Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 117 of 349
Found at i:36796288 original size:20 final size:20
Alignment explanation
Indices: 36796241--36796281 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36796231 TAATTTTAAT
**
36796241 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
*
36796261 AAGTAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
36796281 A
1 A
36796282 TAAAAAACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:36796321 original size:9 final size:9
Alignment explanation
Indices: 36796307--36796365 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
36796297 TTTATACAAA
36796307 TAATTCGAT
1 TAATTCGAT
*
36796316 TAATTCGGT
1 TAATTCGAT
*
36796325 TAATTTGAGT
1 TAATTCGA-T
*
36796335 T-ATTCGGT
1 TAATTCGAT
36796343 TAATTCGAT
1 TAATTCGAT
36796352 TAATTCGAT
1 TAATTCGAT
36796361 TAATT
1 TAATT
36796366 TTATACTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
8 2 0.05
9 38 0.90
10 2 0.05
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.47
Consensus pattern (9 bp):
TAATTCGAT
Found at i:36818592 original size:47 final size:47
Alignment explanation
Indices: 36818538--36818731 Score: 282
Period size: 47 Copynumber: 4.1 Consensus size: 47
36818528 TTAGGATTTT
* * *
36818538 ATGTGATGAATGTGAATGA-GTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-CATGCATATATGTGATAAGGCCGAATGGCCA
36818585 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
36818632 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
36818679 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
36818726 ATGTGA
1 ATGTGA
36818732 AATATATATG
Statistics
Matches: 133, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 1 0.01
47 132 0.99
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:36818638 original size:22 final size:22
Alignment explanation
Indices: 36818567--36818638 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
36818557 GTATATATGA
36818567 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
36818589 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
36818614 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
36818636 GAT
1 GAT
36818639 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:36818687 original size:25 final size:25
Alignment explanation
Indices: 36818612--36818687 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
36818602 ATGCATATAT
36818612 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
36818637 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
36818659 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
36818684 GTGA
1 GTGA
36818688 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:36818744 original size:35 final size:35
Alignment explanation
Indices: 36818700--36818776 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
36818690 ATGAACATGC
36818700 ATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
36818735 ATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
36818770 ATGTATG
1 ATATATG
36818777 AGATATGCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (35 bp):
ATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:36818848 original size:50 final size:50
Alignment explanation
Indices: 36818736--36818869 Score: 202
Period size: 50 Copynumber: 2.7 Consensus size: 50
36818726 ATGTGAAATA
*
36818736 TATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
* *
36818784 CATACGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGAGATATG
*
36818834 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
36818870 GTAGGCGATG
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
47 1 0.01
48 26 0.34
49 2 0.03
50 46 0.61
51 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
Found at i:36818887 original size:50 final size:50
Alignment explanation
Indices: 36818736--36818893 Score: 191
Period size: 50 Copynumber: 3.2 Consensus size: 50
36818726 ATGTGAAATA
36818736 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC-
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
* *
36818785 -ATACGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATAT--G
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGCG
* * * *
36818834 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
36818884 TATATTGTGG
1 TATA-TGTGG
36818894 CCGAACGACC
Statistics
Matches: 92, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
47 1 0.01
48 37 0.40
49 4 0.04
50 44 0.48
51 6 0.07
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
Found at i:36819096 original size:36 final size:37
Alignment explanation
Indices: 36819027--36819161 Score: 229
Period size: 36 Copynumber: 3.7 Consensus size: 37
36819017 ATTCCGGATG
36819027 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
36819064 AGACCCGATGACTACGTGTGG-GATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
*
36819100 AGACCCGATGACTAC-TGTGGAGATTTTGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
* *
36819136 AGACCCGATAACTTCGTGTGGAGATT
1 AGACCCGATGACTACGTGTGGAGATT
36819162 TCGTCTGAGC
Statistics
Matches: 93, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
35 5 0.05
36 57 0.61
37 31 0.33
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
Found at i:36820481 original size:40 final size:40
Alignment explanation
Indices: 36820426--36820867 Score: 748
Period size: 40 Copynumber: 11.2 Consensus size: 40
36820416 GAGAATTGAG
36820426 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
36820466 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
36820506 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
36820546 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
36820586 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
36820626 AGTGATGTATCCGGGCTAAGTCCCGAAGAACATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
36820666 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
36820705 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
36820745 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
36820785 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
36820825 AGTGTTATATCCGGGCT-A-T-CCGAAGAGCAATCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
36820862 GGTGAT
1 AGTGAT
36820868 GTGTATTCGG
Statistics
Matches: 385, Mismatches: 16, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
37 20 0.05
38 1 0.00
39 38 0.10
40 326 0.85
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:37049936 original size:39 final size:40
Alignment explanation
Indices: 37049819--37050003 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
37049809 GCTACTCGTT
* *
37049819 CAAATGCCTTCGGGACATAGTCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
37049859 GAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
37049899 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
37049938 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
37049979 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37050004 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37049936 original size:79 final size:81
Alignment explanation
Indices: 37049821--37050003 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
37049811 TACTCGTTCA
* * * *
37049821 AATGCCTTCGGGACATAGTCCGG-TTATAGTAACTCGCAGAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
37049884 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
37049901 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
37049964 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
37049980 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
37050004 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 28 0.32
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:37058068 original size:40 final size:40
Alignment explanation
Indices: 37058023--37058133 Score: 186
Period size: 40 Copynumber: 2.8 Consensus size: 40
37058013 ATAACCACAA
* * *
37058023 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
37058063 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
37058103 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
37058134 AAATCACAGC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:37058222 original size:40 final size:40
Alignment explanation
Indices: 37058067--37058222 Score: 145
Period size: 40 Copynumber: 3.7 Consensus size: 40
37058057 CAACTCGCAC
* * * *
37058067 AAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCAT
*
37058107 AAATGCCTTCGGGTCTTAGCCCGGATAAAATCACAGCTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAAT--CA-CTAGCAT
*
37058150 AAAT-CACTAGCATCCTCGGACTTAGCCCGGATAAAATCACTAGCAT
1 AAATGC-CT----T-C-GGGACTTAGCCCGGATAAAATCACTAGCAT
37058196 AAATGCCTTCGGGACTTAGCCCGGATA
1 AAATGCCTTCGGGACTTAGCCCGGATA
37058223 TCATTCAAAT
Statistics
Matches: 98, Mismatches: 6, Indels: 24
0.77 0.05 0.19
Matches are distributed among these distances:
40 42 0.43
41 4 0.04
42 3 0.03
43 12 0.12
46 13 0.13
47 4 0.04
48 1 0.01
49 19 0.19
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
Found at i:37067608 original size:43 final size:43
Alignment explanation
Indices: 37067555--37067708 Score: 120
Period size: 43 Copynumber: 3.6 Consensus size: 43
37067545 TCGTACAATA
* *
37067555 CCAAC-ATCCCAGACGTGGTCTTACATGTAATCGCATATCAATG
1 CCAACTATCCCAGACATGGTCTTACATGTAATC-CATATCGATG
* * * *
37067598 CC-ACTATCCCAGACAAGGTCTTGCACGAAAT-CATATACGATG
1 CCAACTATCCCAGACATGGTCTTACATGTAATCCATAT-CGATG
* * * *
37067640 CCGA-TGTCCCAGATATGGTCTTACATGTAAATCTCAAATCGATG
1 CCAACTATCCCAGACATGGTCTTACATGT-AATC-CATATCGATG
* **
37067684 CCAAC-GTCCCAGATGTGGTCTTACA
1 CCAACTATCCCAGACATGGTCTTACA
37067709 CTAAATCACA
Statistics
Matches: 89, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 5 0.06
42 26 0.29
43 27 0.30
44 27 0.30
45 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
CCAACTATCCCAGACATGGTCTTACATGTAATCCATATCGATG
Found at i:37067660 original size:42 final size:44
Alignment explanation
Indices: 37067604--37067716 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 44
37067594 AATGCCACTA
* * * * * *
37067604 TCCCAGACAAGGTCTTGCACGAAATCAT-ATA-CGATGCCGATG
1 TCCCAGATATGGTCTTACACGAAATCATCAAATCGATGCCAACG
*
37067646 TCCCAGATATGGTCTTACATGTAAATC-TCAAATCGATGCCAACG
1 TCCCAGATATGGTCTTACACG-AAATCATCAAATCGATGCCAACG
* *
37067690 TCCCAGATGTGGTCTTACACTAAATCA
1 TCCCAGATATGGTCTTACACGAAATCA
37067717 CATATCAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 18 0.32
43 12 0.21
44 27 0.47
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (44 bp):
TCCCAGATATGGTCTTACACGAAATCATCAAATCGATGCCAACG
Found at i:37084477 original size:24 final size:23
Alignment explanation
Indices: 37084433--37084477 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
37084423 TACATCAGTG
37084433 AAAGATTTATTGATTAGAAGCGC
1 AAAGATTTATTGATTAGAAGCGC
*
37084456 AAAGAGTTTCTTGAATTA-AAGC
1 AAAGA-TTTATTG-ATTAGAAGC
37084478 AGGGGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 10 0.53
25 4 0.21
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAGATTTATTGATTAGAAGCGC
Found at i:37094095 original size:46 final size:50
Alignment explanation
Indices: 37094039--37094160 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
37094029 GACAGGACAG
* * * *
37094039 GACAGAAATGAGCCATGTAAGTCGATATTA-GT-T-TAT-TGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTATATATATATATGGCATTGGA
*
37094085 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTATATATATATATGGCATTGGA
* **
37094135 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
37094161 GTCGAAGACA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 1 0.02
49 3 0.05
50 31 0.49
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (50 bp):
GACAGGAATGAGCCATGTAAGTCCATATTATATATATATATGGCATTGGA
Found at i:37097884 original size:29 final size:30
Alignment explanation
Indices: 37097851--37097909 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
37097841 TTCCCGAGCC
*
37097851 TAGGGGCAAAAGTGTAATTATG-CAAAGTT
1 TAGGGGCAAAAATGTAATTATGCCAAAGTT
*
37097880 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCCAAAGTT
37097910 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCCAAAGTT
Found at i:37101026 original size:55 final size:55
Alignment explanation
Indices: 37100960--37101070 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
37100950 GACCAAAACG
37100960 TCCCTACTTTGTATTTAATATTTTTCCTAGAGTTGATGTCGCAACACACCAGGAC
1 TCCCTACTTTGTATTTAATATTTTTCCTAGAGTTGATGTCGCAACACACCAGGAC
37101015 TCCCTACTTTGTATTTAATATTTTTCCTAGAGTTGATGTCGCAACACACCAGGAC
1 TCCCTACTTTGTATTTAATATTTTTCCTAGAGTTGATGTCGCAACACACCAGGAC
37101070 T
1 T
37101071 TGTGTCGCGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.37
Consensus pattern (55 bp):
TCCCTACTTTGTATTTAATATTTTTCCTAGAGTTGATGTCGCAACACACCAGGAC
Found at i:37105460 original size:20 final size:20
Alignment explanation
Indices: 37105440--37105584 Score: 101
Period size: 20 Copynumber: 7.2 Consensus size: 20
37105430 AAGTTGACAA
*
37105440 TAATGTAGACAAGCCACCAA
1 TAATGTAGACAAGCCACCAG
* * *
37105460 TGATGTAGATAAACCACCAG
1 TAATGTAGACAAGCCACCAG
* * ***
37105480 TACTGTAAACAAGCTGGCAG
1 TAATGTAGACAAGCCACCAG
*
37105500 TAATGTGGACAAGCCACCAG
1 TAATGTAGACAAGCCACCAG
* * * * * *
37105520 TGATGCAAATAAACCGCCAG
1 TAATGTAGACAAGCCACCAG
* * *
37105540 TAATGCAGACAAGCTACCAA
1 TAATGTAGACAAGCCACCAG
* *
37105560 TAATGTGGACAAGCCACTAG
1 TAATGTAGACAAGCCACCAG
37105580 TAATG
1 TAATG
37105585 CAGATAAACT
Statistics
Matches: 88, Mismatches: 37, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (20 bp):
TAATGTAGACAAGCCACCAG
Found at i:37105470 original size:60 final size:60
Alignment explanation
Indices: 37105395--37105601 Score: 218
Period size: 60 Copynumber: 3.5 Consensus size: 60
37105385 CAGACCAGGT
* * * *
37105395 ACCAATAATGCAGATAAACTACTAATAATGCAGACAAGTTGACAATAATGTAGACAAGCC
1 ACCAATAATGCAGATAAACCACCAATAATGCAGACAAGCTGACAATAATGTGGACAAGCC
* * * * * * * *
37105455 ACCAATGATGTAGATAAACCACCAGTACTGTAAACAAGCTGGCAGTAATGTGGACAAGCC
1 ACCAATAATGCAGATAAACCACCAATAATGCAGACAAGCTGACAATAATGTGGACAAGCC
* * * * *
37105515 ACCAGTGATGCAAATAAACCGCCAGTAATGCAGACAAGCT-ACCAATAATGTGGACAAGCC
1 ACCAATAATGCAGATAAACCACCAATAATGCAGACAAGCTGA-CAATAATGTGGACAAGCC
* * *
37105575 ACTAGTAATGCAGATAAACTACCAATA
1 ACCAATAATGCAGATAAACCACCAATA
37105602 CTTCCTCCTT
Statistics
Matches: 119, Mismatches: 27, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
60 119 1.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (60 bp):
ACCAATAATGCAGATAAACCACCAATAATGCAGACAAGCTGACAATAATGTGGACAAGCC
Found at i:37126685 original size:49 final size:47
Alignment explanation
Indices: 37126590--37126790 Score: 321
Period size: 47 Copynumber: 4.2 Consensus size: 47
37126580 AGCCAAGGCA
*
37126590 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAGTGGCC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
37126637 AATGTGATGAATGTGAACATGCACATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATG--CATATGTGTGATAAGGCCGAATGGCC
* * *
37126686 AATGTGATAAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
* * *
37126733 AATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
37126780 AATGTGATGAA
1 AATGTGATGAA
37126791 CATGGAAGTG
Statistics
Matches: 145, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
47 100 0.69
49 45 0.31
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
Found at i:37126693 original size:22 final size:22
Alignment explanation
Indices: 37126666--37126742 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
37126656 TGCACATATG
37126666 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
37126688 TGTGATAAATG-TGAACAT-GCACATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
37126713 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
37126735 TGTGATAA
1 TGTGATAA
37126743 ATGTGAACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
22 16 0.36
23 10 0.23
24 10 0.23
25 8 0.18
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.23
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:37126787 original size:22 final size:22
Alignment explanation
Indices: 37126666--37126787 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
37126656 TGCACATATG
*
37126666 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
37126688 TGTGATAAATGTG-A-ACAT-GCACATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
*
37126713 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
37126735 TGTGATAAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
37126760 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
37126782 TGTGAT
1 TGTGAT
37126788 GAACATGGAA
Statistics
Matches: 77, Mismatches: 5, Indels: 36
0.65 0.04 0.31
Matches are distributed among these distances:
22 22 0.29
23 20 0.26
24 19 0.25
25 16 0.21
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:37126827 original size:96 final size:95
Alignment explanation
Indices: 37126590--37126787 Score: 317
Period size: 96 Copynumber: 2.1 Consensus size: 95
37126580 AGCCAAGGCA
* * * *
37126590 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAC
1 AATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
* *
37126655 ATGCACATATGTGTGATAAGGCCGAATGGCC
66 ATG-ACATATATGTGATAAGGCAGAATGGCC
*
37126686 AATGTGATAAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
1 AATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
37126751 ATG-CATATATGTGATAAGGCAGAATGGCC
66 ATGACATATATGTGATAAGGCAGAATGGCC
37126780 AATGTGAT
1 AATGTGAT
37126788 GAACATGGAA
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 32 0.34
96 63 0.66
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (95 bp):
AATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
ATGACATATATGTGATAAGGCAGAATGGCC
Found at i:37126861 original size:46 final size:46
Alignment explanation
Indices: 37126806--37126896 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
37126796 AAGTGTATAT
* *
37126806 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* *
37126852 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
37126897 TGTATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:37136007 original size:5 final size:5
Alignment explanation
Indices: 37135997--37136032 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
37135987 TCTGTATGTT
37135997 TTTTA TTTTA TTTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA --TTTTA TTTTA TTTTA TTTTA TTTT
37136033 TCACAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 24 0.83
7 5 0.17
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:37136012 original size:12 final size:12
Alignment explanation
Indices: 37135995--37136033 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
37135985 AATCTGTATG
37135995 TTTTTTATTTTA
1 TTTTTTATTTTA
37136007 TTTTTTATTTTA
1 TTTTTTATTTTA
37136019 --TTTTATTTTA
1 TTTTTTATTTTA
37136029 TTTTT
1 TTTTT
37136034 CACAAATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 10 0.40
12 15 0.60
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:37140077 original size:46 final size:46
Alignment explanation
Indices: 37140027--37140200 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
37140017 GTTGAGCATT
*
37140027 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTC
* * *
37140073 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CGTC
* * *
37140120 CGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTC
* * **
37140166 CGAGCTCGTTGAGTTGAGTCTGAGTTTGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37140201 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 7 0.07
45 3 0.03
46 59 0.55
47 29 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTC
Found at i:37140191 original size:93 final size:93
Alignment explanation
Indices: 37140022--37140191 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
37140012 GGATGGTTGA
* * * * *
37140022 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
37140087 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37140115 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
*
37140180 TGAGTCTGAGTT
66 TGAGTCCGAGTT
37140192 TGCTTATGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37143210 original size:14 final size:15
Alignment explanation
Indices: 37143161--37143210 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
37143151 GTATCTTGGG
*
37143161 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
37143176 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
37143191 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
37143205 TTTCTT
1 TTTCTT
37143211 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:37145796 original size:40 final size:40
Alignment explanation
Indices: 37145741--37145963 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
37145731 TATTCGGATG
*
37145741 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
37145781 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
37145824 ATA-CCCGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
37145863 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
37145903 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
37145943 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
37145964 ATACTTGGGT
Statistics
Matches: 162, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 21 0.13
40 104 0.64
41 1 0.01
42 27 0.17
43 9 0.06
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:37145885 original size:82 final size:80
Alignment explanation
Indices: 37145741--37145963 Score: 292
Period size: 82 Copynumber: 2.8 Consensus size: 80
37145731 TATTCGGATG
* *
37145741 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCCGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
**
37145806 TTTGTGCGAGTAGTTG-CT
66 TTCATGC---TAG-TGACT
*
37145824 ATA-CCCGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCCGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
37145888 TTCATGCTAGTGACT
66 TTCATGCTAGTGACT
* * * *
37145903 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 ATATCCCGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
37145964 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
78 2 0.02
79 22 0.17
80 36 0.28
81 2 0.02
82 63 0.49
83 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCCGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTCATGCTAGTGACT
Found at i:37149075 original size:46 final size:46
Alignment explanation
Indices: 37149025--37149200 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
37149015 TGGTTGAGCA
*
37149025 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
37149071 TCCGAATTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* * ***
37149118 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * **
37149164 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37149201 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 7 0.07
45 3 0.03
46 60 0.58
47 27 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:37149181 original size:93 final size:93
Alignment explanation
Indices: 37149022--37149191 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
37149012 GGATGGTTGA
* ** * * *
37149022 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCCGAATTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACAAACGCCCGAACTCGTTGAGT
37149087 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
37149115 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACAAACGCCCGAACTCGTTGAGT
37149180 TGAGTCCGAGTT
66 TGAGTCCGAGTT
37149192 TGCTTATGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37159224 original size:100 final size:100
Alignment explanation
Indices: 37159051--37159234 Score: 298
Period size: 100 Copynumber: 1.8 Consensus size: 100
37159041 GTGAGGTCAT
* *
37159051 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCACATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGAATAATTGGTCACATGTGTAGTACTAAGT
*
37159116 GCATGCTACTATGCGTACCCGAAAACTGTGATCAC
66 GCAAGCTACTATGCGTACCCGAAAACTGTGATCAC
* * *
37159151 GTGTGTAGTACTAAGTGCAGGGTACTACGTGTATCAG-ATTATTGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGAATAATTGGTCACATGTGTAGTACTAAG
37159215 TGCAAGCTACTATGCGTACC
65 TGCAAGCTACTATGCGTACC
37159235 AGATAGCTTC
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
100 75 0.97
101 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGAATAATTGGTCACATGTGTAGTACTAAGT
GCAAGCTACTATGCGTACCCGAAAACTGTGATCAC
Found at i:37159238 original size:49 final size:49
Alignment explanation
Indices: 37159052--37159239 Score: 225
Period size: 49 Copynumber: 3.8 Consensus size: 49
37159042 TGAGGTCATG
*
37159052 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACC-GAATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG-ATAATTGGTCACA
* * * * *
37159101 TGTGTAGTACTAAGTGCATGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-T-TGGTCACA
* * * * * *
37159152 TGTGTAGTACTAAGTGCAGGGTACTACGTGTATCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACA
*
37159201 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
37159240 GCTTCGGCTA
Statistics
Matches: 114, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
49 73 0.64
50 3 0.03
51 38 0.33
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACA
Found at i:37160878 original size:40 final size:40
Alignment explanation
Indices: 37160834--37160913 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
37160824 ATAACTTGTA
37160834 ACATAGCCATTTAGCATCCATTTATATCAATCAATTCATT
1 ACATAGCCATTTAGCATCCATTTATATCAATCAATTCATT
37160874 ACATAGCCATTTAGCATCCATTTATATCAATCAATTCATT
1 ACATAGCCATTTAGCATCCATTTATATCAATCAATTCATT
37160914 CATCAATTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.38
Consensus pattern (40 bp):
ACATAGCCATTTAGCATCCATTTATATCAATCAATTCATT
Found at i:37163384 original size:15 final size:15
Alignment explanation
Indices: 37163364--37163396 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
37163354 TATGGTATAA
37163364 TTACCATTCAAATCC
1 TTACCATTCAAATCC
37163379 TTACCATTCAAATCC
1 TTACCATTCAAATCC
37163394 TTA
1 TTA
37163397 AAAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.36
Consensus pattern (15 bp):
TTACCATTCAAATCC
Found at i:37165639 original size:13 final size:13
Alignment explanation
Indices: 37165621--37165646 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37165611 GAGAACGTTC
37165621 ATTAATAATTAAA
1 ATTAATAATTAAA
37165634 ATTAATAATTAAA
1 ATTAATAATTAAA
37165647 TTGAAGCGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTAATAATTAAA
Found at i:37167971 original size:24 final size:23
Alignment explanation
Indices: 37167951--37167997 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
37167941 AGGAGAAGAA
37167951 ATGAAGAGAAAAAGAAAAGAAAAT
1 ATGAA-AGAAAAAGAAAAGAAAAT
*
37167975 ATGAAAGAAAAAGAGACAGAAAA
1 ATGAAAGAAAAAGA-AAAGAAAA
37167998 GAAAAAAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.70, C:0.02, G:0.21, T:0.06
Consensus pattern (23 bp):
ATGAAAGAAAAAGAAAAGAAAAT
Found at i:37171247 original size:17 final size:18
Alignment explanation
Indices: 37171225--37171267 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
37171215 AGCAACCTAA
37171225 GTTTAATATTTT-CA-AT
1 GTTTAATATTTTACACAT
37171241 GGTTTAATATTTTACACAT
1 -GTTTAATATTTTACACAT
37171260 GTTTAATA
1 GTTTAATA
37171268 ATTCAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.50
18 10 0.42
19 2 0.08
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (18 bp):
GTTTAATATTTTACACAT
Found at i:37171399 original size:4 final size:5
Alignment explanation
Indices: 37171373--37171414 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
37171363 TTTTCAATTA
* *
37171373 ATTTT ATTTT ATTTT ATTTT A-TTT ATTCTT ATATT ATGTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT ATTTT ATTTT AT
37171415 CCTATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 25 0.76
6 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (5 bp):
ATTTT
Found at i:37171626 original size:14 final size:14
Alignment explanation
Indices: 37171601--37171655 Score: 74
Period size: 14 Copynumber: 3.7 Consensus size: 14
37171591 TAAATTTAGT
*
37171601 ACTTAAATTTTCAAT
1 ACTT-AATTTTCAAC
37171616 ACTTAATTTTCAAC
1 ACTTAATTTTCAAC
37171630 ACTTAATTTTTTCAAC
1 ACTTAA--TTTTCAAC
37171646 ACTTAATTTT
1 ACTTAATTTT
37171656 TCAGTTTGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 19 0.51
15 4 0.11
16 14 0.38
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (14 bp):
ACTTAATTTTCAAC
Found at i:37171643 original size:16 final size:16
Alignment explanation
Indices: 37171608--37171656 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
37171598 AGTACTTAAA
*
37171608 TTTTCAATACTTAA--
1 TTTTCAACACTTAATT
37171622 TTTTCAACACTTAATT
1 TTTTCAACACTTAATT
37171638 TTTTCAACACTTAATT
1 TTTTCAACACTTAATT
37171654 TTT
1 TTT
37171657 CAGTTTGTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 13 0.41
16 19 0.59
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTCAACACTTAATT
Found at i:37172148 original size:15 final size:15
Alignment explanation
Indices: 37172128--37172166 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
37172118 CTAATTCAAA
* *
37172128 TAATTTTGAATTTTT
1 TAATTTTAAATATTT
37172143 TAATTTTTAAATATTT
1 TAA-TTTTAAATATTT
37172159 TAATTTTA
1 TAATTTTA
37172167 CATACAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TAATTTTAAATATTT
Found at i:37181767 original size:17 final size:17
Alignment explanation
Indices: 37181747--37181803 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
37181737 TTATTAATTT
37181747 TATATATTCATTATACA
1 TATATATTCATTATACA
**
37181764 TATATAATT-ATTA-ATTT
1 TATAT-ATTCATTATA-CA
37181781 TATATATTCATTATACA
1 TATATATTCATTATACA
37181798 TATATA
1 TATATA
37181804 ATTATAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 4 0.12
17 24 0.75
18 4 0.12
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATATTCATTATACA
Found at i:37181771 original size:34 final size:34
Alignment explanation
Indices: 37181733--37181808 Score: 152
Period size: 34 Copynumber: 2.2 Consensus size: 34
37181723 ATAGATTTTA
37181733 ATAATTATTAATTTTATATATTCATTATACATAT
1 ATAATTATTAATTTTATATATTCATTATACATAT
37181767 ATAATTATTAATTTTATATATTCATTATACATAT
1 ATAATTATTAATTTTATATATTCATTATACATAT
37181801 ATAATTAT
1 ATAATTAT
37181809 AGTTTTGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (34 bp):
ATAATTATTAATTTTATATATTCATTATACATAT
Found at i:37182505 original size:50 final size:50
Alignment explanation
Indices: 37182408--37182509 Score: 143
Period size: 50 Copynumber: 2.0 Consensus size: 50
37182398 TTTTTTCCCA
** *
37182408 CAAAAAAATGAAAATGATTCCATTGATAATGGGTAGGGACATTACTTTTT
1 CAAAAAAATGAAAATGATTCCATTGATAATGGGTAGAAACATAACTTTTT
* *
37182458 CAAACAAATGAAAATGATTCCATTGATAATGGTTGAGAAAC-TAACTTTTT
1 CAAAAAAATGAAAATGATTCCATTGATAATGGGT-AGAAACATAACTTTTT
37182508 CA
1 CA
37182510 TCTAGATAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 42 0.91
51 4 0.09
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (50 bp):
CAAAAAAATGAAAATGATTCCATTGATAATGGGTAGAAACATAACTTTTT
Found at i:37200794 original size:42 final size:42
Alignment explanation
Indices: 37200735--37200820 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
37200725 TTAAAATCGG
* *
37200735 GTAGTCTCCTCTCTTATCTATAAGGTGTAGATTAGGGACAAT
1 GTAGTCTCCTCTCTTATCTATAAGGTGCAAATTAGGGACAAT
37200777 GTAGTCTCCTCTCTTATCTATAAGGTGCAAATTAGGGACAAT
1 GTAGTCTCCTCTCTTATCTATAAGGTGCAAATTAGGGACAAT
37200819 GT
1 GT
37200821 GCAAAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (42 bp):
GTAGTCTCCTCTCTTATCTATAAGGTGCAAATTAGGGACAAT
Found at i:37202327 original size:11 final size:11
Alignment explanation
Indices: 37202288--37202325 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
37202278 AACGAGCTTG
37202288 TTTTATATCAT
1 TTTTATATCAT
37202299 TTTTATATC-T
1 TTTTATATCAT
*
37202309 TTTTATTTCAT
1 TTTTATATCAT
37202320 TTTTAT
1 TTTTAT
37202326 TTTAAGTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTATATCAT
Found at i:37212199 original size:256 final size:256
Alignment explanation
Indices: 37211744--37212256 Score: 1017
Period size: 256 Copynumber: 2.0 Consensus size: 256
37211734 TACTTAAATA
*
37211744 AAATTCAGAAATTACACACTCAAGTTATTACATACCTTAACTTAATACTTTGAATATTAATGAGA
1 AAATTCAAAAATTACACACTCAAGTTATTACATACCTTAACTTAATACTTTGAATATTAATGAGA
37211809 TTAAAATGAACACTTACCTCTTTTTACAAGAATTTCACCTCAGTTGCTTCTCTTCTATTTCTTTC
66 TTAAAATGAACACTTACCTCTTTTTACAAGAATTTCACCTCAGTTGCTTCTCTTCTATTTCTTTC
37211874 TCAACTTCATCACTATCCTTCTCTTTTCTTCTATTTTTCTTCACTTCCATATATCAATTTCTTGA
131 TCAACTTCATCACTATCCTTCTCTTTTCTTCTATTTTTCTTCACTTCCATATATCAATTTCTTGA
37211939 TTCTAAATTGAGGAATATACTCTCCAGGATCTCTACTTCATCTTTCTTTTTTGGTGCCTAT
196 TTCTAAATTGAGGAATATACTCTCCAGGATCTCTACTTCATCTTTCTTTTTTGGTGCCTAT
37212000 AAATTCAAAAATTACACACTCAAGTTATTACATACCTTAACTTAATACTTTGAATATTAATGAGA
1 AAATTCAAAAATTACACACTCAAGTTATTACATACCTTAACTTAATACTTTGAATATTAATGAGA
37212065 TTAAAATGAACACTTACCTCTTTTTACAAGAATTTCACCTCAGTTGCTTCTCTTCTATTTCTTTC
66 TTAAAATGAACACTTACCTCTTTTTACAAGAATTTCACCTCAGTTGCTTCTCTTCTATTTCTTTC
37212130 TCAACTTCATCACTATCCTTCTCTTTTCTTCTATTTTTCTTCACTTCCATATATCAATTTCTTGA
131 TCAACTTCATCACTATCCTTCTCTTTTCTTCTATTTTTCTTCACTTCCATATATCAATTTCTTGA
37212195 TTCTAAATTGAGGAATATACTCTCCAGGATCTCTACTTCATCTTTCTTTTTTGGTGCCTAT
196 TTCTAAATTGAGGAATATACTCTCCAGGATCTCTACTTCATCTTTCTTTTTTGGTGCCTAT
37212256 A
1 A
37212257 GGAATTTCCA
Statistics
Matches: 256, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 256 1.00
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (256 bp):
AAATTCAAAAATTACACACTCAAGTTATTACATACCTTAACTTAATACTTTGAATATTAATGAGA
TTAAAATGAACACTTACCTCTTTTTACAAGAATTTCACCTCAGTTGCTTCTCTTCTATTTCTTTC
TCAACTTCATCACTATCCTTCTCTTTTCTTCTATTTTTCTTCACTTCCATATATCAATTTCTTGA
TTCTAAATTGAGGAATATACTCTCCAGGATCTCTACTTCATCTTTCTTTTTTGGTGCCTAT
Found at i:37214787 original size:93 final size:94
Alignment explanation
Indices: 37214663--37214884 Score: 243
Period size: 98 Copynumber: 2.3 Consensus size: 94
37214653 TATACAAGCT
* * * * *
37214663 AGTGTAAAACCTATCTGGGACATGGTGTCAGCTTG-T-TGTG-TGTCAATGTAAGACCTGTCTGG
1 AGTGTAAGACCTGTCTGGGACATGGCGTCAGCTTGATATATGAAGTCAATGTAAGACCTGTCTGG
* * *
37214725 GACATGGTACCGACACTGATAGATGAGAGCC
66 GACACGGCACCGACACTAAT-G-TGAGAGCC
*
37214756 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTTGATATATGAAAGTCAATGTAAGACCTGTCT
1 AGTGTAAGACCTGTCTGGGACATGGCGTCAG-CTTGATATATG-AAGTCAATGTAAGACCTGTCT
** ** **
37214821 GGGACACGGCATTGACTTTAATGTGCTAGCC
64 GGGACACGGCACCGACACTAATGTGAGAGCC
37214852 AGTGTAAGACCATGTCTGGGACATGGCGTCAGC
1 AGTGTAAGACC-TGTCTGGGACATGGCGTCAGC
37214885 ATCTTATCCC
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
93 27 0.25
94 4 0.04
95 1 0.01
96 21 0.20
97 20 0.19
98 34 0.32
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (94 bp):
AGTGTAAGACCTGTCTGGGACATGGCGTCAGCTTGATATATGAAGTCAATGTAAGACCTGTCTGG
GACACGGCACCGACACTAATGTGAGAGCC
Found at i:37214832 original size:49 final size:50
Alignment explanation
Indices: 37214704--37214832 Score: 165
Period size: 49 Copynumber: 2.6 Consensus size: 50
37214694 CTTGTTGTGT
* * *
37214704 GTCAATGTAAGACCTGTCTGGGACATGGTA-CCGACACTGATAGATGAGA
1 GTCAATGTAAGACCTGTCTGGGACATGGCATCAGACACTGATAGATGAAA
* * *
37214753 GCCAGTGTAAGACCTGTCTGGGACATGGCATCAG-C-CTTGATATATGAAA
1 GTCAATGTAAGACCTGTCTGGGACATGGCATCAGACAC-TGATAGATGAAA
*
37214802 GTCAATGTAAGACCTGTCTGGGACACGGCAT
1 GTCAATGTAAGACCTGTCTGGGACATGGCAT
37214833 TGACTTTAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 66 0.96
50 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
GTCAATGTAAGACCTGTCTGGGACATGGCATCAGACACTGATAGATGAAA
Found at i:37218421 original size:42 final size:41
Alignment explanation
Indices: 37218362--37218522 Score: 187
Period size: 42 Copynumber: 3.8 Consensus size: 41
37218352 TTAAGGTTAC
* *
37218362 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATT-CATGTAAGACCATATATGGGATATGGCATCGATA
*
37218404 TGAGACTTCATATAAGACCATATATGGGATATGGCATCGATA
1 TGAGA-TTCATGTAAGACCATATATGGGATATGGCATCGATA
* * * *
37218446 TGAGATTTCGTGTAAGACCATAGATGGGCTATTGGCATCTATA
1 TGAGA-TTCATGTAAGACCATATATGGGATA-TGGCATCGATA
** *
37218489 CAAGATTACATGTAAGACCATATCTGGGATATGG
1 TGAGATT-CATGTAAGACCATATATGGGATATGG
37218523 AATTGGTAAG
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 67 0.66
43 34 0.34
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (41 bp):
TGAGATTCATGTAAGACCATATATGGGATATGGCATCGATA
Found at i:37218517 original size:85 final size:84
Alignment explanation
Indices: 37218362--37218522 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 84
37218352 TTAAGGTTAC
** **
37218362 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCATATAAGACCATAT
1 TGAGATTACGTGTAAGACCATAGATGGGATATGGCATCGATACAAGACTTCATATAAGACCATAT
37218427 ATGGGATATGGCATCGATA
66 ATGGGATATGGCATCGATA
* * * *
37218446 TGAGATTTCGTGTAAGACCATAGATGGGCTATTGGCATCTATACAAGA-TTACATGTAAGACCAT
1 TGAGATTACGTGTAAGACCATAGATGGGATA-TGGCATCGATACAAGACTT-CATATAAGACCAT
*
37218510 ATCTGGGATATGG
64 ATATGGGATATGG
37218523 AATTGGTAAG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
84 29 0.44
85 37 0.56
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATAGATGGGATATGGCATCGATACAAGACTTCATATAAGACCATAT
ATGGGATATGGCATCGATA
Found at i:37222222 original size:44 final size:44
Alignment explanation
Indices: 37222172--37222260 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
37222162 AAGTAACAGA
37222172 AACAGTATGACAC-ACAAAGTGCCTCATCGACACAAAGTCAAAGT
1 AACAGTATGACACTA-AAAGTGCCTCATCGACACAAAGTCAAAGT
** * *
37222216 AACAGTATGACACTATTAGTGCCTCATCGACTCAAGGTCAAAGT
1 AACAGTATGACACTAAAAGTGCCTCATCGACACAAAGTCAAAGT
37222260 A
1 A
37222261 TCTCTGTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (44 bp):
AACAGTATGACACTAAAAGTGCCTCATCGACACAAAGTCAAAGT
Found at i:37223138 original size:19 final size:19
Alignment explanation
Indices: 37223128--37223164 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
37223118 ATTTCTTTTA
37223128 TATTTTATTATATTCTTAT
1 TATTTTATTATATTCTTAT
*
37223147 TATTTTATTATATGCTTA
1 TATTTTATTATATTCTTA
37223165 AGTATTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (19 bp):
TATTTTATTATATTCTTAT
Found at i:37229917 original size:20 final size:21
Alignment explanation
Indices: 37229885--37229923 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
37229875 TTTGTTTTTA
37229885 TTTCTTTATTTCTT-TTATAT
1 TTTCTTTATTTCTTATTATAT
37229905 TTTC-TTATATTCTTATTAT
1 TTTCTTTAT-TTCTTATTAT
37229924 TATATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTCTTTATTTCTTATTATAT
Found at i:37230704 original size:18 final size:18
Alignment explanation
Indices: 37230681--37230716 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
37230671 TCCTAATCGG
37230681 GCTCCTCTGAGCTTACTT
1 GCTCCTCTGAGCTTACTT
37230699 GCTCCTCTGAGCTTACTT
1 GCTCCTCTGAGCTTACTT
37230717 TATATAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.17, T:0.39
Consensus pattern (18 bp):
GCTCCTCTGAGCTTACTT
Found at i:37241237 original size:15 final size:15
Alignment explanation
Indices: 37241217--37241246 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37241207 TATTATTATC
*
37241217 TTTCCTAACTTAGAG
1 TTTCCTAAATTAGAG
37241232 TTTCCTAAATTAGAG
1 TTTCCTAAATTAGAG
37241247 ACATAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (15 bp):
TTTCCTAAATTAGAG
Found at i:37248370 original size:30 final size:30
Alignment explanation
Indices: 37248336--37248396 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
37248326 TCCTTAACTC
37248336 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
37248366 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
37248396 A
1 A
37248397 GGCTCAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:37250622 original size:42 final size:44
Alignment explanation
Indices: 37250566--37250656 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 44
37250556 TCTTACTTGT
* *
37250566 AATCAAATATCGATGCCACTGTCCCAAACAAAGTCTTACACG-A
1 AATCAAATATCGATGCCAATATCCCAAACAAAGTCTTACACGTA
* **
37250609 AATCAAATA-CGATGCCAATATCCTAAACATGGTCTTACACGTA
1 AATCAAATATCGATGCCAATATCCCAAACAAAGTCTTACACGTA
37250652 AATCA
1 AATCA
37250657 TAAGTCGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 27 0.64
43 15 0.36
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (44 bp):
AATCAAATATCGATGCCAATATCCCAAACAAAGTCTTACACGTA
Found at i:37250686 original size:44 final size:42
Alignment explanation
Indices: 37250566--37250696 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 42
37250556 TCTTACTTGT
* * * **
37250566 AATCAAATATCGATGCCACTGTCCCAAACAAAGTCTTACACGA
1 AATCAAATA-CGATGCCAATATCCTAAACATGGTCTTACACGA
37250609 AATCAAATACGATGCCAATATCCTAAACATGGTCTTACACGTA
1 AATCAAATACGATGCCAATATCCTAAACATGGTCTTACACG-A
* * * *
37250652 AATCATAAGT-CGATTCCAATGTCCTAGACGTGGTCTTACACGA
1 AATCA-AA-TACGATGCCAATATCCTAAACATGGTCTTACACGA
37250695 AA
1 AA
37250697 ACACATATCG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
42 27 0.36
43 18 0.24
44 30 0.39
45 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.24
Consensus pattern (42 bp):
AATCAAATACGATGCCAATATCCTAAACATGGTCTTACACGA
Found at i:37255444 original size:24 final size:24
Alignment explanation
Indices: 37255398--37255453 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
37255388 CTTATGAAAG
*
37255398 TATATTTTTTATTTTTAAAATATTAA
1 TATA-TTTTTATTTTGAAAATA-TAA
*
37255424 TATATTTTTA-TTTGAATATATAA
1 TATATTTTTATTTTGAAAATATAA
37255447 T-TATTTT
1 TATATTTT
37255454 AGTAAATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 6 0.21
23 4 0.14
24 8 0.29
25 6 0.21
26 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
TATATTTTTATTTTGAAAATATAA
Found at i:37266608 original size:23 final size:24
Alignment explanation
Indices: 37266568--37266613 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
37266558 CAAAAGTTAT
*
37266568 ATCTAAAAATTAACAATA-ATCTA
1 ATCTAAAAATTAAAAATATATCTA
37266591 ATCT-AAAATATAAAAATATATCT
1 ATCTAAAAAT-TAAAAATATATCT
37266614 TTTTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.33
Consensus pattern (24 bp):
ATCTAAAAATTAAAAATATATCTA
Found at i:37272436 original size:3 final size:3
Alignment explanation
Indices: 37272430--37272456 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37272420 TTTAAATTAC
37272430 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
37272457 GTATTATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:37278239 original size:29 final size:30
Alignment explanation
Indices: 37278199--37278266 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
37278189 TAGTCTAATG
* *
37278199 TGTAATTTTATACA-AAAATTTTGATTTTA
1 TGTAATTTTATACATAAAATTTTAATTTGA
* *
37278228 TGTAATTTTATATATGAAATTTTAATTTGA
1 TGTAATTTTATACATAAAATTTTAATTTGA
*
37278258 TCTAATTTT
1 TGTAATTTT
37278267 CACAAATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.54
Consensus pattern (30 bp):
TGTAATTTTATACATAAAATTTTAATTTGA
Found at i:37284783 original size:15 final size:15
Alignment explanation
Indices: 37284763--37284792 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37284753 GATACAGTGT
37284763 AAGGAATCTAACTAG
1 AAGGAATCTAACTAG
37284778 AAGGAATCTAACTAG
1 AAGGAATCTAACTAG
37284793 TTTGGATTCA
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:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
AAGGAATCTAACTAG
Found at i:37286538 original size:16 final size:16
Alignment explanation
Indices: 37286513--37286543 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37286503 AATTTGAATG
*
37286513 TTATTGTTATTATTAT
1 TTATTATTATTATTAT
37286529 TTATTATTATTATTA
1 TTATTATTATTATTA
37286544 CGTATGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:37288993 original size:20 final size:21
Alignment explanation
Indices: 37288950--37288995 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
37288940 ACTACTTTGT
37288950 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
37288970 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
37288989 TATGGGC
1 TATGGGC
37288996 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:37289053 original size:60 final size:60
Alignment explanation
Indices: 37288986--37289124 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
37288976 CCAACTGTGT
*
37288986 TAATATGGGCAAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTACGGCCCAGATTGATAC
1 TAATATGGGCAAGGCCCAATATACTCTCATA-TTGTAA-AGGGCTACGGCCCAGATTAATAC
* * * * * *
37289046 TAATATGGGCTAGGCCCAGTATACTCTGATATTGTAAGGGGCTATGGCCCAGATTAATAT
1 TAATATGGGCAAGGCCCAATATACTCTCATATTGTAAAGGGCTACGGCCCAGATTAATAC
*
37289106 TGATATGGGCTAAGGCCCA
1 TAATATGGGC-AAGGCCCA
37289125 GTTAACTCTG
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
60 49 0.73
61 17 0.25
62 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (60 bp):
TAATATGGGCAAGGCCCAATATACTCTCATATTGTAAAGGGCTACGGCCCAGATTAATAC
Found at i:37291980 original size:28 final size:28
Alignment explanation
Indices: 37291948--37292012 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
37291938 ATTTACTAGA
*
37291948 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
37291976 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
37292004 ATACCCCTA
1 ATACCCCTA
37292013 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:37292159 original size:28 final size:27
Alignment explanation
Indices: 37292118--37292207 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 27
37292108 AGGAAGCGTC
37292118 CTGGTGG-CTATGCCACAAATTATCTGTT
1 CTGGTGGCCT-TGCCACAAA-TATCTGTT
**
37292146 CTGGTGGCCTTGCCACGTATATCTGTT
1 CTGGTGGCCTTGCCACAAATATCTGTT
*
37292173 CTGGTGGCAC-TGCCACAAAATATTTGTAT
1 CTGGTGGC-CTTGCCAC-AAATATCTGT-T
37292202 CTGGTG
1 CTGGTG
37292208 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
27 22 0.42
28 22 0.42
29 9 0.17
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCCTTGCCACAAATATCTGTT
Found at i:37292218 original size:29 final size:28
Alignment explanation
Indices: 37292128--37292218 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 28
37292118 CTGGTGGCTA
* *
37292128 TGCCACAAATTATCTGTTCTGGTGGC-C
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
37292155 TTGCCAC-GTATATCTGTTCTGGTGGCAC
1 -TGCCACAAAATATCTGTTCTGGTGACAC
* *
37292183 TGCCACAAAATATTTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
37292212 TGTCACA
1 TGCCACA
37292219 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:37296030 original size:44 final size:44
Alignment explanation
Indices: 37295965--37296052 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
37295955 ATTACATGTA
* * * * *
37295965 TCGCATCCATTATGCACTCGGACCAA-TTCAACGAGTTCGGATGC
1 TCGCATCCATAATGAAATCGGACCAACTT-AACGAGCTCAGATGC
37296009 TCGCATCCATAATGAAATCGGACCAACTTAACGAGCTCAGATGC
1 TCGCATCCATAATGAAATCGGACCAACTTAACGAGCTCAGATGC
37296053 CTCATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
44 36 0.95
45 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
TCGCATCCATAATGAAATCGGACCAACTTAACGAGCTCAGATGC
Found at i:37305686 original size:12 final size:12
Alignment explanation
Indices: 37305669--37305694 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37305659 CCCCAAATAG
37305669 ATAGATTAGAAT
1 ATAGATTAGAAT
37305681 ATAGATTAGAAT
1 ATAGATTAGAAT
37305693 AT
1 AT
37305695 CCCGATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (12 bp):
ATAGATTAGAAT
Found at i:37311342 original size:27 final size:27
Alignment explanation
Indices: 37311304--37311370 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
37311294 AATTAGGGTA
* *
37311304 TGCCATAAAGGC-AGTTCATTCAGAGTT
1 TGCCACAAAGGCTAGTT-ATTCAAAGTT
*
37311331 TGCCACAAAGGCTAGTTTTTCAAAGTT
1 TGCCACAAAGGCTAGTTATTCAAAGTT
37311358 TGCCACAAAGGCT
1 TGCCACAAAGGCT
37311371 CACAAAATGC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 32 0.89
28 4 0.11
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (27 bp):
TGCCACAAAGGCTAGTTATTCAAAGTT
Found at i:37312166 original size:34 final size:34
Alignment explanation
Indices: 37312128--37312194 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
37312118 AACATGCAGA
* *
37312128 GTCAGATTACTTGCCCAGACATATATTATTTATC
1 GTCAGATTACTTACCCAGACATATAGTATTTATC
*
37312162 GTCAGATTGCTTACCCAGACATATAGTATTTAT
1 GTCAGATTACTTACCCAGACATATAGTATTTAT
37312195 TGATGAGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (34 bp):
GTCAGATTACTTACCCAGACATATAGTATTTATC
Found at i:37323057 original size:24 final size:24
Alignment explanation
Indices: 37323030--37323077 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
37323020 AATTTAACTT
* *
37323030 AGGGTTCATATTTGGATAAATACC
1 AGGGTTCATATTTAGAAAAATACC
37323054 AGGGTTCATATTTAGAAAAATACC
1 AGGGTTCATATTTAGAAAAATACC
37323078 CATAGGTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (24 bp):
AGGGTTCATATTTAGAAAAATACC
Found at i:37333746 original size:79 final size:80
Alignment explanation
Indices: 37333648--37333830 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
37333638 TACTCGTTCA
* *
37333648 AATGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGCAACTCGCACAAATGCCTTC-GGATCTTAACCCAG
* *
37333711 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* ** *
37333728 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
*
37333792 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
37333807 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
37333831 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
ATAGTAACTTAGCAC
Found at i:37333830 original size:40 final size:40
Alignment explanation
Indices: 37333627--37333830 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
37333617 CGGAATTTAA
** *
37333627 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
37333667 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
37333707 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
37333746 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
37333786 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
37333826 CCGGA
1 CCGGA
37333831 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.22
40 93 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:37436946 original size:20 final size:20
Alignment explanation
Indices: 37436921--37436992 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
37436911 TAACTAGGCA
37436921 TCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAGTTGAG
* * *
37436941 TCCGAGTTCACTTGTGGATGTGAACG
1 TCCGAGCTC-GTTG-AG-T-TG-A-G
*
37436967 CCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAGTTGAG
37436987 TCCGAG
1 TCCGAG
37436993 TTCGCTTATG
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
20 14 0.37
21 4 0.11
22 3 0.08
23 2 0.05
24 3 0.08
25 4 0.11
26 8 0.21
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (20 bp):
TCCGAGCTCGTTGAGTTGAG
Found at i:37436986 original size:93 final size:92
Alignment explanation
Indices: 37436825--37436996 Score: 272
Period size: 93 Copynumber: 1.9 Consensus size: 92
37436815 GGATGTTTTG
* *
37436825 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37436890 TGAGTCCGAGTTCGAGAGATGTAACTA
66 TGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
37436917 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAG-TCACTTATGGATGCGAACGCCCGAACTCGTTGAG
37436982 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
37436997 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 28 0.39
93 44 0.61
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:37436989 original size:46 final size:46
Alignment explanation
Indices: 37436830--37436995 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
37436820 TTTTGGGCAT
* * * * *
37436830 CCGAACTCGTTGAGTTGAGTCCAAG-TCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTGAACGC
*
37436875 CCGAACTCGTTGAGTTGAGTCCGAGTTCGA---G-AGATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTGTGGATGTGAAC---GC
*
37436920 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTGAACGC
*
37436968 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
37436996 GCTTATGGGC
Statistics
Matches: 101, Mismatches: 8, Indels: 23
0.77 0.06 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 25 0.25
46 31 0.31
47 28 0.28
48 2 0.02
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTGAACGC
Found at i:37439966 original size:15 final size:15
Alignment explanation
Indices: 37439943--37440007 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
37439933 ATATCTTGGG
37439943 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
37439958 TTACTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
37439973 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
37439988 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
37440002 TTTCTT
1 TTTCTT
37440008 GTTATCTTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 10 0.24
15 29 0.71
16 2 0.05
ACGTcount: A:0.11, C:0.15, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:37439973 original size:30 final size:30
Alignment explanation
Indices: 37439939--37440007 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
37439929 TATCATATCT
37439939 TGGGTTTCTTTAT-TCTGGATTACTTTATTC
1 TGGGTTTCTTTATCT-TGGATTACTTTATTC
* *
37439969 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCTTGGATTACTTTATTC
*
37439999 -GGTTTTCTT
1 TGGGTTTCTT
37440008 GTTATCTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.10, C:0.14, G:0.17, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTTTATCTTGGATTACTTTATTC
Found at i:37442328 original size:46 final size:44
Alignment explanation
Indices: 37442278--37442453 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 44
37442268 TGTTTGGGCA
*
37442278 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
37442324 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
* *
37442371 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* * *
37442417 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37442454 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:37442396 original size:20 final size:20
Alignment explanation
Indices: 37442371--37442442 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
37442361 TAACTAGGCA
37442371 TCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAGTTGAG
* * *
37442391 TCCGAGTTCACTTGTGGATGTGAACG
1 TCCGAGCTC-GTTG-AG-T-TG-A-G
*
37442417 CCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAGTTGAG
37442437 TCCGAG
1 TCCGAG
37442443 TTCGCTTATG
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
20 14 0.37
21 4 0.11
22 3 0.08
23 2 0.05
24 3 0.08
25 4 0.11
26 8 0.21
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (20 bp):
TCCGAGCTCGTTGAGTTGAG
Found at i:37442433 original size:93 final size:93
Alignment explanation
Indices: 37442274--37442446 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
37442264 AGGATGTTTG
* *
37442274 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
37442339 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
37442367 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
37442432 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
37442447 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:37448411 original size:94 final size:94
Alignment explanation
Indices: 37448250--37448437 Score: 322
Period size: 94 Copynumber: 2.0 Consensus size: 94
37448240 TTGTTTGACA
*
37448250 TAATTTATTGTCAATGTTTGATTGCTACAACAAGAGTACCGCTTACTATTAATATTACTGTCCAA
1 TAATTTATTATCAATGTTTGATTGCTACAACAAGAGTACCGCTTACTATTAATATTACTGTCCAA
* *
37448315 AGACTTGATGTTAATTTTGCATTTGCTAT
66 AGACTTGATATTAATGTTGCATTTGCTAT
*
37448344 TAATTTATTATCAATGTTTGATTGCTACAATAAGAGTACCGCTTACTATTAATATTACTGTCCAA
1 TAATTTATTATCAATGTTTGATTGCTACAACAAGAGTACCGCTTACTATTAATATTACTGTCCAA
**
37448409 AGACTTGATATTAATGTTGTGTTTGCTAT
66 AGACTTGATATTAATGTTGCATTTGCTAT
37448438 CTTGAGATGG
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (94 bp):
TAATTTATTATCAATGTTTGATTGCTACAACAAGAGTACCGCTTACTATTAATATTACTGTCCAA
AGACTTGATATTAATGTTGCATTTGCTAT
Found at i:37459093 original size:42 final size:42
Alignment explanation
Indices: 37458975--37459115 Score: 101
Period size: 43 Copynumber: 3.3 Consensus size: 42
37458965 ATCTGAGACA
*
37458975 TCGTGTAAGACCGTGTCTGGGACACAGGTC-TCA-ATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGG-CATCATATT-AGATT
* * ** **
37459017 TACGTATAAGACCATGTCTGAGACATTGAAATCATATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCATAT-TAGATT
* *
37459060 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCATTATT-GAGTT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCA-TATTAGA-TT
* *
37459103 ACATGTAAGACCA
1 TCGTGTAAGACCA
37459116 CGCCCGGGAC
Statistics
Matches: 76, Mismatches: 17, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
42 29 0.38
43 44 0.58
44 2 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCATATTAGATT
Found at i:37485879 original size:21 final size:21
Alignment explanation
Indices: 37485855--37485903 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
37485845 AAAGATTAAA
37485855 TTAAAATCAATAA-ATATATTT
1 TTAAAATC-ATAATATATATTT
* *
37485876 TTAAATATCATAATTTATTTTT
1 TTAAA-ATCATAATATATATTT
37485898 TTAAAA
1 TTAAAA
37485904 ATAAAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAAAATCATAATATATATTT
Found at i:37488587 original size:48 final size:48
Alignment explanation
Indices: 37488535--37488653 Score: 177
Period size: 48 Copynumber: 2.5 Consensus size: 48
37488525 GTCAGTTCCA
* * * *
37488535 ATGCCATGTCTCAAACATGGTTTTACACTAGCA-CACATATCAACGCCT
1 ATGCCATGTCCCAGACATGGTCTTACACT-GCATCACATATCAACGCCG
*
37488583 ATGCCATGTCCCAGACATGGTCTTACACTGGATCACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGCATCACATATCAACGCCG
37488631 ATGCCATGTCCCAGACATGGTCT
1 ATGCCATGTCCCAGACATGGTCT
37488654 CATTAACCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 2 0.03
48 63 0.97
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGCATCACATATCAACGCCG
Found at i:37491575 original size:22 final size:21
Alignment explanation
Indices: 37491547--37491610 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
37491537 GCAAATACGA
37491547 TTGGCACACAACCATAATCAAG
1 TTGGCACA-AACCATAATCAAG
* *
37491569 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACA-AACCATA-ATCAAG
*
37491591 TTGGCGCAAAGCCATAATCA
1 TTGGCACAAA-CCATAATCA
37491611 GAATAATTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAAG
Found at i:37491815 original size:41 final size:41
Alignment explanation
Indices: 37491758--37491876 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
37491748 GCCACCGGTG
* *
37491758 GATCCACGGTCGTCAAGCAACCATGCGATCCTCAATTGGTA
1 GATCCCCGATCGTCAAGCAACCATGCGATCCTCAATTGGTA
* * *
37491799 GATCCCCGATCGTCAAGCAACCACGCGATCCTCAATCGGTG
1 GATCCCCGATCGTCAAGCAACCATGCGATCCTCAATTGGTA
** * *
37491840 GAT-CCATAGTCATCAAGCAACCATGCGATCCTTAATT
1 GATCCCCGA-TCGTCAAGCAACCATGCGATCCTCAATT
37491877 TCTTCCTCTG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 3 0.05
41 63 0.95
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (41 bp):
GATCCCCGATCGTCAAGCAACCATGCGATCCTCAATTGGTA
Found at i:37492202 original size:28 final size:27
Alignment explanation
Indices: 37492139--37492240 Score: 118
Period size: 27 Copynumber: 3.7 Consensus size: 27
37492129 AATCTACAAA
37492139 CCAAGGGTATTT-TAGTAATTTTGCAAA-
1 CCAAGGGTATTTCT-GTAATTTTG-AAAG
*
37492166 CCAATGGTATTTCTGTAATTTTTGAAAG
1 CCAAGGGTATTTCTGTAA-TTTTGAAAG
* * *
37492194 TCAAGGGTATTTTTGTAATTTTGTAAG
1 CCAAGGGTATTTCTGTAATTTTGAAAG
*
37492221 CCAAGGGTATTTCAGTAATT
1 CCAAGGGTATTTCTGTAATT
37492241 CTACCCTACA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
27 43 0.67
28 21 0.33
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
CCAAGGGTATTTCTGTAATTTTGAAAG
Found at i:37492286 original size:54 final size:53
Alignment explanation
Indices: 37492225--37492329 Score: 156
Period size: 54 Copynumber: 2.0 Consensus size: 53
37492215 TGTAAGCCAA
* * *
37492225 GGGTATTTCAGTAATTCTACCCTACAGGGACATTTCAGTAATTCTATCCTACAG
1 GGGTATTTCAATAATTCTACCCTACAGGG-CATTTCAGTAATACTAGCCTACAG
* *
37492279 GGGTATTTCAATAATTCTACCCTACAGGGTATTTTAGTAATACTAGCCTAC
1 GGGTATTTCAATAATTCTACCCTACAGGGCATTTCAGTAATACTAGCCTAC
37492330 CGATATGAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 18 0.39
54 28 0.61
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (53 bp):
GGGTATTTCAATAATTCTACCCTACAGGGCATTTCAGTAATACTAGCCTACAG
Found at i:37492319 original size:26 final size:26
Alignment explanation
Indices: 37492224--37492329 Score: 140
Period size: 27 Copynumber: 4.0 Consensus size: 26
37492214 TTGTAAGCCA
37492224 AGGGTATTTCAGTAATTCTACCCTAC
1 AGGGTATTTCAGTAATTCTACCCTAC
* *
37492250 AGGGACATTTCAGTAATTCTATCCTAC
1 AGGG-TATTTCAGTAATTCTACCCTAC
*
37492277 AGGGGTATTTCAATAATTCTACCCTAC
1 A-GGGTATTTCAGTAATTCTACCCTAC
* * *
37492304 AGGGTATTTTAGTAATACTAGCCTAC
1 AGGGTATTTCAGTAATTCTACCCTAC
37492330 CGATATGAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 25 0.36
27 41 0.59
28 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (26 bp):
AGGGTATTTCAGTAATTCTACCCTAC
Found at i:37503510 original size:27 final size:26
Alignment explanation
Indices: 37503462--37503521 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
37503452 GCGAAGCTAC
*
37503462 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
37503489 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
37503515 CAGATAT
1 CAGATAT
37503522 ATATGTGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:37503564 original size:69 final size:66
Alignment explanation
Indices: 37503490--37503623 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 66
37503480 CACCAGATAC
* * * * *
37503490 AGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGTGAAGCCAGCAGATTGCAGCGAGGC
1 AGATATTGTGACGAAGCCACCAGAACAG--A-ATATGTGGCGAAGCCACCAGATTGCAGCGAGGC
37503555 TGCT
63 TGCT
* *
37503559 AGATATTGTGACGAAGTCACCAGAACAGAATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGC
1 AGATATTGTGACGAAGCCACCAGAACAGAATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGC
37503624 CAGAACTTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
66 33 0.57
67 1 0.02
69 24 0.41
ACGTcount: A:0.30, C:0.20, G:0.31, T:0.19
Consensus pattern (66 bp):
AGATATTGTGACGAAGCCACCAGAACAGAATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGC
T
Found at i:37504094 original size:10 final size:10
Alignment explanation
Indices: 37504079--37504109 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
37504069 ACACACCTGG
37504079 TTGATGACGA
1 TTGATGACGA
37504089 TTGATGACGA
1 TTGATGACGA
37504099 TTGATGACGA
1 TTGATGACGA
37504109 T
1 T
37504110 ATCTCCCACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (10 bp):
TTGATGACGA
Found at i:37504298 original size:27 final size:26
Alignment explanation
Indices: 37504268--37504379 Score: 92
Period size: 27 Copynumber: 4.5 Consensus size: 26
37504258 GGGGCAAAAT
* *
37504268 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCCACAAGGGTAT-TC
* *
37504295 GGTAATTCTACCCTACAGGGGTATTC
1 GGTAATTCTACCCCACAAGGGTATTC
*
37504321 GGT-ATTCTACCCTAC-AGGGTATT-
1 GGTAATTCTACCCCACAAGGGTATTC
* *
37504344 --T-CTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTA-TTC
*
37504368 GATAATTCTACC
1 GGTAATTCTACC
37504380 TACAGGGTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
21 12 0.17
22 6 0.08
23 2 0.03
24 7 0.10
25 12 0.17
26 6 0.08
27 27 0.38
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (26 bp):
GGTAATTCTACCCCACAAGGGTATTC
Found at i:37504333 original size:25 final size:25
Alignment explanation
Indices: 37504268--37504390 Score: 116
Period size: 25 Copynumber: 5.0 Consensus size: 25
37504258 GGGGCAAAAT
*
37504268 GGTAATTTTACCCCATA-AGGGTATCTC
1 GGTAATTCTA-CCC-TACAGGGTAT-TC
37504295 GGTAATTCTACCCTACAGGGGTATTC
1 GGTAATTCTACCCTACA-GGGTATTC
37504321 GGT-ATTCTACCCTACAGGGTATT-
1 GGTAATTCTACCCTACAGGGTATTC
*
37504344 --T-CTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTAC-AGGGTA-TTC
*
37504368 GATAATTCTA-CCTACAGGGTATT
1 GGTAATTCTACCCTACAGGGTATT
37504391 TCTAATTCTA
Statistics
Matches: 85, Mismatches: 3, Indels: 19
0.79 0.03 0.18
Matches are distributed among these distances:
21 12 0.14
22 6 0.07
23 2 0.02
24 9 0.11
25 21 0.25
26 15 0.18
27 20 0.24
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (25 bp):
GGTAATTCTACCCTACAGGGTATTC
Found at i:37504391 original size:25 final size:25
Alignment explanation
Indices: 37504285--37504401 Score: 124
Period size: 25 Copynumber: 4.8 Consensus size: 25
37504275 TTACCCCATA
*
37504285 AGGGTATCTCGGTAATTCTACCCTAC
1 AGGGTATTTC-GTAATTCTACCCTAC
37504311 AGGGGTA-TTCGGT-ATTCTACCCTAC
1 A-GGGTATTTC-GTAATTCTACCCTAC
37504336 AGGGTATTTC----TTCTACCCTAC
1 AGGGTATTTCGTAATTCTACCCTAC
37504357 AAGGGTATTTCGATAATTCTA-CCTAC
1 -AGGGTATTTCG-TAATTCTACCCTAC
37504383 AGGGTATTTC-TAATTCTAC
1 AGGGTATTTCGTAATTCTAC
37504402 AACTTATCCA
Statistics
Matches: 81, Mismatches: 1, Indels: 20
0.79 0.01 0.20
Matches are distributed among these distances:
21 11 0.14
22 10 0.12
23 8 0.10
24 5 0.06
25 26 0.32
26 11 0.14
27 10 0.12
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (25 bp):
AGGGTATTTCGTAATTCTACCCTAC
Found at i:37511030 original size:27 final size:26
Alignment explanation
Indices: 37510982--37511041 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
37510972 GCGAAGCGGC
*
37510982 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
37511009 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
37511035 AAGATAT
1 CAGATAT
37511042 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:37511132 original size:27 final size:26
Alignment explanation
Indices: 37511084--37511135 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
37511074 GCGAGGCTGC
*
37511084 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
37511110 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
37511136 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:37513194 original size:39 final size:41
Alignment explanation
Indices: 37513093--37513276 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
37513083 TTGAATGATG
* *
37513093 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
37513133 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
37513173 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
37513212 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
37513251 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37513277 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 43 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:37513229 original size:79 final size:80
Alignment explanation
Indices: 37513093--37513276 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
37513083 TTGAATGATG
*
37513093 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
37513157 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
37513172 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
37513234 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
37513251 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37513277 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 49 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTATA
Found at i:37513299 original size:78 final size:79
Alignment explanation
Indices: 37513146--37513309 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 79
37513136 GGACTAAGAT
* **
37513146 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
37513211 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
37513225 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
37513287 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
37513303 CCGAAGG
1 CCGAAGG
37513310 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.03
78 38 0.51
79 34 0.46
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:37521143 original size:79 final size:81
Alignment explanation
Indices: 37521007--37521191 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
37520997 TTGAATGATG
* *
37521007 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
37521071 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
37521086 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
37521148 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
37521166 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37521192 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:37521205 original size:40 final size:40
Alignment explanation
Indices: 37521008--37521191 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
37520998 TGAATGATGT
* * * *
37521008 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
37521048 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
37521088 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
37521126 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
37521167 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
37521192 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:37521213 original size:79 final size:79
Alignment explanation
Indices: 37521060--37521224 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
37521050 GGACTAAGAT
* * **
37521060 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
37521125 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
37521139 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
37521202 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
37521218 CCGAAGG
1 CCGAAGG
37521225 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:37522920 original size:54 final size:54
Alignment explanation
Indices: 37522837--37522941 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
37522827 AATTTTACCC
* *
37522837 TACAAGGGTATCTCAGTAATTTTACCCTACAGGGGTATTTCGGTATTTCTATCG
1 TACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTATCG
* *
37522891 TACAAGGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCGGTAATTCTA
1 TACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
37522942 CAACTTATCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (54 bp):
TACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTATCG
Found at i:37522939 original size:27 final size:27
Alignment explanation
Indices: 37522824--37522942 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
37522814 AAGGCAAAAT
*
37522824 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* * * *
37522851 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* * *
37522878 GGTATTTCTATCGTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* * *
37522905 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
37522932 GGTAATTCTAC
1 GGTAATTCTAC
37522943 AACTTATCCA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATCTC
Found at i:37526525 original size:13 final size:13
Alignment explanation
Indices: 37526509--37526533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37526499 GAAATGATTG
37526509 TTTTGAAAATTTA
1 TTTTGAAAATTTA
37526522 TTTTGAAAATTT
1 TTTTGAAAATTT
37526534 TGACATTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTTTGAAAATTTA
Found at i:37527691 original size:48 final size:48
Alignment explanation
Indices: 37527626--37527850 Score: 263
Period size: 48 Copynumber: 4.7 Consensus size: 48
37527616 GAGTTTTGAA
* * * * *
37527626 ATCCCATATAATACCATATCTGGGATATGGCATCGGCATCAATATGAG
1 ATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGACATGAG
* * * *
37527674 ATCCCTTGTAAGCCCATATCTGGGATATGGCATTGGCATTGACATAAG
1 ATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGACATGAG
37527722 ATCCCATGTAAGACCATAGT-TGGGATATGGCATTGGCATCGACATGAG
1 ATCCCATGTAAGACCATA-TCTGGGATATGGCATTGGCATCGACATGAG
* * * * *
37527770 ATCCGATGTAAAACCATATTTGGGATATGGAATTGGCATCGATATGAG
1 ATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGACATGAG
* * * * *
37527818 GTCCCATATAAGACCATGTTTGGGACATGGCAT
1 ATCCCATGTAAGACCATATCTGGGATATGGCAT
37527851 CGACACTGTT
Statistics
Matches: 151, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
47 1 0.01
48 149 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (48 bp):
ATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGACATGAG
Found at i:37529629 original size:212 final size:212
Alignment explanation
Indices: 37529262--37529688 Score: 845
Period size: 212 Copynumber: 2.0 Consensus size: 212
37529252 ATTGAGAAAC
37529262 CTTAAATGTTTTCAACTGAGTGGCATGTATAGAGACTTAGTCCTTTCGTGTTATGTGTTTAATGG
1 CTTAAATGTTTTCAACTGAGTGGCATGTATAGAGACTTAGTCCTTTCGTGTTATGTGTTTAATGG
*
37529327 TTTGGCCAAATGTATTGGCTTATAATGATTCAAGTGTATATAGCCATGAGATGTGGTTTATATTG
66 TTTGGCCAAATGTATTGGCTTATAATGATTCAAGTGTATATAGCCATGAGATGTGGCTTATATTG
37529392 GTTATGGGTTTGTAAACCTATTTATCCATATGCAATGTGCTAACACCTTGAAATGTGATCATGTG
131 GTTATGGGTTTGTAAACCTATTTATCCATATGCAATGTGCTAACACCTTGAAATGTGATCATGTG
37529457 TTTATATGTACCGAGAT
196 TTTATATGTACCGAGAT
37529474 CTTAAATGTTTTCAACTGAGTGGCATGTATAGAGACTTAGTCCTTTCGTGTTATGTGTTTAATGG
1 CTTAAATGTTTTCAACTGAGTGGCATGTATAGAGACTTAGTCCTTTCGTGTTATGTGTTTAATGG
37529539 TTTGGCCAAATGTATTGGCTTATAATGATTCAAGTGTATATAGCCATGAGATGTGGCTTATATTG
66 TTTGGCCAAATGTATTGGCTTATAATGATTCAAGTGTATATAGCCATGAGATGTGGCTTATATTG
37529604 GTTATGGGTTTGTAAACCTATTTATCCATATGCAATGTGCTAACACCTTGAAATGTGATCATGTG
131 GTTATGGGTTTGTAAACCTATTTATCCATATGCAATGTGCTAACACCTTGAAATGTGATCATGTG
37529669 TTTATATGTACCGAGAT
196 TTTATATGTACCGAGAT
37529686 CTT
1 CTT
37529689 GTGTGATGTG
Statistics
Matches: 214, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 214 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.40
Consensus pattern (212 bp):
CTTAAATGTTTTCAACTGAGTGGCATGTATAGAGACTTAGTCCTTTCGTGTTATGTGTTTAATGG
TTTGGCCAAATGTATTGGCTTATAATGATTCAAGTGTATATAGCCATGAGATGTGGCTTATATTG
GTTATGGGTTTGTAAACCTATTTATCCATATGCAATGTGCTAACACCTTGAAATGTGATCATGTG
TTTATATGTACCGAGAT
Found at i:37530794 original size:160 final size:160
Alignment explanation
Indices: 37530527--37530834 Score: 517
Period size: 160 Copynumber: 1.9 Consensus size: 160
37530517 ATCTATCTCA
* * * *
37530527 CTTAGATGAAGGTACTCTCTAACCGAGCTACATCTGACCATGTTGATATTGATACTAACGTATTT
1 CTTAGATGAAGATACTCTCCAACCGAGCTACATCTGACCATGTTGATATTGATACTAAAGTATCT
*
37530592 GAGTAAAGTACACTTATGATGGATTGAGGCTTATAAAGGTATGAATAAAGGTTTATGAGGTGTAT
66 GAGTAAAGTACACTTATGATGGATTGAGGCTTATAAAGGTATGAATAAAGGTTTATGAGCTGTAT
*
37530657 GTGATGATGTACGAGATGGGATCTGTCTTG
131 GCGATGATGTACGAGATGGGATCTGTCTTG
* * *
37530687 CTTAGATGGAGATACTCTCCAACCGAGCTACGTTTGACCATGTTGATATTGATACTAAAGTATCT
1 CTTAGATGAAGATACTCTCCAACCGAGCTACATCTGACCATGTTGATATTGATACTAAAGTATCT
* *
37530752 GAGTAAAGTACACTTATGATGGATTGAGGCTTATAGAGGTATGAATGAAGGTTTATGAGCTGTAT
66 GAGTAAAGTACACTTATGATGGATTGAGGCTTATAAAGGTATGAATAAAGGTTTATGAGCTGTAT
37530817 GCGATGATGTACGAGATG
131 GCGATGATGTACGAGATG
37530835 ACAGTTTATG
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
160 137 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.32
Consensus pattern (160 bp):
CTTAGATGAAGATACTCTCCAACCGAGCTACATCTGACCATGTTGATATTGATACTAAAGTATCT
GAGTAAAGTACACTTATGATGGATTGAGGCTTATAAAGGTATGAATAAAGGTTTATGAGCTGTAT
GCGATGATGTACGAGATGGGATCTGTCTTG
Done.