Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 108 of 226
Found at i:37053602 original size:25 final size:27
Alignment explanation
Indices: 37053547--37053602 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
37053537 TAAGCATTAA
*
37053547 ATTAAATTTAATATTAAGATAATCACT
1 ATTAAATTTAATATTAAGAAAATCACT
* *
37053574 -TTAATTTTAA-ATTAATAAAAT-ACT
1 ATTAAATTTAATATTAAGAAAATCACT
37053598 ATTAA
1 ATTAA
37053603 GATAACTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (27 bp):
ATTAAATTTAATATTAAGAAAATCACT
Found at i:37054921 original size:12 final size:12
Alignment explanation
Indices: 37054900--37054957 Score: 66
Period size: 12 Copynumber: 5.0 Consensus size: 12
37054890 ACGTCACAAG
37054900 CGAATTAATTCA
1 CGAATTAATTCA
*
37054912 CGAATGAATTCA
1 CGAATTAATTCA
37054924 -GAATTAATTCA
1 CGAATTAATTCA
** *
37054935 CGAACGAATTTA
1 CGAATTAATTCA
37054947 -GAATTAATTCA
1 CGAATTAATTCA
37054958 TCTTGGATCT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
11 18 0.49
12 19 0.51
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (12 bp):
CGAATTAATTCA
Found at i:37054931 original size:23 final size:23
Alignment explanation
Indices: 37054901--37054957 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
37054891 CGTCACAAGC
*
37054901 GAATTAATTCACGAATGAATTCA
1 GAATTAATTCACGAACGAATTCA
*
37054924 GAATTAATTCACGAACGAATTTA
1 GAATTAATTCACGAACGAATTCA
37054947 GAATTAATTCA
1 GAATTAATTCA
37054958 TCTTGGATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (23 bp):
GAATTAATTCACGAACGAATTCA
Found at i:37056777 original size:9 final size:9
Alignment explanation
Indices: 37056763--37056820 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
37056753 TTTGGTTAAA
*
37056763 AATTAACTG
1 AATTAACCG
37056772 AATTAACCG
1 AATTAACCG
* *
37056781 AATTCACTG
1 AATTAACCG
*
37056790 AATTACCCG
1 AATTAACCG
37056799 AATTAACCG
1 AATTAACCG
37056808 AATTAACCG
1 AATTAACCG
37056817 AATT
1 AATT
37056821 GAATCACTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:37056789 original size:18 final size:18
Alignment explanation
Indices: 37056763--37056820 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
37056753 TTTGGTTAAA
37056763 AATTAACTGAATTAACCG
1 AATTAACTGAATTAACCG
* *
37056781 AATTCACTGAATTACCCG
1 AATTAACTGAATTAACCG
*
37056799 AATTAACCGAATTAACCG
1 AATTAACTGAATTAACCG
37056817 AATT
1 AATT
37056821 GAATCACTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (18 bp):
AATTAACTGAATTAACCG
Found at i:37062176 original size:37 final size:37
Alignment explanation
Indices: 37062133--37062213 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
37062123 TGAGCTTTAT
* * *
37062133 TTCAGTATATCTGTAG-ATTTTACTCATTTGAGCTCCA
1 TTCAGTATAACAGTAGAATTTT-CTCATTTGAGCTACA
* *
37062170 TTCAGTATAACAGTAGAATTTTCTCGTTTGAGCTACT
1 TTCAGTATAACAGTAGAATTTTCTCATTTGAGCTACA
37062207 TTCAGTA
1 TTCAGTA
37062214 GAATCATTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
37 33 0.87
38 5 0.13
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (37 bp):
TTCAGTATAACAGTAGAATTTTCTCATTTGAGCTACA
Found at i:37062305 original size:40 final size:40
Alignment explanation
Indices: 37062210--37062462 Score: 235
Period size: 40 Copynumber: 6.3 Consensus size: 40
37062200 AGCTACTTTC
* * * *
37062210 AGTAGAATCATTAGGTATGGCTTGATAA--AGCATAC-TTTC
1 AGTAGATTCAATAGGTATGGCTCGA-AAGCA-CATACATTTT
* ** * *
37062249 AGTAGAATCAGCAGGTAAGGCTCGATAGCACATACATTTT
1 AGTAGATTCAATAGGTATGGCTCGAAAGCACATACATTTT
* **
37062289 AGTGGGATT-GGTAGGTATGGCTCGAAAGCACATACATTTT
1 AGT-AGATTCAATAGGTATGGCTCGAAAGCACATACATTTT
* *
37062329 AGTAGATTCAATAGGTATGGCTCGAAAGCACATACGTTTC
1 AGTAGATTCAATAGGTATGGCTCGAAAGCACATACATTTT
* * * * * *
37062369 AGTAAATTCAACAGATATCGCTCGAAAGCACATACGTTTC
1 AGTAGATTCAATAGGTATGGCTCGAAAGCACATACATTTT
* * * *
37062409 AGTAGATTCAGTAGGTATGACTCGAAAGCACATACGTTTC
1 AGTAGATTCAATAGGTATGGCTCGAAAGCACATACATTTT
37062449 AGTAGATTCAATAG
1 AGTAGATTCAATAG
37062463 ATATCACTCG
Statistics
Matches: 181, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
38 1 0.01
39 30 0.17
40 147 0.81
41 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (40 bp):
AGTAGATTCAATAGGTATGGCTCGAAAGCACATACATTTT
Found at i:37066177 original size:167 final size:167
Alignment explanation
Indices: 37065901--37066243 Score: 668
Period size: 167 Copynumber: 2.0 Consensus size: 167
37065891 TTGTTTAAGG
37065901 TGGAAAAATGGTTTGGGAGAAGGTAGTTGAATGCCACACCAAAGGCTGGTGATAAGTTCAGAAAC
1 TGGAAAAATGGTTTGGGAGAAGGTAGTTGAATGCCACACCAAAGGCTGGTGATAAGTTCAGAAAC
*
37065966 AAGTTCGGGTTGACGCACTAGCACCCTAGATAAGTCACTCGAGACTCGTACGAAATTGGAGAGGA
66 AAGTTCGGGTCGACGCACTAGCACCCTAGATAAGTCACTCGAGACTCGTACGAAATTGGAGAGGA
37066031 AGTTAACCTCACAGAAACAAAGTTTCATTTAACAAAT
131 AGTTAACCTCACAGAAACAAAGTTTCATTTAACAAAT
37066068 TGGAAAAATGGTTTGGGAGAAGGTAGTTGAATGCCACACCAAAGGCTGGTGATAAGTTCAGAAAC
1 TGGAAAAATGGTTTGGGAGAAGGTAGTTGAATGCCACACCAAAGGCTGGTGATAAGTTCAGAAAC
37066133 AAGTTCGGGTCGACGCACTAGCACCCTAGATAAGTCACTCGAGACTCGTACGAAATTGGAGAGGA
66 AAGTTCGGGTCGACGCACTAGCACCCTAGATAAGTCACTCGAGACTCGTACGAAATTGGAGAGGA
37066198 AGTTAACCTCACAGAAACAAAGTTTCATTTAACAAAT
131 AGTTAACCTCACAGAAACAAAGTTTCATTTAACAAAT
37066235 TGGCAAAAA
1 TGG-AAAAA
37066244 GTCTCTCAAA
Statistics
Matches: 174, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
167 169 0.97
168 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (167 bp):
TGGAAAAATGGTTTGGGAGAAGGTAGTTGAATGCCACACCAAAGGCTGGTGATAAGTTCAGAAAC
AAGTTCGGGTCGACGCACTAGCACCCTAGATAAGTCACTCGAGACTCGTACGAAATTGGAGAGGA
AGTTAACCTCACAGAAACAAAGTTTCATTTAACAAAT
Found at i:37066972 original size:19 final size:19
Alignment explanation
Indices: 37066945--37066983 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
37066935 TGATTTAAGC
37066945 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
* *
37066964 AACTTAATTAACTACGATG
1 AACTAAATTAACTAAGATG
37066983 A
1 A
37066984 GTAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:37067010 original size:35 final size:35
Alignment explanation
Indices: 37066964--37067037 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
37066954 AACTAAGATG
*
37066964 AACTTAATTAACTACGATGAGTAATTTATTCAAGC
1 AACTTAATTAACTAAGATGAGTAATTTATTCAAGC
*
37066999 AACTTAATTAACTAAGATGAGTAATTTATTCCAGC
1 AACTTAATTAACTAAGATGAGTAATTTATTCAAGC
37067034 AACT
1 AACT
37067038 AAATACTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (35 bp):
AACTTAATTAACTAAGATGAGTAATTTATTCAAGC
Found at i:37067098 original size:21 final size:20
Alignment explanation
Indices: 37067073--37067111 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37067063 ATGGTTTGAA
*
37067073 GTTAAGCTAAATGAGCTTGGG
1 GTTAA-CTAAACGAGCTTGGG
*
37067094 GTTAACTAGACGAGCTTG
1 GTTAACTAAACGAGCTTG
37067112 AAGAAGCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (20 bp):
GTTAACTAAACGAGCTTGGG
Found at i:37067559 original size:25 final size:24
Alignment explanation
Indices: 37067531--37067598 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 24
37067521 GTTATATAGT
*
37067531 TCTTGCGAGCTTCCTGATAATTGGC
1 TCTT-CGAGCTTCCTGATAACTGGC
*
37067556 TCTTCAGAGCTTCCCGATAACTGGC
1 TCTTC-GAGCTTCCTGATAACTGGC
*
37067581 TCTTATGAGCTTCCTGAT
1 TCTT-CGAGCTTCCTGAT
37067599 CAATGAATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (24 bp):
TCTTCGAGCTTCCTGATAACTGGC
Found at i:37070949 original size:37 final size:37
Alignment explanation
Indices: 37070906--37071141 Score: 184
Period size: 37 Copynumber: 6.3 Consensus size: 37
37070896 CATACATTTC
*
37070906 GTATAATCAGTAGATATCGCTCGTTTAAGCCCATTCA
1 GTATAATCAGTAGATATCGCTCGTTTAAGCACATTCA
* * * *
37070943 GTATAATCAGTGGATATCGCTCGTTTGAGAAACTTTCA
1 GTATAATCAGTAGATATCGCTCGTTTAAG-CACATTCA
* *** * * *
37070981 GTATAATCAGTAGACATTTATCTTTTAAGCACGTTTA
1 GTATAATCAGTAGATATCGCTCGTTTAAGCACATTCA
* * ** * * *
37071018 GTATATTTAGTAGATATTTCTCATTTGAGCCCATTCA
1 GTATAATCAGTAGATATCGCTCGTTTAAGCACATTCA
* * * * *
37071055 GTATAATCAATGGATATCGCTTGTTTGAGCAACTTTCA
1 GTATAATCAGTAGATATCGCTCGTTTAAGC-ACATTCA
* * * * *
37071093 GTATAATCAGTAGACATTGCTCTTTTAAGCACGTTTA
1 GTATAATCAGTAGATATCGCTCGTTTAAGCACATTCA
*
37071130 GTATATTCAGTA
1 GTATAATCAGTA
37071142 TTCCATTTTT
Statistics
Matches: 153, Mismatches: 44, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
37 98 0.64
38 55 0.36
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (37 bp):
GTATAATCAGTAGATATCGCTCGTTTAAGCACATTCA
Found at i:37071021 original size:75 final size:76
Alignment explanation
Indices: 37070870--37071022 Score: 168
Period size: 75 Copynumber: 2.0 Consensus size: 76
37070860 TCATTTCGCG
* * * *
37070870 TAATTAGTGGATAATGCTCGTTCGAGCATACATTTCGTATAATCAGTAGATATCGCTCGTTTAAG
1 TAATCAGTGGATAATGCTCGTTCGAGCAAACATTTCGTATAATCAGTAGACATCGATCGTTTAAG
*
37070935 CCCATTCAGTA
66 CACATTCAGTA
* ** *
37070946 TAATCAGTGGAT-ATCGCTCGTTTGAG-AAAC-TTTCAGTATAATCAGTAGACATTTATCTTTTA
1 TAATCAGTGGATAAT-GCTCGTTCGAGCAAACATTTC-GTATAATCAGTAGACATCGATCGTTTA
* *
37071008 AGCACGTTTAGTA
64 AGCACATTCAGTA
37071021 TA
1 TA
37071023 TTTAGTAGAT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
74 4 0.06
75 39 0.61
76 21 0.33
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (76 bp):
TAATCAGTGGATAATGCTCGTTCGAGCAAACATTTCGTATAATCAGTAGACATCGATCGTTTAAG
CACATTCAGTA
Found at i:37071103 original size:112 final size:112
Alignment explanation
Indices: 37070906--37071141 Score: 373
Period size: 112 Copynumber: 2.1 Consensus size: 112
37070896 CATACATTTC
* * *
37070906 GTATAATCAGTAGATATCGCTCGTTTAAGCCCATTCAGTATAATCAGTGGATATCGCTCGTTTGA
1 GTATATTCAGTAGATATCGCTCATTTAAGCCCATTCAGTATAATCAATGGATATCGCTCGTTTGA
*
37070971 GAAACTTTCAGTATAATCAGTAGACATTTATCTTTTAAGCACGTTTA
66 GAAACTTTCAGTATAATCAGTAGACATTGATCTTTTAAGCACGTTTA
* ** * *
37071018 GTATATTTAGTAGATATTTCTCATTTGAGCCCATTCAGTATAATCAATGGATATCGCTTGTTTGA
1 GTATATTCAGTAGATATCGCTCATTTAAGCCCATTCAGTATAATCAATGGATATCGCTCGTTTGA
* *
37071083 GCAACTTTCAGTATAATCAGTAGACATTGCTCTTTTAAGCACGTTTA
66 GAAACTTTCAGTATAATCAGTAGACATTGATCTTTTAAGCACGTTTA
37071130 GTATATTCAGTA
1 GTATATTCAGTA
37071142 TTCCATTTTT
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 112 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (112 bp):
GTATATTCAGTAGATATCGCTCATTTAAGCCCATTCAGTATAATCAATGGATATCGCTCGTTTGA
GAAACTTTCAGTATAATCAGTAGACATTGATCTTTTAAGCACGTTTA
Found at i:37075304 original size:20 final size:19
Alignment explanation
Indices: 37075279--37075317 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
37075269 CCGGCCCGAT
*
37075279 TTTTAATAAACACAAAAATA
1 TTTTAA-AAACAAAAAAATA
*
37075299 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
37075318 AAAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:37081133 original size:42 final size:42
Alignment explanation
Indices: 37081085--37081167 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
37081075 ATTTGCAATG
*
37081085 TTATACATTAATTTTAATTTGGTCTATTTGTATATATCAAAA
1 TTATACATTAATTTTAATTTGGTCTATTTATATATATCAAAA
*
37081127 TTATACATTAATTTTAATTTGGTTTATTTATATATATCAAA
1 TTATACATTAATTTTAATTTGGTCTATTTATATATATCAAA
37081168 CTTTAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (42 bp):
TTATACATTAATTTTAATTTGGTCTATTTATATATATCAAAA
Found at i:37083830 original size:4 final size:4
Alignment explanation
Indices: 37083821--37083847 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
37083811 CCTAACTTTA
37083821 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
37083848 TGTAGCCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:37083981 original size:19 final size:18
Alignment explanation
Indices: 37083957--37084002 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
37083947 ATAACTTTTG
37083957 ATTTTTGATTCAAGTTAAT
1 ATTTTTGATTCAA-TTAAT
*
37083976 ATTTTT--TTCAATTGAT
1 ATTTTTGATTCAATTAAT
*
37083992 ATTATTGATTC
1 ATTTTTGATTC
37084003 TTGCAAGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 9 0.39
17 5 0.22
18 3 0.13
19 6 0.26
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (18 bp):
ATTTTTGATTCAATTAAT
Found at i:37085570 original size:33 final size:33
Alignment explanation
Indices: 37085511--37085573 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
37085501 ACGGCTACTG
* *
37085511 GGAGATGGCGGAGATTTTTGCTTAGGAGGGTTA
1 GGAGATGGCGGAGATTGTTGCGTAGGAGGGTTA
*
37085544 GGAGATGGCGGTA-ATTGTTGGGTAGGAGGG
1 GGAGATGGCGG-AGATTGTTGCGTAGGAGGG
37085574 GTATGAGACG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 25 0.96
34 1 0.04
ACGTcount: A:0.21, C:0.05, G:0.48, T:0.27
Consensus pattern (33 bp):
GGAGATGGCGGAGATTGTTGCGTAGGAGGGTTA
Found at i:37085780 original size:30 final size:30
Alignment explanation
Indices: 37085746--37085821 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
37085736 GTTATTTCTG
*
37085746 GTGGTGGTGGTGGTGAAAGTTTTTCTCCTA
1 GTGGTGGCGGTGGTGAAAGTTTTTCTCCTA
* * *
37085776 GTGGTGGCGGTGGTGAATGTTTTTCTTCTT
1 GTGGTGGCGGTGGTGAAAGTTTTTCTCCTA
*
37085806 GTGGTGGCGATGGTGA
1 GTGGTGGCGGTGGTGA
37085822 CGTTTTAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.11, C:0.09, G:0.41, T:0.39
Consensus pattern (30 bp):
GTGGTGGCGGTGGTGAAAGTTTTTCTCCTA
Found at i:37095354 original size:26 final size:27
Alignment explanation
Indices: 37095303--37095359 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
37095293 AAAGGTTGTT
*
37095303 AAATGACCGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTAGAAGGGTA
*
37095330 AAATGA-CGAAAATACCCTAG-GGGGTA
1 AAATGACCG-AAATACCCTAGAAGGGTA
37095356 AAAT
1 AAAT
37095360 TACCATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTAGAAGGGTA
Found at i:37095499 original size:33 final size:33
Alignment explanation
Indices: 37095451--37095529 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
37095441 CTGATACTGA
* *
37095451 GCATGACATCTTGCATTCACA-TATGTTACTATG
1 GCATGTCATCCTGCATTCA-AGTATGTTACTATG
37095484 GCATGTCATCCTGCATTCAAGTATGTTACTATG
1 GCATGTCATCCTGCATTCAAGTATGTTACTATG
37095517 GCATGTCATCCTG
1 GCATGTCATCCTG
37095530 TATGGGGTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
32 1 0.02
33 42 0.98
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (33 bp):
GCATGTCATCCTGCATTCAAGTATGTTACTATG
Found at i:37096985 original size:14 final size:14
Alignment explanation
Indices: 37096968--37097011 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
37096958 ATATTGTAAC
37096968 GGTCAGATTCCAAT
1 GGTCAGATTCCAAT
* **
37096982 GGTCATATTGTAAT
1 GGTCAGATTCCAAT
*
37096996 GGTTAGATTCCAAT
1 GGTCAGATTCCAAT
37097010 GG
1 GG
37097012 CCATATTGTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (14 bp):
GGTCAGATTCCAAT
Found at i:37096989 original size:28 final size:28
Alignment explanation
Indices: 37096956--37097051 Score: 113
Period size: 28 Copynumber: 3.5 Consensus size: 28
37096946 CATTCAACGA
37096956 CCATATTGTAACGGTCAGATTCCAATGG
1 CCATATTGTAACGGTCAGATTCCAATGG
* * *
37096984 TCATATTGTAATGGTTAGATTCCAATGG
1 CCATATTGTAACGGTCAGATTCCAATGG
** * **
37097012 CCATATTGTAACAATTAGATTCCAA-CA
1 CCATATTGTAACGGTCAGATTCCAATGG
37097039 CCATATTGTAACG
1 CCATATTGTAACG
37097052 ATCAAATTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
27 12 0.21
28 46 0.79
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (28 bp):
CCATATTGTAACGGTCAGATTCCAATGG
Found at i:37106509 original size:15 final size:16
Alignment explanation
Indices: 37106484--37106514 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
37106474 CTTTCGGGTC
37106484 ATTACAATTTATTTAA
1 ATTACAATTTATTTAA
37106500 ATTA-AATTTATTTAA
1 ATTACAATTTATTTAA
37106515 TAAATCCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTACAATTTATTTAA
Found at i:37116865 original size:3 final size:3
Alignment explanation
Indices: 37116836--37116903 Score: 79
Period size: 3 Copynumber: 23.3 Consensus size: 3
37116826 AAATAGATAT
* * *
37116836 TTA TTG TTA TAA TTA TTAA TTA CTA TTA TT- TT- TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
37116879 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
37116904 ATTTATGGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 6 0.11
3 47 0.84
4 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:37116909 original size:12 final size:12
Alignment explanation
Indices: 37116832--37116909 Score: 51
Period size: 12 Copynumber: 6.7 Consensus size: 12
37116822 TATGAAATAG
*
37116832 ATATTTATTGTT
1 ATATTTATTATT
*
37116844 ATAATTATTAATT
1 ATATTTATT-ATT
37116857 ACTA-TTATT-TT
1 A-TATTTATTATT
*
37116868 -T-TATATTATT
1 ATATTTATTATT
37116878 AT-TATTATTATT
1 ATAT-TTATTATT
37116890 AT-TATTATTATT
1 ATAT-TTATTATT
37116902 ATATTTAT
1 ATATTTAT
37116910 GGAATAAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
9 5 0.09
10 2 0.04
11 4 0.07
12 33 0.60
13 9 0.16
14 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (12 bp):
ATATTTATTATT
Found at i:37118589 original size:3 final size:3
Alignment explanation
Indices: 37118581--37118610 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37118571 ATTATATTCC
37118581 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
37118611 TGAATTATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:37124027 original size:50 final size:50
Alignment explanation
Indices: 37123944--37124184 Score: 329
Period size: 50 Copynumber: 4.8 Consensus size: 50
37123934 ATTTGGGTAA
* * *
37123944 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGCCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
37123994 AGAGGTCCCATGTAAGACCATGTCTGGGGCATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
37124044 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* ** * * *
37124094 AGATGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * *
37124144 AGAACATCCCATGTAAGACCATGTCTCGGACATGGCTTTGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
37124185 AATGTTATGA
Statistics
Matches: 168, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
50 137 0.82
51 31 0.18
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:37131144 original size:50 final size:50
Alignment explanation
Indices: 37131069--37131253 Score: 203
Period size: 50 Copynumber: 3.7 Consensus size: 50
37131059 AAAGAGATCC
*
37131069 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGGTCT
* **
37131119 CATGTAAGACCATGTCTGAGACATGG-AGTTGGCACCGAGATGAGTGGT-T
1 CATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCGAGATGAAAGGTCT
** * * * ** *
37131168 CCCCGTAAGACCAAGTCTGGGACATGGCATGGGCACCGACATGAGAACATCC
1 -CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-AAGGTCT
* *
37131220 CATGTAAGACCATGTCTCGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
37131254 TGTTATGATC
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
49 2 0.02
50 77 0.71
51 30 0.28
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGGTCT
Found at i:37133350 original size:26 final size:26
Alignment explanation
Indices: 37133319--37133379 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
37133309 AGCCATATCG
*
37133319 GGAAGCTCACAAAGAGCCAATTAACA
1 GGAAGCTCACAAAGAGCCAATGAACA
* * * *
37133345 GGAAGCTTACGAAGAGCCTATGATCA
1 GGAAGCTCACAAAGAGCCAATGAACA
37133371 GGAAGCTCA
1 GGAAGCTCA
37133380 TAAGAGTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.15
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCAATGAACA
Found at i:37136335 original size:20 final size:20
Alignment explanation
Indices: 37136307--37136353 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
37136297 ACCACTTCAC
*
37136307 TTACATACTTACCATTCCAT
1 TTACTTACTTACCATTCCAT
* * *
37136327 TTTCTTACTTTCCGTTCCAT
1 TTACTTACTTACCATTCCAT
37136347 TTACTTA
1 TTACTTA
37136354 GCATAAGCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (20 bp):
TTACTTACTTACCATTCCAT
Found at i:37142970 original size:27 final size:30
Alignment explanation
Indices: 37142911--37142977 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 30
37142901 AAGCGATGGT
37142911 GATCTTATTTTACTAGAAGTTGATGTGATAA
1 GATCTTATTTTACTAGAAG-TGATGTGATAA
37142942 GATCTTATTTTACTAGAA-TG-TG-GATAA
1 GATCTTATTTTACTAGAAGTGATGTGATAA
37142969 GATCTTATT
1 GATCTTATT
37142978 CTGGCAATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 14 0.39
28 2 0.06
29 2 0.06
31 18 0.50
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.43
Consensus pattern (30 bp):
GATCTTATTTTACTAGAAGTGATGTGATAA
Found at i:37154870 original size:19 final size:19
Alignment explanation
Indices: 37154843--37154880 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37154833 GAAGTCTTCA
*
37154843 AGATTAGTATTAATCAGAC
1 AGATCAGTATTAATCAGAC
37154862 AGATCAGTATTAATCAGAC
1 AGATCAGTATTAATCAGAC
37154881 GCATTAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (19 bp):
AGATCAGTATTAATCAGAC
Found at i:37158205 original size:13 final size:13
Alignment explanation
Indices: 37158182--37158218 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
37158172 TTTAAATATA
37158182 TATAA-TTTATTT
1 TATAATTTTATTT
*
37158194 TATATTTTTATTT
1 TATAATTTTATTT
37158207 TATAATTTTATT
1 TATAATTTTATT
37158219 AACTGAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATAATTTTATTT
Found at i:37158586 original size:3 final size:3
Alignment explanation
Indices: 37158578--37158607 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37158568 TAATCGATTG
37158578 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37158608 GATGATGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37164509 original size:15 final size:16
Alignment explanation
Indices: 37164480--37164509 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37164470 CAAACATGCT
37164480 TTAACACATTATCAAA
1 TTAACACATTATCAAA
37164496 TTAACACA-TATCAA
1 TTAACACATTATCAA
37164510 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:37165659 original size:25 final size:25
Alignment explanation
Indices: 37165630--37165739 Score: 116
Period size: 25 Copynumber: 4.4 Consensus size: 25
37165620 TACGAGCTAT
*
37165630 GAATCGGTATGCTCTCACAAGATGTA
1 GAATCGGTAAGCTCTCACAAGATG-A
** **
37165656 -AATCGGTAAGCTCAT-ATGAGCCGA
1 GAATCGGTAAGCTC-TCACAAGATGA
*
37165680 GAATCGGTAAGCTCTCACTAGATGA
1 GAATCGGTAAGCTCTCACAAGATGA
* *
37165705 TAATCGGTAAGCTCTCACAAGCTGA
1 GAATCGGTAAGCTCTCACAAGATGA
37165730 GAATCGGTAA
1 GAATCGGTAA
37165740 TCCCTAATGA
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
24 2 0.03
25 65 0.96
26 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
GAATCGGTAAGCTCTCACAAGATGA
Found at i:37165732 original size:50 final size:50
Alignment explanation
Indices: 37165630--37165739 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 50
37165620 TACGAGCTAT
* **
37165630 GAATCGGTATGCTCTCACAAGATGTAAATCGGTAAGCTCATATGAGCCGA
1 GAATCGGTAAGCTCTCACAAGATGTAAATCGGTAAGCTCATACAAGCCGA
* *
37165680 GAATCGGTAAGCTCTCACTAGATG-ATAATCGGTAAGCTC-TCACAAGCTGA
1 GAATCGGTAAGCTCTCACAAGATGTA-AATCGGTAAGCTCAT-ACAAGCCGA
37165730 GAATCGGTAA
1 GAATCGGTAA
37165740 TCCCTAATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
49 2 0.04
50 51 0.96
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (50 bp):
GAATCGGTAAGCTCTCACAAGATGTAAATCGGTAAGCTCATACAAGCCGA
Found at i:37167587 original size:11 final size:11
Alignment explanation
Indices: 37167571--37167595 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37167561 TTAAAACCTC
37167571 TTAAGGAAAGT
1 TTAAGGAAAGT
37167582 TTAAGGAAAGT
1 TTAAGGAAAGT
37167593 TTA
1 TTA
37167596 GAAACCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (11 bp):
TTAAGGAAAGT
Found at i:37169574 original size:14 final size:14
Alignment explanation
Indices: 37169555--37169609 Score: 67
Period size: 14 Copynumber: 4.0 Consensus size: 14
37169545 CTGAACCTTG
*
37169555 AGGTTTAGGGTTCT
1 AGGTTTAGGGTTCA
*
37169569 AGGTTTAAGGTTCA
1 AGGTTTAGGGTTCA
*
37169583 AGGTTT-GAGTTCA
1 AGGTTTAGGGTTCA
*
37169596 AGGTTCAGGGTTCA
1 AGGTTTAGGGTTCA
37169610 TGGTAAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 10 0.29
14 24 0.71
ACGTcount: A:0.22, C:0.09, G:0.33, T:0.36
Consensus pattern (14 bp):
AGGTTTAGGGTTCA
Found at i:37169599 original size:27 final size:28
Alignment explanation
Indices: 37169555--37169609 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
37169545 CTGAACCTTG
* * *
37169555 AGGTTTAGGGTTCTAGGTTTAAGGTTCA
1 AGGTTTAGAGTTCAAGGTTCAAGGTTCA
*
37169583 AGGTTT-GAGTTCAAGGTTCAGGGTTCA
1 AGGTTTAGAGTTCAAGGTTCAAGGTTCA
37169610 TGGTAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.22, C:0.09, G:0.33, T:0.36
Consensus pattern (28 bp):
AGGTTTAGAGTTCAAGGTTCAAGGTTCA
Found at i:37171137 original size:34 final size:33
Alignment explanation
Indices: 37171032--37171141 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 33
37171022 TTTAGTGTTC
* *
37171032 TTTTTTAAAAATTAATTAAATTAGGGTTTAGGG
1 TTTTTAAAAAATTAATTAAATTAGGGTTTAGTG
* * *
37171065 GTTTTAAATAAATTAAATAAATTAGGGTTTAGTA
1 TTTTTAAA-AAATTAATTAAATTAGGGTTTAGTG
*
37171099 TTTTTAAGAAAATTAATTAAATTAAGGTTT-GTTG
1 TTTTTAA-AAAATTAATTAAATTAGGGTTTAG-TG
37171133 TTTTTAAAA
1 TTTTTAAAA
37171142 TAATATTGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
33 9 0.14
34 55 0.85
35 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAGGGTTTAGTG
Found at i:37171352 original size:126 final size:126
Alignment explanation
Indices: 37171203--37171471 Score: 398
Period size: 126 Copynumber: 2.1 Consensus size: 126
37171193 ATTTTTTGTT
* * *
37171203 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTCAGAATACGATTT-TGAACAAATAGTGTGAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTCAGAAGACG-TTTCTGAACAAATAGTGTCAAA
* *
37171267 AATGCTTCAAGCAAGATGCACTGTTAGCAAAATT-ACTGAAAAAAGCTCCCATGTAGATACTC
65 AATGCTTCAAGCAAGATGCACTGTCAGCAAAATTGA-TGAAAAAAGCTCCCACGTAGATACTC
* *
37171329 TTTTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTCAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* * *
37171394 ATGCTTCAAGCAAGATGCACTGTCAGCAAAATTGATGAAAAAAGTTCTCACGTTGATACTC
66 ATGCTTCAAGCAAGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCACGTAGATACTC
**
37171455 GATTTCTATAGTAGTTC
1 TTTTTCTATAGTAGTTC
37171472 ATGTTTGGCC
Statistics
Matches: 129, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
125 3 0.02
126 125 0.97
127 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (126 bp):
TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTCAGAAGACGTTTCTGAACAAATAGTGTCAAAA
ATGCTTCAAGCAAGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCACGTAGATACTC
Found at i:37174589 original size:24 final size:23
Alignment explanation
Indices: 37174533--37174589 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
37174523 AAGAACTTAT
37174533 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
37174556 ATTTACTATT-AAAATATTAAAAATA
1 ATTT--TATTAAAAATA-TAAAAATA
37174581 ACTTTTATT
1 A-TTTTATT
37174590 TTATTAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 10 0.33
25 13 0.43
26 3 0.10
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:37175039 original size:18 final size:18
Alignment explanation
Indices: 37175016--37175051 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
37175006 AAAAGAAAAT
*
37175016 ATATAAGGGTTAGGATAC
1 ATATAAGGGATAGGATAC
37175034 ATATAAGGGATAGGATAC
1 ATATAAGGGATAGGATAC
37175052 GCACCTACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (18 bp):
ATATAAGGGATAGGATAC
Found at i:37176847 original size:30 final size:30
Alignment explanation
Indices: 37176803--37176863 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
37176793 ATTAAAGAGG
* *
37176803 GCTTTGAGATATTTAAGGAGAAATTTGAGA
1 GCTTTAAGAAATTTAAGGAGAAATTTGAGA
*
37176833 GCTTTAAGAAATTTAGGGAGAAATTTGAGA
1 GCTTTAAGAAATTTAAGGAGAAATTTGAGA
37176863 G
1 G
37176864 TTTTTTTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (30 bp):
GCTTTAAGAAATTTAAGGAGAAATTTGAGA
Found at i:37184342 original size:51 final size:51
Alignment explanation
Indices: 37184218--37184353 Score: 170
Period size: 50 Copynumber: 2.7 Consensus size: 51
37184208 AGTGAAAAAG
*
37184218 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
* * * * *
37184269 A-GATCGCATGTGTAGTACTATGTGTAGGCTACTGCGTGTATCC-G-ATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGGAATGAT
*
37184318 AATGGTCACATGTGTAGTACTATGTACAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
37184354 TGTGAACCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
49 4 0.06
50 36 0.51
51 31 0.44
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
Found at i:37186469 original size:74 final size:74
Alignment explanation
Indices: 37186356--37186504 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
37186346 CTTGGTGTTG
37186356 AAACAACTCATTTACTTGAAAGATTATATGGCTAGTATGTGATGAACTCACCTCTTGATATGGTT
1 AAACAACTCATTTACTTGAAAGATTATATGGCTAGTATGTGATGAACTCACCTCTTGATATGGTT
37186421 GTGGTGACA
66 GTGGTGACA
37186430 AAACAACTCATTTACTTGAAAGATTATATGGCTAGTATGTGATGAACTCACCTCTTGATATGGTT
1 AAACAACTCATTTACTTGAAAGATTATATGGCTAGTATGTGATGAACTCACCTCTTGATATGGTT
37186495 GTGGTGACA
66 GTGGTGACA
37186504 A
1 A
37186505 GATTAAGTGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (74 bp):
AAACAACTCATTTACTTGAAAGATTATATGGCTAGTATGTGATGAACTCACCTCTTGATATGGTT
GTGGTGACA
Found at i:37202540 original size:28 final size:28
Alignment explanation
Indices: 37202504--37202563 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
37202494 GGGGGGAAGT
* *
37202504 AAAAGTTTTGCGTGAAAGCAAAAGGAAA
1 AAAACTTTTGCGAGAAAGCAAAAGGAAA
* *
37202532 AAAACTTTTGGGAGAAAGTAAAAGGAAA
1 AAAACTTTTGCGAGAAAGCAAAAGGAAA
37202560 AAAA
1 AAAA
37202564 AATTTGTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.17
Consensus pattern (28 bp):
AAAACTTTTGCGAGAAAGCAAAAGGAAA
Found at i:37202617 original size:83 final size:85
Alignment explanation
Indices: 37202472--37202626 Score: 199
Period size: 83 Copynumber: 1.8 Consensus size: 85
37202462 ACATAAATTC
* * * * *
37202472 AAAAAAAATGTTTTTGGAGTTTGGGGGGAAGTAAAAGTTTTGCGTGAAAGCAAAAGGAAAAAAAC
1 AAAAAAAATATTTGTGGAGTTTGGAGGGAAGTAAAAGTTTTGCGAGAAAACAAAAGGAAAAAAAC
37202537 TTTTGGGAGAAAGTAAAAGG
66 TTTTGGGAGAAAGTAAAAGG
* * *
37202557 AAAAAAAA-ATTTGTGG-GTTTGGAGGGAAGTAACAGTTTTGGGGAGAAAATAAAAGG-AAAAAA
1 AAAAAAAATATTTGTGGAGTTTGGAGGGAAGTAAAAGTTTT-GCGAGAAAACAAAAGGAAAAAAA
*
37202619 GTTTTGGG
65 CTTTTGGG
37202627 GGAACTAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
83 34 0.57
84 18 0.30
85 8 0.13
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.24
Consensus pattern (85 bp):
AAAAAAAATATTTGTGGAGTTTGGAGGGAAGTAAAAGTTTTGCGAGAAAACAAAAGGAAAAAAAC
TTTTGGGAGAAAGTAAAAGG
Found at i:37202764 original size:30 final size:29
Alignment explanation
Indices: 37202704--37202764 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
37202694 AAGGGAAAGT
* *
37202704 AAAAGTTTTGGGGAGAAAGTAAAAGAAAA
1 AAAAGTCTTGGGGAGAAAATAAAAGAAAA
*
37202733 AAAAGTCTTGGGGAGAAAATAAAAGGAAA
1 AAAAGTCTTGGGGAGAAAATAAAAGAAAA
37202762 AAA
1 AAA
37202765 GTTTTGAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.57, C:0.02, G:0.26, T:0.15
Consensus pattern (29 bp):
AAAAGTCTTGGGGAGAAAATAAAAGAAAA
Found at i:37204358 original size:20 final size:21
Alignment explanation
Indices: 37204335--37204385 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
37204325 ACGGGTTTAC
* *
37204335 ACTTCGGTGCCATTGTTTG-T
1 ACTTCGGTGCCACTATTTGCT
*
37204355 ACTTCAGTGCCACTATTTGCT
1 ACTTCGGTGCCACTATTTGCT
37204376 -CTTCGGTGCC
1 ACTTCGGTGCC
37204386 TTGGAGTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (21 bp):
ACTTCGGTGCCACTATTTGCT
Found at i:37216622 original size:19 final size:20
Alignment explanation
Indices: 37216584--37216623 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
37216574 CATATCAATG
* *
37216584 ACATATGTTATGAAATAAAT
1 ACATATGTTAAGAAAAAAAT
37216604 ACATAT-TTAAGAAAAAAAT
1 ACATATGTTAAGAAAAAAAT
37216623 A
1 A
37216624 TTGAAGTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (20 bp):
ACATATGTTAAGAAAAAAAT
Found at i:37217046 original size:2 final size:2
Alignment explanation
Indices: 37217041--37217068 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37217031 TATATACTCC
37217041 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37217069 GGGAGATCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37220253 original size:38 final size:38
Alignment explanation
Indices: 37220132--37220278 Score: 136
Period size: 38 Copynumber: 3.8 Consensus size: 38
37220122 TAAAGACATG
* * * **
37220132 TATTAAAGATG-TCTAAAATAGGACATATTTAAAACATA
1 TATTAAAGATGTTC-AAATTATGACATAATTAAAACCCA
* * *
37220170 TATTTAAA-ATGTCCTAAACTATGACATAATTAAAAACCCT
1 TA-TTAAAGATGTTC-AAATTATGACATAATT-AAAACCCA
* *
37220210 TATTAAAGATGTTCAGATTATGACATAATTAAAACTCA
1 TATTAAAGATGTTCAAATTATGACATAATTAAAACCCA
* *
37220248 TATTAATGATGTTCAAATTGTGACATAATTA
1 TATTAAAGATGTTCAAATTATGACATAATTA
37220279 TAGACTTAAA
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
38 39 0.43
39 39 0.43
40 12 0.13
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.35
Consensus pattern (38 bp):
TATTAAAGATGTTCAAATTATGACATAATTAAAACCCA
Found at i:37226102 original size:43 final size:43
Alignment explanation
Indices: 37225972--37226223 Score: 321
Period size: 42 Copynumber: 5.9 Consensus size: 43
37225962 GCTATATAAT
* * *
37225972 ATGACCTTTAGCGGCGCTTCTAT-AAAAACGCCACTAAAGAAC
1 ATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAAC
* * *
37226014 ATGACATTTAGCGGCGCTTCTAT-AAAAACGCCGCTAAAGAAC
1 ATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAAC
*
37226056 ATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAGC
1 ATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAAC
* *
37226099 ATGACC-TTAGCGGTGCTTTTATCACAAACGCCGCTAAAGAGC
1 ATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAAC
* * * *
37226141 ATGACCTTTAACGGTGCTTTTATCACAAACACCTCTAAAGAAC
1 ATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAAC
* * * *
37226184 ATGATCTTTAGTGGCACTTTTTATCACAAATGCCGCTAAA
1 ATGACCTTTAGCGGCGC-TTTTATCACAAACGCCGCTAAA
37226224 AATGTCGTTC
Statistics
Matches: 188, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
42 102 0.54
43 67 0.36
44 19 0.10
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAAC
Found at i:37226133 original size:85 final size:85
Alignment explanation
Indices: 37225972--37226223 Score: 319
Period size: 85 Copynumber: 3.0 Consensus size: 85
37225962 GCTATATAAT
* * *
37225972 ATGACCTTTAGCGGCGCTTCTAT-AAAAACGCCACTAAAGAACATGACATTTAGCGGCGCTTCTA
1 ATGACCTTTAGCGGCGCTTTTATCACAAACGCCACTAAAGAACATGAC-TTTAGCGGCGCTTTTA
*
37226036 T-AAAAACGCCGCTAAAGAAC
65 TCACAAACGCCGCTAAAGAAC
* * * *
37226056 ATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAGCATGACCTTAGCGGTGCTTTTAT
1 ATGACCTTTAGCGGCGCTTTTATCACAAACGCCACTAAAGAACATGACTTTAGCGGCGCTTTTAT
*
37226121 CACAAACGCCGCTAAAGAGC
66 CACAAACGCCGCTAAAGAAC
* * * * * *
37226141 ATGACCTTTAACGGTGCTTTTATCACAAACACCTCTAAAGAACATGATCTTTAGTGGCACTTTTT
1 ATGACCTTTAGCGGCGCTTTTATCACAAACGCCACTAAAGAACATGA-CTTTAGCGGCGC-TTTT
*
37226206 ATCACAAATGCCGCTAAA
64 ATCACAAACGCCGCTAAA
37226224 AATGTCGTTC
Statistics
Matches: 145, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
84 36 0.25
85 80 0.55
86 8 0.06
87 21 0.14
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
ATGACCTTTAGCGGCGCTTTTATCACAAACGCCACTAAAGAACATGACTTTAGCGGCGCTTTTAT
CACAAACGCCGCTAAAGAAC
Found at i:37231494 original size:7 final size:7
Alignment explanation
Indices: 37231355--37231569 Score: 100
Period size: 7 Copynumber: 30.7 Consensus size: 7
37231345 CCATATCAAT
37231355 CTAAACC
1 CTAAACC
*
37231362 ATAAACC
1 CTAAACC
* *
37231369 TTAAGCCC
1 CTAA-ACC
*
37231377 CTAACCC
1 CTAAACC
37231384 CTAAACC
1 CTAAACC
* *
37231391 AT-AACTA
1 CTAAAC-C
37231398 CTAAA-C
1 CTAAACC
37231404 CTAAAACC
1 CT-AAACC
*
37231412 TTAAACC
1 CTAAACC
*
37231419 TTAAACC
1 CTAAACC
37231426 CTAAACC
1 CTAAACC
*
37231433 ATAAA-C
1 CTAAACC
*
37231439 CTACACC
1 CTAAACC
*
37231446 CTAAATC
1 CTAAACC
* *
37231453 GTAAACA
1 CTAAACC
*
37231460 CTAAACT
1 CTAAACC
* *
37231467 CTTAACA
1 CTAAACC
37231474 CTAAACC
1 CTAAACC
37231481 CTAAACC
1 CTAAACC
37231488 CTAAACC
1 CTAAACC
*
37231495 TTAAACC
1 CTAAACC
*
37231502 CCAAA--
1 CTAAACC
*
37231507 CTAGAAAC
1 CTA-AACC
**
37231515 CTTCACC
1 CTAAACC
*
37231522 CTAAACT
1 CTAAACC
37231529 CTAAACC
1 CTAAACC
*
37231536 CT-TACC
1 CTAAACC
37231542 CTTAAACC
1 C-TAAACC
* *
37231550 GTAATAGC
1 CTAA-ACC
*
37231558 CTAACCC
1 CTAAACC
37231565 CTAAA
1 CTAAA
37231570 ACCATGAACA
Statistics
Matches: 152, Mismatches: 44, Indels: 24
0.69 0.20 0.11
Matches are distributed among these distances:
5 2 0.01
6 15 0.10
7 116 0.76
8 19 0.12
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:37231502 original size:21 final size:21
Alignment explanation
Indices: 37231355--37231535 Score: 120
Period size: 21 Copynumber: 8.7 Consensus size: 21
37231345 CCATATCAAT
* *
37231355 CTAAACCATAAACCTTAAGCCC
1 CTAAACCCTAAACCTTAA-ACC
* * *
37231377 CTAACCCCTAAACCAT-AACTA
1 CTAAACCCTAAACCTTAAAC-C
37231398 CTAAA-CCTAAAACCTTAAACC
1 CTAAACCCT-AAACCTTAAACC
* *
37231419 TTAAACCCTAAACCATAAA-C
1 CTAAACCCTAAACCTTAAACC
* * * *
37231439 CTACACCCTAAATCGTAAACA
1 CTAAACCCTAAACCTTAAACC
* *
37231460 CTAAACTCTTAACAC-TAAACC
1 CTAAACCCTAAAC-CTTAAACC
37231481 CTAAACCCTAAACCTTAAACC
1 CTAAACCCTAAACCTTAAACC
* *** *
37231502 CCAAACTAGAAACCTT-CACC
1 CTAAACCCTAAACCTTAAACC
*
37231522 CTAAACTCTAAACC
1 CTAAACCCTAAACC
37231536 CTTACCCTTA
Statistics
Matches: 122, Mismatches: 30, Indels: 16
0.73 0.18 0.10
Matches are distributed among these distances:
20 35 0.29
21 67 0.55
22 20 0.16
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (21 bp):
CTAAACCCTAAACCTTAAACC
Found at i:37231738 original size:21 final size:20
Alignment explanation
Indices: 37231714--37231752 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
37231704 CCATAGACAT
37231714 TAAACCTTAAATATAAAATCC
1 TAAACCTTAAA-ATAAAATCC
37231735 TAAACCTTAAAATAAAAT
1 TAAACCTTAAAATAAAAT
37231753 GATTTTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAACCTTAAAATAAAATCC
Found at i:37231893 original size:40 final size:40
Alignment explanation
Indices: 37231836--37232025 Score: 236
Period size: 40 Copynumber: 4.8 Consensus size: 40
37231826 TAATTTTTTT
*
37231836 GCGGCATTTTTCAAAAAGCGCCGCTAATGATCGACCTATA
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATA
* * *
37231876 GTGGCATTTTTCAAAAAGCGACGCTAATGCTCGACCTACA
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATA
* * * * * *
37231916 GTGGCATTTTTCACAAATCTCCGTTAATGCTCGATCTATA
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATA
* * * * *
37231956 GCGGCGTTTTTCAAAAAGTGCTGCTAACGCTCGATCTATA
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATA
*
37231996 GCGGCATTTTTCAAAAAACGCCGCTAATGC
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGC
37232026 CACTACAGCT
Statistics
Matches: 125, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (40 bp):
GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATA
Found at i:37232137 original size:40 final size:40
Alignment explanation
Indices: 37232070--37232179 Score: 175
Period size: 40 Copynumber: 2.8 Consensus size: 40
37232060 ATTTTTTTTT
*
37232070 GCAGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATA
1 GCAGCGTTTTTCAAAAAGTGCCACTAATGCTCGATCTATA
* * *
37232110 GCGGCGTCTTTCAAAAAGTGCCACTAATGTTCGATCTATA
1 GCAGCGTTTTTCAAAAAGTGCCACTAATGCTCGATCTATA
*
37232150 GCAGCTTTTTTCAAAAAGTGCCACTAATGC
1 GCAGCGTTTTTCAAAAAGTGCCACTAATGC
37232180 CACTAAAGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (40 bp):
GCAGCGTTTTTCAAAAAGTGCCACTAATGCTCGATCTATA
Found at i:37232287 original size:152 final size:153
Alignment explanation
Indices: 37231940--37232305 Score: 518
Period size: 154 Copynumber: 2.4 Consensus size: 153
37231930 AAATCTCCGT
** * *
37231940 TAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCTGCTAACGCTCGATCTATAGCGGCATTT
1 TAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCACTAATGCTCGATCTATAGCAGCATTT
* * *
37232005 TTCAAAAAACGCCGCTAATGCCACTACAGCTCAACATAAAATGGCGTTGTGCTTAATTTTTTTTT
66 TTCAAAAAACGCCACTAATGCCACTAAAGCTCAACATAAAACGGCGTTGTGCTTAA-TTTTTTTT
* * **
37232070 GCAGCGTTTTTCAAAAAGTGCCGC
130 GCAGAGTTTTGCAAAAAGCACCGC
* * *
37232094 TAATGCTCGATCTATAGCGGCGTCTTTCAAAAAGTGCCACTAATGTTCGATCTATAGCAGCTTTT
1 TAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCACTAATGCTCGATCTATAGCAGCATTT
** * *
37232159 TTCAAAAAGTGCCACTAATGCCACTAAAGCTTAACATAAAACGGTGTTGTGCTTAA-TTTTTTTG
66 TTCAAAAAACGCCACTAATGCCACTAAAGCTCAACATAAAACGGCGTTGTGCTTAATTTTTTTTG
*
37232223 CGGAGTTTTGCAAAAAGCACCGC
131 CAGAGTTTTGCAAAAAGCACCGC
* * *
37232246 TAATTCTCGATCTATAGCGGCATTTTTCAAAAAGAGCCACTAATGCTCGATCTATAGCAG
1 TAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCACTAATGCTCGATCTATAGCAG
37232306 TGTTTTTATC
Statistics
Matches: 188, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
152 81 0.43
154 107 0.57
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (153 bp):
TAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCACTAATGCTCGATCTATAGCAGCATTT
TTCAAAAAACGCCACTAATGCCACTAAAGCTCAACATAAAACGGCGTTGTGCTTAATTTTTTTTG
CAGAGTTTTGCAAAAAGCACCGC
Found at i:37232289 original size:40 final size:40
Alignment explanation
Indices: 37232228--37232303 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
37232218 TTTTGCGGAG
* *
37232228 TTTTGCAAAAAGCACCGCTAATTCTCGATCTATAGCGGCA
1 TTTTGCAAAAAGCACCACTAATGCTCGATCTATAGCGGCA
*
37232268 TTTTTCAAAAAG-AGCCACTAATGCTCGATCTATAGC
1 TTTTGCAAAAAGCA-CCACTAATGCTCGATCTATAGC
37232304 AGTGTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 31 0.97
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (40 bp):
TTTTGCAAAAAGCACCACTAATGCTCGATCTATAGCGGCA
Found at i:37232312 original size:40 final size:40
Alignment explanation
Indices: 37232227--37232312 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
37232217 TTTTTGCGGA
* * * *
37232227 GTTTTGCAAAAAGCACCGCTAATTCTCGATCTATAGCGGC
1 GTTTTTCAAAAAGCACCACTAATGCTCGATCTATAGCAGC
* *
37232267 ATTTTTCAAAAAG-AGCCACTAATGCTCGATCTATAGCAGT
1 GTTTTTCAAAAAGCA-CCACTAATGCTCGATCTATAGCAGC
37232307 GTTTTT
1 GTTTTT
37232313 ATCCAAATAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (40 bp):
GTTTTTCAAAAAGCACCACTAATGCTCGATCTATAGCAGC
Found at i:37232809 original size:25 final size:25
Alignment explanation
Indices: 37232781--37232828 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
37232771 AAAGCACGCC
37232781 ATATCAGGAAGCTCACAAAGAGCCT
1 ATATCAGGAAGCTCACAAAGAGCCT
* *
37232806 ATATCAGGACGCTCATAAAGAGC
1 ATATCAGGAAGCTCACAAAGAGC
37232829 TGCAGTATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (25 bp):
ATATCAGGAAGCTCACAAAGAGCCT
Found at i:37242735 original size:21 final size:22
Alignment explanation
Indices: 37242681--37242736 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
37242671 GATTTCACAA
37242681 CTCCCTTCAAATGGCTCTAATC
1 CTCCCTTCAAATGGCTCTAATC
37242703 CTCCCTTCAAATGGCTCTAATC
1 CTCCCTTCAAATGGCTCTAATC
*
37242725 TTCCC-TCAAATG
1 CTCCCTTCAAATG
37242737 AAAATCAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 7 0.21
22 26 0.79
ACGTcount: A:0.23, C:0.36, G:0.09, T:0.32
Consensus pattern (22 bp):
CTCCCTTCAAATGGCTCTAATC
Found at i:37244539 original size:21 final size:22
Alignment explanation
Indices: 37244510--37244560 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
37244500 TCTCTCTCGC
*
37244510 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
37244531 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
37244553 TTT-ATTTT
1 TTTCATTTT
37244561 TCTCTTCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:37248997 original size:192 final size:192
Alignment explanation
Indices: 37248670--37249027 Score: 490
Period size: 192 Copynumber: 1.9 Consensus size: 192
37248660 AATACGGTCG
*
37248670 TGTAAATATTTACAATATTTTACAATTAGGTCCAACACGACCATAGTTAGTTACACAGTCTGTCG
1 TGTAAATATTTACAATATTTTACAATTAGGTCCAACACGACCATAGTTAGTTACACAGCCTGTCG
*** * *
37248735 AAATGGTCATATGACTCTGCATACACAATCTTAGCTCCCATACACAGTTAGGCTACATGGCTGTG
66 AAACAATCATATGACTCTGCATACACAATCTCAGCTCCCATACACAGTTAGGCTACATAGCTGTG
*
37248800 TGTTTTAATCCCACATAGCCTCAGCCTATCACATGGTCTTTTAACAAATGTGCACACAGTCA
131 TGTTTTAATCCCACACAGCCTCAGCCTATCACATGGTCTTTTAACAAATGTGCACACAGTCA
*
37248862 TGTAAATATTTACAA-AGTTTTACAATTAGGTCCAACAC-AGCCATAGTTAGTTACACGGCCTG-
1 TGTAAATATTTACAATA-TTTTACAATTAGGTCCAACACGA-CCATAGTTAGTTACACAGCCTGT
* * * * ** *
37248924 CAGACACAATCATTTGACTTTGCATATACGGTCTCAG-TGCCCATACACAGTTGGGCTACATAGC
64 C-GAAACAATCATATGACTCTGCATACACAATCTCAGCT-CCCATACACAGTTAGGCTACATAGC
* * *
37248988 TGTGTGTTTTAATCCCACACGGCCTCTGCCTGTCACATGG
127 TGTGTGTTTTAATCCCACACAGCCTCAGCCTATCACATGG
37249028 CTTGGCCACA
Statistics
Matches: 144, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
191 4 0.03
192 140 0.97
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (192 bp):
TGTAAATATTTACAATATTTTACAATTAGGTCCAACACGACCATAGTTAGTTACACAGCCTGTCG
AAACAATCATATGACTCTGCATACACAATCTCAGCTCCCATACACAGTTAGGCTACATAGCTGTG
TGTTTTAATCCCACACAGCCTCAGCCTATCACATGGTCTTTTAACAAATGTGCACACAGTCA
Found at i:37249873 original size:13 final size:13
Alignment explanation
Indices: 37249855--37249880 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37249845 TTAAGTTATA
37249855 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37249868 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37249881 GATAGTTTGA
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:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:37258242 original size:17 final size:15
Alignment explanation
Indices: 37258222--37258264 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
37258212 TTCCAATTAG
37258222 CAGTTCATAACATATAA
1 CAGTTCATAA-A-ATAA
37258239 CAGTTCATGCAAAATAA
1 CAGTTCAT--AAAATAA
37258256 CAGTTCATA
1 CAGTTCATA
37258265 CCCCATCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.04
17 20 0.83
18 1 0.04
19 2 0.08
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (15 bp):
CAGTTCATAAAATAA
Found at i:37258773 original size:21 final size:19
Alignment explanation
Indices: 37258749--37258787 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
37258739 TTTTATGTTA
37258749 TATTTAAATTATAAAATTATT
1 TATTTAAA-TAT-AAATTATT
*
37258770 TATTTAGATATAAATTAT
1 TATTTAAATATAAATTAT
37258788 GTTAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 3 0.18
21 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TATTTAAATATAAATTATT
Found at i:37260271 original size:23 final size:21
Alignment explanation
Indices: 37260227--37260305 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
37260217 TTATCAGCTT
* **
37260227 TGCCG-ATCAGGCACTTTATG
1 TGCCGTATCAGGCACCTCGTG
37260247 TGCCGTATTTCAGGCACCTCGTG
1 TGCCGTA--TCAGGCACCTCGTG
*
37260270 TGTCGTATCAGGCACCTCGTG
1 TGCCGTATCAGGCACCTCGTG
** *
37260291 TATCGTTTCAGGCAC
1 TGCCGTATCAGGCAC
37260306 TTATGTGTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
20 5 0.10
21 28 0.56
23 17 0.34
ACGTcount: A:0.16, C:0.28, G:0.25, T:0.30
Consensus pattern (21 bp):
TGCCGTATCAGGCACCTCGTG
Found at i:37260282 original size:21 final size:21
Alignment explanation
Indices: 37260256--37260318 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
37260246 GTGCCGTATT
37260256 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
* *
37260277 TCAGGCACCTCGTGTATCGTT
1 TCAGGCACCTCGTGTGTCGTA
**
37260298 TCAGGCA-CTTATGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
37260318 T
1 T
37260319 ATTGATCAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 10 0.28
21 26 0.72
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.33
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:37266424 original size:3 final size:3
Alignment explanation
Indices: 37266395--37266461 Score: 61
Period size: 3 Copynumber: 23.3 Consensus size: 3
37266385 AAATAGATAT
* * * *
37266395 TTA TTT TTA TAA TTA TTAA ATA CTA TTA TT- TT- TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
37266438 TTA TTA TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
37266462 GGAATAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
2 8 0.15
3 43 0.81
4 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:37267741 original size:23 final size:20
Alignment explanation
Indices: 37267714--37267774 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
37267704 GCTTTGTCGA
37267714 TCAGGCACTTTATGTGTCATATT
1 TCAGGCAC-TTATGTGTC--ATT
** *
37267737 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCA-CTTATGTGTCATT
37267758 TCAGGCACTTATGTGTC
1 TCAGGCACTTATGTGTC
37267775 GTATATTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.25
21 9 0.28
23 14 0.44
24 1 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
TCAGGCACTTATGTGTCATT
Found at i:37268898 original size:17 final size:17
Alignment explanation
Indices: 37268878--37268919 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
37268868 AATAGGGCTT
37268878 GCAATTAAGCAAAGCTC
1 GCAATTAAGCAAAGCTC
*
37268895 GCAATTAAGCAGAGCTC
1 GCAATTAAGCAAAGCTC
37268912 GCACATTA
1 GCA-ATTA
37268920 TAACATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (17 bp):
GCAATTAAGCAAAGCTC
Found at i:37269174 original size:18 final size:18
Alignment explanation
Indices: 37269121--37269211 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
37269111 AGCTCACAAT
* *
37269121 ATACAATTTAGCAAATTA
1 ATACAATTCACCAAATTA
* ** *
37269139 ATGCAATTTGCCATATTA
1 ATACAATTCACCAAATTA
*
37269157 ATACAAATCACCAAATTA
1 ATACAATTCACCAAATTA
*
37269175 ACACAATTCACCATAA-TA
1 ATACAATTCACCA-AATTA
* *
37269193 ATATAATTCACCAAGTTA
1 ATACAATTCACCAAATTA
37269211 A
1 A
37269212 CATGGTTCAC
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
17 1 0.02
18 54 0.95
19 2 0.04
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (18 bp):
ATACAATTCACCAAATTA
Found at i:37271392 original size:28 final size:27
Alignment explanation
Indices: 37271325--37271392 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 27
37271315 TGTATTTCTG
37271325 AGACTGTATCTGATATGGGCCAAGGCCC
1 AGACTGTATCT-ATATGGGCCAAGGCCC
*
37271353 AAACTG-ATTCTATGATGGG-CACAGGCCC
1 AGACTGTA-TCTAT-ATGGGCCA-AGGCCC
37271381 AGACTGTATCTA
1 AGACTGTATCTA
37271393 ACTGAATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
27 5 0.15
28 28 0.82
29 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (27 bp):
AGACTGTATCTATATGGGCCAAGGCCC
Found at i:37272100 original size:20 final size:20
Alignment explanation
Indices: 37272064--37272102 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37272054 CGGCGCTGAT
37272064 TCTGTAAGTGTTCTAAAAAA
1 TCTGTAAGTGTTCTAAAAAA
*
37272084 TCTGATAAGT-TTTTAAAAA
1 TCTG-TAAGTGTTCTAAAAA
37272103 TATGAGTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (20 bp):
TCTGTAAGTGTTCTAAAAAA
Found at i:37273722 original size:28 final size:28
Alignment explanation
Indices: 37273691--37273809 Score: 168
Period size: 28 Copynumber: 4.2 Consensus size: 28
37273681 CAGTAATAGT
37273691 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
* * *
37273719 ACAGTTTGGGCCTTAGCTCAATAAAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37273747 ACAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
* * *
37273774 ATTAGTGTGGGCATTAGCCAAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
37273803 ACAGTGT
1 ACAGTGT
37273810 AGTGCAATAA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
27 2 0.03
28 75 0.95
29 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:37274170 original size:27 final size:26
Alignment explanation
Indices: 37274118--37274200 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
37274108 ACATAAGGCC
37274118 ATAACAGTCATTTTATCTCC-ATGGGGT
1 ATAACAGTCATTTTA-C-CCTATGGGGT
37274145 ATAACAGTCATTTTACCCTATGGGGGT
1 ATAACAGTCATTTTACCCTAT-GGGGT
****
37274172 ATTTTGGTCATTTTACCCTATAGGGGT
1 ATAACAGTCATTTTACCCTAT-GGGGT
37274199 AT
1 AT
37274201 TTCGATCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 44 0.90
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (26 bp):
ATAACAGTCATTTTACCCTATGGGGT
Found at i:37275024 original size:27 final size:27
Alignment explanation
Indices: 37274152--37275017 Score: 784
Period size: 27 Copynumber: 31.9 Consensus size: 27
37274142 GGTATAACAG
* * *
37274152 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTCTACCCTATGGGGGTATTTCGA
* *
37274179 TCATTTTACCCTATAGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
* * **
37274206 TCATTTTACCCCATAAGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
* * *
37274233 TAATT-TGACCCCATAGGGGTATTTCGA
1 TCATTCT-ACCCTATGGGGGTATTTCGA
* * *
37274260 TAATT-TGACCCCATAGGGGTATTTCGA
1 TCATTCT-ACCCTATGGGGGTATTTCGA
* * * *
37274287 TAATT-TGA-CCTCATAGGGGCATTTCGG
1 TCATTCT-ACCCT-ATGGGGGTATTTCGA
* *
37274314 TCATTTTACCCTATGAGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
* * *
37274341 TCATTTTACCCTATAGGGGTATTT-TA
1 TCATTCTACCCTATGGGGGTATTTCGA
* * *
37274367 GTCATTTTACCCTATGAGGGTATTT-TA
1 -TCATTCTACCCTATGGGGGTATTTCGA
37274394 GTCATTCTACCCTAT-GGGGTATTTC-A
1 -TCATTCTACCCTATGGGGGTATTTCGA
* * *
37274420 GTCATTCTACTCTATGAGGGTATTTCGG
1 -TCATTCTACCCTATGGGGGTATTTCGA
*
37274448 TCATTCTACCCTATGGGGGTATTTCAA
1 TCATTCTACCCTATGGGGGTATTTCGA
37274475 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
* * *
37274502 TCATTTTACGCTATGGGGGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGA
** * *
37274529 TCATTCTACCCTATGATGGTACTTCAA
1 TCATTCTACCCTATGGGGGTATTTCGA
*
37274556 TCATTCTACCCTATGGGGGT-TTTCAA
1 TCATTCTACCCTATGGGGGTATTTCGA
* *
37274582 TCATTCTACACTATGGGGGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGA
* ** *
37274609 TCATTTTACCCTATGGACGTATTTTGA
1 TCATTCTACCCTATGGGGGTATTTCGA
* * ** *
37274636 TTATTCTACTCTATGACGATATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
* * * *
37274663 TCATTCTACTCTATGAGGATATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGA
* *
37274690 TCATTCTACTCTATGAGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
** *
37274717 TCATTCTACCCTATTAGGGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGA
37274744 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
*
37274771 TCATTCTAACCTA-GGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
* * * *
37274797 TCATTTTACCCTATGAGGGTATTTTGG
1 TCATTCTACCCTATGGGGGTATTTCGA
* *
37274824 TCATTCTACCCTATGAGGGTATTT-TA
1 TCATTCTACCCTATGGGGGTATTTCGA
*
37274850 GTCATTCTACCCTATGGGGGTATGTATTTCGT
1 -TCATTCTACCCTAT-GGGG---GTATTTCGA
* *
37274882 TCATTTTACCCTATGGGGGTATGTATTTCGG
1 TCATTCTACCCTAT-GGGG---GTATTTCGA
* * * *
37274913 CCATTTTACCCTATGGGGGTATTTTGG
1 TCATTCTACCCTATGGGGGTATTTCGA
*
37274940 TCACTT-TACCCTATGAGGGTATTTCGA
1 TCA-TTCTACCCTATGGGGGTATTTCGA
* * *
37274967 TCATTTTACCTTATGGTGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
**
37274994 TCATTCTACCCTATAAGGGTATTT
1 TCATTCTACCCTATGGGGGTATTT
37275018 TGGTCATAAT
Statistics
Matches: 722, Mismatches: 99, Indels: 36
0.84 0.12 0.04
Matches are distributed among these distances:
26 77 0.11
27 584 0.81
28 9 0.01
30 4 0.01
31 48 0.07
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (27 bp):
TCATTCTACCCTATGGGGGTATTTCGA
Found at i:37281885 original size:29 final size:29
Alignment explanation
Indices: 37281837--37281914 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
37281827 TGTATCTGAT
*
37281837 ATGGGC-CAGGGCCCAAACTGATTCTGTG
1 ATGGGCACAGGCCCCAAACTGATTCTGTG
37281865 ATGGGCACAGGCCCCAAACTGATTCTGTG
1 ATGGGCACAGGCCCCAAACTGATTCTGTG
37281894 ATGGGCACAGGCCCCAAACTG
1 ATGGGCACAGGCCCCAAACTG
37281915 TATCTAACCG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 6 0.12
29 42 0.88
ACGTcount: A:0.24, C:0.28, G:0.29, T:0.18
Consensus pattern (29 bp):
ATGGGCACAGGCCCCAAACTGATTCTGTG
Found at i:37287038 original size:11 final size:11
Alignment explanation
Indices: 37287011--37287040 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
37287001 AAAATAAAAA
*
37287011 TAAAAGTATTT
1 TAAAATTATTT
37287022 TAAAATTATTT
1 TAAAATTATTT
37287033 TAAAATTA
1 TAAAATTA
37287041 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:37289725 original size:55 final size:54
Alignment explanation
Indices: 37289636--37289766 Score: 183
Period size: 55 Copynumber: 2.4 Consensus size: 54
37289626 TATGTCCAAC
* *
37289636 CCCGTGTAACTCACTGACTTGGGTTACACGGCCAACCACA-CACATGTGTAACTAG
1 CCCGTGTAACTCACTGACTTGGGTCACACAGCCAACCACAGCACATGTG--ACTAG
* *
37289691 CCCGTGTAACTCACTAACTTGGGTCACACAGCCAACCACATGCCCATGTGACTAG
1 CCCGTGTAACTCACTGACTTGGGTCACACAGCCAACCACA-GCACATGTGACTAG
*
37289746 CCCGTGTAACTCGCTGACTTG
1 CCCGTGTAACTCACTGACTTG
37289767 CTTTCATTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
55 61 0.90
57 7 0.10
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (54 bp):
CCCGTGTAACTCACTGACTTGGGTCACACAGCCAACCACAGCACATGTGACTAG
Found at i:37291562 original size:61 final size:63
Alignment explanation
Indices: 37291497--37291630 Score: 152
Period size: 65 Copynumber: 2.1 Consensus size: 63
37291487 TTAACTTAAG
*
37291497 TAAATGAACTAAAACAT-ATGCATCAAT-TATTCC-AGCAACTAG-TTAATTAAATAAGCAT-AA
1 TAAATGAACT-AAAC-TCATGCATCAATATAATCCTAGCAACTAGATTAATTAAA-AAGCATCAA
37291557 T
63 T
* * *
37291558 TAAATGAACTTAACTCATGCATCAATAAATAATCCTAGGAACTAGATTAATTAAAAAGCATCTAT
1 TAAATGAACTAAACTCATGCATCAAT--ATAATCCTAGCAACTAGATTAATTAAAAAGCATCAAT
37291623 TAAATGAA
1 TAAATGAA
37291631 GTTCAATAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
59 1 0.02
60 13 0.21
61 10 0.16
63 5 0.08
64 14 0.23
65 19 0.31
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (63 bp):
TAAATGAACTAAACTCATGCATCAATATAATCCTAGCAACTAGATTAATTAAAAAGCATCAAT
Found at i:37291721 original size:17 final size:17
Alignment explanation
Indices: 37291691--37291749 Score: 73
Period size: 19 Copynumber: 3.3 Consensus size: 17
37291681 AGCAACTCAT
37291691 TTATTAATCTAAGATGAG
1 TTATTAA-CTAAGATGAG
*
37291709 TTATTAACTAAGATGAAC
1 TTATTAACTAAGATG-AG
*
37291727 TCAATTAACTAAGATGAG
1 T-TATTAACTAAGATGAG
37291745 TTATT
1 TTATT
37291750 TATTCACGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 11 0.31
18 11 0.31
19 13 0.37
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (17 bp):
TTATTAACTAAGATGAG
Found at i:37296530 original size:20 final size:20
Alignment explanation
Indices: 37296480--37296536 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
37296470 AAGCTTATGC
* * *
37296480 TAAGTAAATGAAATGGAATG
1 TAAGTAAATGGAATGGTAGG
37296500 TAAGTAAATGGAATGGTAGG
1 TAAGTAAATGGAATGGTAGG
*
37296520 TAAGTAAATGGAGTGGT
1 TAAGTAAATGGAATGGT
37296537 TCATAATCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (20 bp):
TAAGTAAATGGAATGGTAGG
Found at i:37306906 original size:50 final size:50
Alignment explanation
Indices: 37306843--37307033 Score: 247
Period size: 50 Copynumber: 3.8 Consensus size: 50
37306833 TTAAGAGGAT
* * * * *
37306843 GAGGTCCCATGTAAGACCATGTATGGGACATGGCTTTGGCACCAAGATCA
1 GAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGA
* *
37306893 GAGGACCCATGTAAGACCATATTTGGGACATGGCATTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGA
** * * *
37306943 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGA
1 GAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGA
** *
37306993 GAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 GAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
37307034 GTACAAGAAA
Statistics
Matches: 121, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 121 1.00
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGA
Found at i:37307067 original size:49 final size:49
Alignment explanation
Indices: 37306847--37307071 Score: 172
Period size: 50 Copynumber: 4.5 Consensus size: 49
37306837 GAGGATGAGG
* * * *
37306847 TCCCATGTAAGACCATGTATGGGACATGGCTTTGGCACCAAGATC-AGAGGA-
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-C--GA-CAAGAGAAC
* * * * * **
37306898 -CCCATGTAAGACCATATTTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CGACAAGAGAAC
** * *
37306947 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CGACAAGAGAAC
* * *
37306997 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACG-ACAAGAGAAC
*
37307045 ATCCCATGTAATACCATGTCTGGGACA
1 -TCCCATGTAAGACCATGTCTGGGACA
37307072 AGGCTTTGGC
Statistics
Matches: 144, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
48 9 0.06
49 27 0.19
50 108 0.75
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.21
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACGACAAGAGAAC
Found at i:37309507 original size:20 final size:19
Alignment explanation
Indices: 37309478--37309524 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
37309468 CGAAAAATGA
37309478 TTTCTAGAAAATGATTTACT
1 TTTCTAG-AAATGATTTACT
*
37309498 TTTCTGGAAATGATTTACT
1 TTTCTAGAAATGATTTACT
37309517 TTTCTAGA
1 TTTCTAGA
37309525 GTTTTGGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.47
Consensus pattern (19 bp):
TTTCTAGAAATGATTTACT
Found at i:37314652 original size:17 final size:17
Alignment explanation
Indices: 37314630--37314671 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
37314620 CATATATGTG
37314630 AATGTATGTATGAAT-T
1 AATGTATGTATGAATAT
*
37314646 CAATGTATGTATGTATAT
1 -AATGTATGTATGAATAT
37314664 AATGTATG
1 AATGTATG
37314672 ATGCCCTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 22 0.96
18 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (17 bp):
AATGTATGTATGAATAT
Found at i:37318677 original size:46 final size:46
Alignment explanation
Indices: 37318627--37318716 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
37318617 TTTATTGCAA
* *
37318627 TAAGAGTTTTAGTTTTATTTATTTTCTTTATTAT-TTCAGGTTTTAT
1 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATT-AGGTTTTAT
37318673 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTT
1 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTT
37318717 TATTTCCTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 39 0.95
47 2 0.05
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (46 bp):
TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTTAT
Found at i:37319790 original size:19 final size:19
Alignment explanation
Indices: 37319766--37319814 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
37319756 GGAGGGGGAT
37319766 GAACAACGGAACCAACAAG
1 GAACAACGGAACCAACAAG
37319785 GAACAACGGAACCAACAAG
1 GAACAACGGAACCAACAAG
37319804 GAACAACGGAA
1 GAACAACGGAA
37319815 AAATAGGTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.53, C:0.24, G:0.22, T:0.00
Consensus pattern (19 bp):
GAACAACGGAACCAACAAG
Found at i:37319806 original size:11 final size:11
Alignment explanation
Indices: 37319767--37319807 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
37319757 GAGGGGGATG
37319767 AACAACGGAACC
1 AACAA-GGAACC
37319779 AACAAGGAA-C
1 AACAAGGAACC
37319789 AAC--GGAACC
1 AACAAGGAACC
37319798 AACAAGGAAC
1 AACAAGGAAC
37319808 AACGGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 4 0.15
11 9 0.35
12 5 0.19
ACGTcount: A:0.54, C:0.27, G:0.20, T:0.00
Consensus pattern (11 bp):
AACAAGGAACC
Found at i:37319992 original size:15 final size:15
Alignment explanation
Indices: 37319972--37320008 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
37319962 AAGGCAAGCA
37319972 AGATGATGATGAGGT
1 AGATGATGATGAGGT
37319987 AGATGATGATGAGGT
1 AGATGATGATGAGGT
37320002 AGATGAT
1 AGATGAT
37320009 TTTAAATAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.27
Consensus pattern (15 bp):
AGATGATGATGAGGT
Found at i:37320306 original size:2 final size:2
Alignment explanation
Indices: 37320299--37320352 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
37320289 GTAATTATCC
37320299 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37320341 TA TA TA TA TA TA
1 TA TA TA TA TA TA
37320353 AAAGAAACGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37320985 original size:28 final size:28
Alignment explanation
Indices: 37320929--37320981 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
37320919 AATAATTACA
**
37320929 CAAAATATTTAAAATAATTTTTAAAATT
1 CAAAATATTTAAAATAATTTAAAAAATT
*
37320957 CAAAATATTTATAA-AATTTAAAAAA
1 CAAAATATTTAAAATAATTTAAAAAA
37320982 ATTCTAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (28 bp):
CAAAATATTTAAAATAATTTAAAAAATT
Found at i:37320989 original size:18 final size:18
Alignment explanation
Indices: 37320935--37321031 Score: 61
Period size: 18 Copynumber: 5.1 Consensus size: 18
37320925 TACACAAAAT
*
37320935 ATTTAAAATAATTTTTAAA
1 ATTTAAAA-AATTTCTAAA
* * *
37320954 ATTCAAAATATTTATAAA
1 ATTTAAAAAATTTCTAAA
*
37320972 ATTTAAAAAAATTCTAAAGA
1 ATTTAAAAAATTTCT-AA-A
**
37320992 ATATATAAAAAAAGT-TAAA
1 AT-T-TAAAAAATTTCTAAA
*
37321011 ATTTTAAAAATTTTCTAAA
1 A-TTTAAAAAATTTCTAAA
37321030 AT
1 AT
37321032 AATAATTTTG
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
18 27 0.44
19 17 0.28
20 6 0.10
21 2 0.03
22 9 0.15
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTTAAAAAATTTCTAAA
Found at i:37322494 original size:20 final size:21
Alignment explanation
Indices: 37322459--37322508 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
37322449 TTTTAAAAAA
* *
37322459 TTAAAAATCATTAAAATTA-T
1 TTAAAAATCATAAAAAATACT
*
37322479 TTAAAAATTATAAAAAATACTT
1 TTAAAAATCATAAAAAATAC-T
37322501 TTAAAAAT
1 TTAAAAAT
37322509 ATTTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.64
22 9 0.36
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAAAATCATAAAAAATACT
Found at i:37322536 original size:20 final size:20
Alignment explanation
Indices: 37322499--37322537 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37322489 TAAAAAATAC
*
37322499 TTTTAAAAATATTTTTAAAA
1 TTTTAAAAATATTATTAAAA
37322519 TTTTAAAAA-ATTAATTAAA
1 TTTTAAAAATATT-ATTAAA
37322538 TGTTATGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAAAAATATTATTAAAA
Found at i:37326947 original size:26 final size:26
Alignment explanation
Indices: 37326911--37326971 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
37326901 GGCATACATA
*
37326911 ACATCAAAACATGTTCTTCAATAGAC
1 ACATCAAAACATGTTCTTAAATAGAC
37326937 ACATCAAAACATGTTCTTAAATAGAC
1 ACATCAAAACATGTTCTTAAATAGAC
37326963 ACATCAAAA
1 ACATCAAAA
37326972 GCTATTCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.25
Consensus pattern (26 bp):
ACATCAAAACATGTTCTTAAATAGAC
Found at i:37327564 original size:49 final size:49
Alignment explanation
Indices: 37327504--37327688 Score: 162
Period size: 50 Copynumber: 3.7 Consensus size: 49
37327494 GACAATAACA
* * *
37327504 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTTCATATACG
* * *
37327553 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAG-TTCTTATACCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTCATATA-C-G
* * ** * * *
37327603 TGTCC-ATGTCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCT-CGG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTTCATATAC-G
*
37327653 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
37327689 CCCTCTCATA
Statistics
Matches: 109, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
47 6 0.06
48 2 0.02
49 36 0.33
50 59 0.54
51 2 0.02
52 4 0.04
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTCATATACG
Found at i:37328150 original size:30 final size:30
Alignment explanation
Indices: 37328094--37328150 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
37328084 TCGAACTTTG
**
37328094 GCATAATTACAATTTTGCCCTTAAACTATT
1 GCATAATTACAATTTTGCCCCAAAACTATT
* *
37328124 GCATATTTACACTTTTGCCCCAAAACT
1 GCATAATTACAATTTTGCCCCAAAACT
37328151 CAAAAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
GCATAATTACAATTTTGCCCCAAAACTATT
Found at i:37330216 original size:26 final size:26
Alignment explanation
Indices: 37330180--37330275 Score: 97
Period size: 26 Copynumber: 3.7 Consensus size: 26
37330170 ATTTATAGTC
*
37330180 CTCCAACCAACTCAAACTTAAGGGTT
1 CTCCGACCAACTCAAACTTAAGGGTT
*
37330206 CTCCGACCAACTCAAACTCAAGGG-T
1 CTCCGACCAACTCAAACTTAAGGGTT
** * *
37330231 CTTTAGACCCACTCAAACTTAA-GGTAC
1 C-TCCGACCAACTCAAACTTAAGGGT-T
*
37330258 CTCTGACCAACTCAAACT
1 CTCCGACCAACTCAAACT
37330276 GCTCCGACGC
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
25 4 0.07
26 52 0.91
27 1 0.02
ACGTcount: A:0.33, C:0.33, G:0.11, T:0.22
Consensus pattern (26 bp):
CTCCGACCAACTCAAACTTAAGGGTT
Found at i:37330865 original size:30 final size:29
Alignment explanation
Indices: 37330841--37330897 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
37330831 GCGGCACCAA
*
37330841 GCTTGAAGG-GCACATGTCTGGCGGCACTC
1 GCTTGAAGGACCAC-TGTCTGGCGGCACTC
*
37330870 GCTTGGAGGACCACTGTCTGGCGGCACT
1 GCTTGAAGGACCACTGTCTGGCGGCACT
37330898 AGTTGGAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.21
Consensus pattern (29 bp):
GCTTGAAGGACCACTGTCTGGCGGCACTC
Found at i:37332348 original size:36 final size:35
Alignment explanation
Indices: 37332303--37332412 Score: 87
Period size: 36 Copynumber: 3.1 Consensus size: 35
37332293 GCGCCTTGAG
*
37332303 CTAGCTGGTAAAACCAATAAATGAGTGTGCCCAGCA
1 CTAGTTGGTAAAACCAA-AAATGAGTGTGCCCAGCA
* * * * * *
37332339 CTAGTTGGTATAAGCGAAAAATAAATGTGCCCTGCG
1 CTAGTTGGTA-AAACCAAAAATGAGTGTGCCCAGCA
* * *
37332375 CT-GATCGGTAAAACCGACAAATGAGTGTGTCCAGCA
1 CTAG-TTGGTAAAACC-AAAAATGAGTGTGCCCAGCA
37332411 CT
1 CT
37332413 GGTCAATATA
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
35 4 0.07
36 46 0.84
37 5 0.09
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (35 bp):
CTAGTTGGTAAAACCAAAAATGAGTGTGCCCAGCA
Found at i:37332398 original size:72 final size:72
Alignment explanation
Indices: 37332309--37332474 Score: 183
Period size: 72 Copynumber: 2.3 Consensus size: 72
37332299 TGAGCTAGCT
*** * **
37332309 GGTAAAACC-AATAAATGAGTGTGCCCAGCACTAGTTGGTATAAGCGAA-AAATAAATGTGCCCT
1 GGTAAAACCGAA-AAATGAGTGTGCCCAGCACTAGTCAATATAA-CCAACAAATAAATGCACCCT
**
37332372 GCGCTGATC
64 AAGCTGATC
* * *
37332381 GGTAAAACCGACAAATGAGTGTGTCCAGCACTGGTCAATATAACCAACAAATAAATGCACCCTAA
1 GGTAAAACCGAAAAATGAGTGTGCCCAGCACTAGTCAATATAACCAACAAATAAATGCACCCTAA
*
37332446 GCTGGTC
66 GCTGATC
*
37332453 AGTAAAACCGAAAAATGAGTGT
1 GGTAAAACCGAAAAATGAGTGT
37332475 TTATTCATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
71 3 0.04
72 74 0.95
73 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (72 bp):
GGTAAAACCGAAAAATGAGTGTGCCCAGCACTAGTCAATATAACCAACAAATAAATGCACCCTAA
GCTGATC
Found at i:37333000 original size:106 final size:104
Alignment explanation
Indices: 37332862--37333067 Score: 331
Period size: 106 Copynumber: 2.0 Consensus size: 104
37332852 AGATATAATC
*
37332862 AGCTTTAGAAAAACACTTATTCGCCTATAATATCAGCATTAAAATCGACATAAACACTTATTCAA
1 AGCTTTAGAAAAAAACTTATTCGCCTATAATATCAGCATTAAAATCGACATAAACACTTATTCAA
37332927 TCCTAACATTTAATTTAACATAAACATAATAGAAATGTCT
66 TCCTAACATTTAA-TTAACATAAACATAATAGAAATGTCT
* * ** * *
37332967 AGCTTTGGAAAAAAAACTTATTTGCCTATAATATCAGCATTAAAATTTACATAATCACTTATTTA
1 AGCTTTAG-AAAAAAACTTATTCGCCTATAATATCAGCATTAAAATCGACATAAACACTTATTCA
37333032 ATCCTAACATTTAATTAACATAAACATAATAGAAAT
65 ATCCTAACATTTAATTAACATAAACATAATAGAAAT
37333068 ATCCTCAAAT
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
105 29 0.31
106 64 0.69
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (104 bp):
AGCTTTAGAAAAAAACTTATTCGCCTATAATATCAGCATTAAAATCGACATAAACACTTATTCAA
TCCTAACATTTAATTAACATAAACATAATAGAAATGTCT
Found at i:37337052 original size:72 final size:72
Alignment explanation
Indices: 37336976--37337127 Score: 187
Period size: 72 Copynumber: 2.1 Consensus size: 72
37336966 TAAAACTGAC
* *** * * *
37336976 AAATGAGTGTGCCCAGCACTAGTTGGTATAACCGACAAATAAATGCGCCCTGCGTTGGTCAGTAA
1 AAATGAGTGTACCCAGCACTAGTCAATATAACCAACAAATAAATGCGCCCTGCATTGATCAGTAA
*
37337041 AATCAAA
66 AACCAAA
* * * *
37337048 AAATGAGTGTACCCAGCATTGGTCAATATAACCAACGAATAAATGCGCCCTGCATTGATCGGTAA
1 AAATGAGTGTACCCAGCACTAGTCAATATAACCAACAAATAAATGCGCCCTGCATTGATCAGTAA
*
37337113 AACCAAC
66 AACCAAA
37337120 AAATGAGT
1 AAATGAGT
37337128 TTTCATTCAT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (72 bp):
AAATGAGTGTACCCAGCACTAGTCAATATAACCAACAAATAAATGCGCCCTGCATTGATCAGTAA
AACCAAA
Found at i:37337103 original size:36 final size:36
Alignment explanation
Indices: 37337002--37337123 Score: 100
Period size: 36 Copynumber: 3.4 Consensus size: 36
37336992 CACTAGTTGG
* * *
37337002 TATAACCGACAAATAAATGCGCCCTGCGTTGGTCAG
1 TATAACCAACAAATAAATGCGCCCTGCATTGGTCAA
* * * * * ** *
37337038 TAAAATCAAAAAATGAGTGTACCCAGCATTGGTCAA
1 TATAACCAACAAATAAATGCGCCCTGCATTGGTCAA
* * **
37337074 TATAACCAACGAATAAATGCGCCCTGCATTGATCGG
1 TATAACCAACAAATAAATGCGCCCTGCATTGGTCAA
*
37337110 TAAAACCAACAAAT
1 TATAACCAACAAAT
37337124 GAGTTTTCAT
Statistics
Matches: 61, Mismatches: 25, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.21
Consensus pattern (36 bp):
TATAACCAACAAATAAATGCGCCCTGCATTGGTCAA
Found at i:37337730 original size:109 final size:109
Alignment explanation
Indices: 37337539--37337749 Score: 359
Period size: 109 Copynumber: 1.9 Consensus size: 109
37337529 CCAGCTTTAG
* *
37337539 AAAAACACTTATTCACCTATAATATCAGTATTAAAATCGACATAAACAATTATTTAATCCTAACA
1 AAAAACACTTATTCACCTATAATATCAGCATTAAAATCGACATAAACAATTATTTAATCCCAACA
37337604 TTTAATTTAACATAAACATAATAGAAATGTCTAGCTTTGGAAAA
66 TTTAATTTAACATAAACATAATAGAAATGTCTAGCTTTGGAAAA
* * ** *
37337648 AAAAACACTTATTCGCCTATAATATTAGCATTAAAATTTACATAAACACTTATTTAATCCCAACA
1 AAAAACACTTATTCACCTATAATATCAGCATTAAAATCGACATAAACAATTATTTAATCCCAACA
37337713 TTTAATTTAACATAAACATAATAGAAATGTCTAGCTT
66 TTTAATTTAACATAAACATAATAGAAATGTCTAGCTT
37337750 GGACAACACT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 95 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (109 bp):
AAAAACACTTATTCACCTATAATATCAGCATTAAAATCGACATAAACAATTATTTAATCCCAACA
TTTAATTTAACATAAACATAATAGAAATGTCTAGCTTTGGAAAA
Found at i:37343524 original size:30 final size:31
Alignment explanation
Indices: 37343498--37343556 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
37343488 GTAAATACTC
* **
37343498 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACCAATAGTGTAAATATGA
37343528 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATTTGAAGGACCAATAGTGTAAATAT
37343557 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACCAATAGTGTAAATATGA
Found at i:37354846 original size:22 final size:21
Alignment explanation
Indices: 37354803--37354847 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
37354793 TTGAAAAGTT
* *
37354803 ATATTATTTGAAGGTAATTTA
1 ATATTATTTGAAGATAAATTA
*
37354824 ATATTAATTTTAAGATAAATTA
1 ATATT-ATTTGAAGATAAATTA
37354846 AT
1 AT
37354848 TAAAATATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (21 bp):
ATATTATTTGAAGATAAATTA
Found at i:37357387 original size:45 final size:45
Alignment explanation
Indices: 37357332--37357420 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
37357322 AATTTTTTTA
37357332 AAAAAAATTGTTCGTGTATTTAGAAGGTATTTGGGAGATTATATT
1 AAAAAAATTGTTCGTGTATTTAGAAGGTATTTGGGAGATTATATT
37357377 AAAAAAATTGTTCGTGTATTTAGAAGGTATTTGGGAGATTATAT
1 AAAAAAATTGTTCGTGTATTTAGAAGGTATTTGGGAGATTATAT
37357421 GTCTGAATGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.39
Consensus pattern (45 bp):
AAAAAAATTGTTCGTGTATTTAGAAGGTATTTGGGAGATTATATT
Found at i:37359847 original size:23 final size:23
Alignment explanation
Indices: 37359821--37359866 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
37359811 TCCCAGCATG
37359821 CTACAACCCATATGTGGTTAGCA
1 CTACAACCCATATGTGGTTAGCA
37359844 CTACAACCCATATGTGGTTAGCA
1 CTACAACCCATATGTGGTTAGCA
37359867 TGGAGCAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (23 bp):
CTACAACCCATATGTGGTTAGCA
Found at i:37359986 original size:158 final size:158
Alignment explanation
Indices: 37359698--37359991 Score: 561
Period size: 158 Copynumber: 1.9 Consensus size: 158
37359688 AACACTTTGG
*
37359698 TGTGGTTAGCATGGAGCAACATGACTTTCCCCAGTGAAAACATCCCTAGGAACCTAGTAAACCCA
1 TGTGGTTAGCATGGAGCAACATGACTTTCCCCAATGAAAACATCCCTAGGAACCTAGTAAACCCA
* *
37359763 ACATTGTCTACACATCGCTCAACTCAAGATGCTGGTCAAACTAGTAATTCCCAGCATGCTACAAC
66 ACATTGTCTACACATCCCCCAACTCAAGATGCTGGTCAAACTAGTAATTCCCAGCATGCTACAAC
37359828 CCATATGTGGTTAGCACTACAACCCATA
131 CCATATGTGGTTAGCACTACAACCCATA
37359856 TGTGGTTAGCATGGAGCAACATGACTTTCCCCAATGAAAACATCCCTAGGAACCTAGTAAACCCA
1 TGTGGTTAGCATGGAGCAACATGACTTTCCCCAATGAAAACATCCCTAGGAACCTAGTAAACCCA
37359921 ACATTGTCTACACATCCCCCAACTCAAGATGCTGGTCAAACTAGTAATTCCCAGCATGCTACAAC
66 ACATTGTCTACACATCCCCCAACTCAAGATGCTGGTCAAACTAGTAATTCCCAGCATGCTACAAC
37359986 CCATAT
131 CCATAT
37359992 TTGGAAATTT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
158 133 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.23
Consensus pattern (158 bp):
TGTGGTTAGCATGGAGCAACATGACTTTCCCCAATGAAAACATCCCTAGGAACCTAGTAAACCCA
ACATTGTCTACACATCCCCCAACTCAAGATGCTGGTCAAACTAGTAATTCCCAGCATGCTACAAC
CCATATGTGGTTAGCACTACAACCCATA
Done.