.55
180 2 0.01
181 48 0.23
182 2 0.01
183 15 0.07
184 9 0.04
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (180 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAAAAATA
TATTGAAAATACCTCAGCATGTGACCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTT
TTGAAACACAGAAATTGAAGAACAAAAATGGAAAACACCTCAGCGTCTTG
Found at i:34989661 original size:148 final size:146
Alignment explanation
Indices: 34989222--34989657 Score: 791
Period size: 148 Copynumber: 3.0 Consensus size: 146
34989212 GAAATTGAAG
* **
34989222 AACAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
34989287 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
34989352 GAGTTGATTTTTGACA
131 GAGTTGATTTTTGACA
34989368 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA--T
*
34989433 TTTTTTGAAAGAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
64 TTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
34989498 ATGAGTTGATTTTTGACA
129 ATGAGTTGATTTTTGACA
*
34989516 AGCAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
* *
34989581 TTTTGGAAGACAGAAATTGAAAATACCTCAACGTATCTTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
34989646 GAGTTGATTTTT
131 GAGTTGATTTTT
34989658 TTGAAACATA
Statistics
Matches: 280, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
146 136 0.49
148 144 0.51
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (146 bp):
AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGACA
Found at i:34989671 original size:146 final size:146
Alignment explanation
Indices: 34989222--34989671 Score: 760
Period size: 146 Copynumber: 3.1 Consensus size: 146
34989212 GAAATTGAAG
* **
34989222 AACAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
34989287 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
***
34989352 GAGTTGATTTTTGACA
131 GAGTTGATTTTTTTGA
34989368 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA--T
*
34989433 TTTTTTGAAAGAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
64 TTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
34989498 ATGAGTTGA--TTTTTGA
129 ATGAGTTGATTTTTTTGA
34989514 CAAGCAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 -AA-CAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
* *
34989579 TTTTTTGGAAGACAGAAATTGAAAATACCTCAACGTATCTTGAGGCTCAACTCACCTCTCGCAAT
64 TTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
34989644 ATGAGTTGATTTTTTTGA
129 ATGAGTTGATTTTTTTGA
*
34989662 AACATAAATT
1 AACAAAAATT
34989672 AAGAAAACGA
Statistics
Matches: 287, Mismatches: 11, Indels: 12
0.93 0.04 0.04
Matches are distributed among these distances:
146 142 0.49
147 4 0.01
148 141 0.49
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (146 bp):
AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTTGA
Found at i:34989893 original size:73 final size:73
Alignment explanation
Indices: 34989770--34990011 Score: 358
Period size: 73 Copynumber: 3.3 Consensus size: 73
34989760 AAGGCAAAAA
* *
34989770 TTGAAAAACAGAAATTGAAAACACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
34989835 GTTGATTT
66 GTTGATTT
* * *
34989843 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
34989908 GTTGATTT
66 GTTGATTT
* * * * *
34989916 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
34989981 GTTGATTTT
66 GTTGA-TTT
* *
34989990 TTGAAAAGCATAAATTGAAAAA
1 TTGAAAAACAGAAATT-AAAAA
34990012 ACGGAATTTG
Statistics
Matches: 152, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
73 130 0.86
74 19 0.12
75 3 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (73 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:34990081 original size:164 final size:161
Alignment explanation
Indices: 34989843--34990749 Score: 908
Period size: 164 Copynumber: 5.5 Consensus size: 161
34989833 GAGTTGATTT
* * * *
34989843 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGA
*
34989908 GTTGA-TTTTTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
66 GTTGATTTTTTGAAAAGCAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
34989972 GCAATATGAGTTGATTTTTTGAAAAGCATAAA
131 GCAATATGAGTTGATTTTTTGAAAA-CAGAAA
* * * * * *
34990004 TTGAAAAAACGGAATTTGAAAAGACCTCGGCGTATGGCCCGAGACTCAACTCACCTTTCGCAATA
1 TTG-AAAAACAGAAATTGAAAATACCTCAGCG--TGGCCCGAGGCTCAACTCACCTCTCGCAATA
* * *
34990069 CGAGTTGATTTTTTGACAA-CAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCT
63 TGAGTTGATTTTTTGAAAAGCAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
*
34990133 CTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAA
128 CTCGCAATATGAGTTGATT-TTTTGAAAA-CAGAAA
* * ** * *
34990169 TTGAAAAGCAGAAATTGAAAATACCTCGGCACGTGATCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAG--CGTGGCCCGAGGCTCAACTCACCTCTCGCAATAT
* *
34990234 GAGTTAGA-TTTTTGAAAAATAAATTGACAAACGGAAATTGAAAATACCTCAGC--GTCTTGAGG
64 GAGTT-GATTTTTTG----A-AAA--G-C--A--GAAATTGAAATTACCTCAGCGTGTCCTGAGG
* ******
34990296 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTT---TATTTTTT
116 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAA
* * * * **
34990339 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGA
* * * * *
34990404 GTTGATTTTTTTGAAAAACAGAAATTAAAATTACCTCAGCATGTCCTGAGGCTCAATTCACTTCT
66 GTTGA-TTTTTTGAAAAGCAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* * * *
34990469 TGCAATATGAGTTGATTCTTTAAAAACAGACA
130 CGCAATATGAGTTGATTTTTTGAAAACAGAAA
* * * *
34990501 TT--AAAATAGAAATT-AAACATAGCTCAGCACGTGAG-CCAAGGCTCAACTCACTTCTCGCAAT
1 TTGAAAAACAGAAATTGAAA-ATACCTCAG--CGTG-GCCCGAGGCTCAACTCACCTCTCGCAAT
* * * * *
34990562 ATGAATTGATTTTTTAAAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
62 ATGAGTTGATTTTTTGAAAAG-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC
*
34990627 CTCCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAT
126 CT-CTCGCAATATGAGTTGATTTTTTGAAAACAGAAA
** *
34990663 TTGAAAAACAGATTTTGAAAATACCTCAGCGT-GCCCGAGGCTCAACTTACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGA
*
34990727 GTAGATTTTTTTGAAAA-CAGAAA
66 GTTGA-TTTTTTGAAAAGCAGAAA
34990750 AAAAACATCA
Statistics
Matches: 612, Mismatches: 95, Indels: 79
0.78 0.12 0.10
Matches are distributed among these distances:
157 18 0.03
159 43 0.07
160 24 0.04
161 44 0.07
162 126 0.21
163 16 0.03
164 174 0.28
165 32 0.05
166 2 0.00
167 2 0.00
168 34 0.06
169 8 0.01
170 25 0.04
171 1 0.00
173 1 0.00
174 4 0.01
175 40 0.07
177 18 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (161 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTGAAAAGCAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTTGAAAACAGAAA
Found at i:34990136 original size:237 final size:235
Alignment explanation
Indices: 34989682--34990669 Score: 937
Period size: 237 Copynumber: 4.0 Consensus size: 235
34989672 AAGAAAACGA
34989682 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAA
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT---
* * * * *
34989747 AAGCAGAATTTGTAAGGCAAAAATTGAAAAACAGAAATTGAAAACACCTCAGCGTGCCCTGAGGC
63 --------TTTGAAAAGCATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGCCC-GAGGC
* * **
34989812 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAATACCTCGGCGTG
119 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTG
* * * *
34989876 CCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCAT
184 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAG
*
34989927 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * * *
34989992 GAAAAGCATAAATTGAAAAAACGGAATTTGAAAAGACCTCGGCGTATGGCCCGAGACTCAACTCA
66 GAAAAGCATAAATTG-AAAAACGGAAATTGAAAATACCTCAGCG--T-GCCCGAGGCTCAACTCA
* * * * **
34990057 CCTTTCGCAATACGAGTTGATTTTTTGACA-ACAGAAATTGAAATTACCTCAGTGTGTCCTGAGG
127 CCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGG
34990121 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAAGCAG
192 CTCAACTCACCTCTCGCAATATGAGTTGA----TTT------T-----TTGAAAAGCAG
* * *
34990180 AAATTGAAAATACCTCGGCACGTGATCC-AAGGCTCAACTCACCTCTTGCAATATGAGTTAGA-T
1 AAATTGAAAATACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-GATT
* **
34990243 TTTTGAAAA--ATAAATTGACAAACGGAAATTGAAAATACCTCAGCGT-CTTGAGGCTCAACTCA
62 TTTTGAAAAGCATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCA
*
34990305 CCTCTCGCAATATGAGTTGATTTTTTTATTTTTTTTTAAAGACAGAAATTGAAAATACCTCAACG
127 CCTCTCGCAATATGAGTTG--------A--TTTTTTGAAAGACAGAAATTGAAAATACCTCAACG
* *
34990370 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAG
182 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAGCAG
* * * * *
34990425 AAATT-AAAATTACCTCAGCATGTCCTGAGGCTCAATTCACTTCTTGCAATATGAGTTGATTCTT
1 AAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * * *
34990489 T-AAAAACAGACATT-AAAATA--GAAATT-AAACATAGCTCAGCACGTGAGCCAAGGCTCAACT
65 TGAAAAGCATAAATTGAAAA-ACGGAAATTGAAA-ATACCTCAG--CGTG-CCCGAGGCTCAACT
* * * *
34990549 CACTTCTCGCAATATGAATTGATTTTTTAAAAAGACAGAAATTGAAAATACCTCAACGTGTCTTG
125 CACCTCTCGCAATATGAGTTGATTTTTT-GAAAGACAGAAATTGAAAATACCTCAACGTGTCCTG
34990614 AGGCTCAACTCACCTCCTCGCAATATGAGTTGA-TTTTTGAAAA-CAG
189 AGGCTCAACTCACCT-CTCGCAATATGAGTTGATTTTTTGAAAAGCAG
*
34990660 AATTTGAAAA
1 AAATTGAAAA
34990670 ACAGATTTTG
Statistics
Matches: 635, Mismatches: 58, Indels: 109
0.79 0.07 0.14
Matches are distributed among these distances:
234 15 0.02
235 31 0.05
236 20 0.03
237 137 0.22
238 30 0.05
241 3 0.00
242 25 0.04
243 38 0.06
244 13 0.02
245 83 0.13
246 29 0.05
248 31 0.05
250 2 0.00
252 24 0.04
253 34 0.05
255 43 0.07
256 10 0.02
258 8 0.01
259 59 0.09
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (235 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAAGCATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAG
Found at i:34990174 original size:14 final size:14
Alignment explanation
Indices: 34990155--34990189 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
34990145 GTTGATTCTT
*
34990155 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
34990169 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
34990183 TTGAAAA
1 TTGAAAA
34990190 TACCTCGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:34990317 original size:84 final size:81
Alignment explanation
Indices: 34990081--34990736 Score: 380
Period size: 84 Copynumber: 7.9 Consensus size: 81
34990071 AGTTGATTTT
* * * *
34990081 TTGACAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCA--GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
34990146 TTGATTCTTTTGAAAAGTAGAAA
64 TTGA-T-TTTT-AAAA--AGAAA
* * ** *
34990169 TTGAAAAGCAGAAATTGAAAATACCTCGGCACGTGATCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAA-CAGAAATTGAAAATACCTCAG--CGT-CT-TGAGGCTCAACTCACCTCTCGCAATAT
*
34990234 GAGTTAGATTTTTGAAAAATAAA
61 GAGTT-GATTTTT-AAAAAGAAA
*
34990257 TTGACAAACGGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
** ******
34990322 TGATTTTTTTATTTTTT
65 TGATTTTTAAAAAGAAA
* *
34990339 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
34990404 GTTGATTTTT---------
63 GTTGATTTTTAAAAAGAAA
** * * * * *
34990414 TTGAAAAACAGAAATTAAAAT-TACCTCAGCATGTCCTGAGGCTCAATTCACTTCTTGCAATATG
1 TTG-AAAACAGAAA-TTGAAAATACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
34990478 AGTTGATTCTTTAAAAACAGACA
62 AGTTGATT-TTT-AAAA-AGAAA
* * ** *
34990501 TT-AAAATAGAAATT-AAACATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACTTCTCGCAATA
1 TTGAAAACAGAAATTGAAA-ATACCTCAG--CGT---CTTGAGGCTCAACTCACCTCTCGCAATA
* *
34990563 TGAATTGATTTTTTAAAAAGACA
60 TGAGTTGA-TTTTTAAAAAGAAA
** * ** ** *
34990586 --G-AAATTGAAAAT--ACCT-CAAC-GTGTCTTGAGGCTCAACTCACCTCCTCGCAATATGAGT
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCT-CTCGCAATATGAGT
*
34990644 TGATTTTTGAAAACAGAAT
65 TGATTTTT-AAAA-AGAAA
** ** *
34990663 TTGAAAAACAGATTTTGAAAATACCTCAGCGTGCCCGAGGCTCAACTTACCTCTCGCAATATGAG
1 TTG-AAAACAGAAATTGAAAATACCTCAGCGT-CTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
34990728 TAGATTTTT
64 TTGATTTTT
34990737 TTGAAAACAG
Statistics
Matches: 448, Mismatches: 72, Indels: 99
0.72 0.12 0.16
Matches are distributed among these distances:
73 1 0.00
74 2 0.00
75 70 0.16
76 29 0.06
77 5 0.01
79 2 0.00
80 1 0.00
81 9 0.02
82 25 0.06
83 21 0.05
84 76 0.17
85 48 0.11
86 23 0.05
87 36 0.08
88 36 0.08
89 23 0.05
90 9 0.02
91 30 0.07
92 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (81 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTAAAAAGAAA
Found at i:34990457 original size:75 final size:74
Alignment explanation
Indices: 34990335--34990651 Score: 257
Period size: 75 Copynumber: 4.1 Consensus size: 74
34990325 TTTTTTTATT
* * *
34990335 TTTTTTTAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
1 TTTTTTTAAAAACAGAAATT-AAAATTACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAA
34990399 TATGAGTTGA
65 TATGAGTTGA
* * * *
34990409 TTTTTTTGAAAAACAGAAATTAAAATTACCTCAGCATGTCCTGAGGCTCAATTCACTTCTTGCAA
1 TTTTTTT-AAAAACAGAAATTAAAATTACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAA
34990474 TATGAGTTGA
65 TATGAGTTGA
* * * ** *
34990484 -TTCTTTAAAAACAGACATTAAAATAGAAATTAAACATAGCTCAGCACGTGA-GC-CAAGGCTCA
1 TTTTTTTAAAAACAGAAATTAAAAT--TACCTCAACAT-G-T---C-C-TGAGGCTCAA--CTC-
*
34990546 ACTCACTTCTCGCAATATGAATTGA
54 A--C-C-TCTCGCAATATGAGTTGA
* * *
34990571 TTTTTTAAAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCCTCGC
1 TTTTTTTAAAA-ACAGAAATT-AAAATTACCTCAACATGTCCTGAGGCTCAACTCACCT-CTCGC
34990635 AATATGAGTTGA
63 AATATGAGTTGA
34990647 TTTTT
1 TTTTT
34990652 GAAAACAGAA
Statistics
Matches: 191, Mismatches: 28, Indels: 46
0.72 0.11 0.17
Matches are distributed among these distances:
73 17 0.09
74 16 0.08
75 62 0.32
76 23 0.12
77 2 0.01
79 1 0.01
80 10 0.05
81 5 0.03
82 9 0.05
83 1 0.01
85 2 0.01
86 1 0.01
87 22 0.12
88 8 0.04
89 8 0.04
90 4 0.02
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (74 bp):
TTTTTTTAAAAACAGAAATTAAAATTACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGA
Found at i:34990672 original size:14 final size:14
Alignment explanation
Indices: 34990649--34990683 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
34990639 TGAGTTGATT
34990649 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
34990662 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
34990676 TTTGAAAA
1 TTTGAAAA
34990684 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:34990738 original size:87 final size:87
Alignment explanation
Indices: 34990590--34990748 Score: 241
Period size: 87 Copynumber: 1.8 Consensus size: 87
34990580 AAGACAGAAA
** *
34990590 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCCTCGCAATATGAGTTGATTTTTGAA
1 TTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCCTCGCAATATGAGTAGATTTTTGAA
34990655 AACAGAATTTGAAAAACAGATT
66 AACAGAATTTGAAAAACAGATT
* *
34990677 TTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTTACCT-CTCGCAATATGAGTAGATTTTTTTG
1 TTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCCTCGCAATATGAGTAGA--TTTTTG
34990740 AAAACAGAA
64 AAAACAGAA
34990749 AAAAAACATC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
85 16 0.25
86 16 0.25
87 33 0.51
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (87 bp):
TTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCCTCGCAATATGAGTAGATTTTTGAA
AACAGAATTTGAAAAACAGATT
Found at i:34997461 original size:37 final size:34
Alignment explanation
Indices: 34997395--34997462 Score: 84
Period size: 37 Copynumber: 1.9 Consensus size: 34
34997385 ATAGTGATGT
*
34997395 GAATAATATAAAATATTAAAATATCAAAATATTA
1 GAATAATATAAAATATTAAAATATAAAAATATTA
34997429 GAATAATAATAATTAATATTGAAAATA-AAAAATA
1 GAATAAT-ATAA--AATATT-AAAATATAAAAATA
34997463 AAATAGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 7 0.24
35 4 0.14
37 12 0.41
38 6 0.21
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (34 bp):
GAATAATATAAAATATTAAAATATAAAAATATTA
Found at i:34997462 original size:16 final size:17
Alignment explanation
Indices: 34997394--34997462 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 17
34997384 AATAGTGATG
*
34997394 TGAATAATATAAAATAT
1 TGAATAATAAAAAATAT
*
34997411 T-AA-AATATCAAAATAT
1 TGAATAATA-AAAAATAT
34997427 TAGAATAATAATAATTAATAT
1 T-GAATAATAA-AA--AATAT
34997448 TGAA-AATAAAAAATA
1 TGAATAATAAAAAATA
34997463 AAATAGAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
15 4 0.09
16 14 0.33
17 1 0.02
18 4 0.09
19 11 0.26
20 3 0.07
21 6 0.14
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (17 bp):
TGAATAATAAAAAATAT
Found at i:34997609 original size:20 final size:20
Alignment explanation
Indices: 34997552--34997611 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
34997542 AATACTACAT
34997552 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
34997571 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
34997594 AAATATGTACATAATATA
1 AAATATGTACATAATATA
34997612 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:34997696 original size:14 final size:14
Alignment explanation
Indices: 34997664--34997725 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 14
34997654 AGATAACATG
34997664 TAAAATATATATATA
1 TAAAA-ATATATATA
34997679 TAAAAATATAGTAT-
1 TAAAAATATA-TATA
* *
34997693 TAAAGATATATACA
1 TAAAAATATATATA
34997707 TAAAATAGTATAATATA
1 TAAAA-A-TAT-ATATA
34997724 TA
1 TA
34997726 TATATACGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.05
14 18 0.47
15 9 0.24
16 3 0.08
17 6 0.16
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (14 bp):
TAAAAATATATATA
Found at i:34997726 original size:25 final size:25
Alignment explanation
Indices: 34997596--34997729 Score: 74
Period size: 25 Copynumber: 5.3 Consensus size: 25
34997586 AATATTAAAA
* * * * *
34997596 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAAAATAGTATAATAT
* * * *
34997621 ATACATACATAATATAATTAAAATAT
1 ATATATACATAAAAT-AGTATAATAT
* * * *
34997647 ATACATAAGATAACAT-GTAAAATAT
1 ATATAT-ACATAAAATAGTATAATAT
* * *
34997672 ATATATATAAAAATATAGTATTAA-AG
1 ATATATACATAAA-ATAGTA-TAATAT
34997698 ATATATACATAAAATAGTATAATAT
1 ATATATACATAAAATAGTATAATAT
34997723 ATATATA
1 ATATATA
34997730 TACGTAATAT
Statistics
Matches: 84, Mismatches: 19, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
24 7 0.08
25 42 0.50
26 26 0.31
27 9 0.11
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
ATATATACATAAAATAGTATAATAT
Found at i:34997728 original size:27 final size:27
Alignment explanation
Indices: 34997642--34997741 Score: 77
Period size: 25 Copynumber: 3.9 Consensus size: 27
34997632 ATATAATTAA
* * * *
34997642 AATATATACATA-AGATAACAT-GTAA
1 AATATATATATATACATAAAATAGTAT
34997667 AATATATATATATA-A-AAATATAGTAT
1 AATATATATATATACATAAA-ATAGTAT
* *
34997693 --TAAAGATATATACATAAAATAGTAT
1 AATATATATATATACATAAAATAGTAT
* *
34997718 AATATATATATATACGTAATATAG
1 AATATATATATATACATAAAATAG
34997742 AATTTAGAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
24 12 0.20
25 22 0.37
26 7 0.12
27 18 0.31
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (27 bp):
AATATATATATATACATAAAATAGTAT
Found at i:34997804 original size:23 final size:25
Alignment explanation
Indices: 34997761--34997806 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34997751 TATACCTAAT
34997761 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
34997786 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
34997807 ACAAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:34998305 original size:18 final size:18
Alignment explanation
Indices: 34998282--34998335 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
34998272 ACAAGTGGTG
34998282 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
34998300 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
34998312 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
34998330 GTGGAG
1 GTGGAG
34998336 TTTGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:34998318 original size:30 final size:30
Alignment explanation
Indices: 34998277--34998375 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
34998267 TAGGTACAAG
34998277 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
34998307 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
34998337 TTGTGGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
34998367 TGGTGGTGG
1 TGGTGGTGG
34998376 CAAAGGATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.18, C:0.06, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:34999399 original size:92 final size:90
Alignment explanation
Indices: 34999056--34999597 Score: 450
Period size: 87 Copynumber: 6.0 Consensus size: 90
34999046 ACTAGACATT
* * * * *
34999056 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGA
1 AAAAAAAGAAATTGAAAATACCTCA--ACGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGA
34999120 GTTGA--TTTTT-A-AAACA-AAATTTG
64 GTTGATTTTTTTGACAAACATAAA-TTG
* * ** **** * * *
34999143 TAAAACAGATTTTGAAAATACCTCGGTATGTAACCCGAGGCTCAACTCACCTCTCGTAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAACGTGT-GCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
34999208 TTG--GTTTTTG-CAAAGTATAAATTA
65 TTGATTTTTTTGACAAA-CATAAATTG
* **
34999232 AAAAAAAAATCAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAAAAGA--AATTGAAAATACCTCAACGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATG
34999297 AGTTGATTTTTTTGACAAACATAAATTG
63 AGTTGATTTTTTTGACAAACATAAATTG
* * *
34999325 AAAAAAAATAAATTGAAAATACCTCAACGTGT-CCTGATGCTGAACTCACCTCTCGCAATATGAG
1 -AAAAAAAGAAATTGAAAATACCTCAACGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
34999389 TTGATTTTTTTGGAAAAACA-AAATTTG
65 TTGATTTTTTT-GACAAACATAAA-TTG
* * * ** * *
34999416 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAACGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAG
* *
34999481 CTGATTTTTTTGA-AACACAGAAATTG
65 TTGATTTTTTTGACAA-ACATAAATTG
* * * * * * * *
34999507 AAGAACAGAAATAGAAAACACCTC-A-GCGT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 AAAAAAAGAAATTGAAAATACCTCAACGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
34999569 TGATTTTTTTGA-AAGACAGAAATTG
66 TGATTTTTTTGACAA-ACATAAATTG
34999594 AAAA
1 AAAA
34999598 TACCTCAACG
Statistics
Matches: 377, Mismatches: 58, Indels: 40
0.79 0.12 0.08
Matches are distributed among these distances:
85 2 0.01
86 2 0.01
87 108 0.29
88 4 0.01
89 12 0.03
90 76 0.20
91 90 0.24
92 58 0.15
93 13 0.03
94 12 0.03
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (90 bp):
AAAAAAAGAAATTGAAAATACCTCAACGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGACAAACATAAATTG
Found at i:34999433 original size:13 final size:14
Alignment explanation
Indices: 34999401--34999433 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
34999391 GATTTTTTTG
34999401 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
34999415 GAAAAACAGAATTT
1 GAAAAACAAAATTT
34999429 GAAAA
1 GAAAA
34999434 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:34999577 original size:87 final size:86
Alignment explanation
Indices: 34999093--34999597 Score: 403
Period size: 91 Copynumber: 5.7 Consensus size: 86
34999083 ACGTGAGCCA
* * * **
34999093 AGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTT-AAAACA-AAATTTGTAAAACAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAAA-TTGAAAAACAGAAA
* * **
34999154 TTGAAAATACCTCGGTATGTAACCCG
65 TTGAAAATACCTCAG--CGT--CTTG
* * * ** * * * *
34999180 AGGCTCAACTCACCTCTCGTAATATGAGTTG--GTTTTTGCAAAGTATAAATTAAAAAAAAAATC
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAAACAGAAATTGAAAAACAGA--
* *
34999243 AATTGAAAATACCTCGGCGTGTGACCTG
63 AATTGAAAATACCTCAGC--GT--CTTG
* * * *
34999271 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAAAAATAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAACAGAAATTG-AAAAACAGAA
* *
34999336 ATTGAAAATACCTCAACGTGTCCTG
64 ATTGAAAATACCTC-A-GCGTCTTG
* * *
34999361 ATGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACA-AAATTTGAAAAACAGA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT-G-AAAACAGAAA-TTGAAAAACAGA
* * *
34999425 ATTTGAAAATACCTCAGCGTGTGAGTCA
63 AATTGAAAATACCTCAGCGTCT---T-G
* *
34999453 AGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ACAGAAATTGAAAAACAGAAA
* *
34999518 TAGAAAACACCTCAGCGTCTTG
65 TTGAAAATACCTCAGCGTCTTG
*
34999540 AGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ACAGAAATTGAAAA
34999598 TACCTCAACG
Statistics
Matches: 351, Mismatches: 44, Indels: 46
0.80 0.10 0.10
Matches are distributed among these distances:
87 88 0.25
88 4 0.01
89 13 0.04
90 71 0.20
91 94 0.27
92 57 0.16
93 15 0.04
94 9 0.03
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAAATTGAAAAACAGAAAT
TGAAAATACCTCAGCGTCTTG
Found at i:34999639 original size:75 final size:74
Alignment explanation
Indices: 34999504--34999893 Score: 499
Period size: 73 Copynumber: 5.3 Consensus size: 74
34999494 AACACAGAAA
* * * *
34999504 TTGAAGAACAGAAATAGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
34999567 GCTGATTTTT
65 GTTGATTTTT
* *
34999577 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGTAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
34999642 GTTGA--TTT
65 GTTGATTTTT
* * * *
34999650 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
34999713 GCTGATTTTT
65 GTTGATTTTT
*
34999723 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCGCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
34999788 GTTGA--TTT
65 GTTGATTTTT
* * * * * *
34999796 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
34999861 GTTGATTTTT
65 GTTGATTTTT
34999871 TTGAAAAACAGAAATTGAAAATA
1 TTG-AAAACAGAAATTGAAAATA
34999894 GAAATGAAAG
Statistics
Matches: 275, Mismatches: 29, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
71 35 0.13
72 4 0.01
73 136 0.49
74 6 0.02
75 93 0.34
76 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:34999790 original size:146 final size:146
Alignment explanation
Indices: 34999526--34999893 Score: 639
Period size: 146 Copynumber: 2.5 Consensus size: 146
34999516 AATAGAAAAC
34999526 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
* * *
34999591 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGTAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCGCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
34999656 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
34999672 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
34999737 TTGAAAATACCTCAACGTGTCTTGAGGCGCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCGCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
34999802 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
* * * *
34999818 ACCTCAGCGTGTCCTGAGGCTT-AACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAG
1 ACCTCAGC--GTCTTGAGG-TTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAG
34999882 AAATTGAAAATA
63 AAATTGAAAATA
34999894 GAAATGAAAG
Statistics
Matches: 212, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
146 151 0.71
148 59 0.28
149 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (146 bp):
ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
TTGAAAATACCTCAACGTGTCTTGAGGCGCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
AACAAAAATTGAAATT
Found at i:34999930 original size:86 final size:87
Alignment explanation
Indices: 34999818--34999977 Score: 243
Period size: 86 Copynumber: 1.8 Consensus size: 87
34999808 AATTGAAATT
34999818 ACCTCAGCGTGTCCTGAGGCTTAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGCG-GTCCTGAGGCTTAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGA
*
34999883 AATTGAAAATAGAAATGAAAGAC
65 AATTAAAAATAGAAATGAAAGAC
* * * *
34999906 ACCTCAGC-GTCTTGAGG-TTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACACATA
1 ACCTCAGCGGTCCTGAGGCTT-AACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGA
34999969 AATTAAAAA
65 AATTAAAAA
34999978 AATTAAAAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
85 2 0.03
86 56 0.85
88 8 0.12
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (87 bp):
ACCTCAGCGGTCCTGAGGCTTAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAA
ATTAAAAATAGAAATGAAAGAC
Found at i:35000188 original size:77 final size:76
Alignment explanation
Indices: 35000025--35000358 Score: 459
Period size: 77 Copynumber: 4.5 Consensus size: 76
35000015 CCCGAGACTA
* * *
35000025 AACTCACCTCTCGCAATATGAGTTGATTCTTTTG-AAAAGCAGAAATTGAAAATACCTCAGCATG
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAAATACCTCAGCGTG
**
35000089 TCCCGAGGCTC
66 TCTTGAGGCTC
* * *
35000100 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAAAATATCTCAGCGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAAAACAGAAATTGAAAATACCTCAGCGT
35000165 GTCTTGAGGCTC
65 GTCTTGAGGCTC
* * *
35000177 AACTCACCTCTCGCAATATGAGTTGA--TTTTTG-ACAAACAAAAATTGAAATTACCTCAGC--G
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAAATACCTCAGCGTG
*
35000237 TCTTGAGGTTC
66 TCTTGAGGCTC
* * *
35000248 AACTCACCTCTCGCAATAT-AGCTGATTTTTTTG-AAAGACAGAAATTGAAAATACCTCAACGTG
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAAATACCTCAGCGTG
35000311 TCTTGAGGCTC
66 TCTTGAGGCTC
*
35000322 AACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
35000359 CATAAATTAA
Statistics
Matches: 227, Mismatches: 24, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
70 5 0.02
71 30 0.13
72 28 0.12
73 21 0.09
74 29 0.13
75 52 0.23
76 2 0.01
77 60 0.26
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (76 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAAATACCTCAGCGTG
TCTTGAGGCTC
Found at i:35000366 original size:145 final size:148
Alignment explanation
Indices: 35000025--35000371 Score: 475
Period size: 145 Copynumber: 2.3 Consensus size: 148
35000015 CCCGAGACTA
* *
35000025 AACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAA-CAAAAATTGAAAATACCTCAGCA-GT
* * *
35000090 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAAAAT
63 CCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAAAACAGAAATTGAAAAT
* *
35000155 ATCTCAGCGTGTCTTGAGGCTC
127 ACCTCAACGTGTCTTGAGGCTC
*** * **
35000177 AACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC-GTCTT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAAAATTGAAAATACCTCAGCAGTCCC
* *
35000241 GAGGTTCAACTCACCTCTCGCAATAT-AGCTGATTTTTTTG-AAAGACAGAAATTGAAAATACCT
66 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAAACAGAAATTGAAAATACCT
35000304 CAACGTGTCTTGAGGCTC
131 CAACGTGTCTTGAGGCTC
* * *
35000322 AACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTAAAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAAAATTGAAAA
35000372 AACGAAAATT
Statistics
Matches: 173, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
145 79 0.46
147 13 0.08
148 28 0.16
150 20 0.12
151 3 0.02
152 30 0.17
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (148 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAAAATTGAAAATACCTCAGCAGTCCC
GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAAACAGAAATTGAAAATACCT
CAACGTGTCTTGAGGCTC
Found at i:35000534 original size:99 final size:98
Alignment explanation
Indices: 35000369--35000584 Score: 310
Period size: 99 Copynumber: 2.2 Consensus size: 98
35000359 CATAAATTAA
* *
35000369 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTATCCTAGGCTCAACTCACCTCTCGCAATATGAATT
* * * *
35000433 GA-TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 GATTTTGAAAAACAGAAATT-AAAAGCAAAAATTG
35000467 AAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTATCCT-AGGCTCAACTCACCTCTCGCAATATGAATT
*
35000532 GATTTTTGAAAAACAGAAATTAAAAGCAGAAATTG
65 GA-TTTTGAAAAACAGAAATTAAAAGCAAAAATTG
*
35000567 AAAAGCAGAAATTGAAAA
1 AAAAACAGAAATTGAAAA
35000585 ACAGAAATTA
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
98 31 0.29
99 32 0.30
100 28 0.26
101 15 0.14
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (98 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTATCCTAGGCTCAACTCACCTCTCGCAATATGAATTG
ATTTTGAAAAACAGAAATTAAAAGCAAAAATTG
Found at i:35000572 original size:14 final size:14
Alignment explanation
Indices: 35000537--35000598 Score: 92
Period size: 14 Copynumber: 4.6 Consensus size: 14
35000527 GAATTGATTT
35000537 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
35000551 TT-AAAAGCAGAAA
1 TTGAAAAACAGAAA
*
35000564 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
35000578 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
35000592 TT-AAAAA
1 TTGAAAAA
35000599 TACCTCGGCG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
13 17 0.38
14 28 0.62
ACGTcount: A:0.63, C:0.06, G:0.15, T:0.16
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:35000575 original size:27 final size:28
Alignment explanation
Indices: 35000537--35000598 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
35000527 GAATTGATTT
*
35000537 TTGAAAAACAGAAATT-AAAAGCAGAAA
1 TTGAAAAACAGAAATTGAAAAACAGAAA
*
35000564 TTGAAAAGCAGAAATTGAAAAACAGAAA
1 TTGAAAAACAGAAATTGAAAAACAGAAA
35000592 TT-AAAAA
1 TTGAAAAA
35000599 TACCTCGGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.63, C:0.06, G:0.15, T:0.16
Consensus pattern (28 bp):
TTGAAAAACAGAAATTGAAAAACAGAAA
Found at i:35000639 original size:114 final size:114
Alignment explanation
Indices: 35000439--35000666 Score: 330
Period size: 114 Copynumber: 2.0 Consensus size: 114
35000429 AGTTGATTTG
* * * * * *
35000439 AAAAGCAGAATTTGTAAGGCAAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAG
1 AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCGTACCCCGAG
*
35000504 GCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATT
66 GCTCAACTCACCTCTCACAATATGAATTGATTTTTGAAAAACAGAAATT
* * *
35000553 AAAAGCAGAAATTGAAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAG
1 AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCGTACCCCGAG
* * * *
35000618 GCTCAGCTCACCTCTCACAATATGAGTTGATTTTTGAAAAGCATAAATT
66 GCTCAACTCACCTCTCACAATATGAATTGATTTTTGAAAAACAGAAATT
35000667 GAAATTACCT
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 100 1.00
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.23
Consensus pattern (114 bp):
AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCGTACCCCGAG
GCTCAACTCACCTCTCACAATATGAATTGATTTTTGAAAAACAGAAATT
Found at i:35000701 original size:73 final size:73
Alignment explanation
Indices: 35000578--35000744 Score: 237
Period size: 73 Copynumber: 2.3 Consensus size: 73
35000568 AAAGCAGAAA
* * * * *
35000578 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCACAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATG-
35000643 GTTGA-TTT
65 GTTGATTTT
* * * *
35000651 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGG
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGG
35000716 TTGATTTT
66 TTGATTTT
35000724 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
35000745 AAAAGGAAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
72 5 0.06
73 78 0.94
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (73 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGG
TTGATTTT
Found at i:35008721 original size:30 final size:30
Alignment explanation
Indices: 35008631--35008729 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
35008621 TAGGTACAAG
35008631 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* **
35008661 AGGTAATGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
35008691 TGGTGGTAGAGCAATTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
35008721 TGGTGGTGG
1 TGGTGGTGG
35008730 CAAAAGCTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.19, C:0.06, G:0.47, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:35013996 original size:40 final size:40
Alignment explanation
Indices: 35013951--35014117 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
35013941 CGGAATATAA
35013951 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
35013991 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
35014031 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
35014071 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
35014110 CCGGATAT
1 CCGGATAT
35014118 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:35022025 original size:40 final size:40
Alignment explanation
Indices: 35021980--35022147 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
35021970 CGGAATATAA
35021980 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
35022020 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
35022060 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
35022100 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
35022140 CCGGATAT
1 CCGGATAT
35022148 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:35024660 original size:15 final size:15
Alignment explanation
Indices: 35024640--35024684 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
35024630 GTTGCTAAAT
*
35024640 ATAATAGTAATAGTA
1 ATAATAATAATAGTA
35024655 ATAATAATAATAGTAA
1 ATAATAATAATAGT-A
35024671 ATATGATAATAATA
1 ATA--ATAATAATA
35024685 ATGTTATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 13 0.50
16 4 0.15
18 9 0.35
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (15 bp):
ATAATAATAATAGTA
Found at i:35025368 original size:12 final size:12
Alignment explanation
Indices: 35025351--35025388 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
35025341 GTAAACAAAG
*
35025351 AAGAAAAAAGTA
1 AAGAAAAAAGAA
35025363 AAG-AAAAAGAA
1 AAGAAAAAAGAA
35025374 AAGAAAAAAAGAA
1 AAG-AAAAAAGAA
35025387 AA
1 AA
35025389 CCGATTCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 3 0.13
13 10 0.43
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:35036495 original size:21 final size:20
Alignment explanation
Indices: 35036454--35036503 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
35036444 ATGTGTTATA
35036454 AAAATAAACATATTATGAAATT
1 AAAATAAA-ATATTATGAAA-T
* *
35036476 AAAATAAAATTTTATTAAAT
1 AAAATAAAATATTATGAAAT
35036496 -AAATAAAA
1 AAAATAAAA
35036504 AGCATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 1 0.04
21 9 0.35
22 8 0.31
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATAAAATATTATGAAAT
Found at i:35036675 original size:31 final size:29
Alignment explanation
Indices: 35036605--35036683 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
35036595 AGTTAGTGTG
*
35036605 ATTT-TATTTTGGTCACTCAAGTTTAAAA
1 ATTTATATTTTAGTCACTCAAGTTTAAAA
* *
35036633 ATTTTTATTTTAGTCACT-AATGTTGTCAAA
1 ATTTATATTTTAGTCACTCAA-GTT-TAAAA
*
35036663 ATTTAATATTTTAGACACTCA
1 ATTT-ATATTTTAGTCACTCA
35036684 TCCTTTAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 6 0.14
29 15 0.36
30 8 0.19
31 12 0.29
32 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (29 bp):
ATTTATATTTTAGTCACTCAAGTTTAAAA
Found at i:35037530 original size:15 final size:16
Alignment explanation
Indices: 35037501--35037540 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
35037491 TATTTTTGAG
35037501 ATTTA-AAAATATATT
1 ATTTATAAAATATATT
35037516 ATTTATAAAAT-TATT
1 ATTTATAAAATATATT
*
35037531 ATTTTTAAAA
1 ATTTATAAAA
35037541 ATAAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTATAAAATATATT
Found at i:35043616 original size:16 final size:18
Alignment explanation
Indices: 35043586--35043621 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
35043576 TATCTTATTA
35043586 TTATTATTTTCTTTCTAT
1 TTATTATTTTCTTTCTAT
35043604 TTATT-TTTT-TTTCTAT
1 TTATTATTTTCTTTCTAT
35043620 TT
1 TT
35043622 TCGAATTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 4 0.22
18 5 0.28
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTATTTTCTTTCTAT
Found at i:35043680 original size:10 final size:10
Alignment explanation
Indices: 35043661--35043694 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
35043651 TATTATAAAC
35043661 ATAT-AAAAA
1 ATATAAAAAA
35043670 ATATAAAAAA
1 ATATAAAAAA
35043680 ATATAAAAAA
1 ATATAAAAAA
35043690 ATATA
1 ATATA
35043695 CCTTTCGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
ATATAAAAAA
Found at i:35044288 original size:9 final size:9
Alignment explanation
Indices: 35044276--35044365 Score: 58
Period size: 9 Copynumber: 10.0 Consensus size: 9
35044266 TTTTCTTTAT
35044276 TTAATATTA
1 TTAATATTA
35044285 TTAA-ATTA
1 TTAATATTA
* *
35044293 TCT-CTAATA
1 T-TAATATTA
* *
35044302 TTAATCTAA
1 TTAATATTA
* *
35044311 TCACTATTA
1 TTAATATTA
*
35044320 TTATTATTA
1 TTAATATTA
*
35044329 TTATTATTA
1 TTAATATTA
*
35044338 TTATTATTA
1 TTAATATTA
*
35044347 TTATTATTA
1 TTAATATTA
35044356 TTATATATTA
1 TTA-ATATTA
35044366 GTGTATATTT
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
8 6 0.09
9 53 0.83
10 5 0.08
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (9 bp):
TTAATATTA
Found at i:35044723 original size:3 final size:3
Alignment explanation
Indices: 35044315--35044706 Score: 220
Period size: 3 Copynumber: 130.7 Consensus size: 3
35044305 ATCTAATCAC
35044315 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
35044364 TAGT GTA- TAT T-T T-T TAT TAT ATAT GTAT AAG TA- TAT ATAT T-T
1 TA-T -TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT
* * * * * *
35044406 ATACA TAG TAT TAT TTT TAAT TAC T-T TAT T-T TAA TAT TTT TAT TA-
1 -TA-T TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
35044451 TAT TA- TAT TAGCT T-T T-T GTAT T-T CAA TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA--T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
35044495 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
35044543 TAT TAT TAT TGT ATAT TTT TAT ATAT GTA- TAT GTA- TAT GTA- TAT
1 TAT TAT TAT TAT -TAT TAT TAT -TAT -TAT TAT -TAT TAT -TAT TAT
* * * *
35044587 ATAT T-T ATACA TAG TAT TAT T-T T-T TAAT TAC T-T TAT T-T TAA TAT
1 -TAT TAT -TA-T TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * *
35044631 TTT TAT TA- TATT TACT T-T T-T GTAT T-T CAA TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
35044675 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
35044707 GTGTATATGT
Statistics
Matches: 308, Mismatches: 40, Indels: 82
0.72 0.09 0.19
Matches are distributed among these distances:
2 40 0.13
3 223 0.72
4 41 0.13
5 4 0.01
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:35044842 original size:147 final size:146
Alignment explanation
Indices: 35044513--35044788 Score: 358
Period size: 147 Copynumber: 1.9 Consensus size: 146
35044503 TTATTATTGT
* * * * **
35044513 TATTATTATTATTATTATTATTATTATTATTATTATTATTGTATATTTTTATATATGTATATGTA
1 TATTATCATTACTATTACTATTATTATTATTATTATTATTAT-TATTAGTATATATGTATATGTA
* *
35044578 TATGTATATATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATT
65 TATATATATATATTTATACATAGTACTATTTTTTAATTACTTTATTTTAATATTTTTATTATATT
35044643 TACTTTTTGTATTTCAA
130 TACTTTTTGTATTTCAA
* * * * *
35044660 TATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTAGTGTATATGTTTAT-TAT
1 TATTATCATTACTATTACTATTATTATTATTATTATTATTATTATTAGTATATATGTATATGTAT
* * * *
35044724 ATATATATGTATATTTATATATAGTACTA-TTTTTAGTTACTTTATTTTAACATTATTATTATAT
66 ATATATA--TATATTTATACATAGTACTATTTTTTAATTACTTTATTTTAATATTTTTATTATAT
35044788 T
129 T
35044789 ATATTTGCTT
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
145 9 0.08
146 48 0.41
147 59 0.51
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (146 bp):
TATTATCATTACTATTACTATTATTATTATTATTATTATTATTATTAGTATATATGTATATGTAT
ATATATATATATTTATACATAGTACTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTT
ACTTTTTGTATTTCAA
Found at i:35052581 original size:10 final size:10
Alignment explanation
Indices: 35052560--35052590 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
35052550 AACCCTAAAT
35052560 TTTTCTTTTCC
1 TTTTC-TTTCC
35052571 TTTTCTTTCC
1 TTTTCTTTCC
35052581 TTTTCTTTCC
1 TTTTCTTTCC
35052591 CTGCTATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.75
11 5 0.25
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTCTTTCC
Found at i:35052646 original size:9 final size:9
Alignment explanation
Indices: 35052604--35052650 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
35052594 CTATTTCGTG
*
35052604 TCTTTTGTT
1 TCTTTTATT
35052613 CTCTTTTATT
1 -TCTTTTATT
35052623 TCTTTCT-TT
1 TCTTT-TATT
35052632 TCTTTTATT
1 TCTTTTATT
*
35052641 TGTTTTATT
1 TCTTTTATT
35052650 T
1 T
35052651 AATTACTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
8 1 0.03
9 23 0.70
10 9 0.27
ACGTcount: A:0.06, C:0.13, G:0.04, T:0.77
Consensus pattern (9 bp):
TCTTTTATT
Found at i:35056444 original size:46 final size:46
Alignment explanation
Indices: 35056388--35056556 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
35056378 TGGTTGAGCA
*
35056388 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATCTTTGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATCTTTGGATGCAAACG
* * *
35056434 TCCGAACTCGTTGAGTTGAGTCCGAG-T--TC-GTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATCTTTG-GATGCAA--A--CG
*
35056481 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-CTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATCTT-TGGATGCAAACG
* *
35056527 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCA
35056557 CTTAGGGGCG
Statistics
Matches: 102, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 8 0.08
45 4 0.04
46 52 0.51
47 26 0.25
48 2 0.02
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATCTTTGGATGCAAACG
Found at i:35056503 original size:47 final size:45
Alignment explanation
Indices: 35056385--35056509 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 45
35056375 GGATGGTTGA
* *
35056385 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATCTTTGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAG-T--TCTGTGGATGCAAAG
*
35056433 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCTGTG-GATGCAA--AG
35056478 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
35056510 ACTTATGGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.03
43 8 0.12
45 3 0.04
46 26 0.38
47 29 0.42
48 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (45 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCTGTGGATGCAAAG
Found at i:35056544 original size:93 final size:93
Alignment explanation
Indices: 35056385--35056555 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
35056375 GGATGGTTGA
*
35056385 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATCTTTGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATCTTTGGATGCAAACGTCCGAACTCGTTGAGT
35056450 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
35056478 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-CTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATCTT-TGGATGCAAACGTCC-GAACTCGTTGA
*
35056541 GTTGAGTCTGAGTTC
64 GTTGAGTCCGAGTTC
35056556 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 5 0.07
93 67 0.93
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATCTTTGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35075730 original size:15 final size:15
Alignment explanation
Indices: 35075697--35075751 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
35075687 GGTATCGTGA
*
35075697 TTGGATTTTCTTGT-T
1 TTGGA-TTTCTTATAT
35075712 TTGGATTTCTT-TAT
1 TTGGATTTCTTATAT
35075726 GTTGGATTT-TTATAT
1 -TTGGATTTCTTATAT
35075741 TCTGGATTTCT
1 T-TGGATTTCT
35075752 CCATTATGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.03
14 10 0.29
15 23 0.66
16 1 0.03
ACGTcount: A:0.13, C:0.07, G:0.18, T:0.62
Consensus pattern (15 bp):
TTGGATTTCTTATAT
Found at i:35078351 original size:47 final size:46
Alignment explanation
Indices: 35078297--35078420 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 46
35078287 TGTATGTTCT
* *
35078297 AGTGTAAGAAATGTCTAGGACATGCATCGGCCACATT-ATGA-A-ATGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTGA-GACAGA-GCC
35078344 AGTGTAAGACATGTCTGGGACATGCATCGG-CATTGAGACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGAC-AGAGCC
35078390 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
35078421 TACGAGATGT
Statistics
Matches: 70, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
44 6 0.09
45 1 0.01
46 34 0.49
47 29 0.41
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGACAGAGCC
Found at i:35078507 original size:50 final size:48
Alignment explanation
Indices: 35078344--35078566 Score: 162
Period size: 46 Copynumber: 4.7 Consensus size: 48
35078334 ATGAAATGCC
** * *
35078344 AGTGTAAGACATGTCTGGGACAT-GCATCGGCATTGA-GACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCACGGATGTCGAGAGCT
**
35078390 AGTGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGT-GTTAG-T
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC-ACG-GATGTCGAGAGCT
**
35078437 A--G-AAGACCATGTCTAAGACATGGCATCGGCACGGATGTGCGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCACGGATGT-CGAGAGCT
* * ** * *
35078484 AGTGTAAGAGCATGTCTGGGACATGGCGTCAGC-CTCAATTTTC-ATAGTCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCAC-GGA-TGTCGAGAG-CT
35078534 -GTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
35078567 TTATACCCTA
Statistics
Matches: 140, Mismatches: 22, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
44 9 0.06
45 16 0.11
46 42 0.30
47 4 0.03
48 5 0.04
49 35 0.25
50 27 0.19
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCACGGATGTCGAGAGCT
Found at i:35088523 original size:22 final size:21
Alignment explanation
Indices: 35088495--35088536 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
35088485 AGACCAAACT
*
35088495 AATAAGAAGATAAAGAAAAATA
1 AATAAGAAGACAAA-AAAAATA
*
35088517 AATAAGAGGACAAAAAAAAT
1 AATAAGAAGACAAAAAAAAT
35088537 TATAAACTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (21 bp):
AATAAGAAGACAAAAAAAATA
Found at i:35090732 original size:3 final size:3
Alignment explanation
Indices: 35090656--35090717 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
35090646 TATTTATCGA
* * *
35090656 TAT TAT TAT TAT TAT TAT TA- TATT TAC TAC TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
*
35090701 TAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
35090718 CCGTATATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.92
4 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:35090784 original size:27 final size:25
Alignment explanation
Indices: 35090754--35090854 Score: 74
Period size: 23 Copynumber: 4.2 Consensus size: 25
35090744 TATACACTCT
35090754 TTATATATAGTATTATTTTTAATATTA
1 TTATAT-TA-TATTATTTTTAATATTA
*
35090781 TTAT-TTAT-TTATTTTTAACA-TA
1 TTATATTATATTATTTTTAATATTA
35090803 -TATATGTATA-TATTTATGTAATATTA
1 TTATAT-TATATTATTT-T-TAATATTA
* *
35090829 TTA-A-TA-ATTGTTTTTAACATTA
1 TTATATTATATTATTTTTAATATTA
35090851 TTAT
1 TTAT
35090855 TATTTCTTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
21 3 0.05
22 13 0.21
23 21 0.34
24 8 0.13
25 6 0.10
26 4 0.07
27 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
TTATATTATATTATTTTTAATATTA
Found at i:35090828 original size:48 final size:45
Alignment explanation
Indices: 35090755--35090848 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 45
35090745 ATACACTCTT
* *
35090755 TATATATAGTATTATTTTTAATATTATTATTTATTTATTTTTAACA
1 TATATATAGTATTATTTTTAATATTATTA-ATAATTATTTTTAACA
*
35090801 TATATAT-GTATATATTTATGTAATATTATTAATAATTGTTTTTAACA
1 TATATATAGTAT-TATTT-T-TAATATTATTAATAATTATTTTTAACA
35090848 T
1 T
35090849 TATTATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 4 0.10
46 12 0.29
47 15 0.36
48 11 0.26
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (45 bp):
TATATATAGTATTATTTTTAATATTATTAATAATTATTTTTAACA
Found at i:35090999 original size:23 final size:23
Alignment explanation
Indices: 35090967--35091022 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
35090957 TCATATGTAT
35090967 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTACATACTTTTA
** *
35090989 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTACATACTTTTA
35091012 ATA-TA-TATGTA
1 ATATTATTATGTA
35091023 TACATTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 7 0.23
23 17 0.57
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTACATACTTTTA
Found at i:35091019 original size:51 final size:51
Alignment explanation
Indices: 35090964--35091232 Score: 149
Period size: 51 Copynumber: 5.1 Consensus size: 51
35090954 ATATCATATG
*
35090964 TATATATTTTATGTACATACTTTTAATA-TTATTATGTATTTATTTTTAATA
1 TATATATTTTATGTACATA-TTTTAATACTTATTATGTATATATTTTTAATA
* * * * * *
35091015 TATATGTATACATTTAGGTA-GTATTATTAATAGTCATTCT-T-T-TATTTCTAATA
1 TATA--TAT---TTTATGTACATATT-TTAATACTTATTATGTATATATTTTTAATA
* * * **
35091068 TGTATATATATTATGTAAATATTTTAATACTATATTATTTATATATTTTTCTTA
1 --TATATATTTTATGTACATATTTTAATACT-TATTATGTATATATTTTTAATA
* * * *
35091122 CATATTATCTTATGTATATATTTTTAATAACTATATTATGTATGTATTTTTAATA
1 TATA-TATTTTATGTACATA-TTTTAAT-ACT-TATTATGTATATATTTTTAATA
* * * *
35091177 -CTATA--TTACGTACATACTTTTAATATCATTATTATGTATAAATTTTCAATA
1 TATATATTTTATGTACATA-TTTTAATA-C-TTATTATGTATATATTTTTAATA
35091228 TATAT
1 TATAT
35091233 GTGTATATTT
Statistics
Matches: 169, Mismatches: 29, Indels: 39
0.71 0.12 0.16
Matches are distributed among these distances:
50 14 0.08
51 48 0.28
52 8 0.05
53 32 0.19
54 20 0.12
55 35 0.21
56 12 0.07
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (51 bp):
TATATATTTTATGTACATATTTTAATACTTATTATGTATATATTTTTAATA
Found at i:35091029 original size:21 final size:23
Alignment explanation
Indices: 35090967--35091029 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
35090957 TCATATGTAT
* * *
35090967 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTATACATTTTTA
**
35090989 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTATACATTTTTA
35091012 ATA-TA-TATGTATACATTT
1 ATATTATTATGTATACATTT
35091030 AGGTAGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 11 0.31
22 7 0.20
23 17 0.49
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTATACATTTTTA
Found at i:35091179 original size:25 final size:25
Alignment explanation
Indices: 35091074--35091369 Score: 150
Period size: 26 Copynumber: 11.7 Consensus size: 25
35091064 AATATGTATA
*
35091074 TATATTATGTAAATA-TTTTAATAC
1 TATATTATGTATATATTTTTAATAC
* *
35091098 TATATTATTTATATATTTTTCTTACATAT
1 TATATTATGTATATA--TTT-TTA-ATAC
*
35091127 TATCTTATGTATATATTTTTAATAAC
1 TATATTATGTATATATTTTTAAT-AC
*
35091153 TATATTATGTATGTATTTTTAATAC
1 TATATTATGTATATATTTTTAATAC
* * *
35091178 TATATTACGTACATACTTTTAATA-
1 TATATTATGTATATATTTTTAATAC
* *
35091202 TCATTATTATGTATAAATTTTCAATA-
1 T-A-TATTATGTATATATTTTTAATAC
* * *
35091228 TATA-TGTGTATAT-TTATGTAATAG
1 TATATTATGTATATATT-TTTAATAC
* * * *
35091252 T-TATT-TTTA-ATATTATTATTTC
1 TATATTATGTATATATTTTTAATAC
**
35091274 TA-A-TATGTATATATTATGTATAAATTTT
1 TATATTATGTATATATT-T-T-T-AA-TAC
* * * *
35091302 TAATACTATGTATATACATTTTATTCC
1 T-ATATTATGTATATA-TTTTTAATAC
35091329 TATTATTATGTATATA-TTTTAATAC
1 TA-TATTATGTATATATTTTTAATAC
35091354 -ATA-TATGTATATATTT
1 TATATTATGTATATATTT
35091370 ATATATCGTT
Statistics
Matches: 208, Mismatches: 38, Indels: 53
0.70 0.13 0.18
Matches are distributed among these distances:
21 1 0.00
22 22 0.11
23 28 0.13
24 19 0.09
25 34 0.16
26 45 0.22
27 20 0.10
28 7 0.03
29 18 0.09
30 2 0.01
31 11 0.05
32 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (25 bp):
TATATTATGTATATATTTTTAATAC
Found at i:35095277 original size:22 final size:22
Alignment explanation
Indices: 35095252--35095307 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
35095242 ATTCATGACT
*
35095252 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTCATTC
*
35095274 AACATTCATTTGTCATTCATTC
1 AACATTCATTCGTCATTCATTC
*
35095296 ATTCATTCATTC
1 A-ACATTCATTC
35095308 ATTCATTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.27, C:0.23, G:0.04, T:0.46
Consensus pattern (22 bp):
AACATTCATTCGTCATTCATTC
Found at i:35095293 original size:4 final size:4
Alignment explanation
Indices: 35095286--35095314 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
35095276 CATTCATTTG
35095286 TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
35095315 GCATGTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:35103801 original size:13 final size:13
Alignment explanation
Indices: 35103783--35103807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35103773 TAATGGTATA
35103783 TTGAATCCATGAT
1 TTGAATCCATGAT
35103796 TTGAATCCATGA
1 TTGAATCCATGA
35103808 AAATTTAGTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:35105374 original size:48 final size:48
Alignment explanation
Indices: 35105316--35105744 Score: 635
Period size: 48 Copynumber: 8.6 Consensus size: 48
35105306 AAAGTGAAAT
*
35105316 TATGTGGTAAAGCCGAATGGATAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
* *
35105364 TATGTGGTAAAGCTGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
35105412 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
35105460 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
35105508 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
* * *
35105556 TATGTGGTAAAGCC-ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGA-ATG-GCT-AA--TG--T-G--AA------ATACATGTGTGATATGTA
35105619 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
* *
35105667 TATGTGGTAAAGCAGAATGGCTAATGTGAAATACATGTGTGATATGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
35105715 TATGTGGTAAAGCCGAATGGCTAATGTGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAA
35105745 TGTTGTAACA
Statistics
Matches: 350, Mismatches: 14, Indels: 34
0.88 0.04 0.09
Matches are distributed among these distances:
47 1 0.00
48 296 0.85
49 2 0.01
50 2 0.01
52 1 0.00
54 3 0.01
55 1 0.00
56 1 0.00
57 3 0.01
59 1 0.00
61 2 0.01
62 2 0.01
63 34 0.10
64 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
Found at i:35105561 original size:63 final size:63
Alignment explanation
Indices: 35105507--35105632 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
35105497 TGTGATATGT
35105507 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCC
*
35105570 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCC
35105633 GAATGGCTAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (63 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCC
Found at i:35105573 original size:15 final size:15
Alignment explanation
Indices: 35105555--35105584 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35105545 TGTGATATGT
35105555 ATATGTGGTAAAGCC
1 ATATGTGGTAAAGCC
35105570 ATATGTGGTAAAGCC
1 ATATGTGGTAAAGCC
35105585 GAATGGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (15 bp):
ATATGTGGTAAAGCC
Done.