Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 68 of 352
Found at i:21418281 original size:40 final size:40
Alignment explanation
Indices: 21418235--21418321 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
21418225 AATTCATTAC
* * *
21418235 TTCAGTAATTTCACAGTTCAATGCAGTACACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
* * **
21418275 TTCAGTAACTTCAGAATTCAATTCAGTATTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
21418315 TTCAGTA
1 TTCAGTA
21418322 TTCCATAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
Found at i:21418695 original size:22 final size:22
Alignment explanation
Indices: 21418653--21418698 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21418643 TTAACTAAAC
*
21418653 TCATATATTTTTCTTCTTCAAT
1 TCATATATTTTTATTCTTCAAT
*
21418675 TCATATCTTTTTATTAC-TCAAT
1 TCATATATTTTTATT-CTTCAAT
21418697 TC
1 TC
21418699 CCTACCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.57
Consensus pattern (22 bp):
TCATATATTTTTATTCTTCAAT
Found at i:21419230 original size:12 final size:12
Alignment explanation
Indices: 21419213--21419250 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
21419203 GCACATGTTT
21419213 ATAACCATTACC
1 ATAACCATTACC
21419225 ATAACCATTACC
1 ATAACCATTACC
21419237 ATAACCATTACC
1 ATAACCATTACC
21419249 AT
1 AT
21419251 GTGTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAACCATTACC
Found at i:21419243 original size:18 final size:18
Alignment explanation
Indices: 21419216--21419250 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21419206 CATGTTTATA
*
21419216 ACCATTACCATAACCATT
1 ACCATAACCATAACCATT
*
21419234 ACCATAACCATTACCAT
1 ACCATAACCATAACCAT
21419251 GTGTTTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (18 bp):
ACCATAACCATAACCATT
Found at i:21422177 original size:46 final size:44
Alignment explanation
Indices: 21422073--21422180 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
21422063 TGTCTTTGAC
** * * *
21422073 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
21422117 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
21422163 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
21422181 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:21423647 original size:74 final size:75
Alignment explanation
Indices: 21423511--21423706 Score: 234
Period size: 75 Copynumber: 2.6 Consensus size: 75
21423501 AAGAGTTTGC
* ** * * ** *
21423511 GCCCAGCGCTAGTCAGATAATCCAGCAA-ATGTGTGCCCAGTACTAGTCAGATAAACCGACGAAT
1 GCCCAGCTCTAGTTGGATAAACCAGCAATATTTGTGCCCAGCGCTAGTCAGATAAAACGACGAAT
21423575 AA-TTAGTGA
66 AATTTAGTGA
* * *
21423584 GCCCAGCTCTAGTTGGATAAACCAGCAATATTTGCGCCCAGCGCTAGTCGGATAAAATGACGAAT
1 GCCCAGCTCTAGTTGGATAAACCAGCAATATTTGTGCCCAGCGCTAGTCAGATAAAACGACGAAT
21423649 AATTTAGTGA
66 AATTTAGTGA
* * * * *
21423659 GCCTAGCTCTAGTTGGATAAACCAACGATATTTGTGTCCAGCGTTAGT
1 GCCCAGCTCTAGTTGGATAAACCAGCAATATTTGTGCCCAGCGCTAGT
21423707 TGAACGAATC
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
73 24 0.23
74 31 0.30
75 49 0.47
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (75 bp):
GCCCAGCTCTAGTTGGATAAACCAGCAATATTTGTGCCCAGCGCTAGTCAGATAAAACGACGAAT
AATTTAGTGA
Found at i:21431928 original size:16 final size:17
Alignment explanation
Indices: 21431897--21431929 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21431887 TTCATAAGTA
21431897 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
21431914 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
21431930 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:21432277 original size:46 final size:46
Alignment explanation
Indices: 21432225--21432391 Score: 246
Period size: 46 Copynumber: 3.6 Consensus size: 46
21432215 TGCCGTAGTG
* * *
21432225 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATGTCAAGTTGCCATGGTA
** * *
21432271 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCAAGTTGCCATGGTA
*
21432317 TCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCAAGTTGCCATGGTA
21432363 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACACATTTCAT
21432392 ATCAGAGAGC
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.04
46 107 0.96
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATGTCAAGTTGCCATGGTA
Found at i:21437256 original size:30 final size:30
Alignment explanation
Indices: 21437222--21437282 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21437212 TCCTTAACTC
21437222 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
21437252 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
21437282 A
1 A
21437283 GGCTCGGGAA
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:21450325 original size:10 final size:12
Alignment explanation
Indices: 21450300--21450331 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
21450290 AACTTAAAAT
21450300 AAATAATATATA
1 AAATAATATATA
21450312 AAATAAT-T-TA
1 AAATAATATATA
21450322 AAATAATATA
1 AAATAATATA
21450332 CAATGAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.50
11 2 0.11
12 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATAATATATA
Found at i:21454961 original size:61 final size:61
Alignment explanation
Indices: 21454896--21455083 Score: 165
Period size: 61 Copynumber: 3.1 Consensus size: 61
21454886 GTTAAATTAT
*
21454896 ATTTTATAGTATTATATATTATGATTTTAAAAAATTCATATAAGAATATTTCATATTAAGA
1 ATTTTATAGTATCATATATTATGATTTTAAAAAATTCATATAAGAATATTTCATATTAAGA
* * * * * * * *
21454957 ATTTTATTA-AATCATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTCAAATT-A-T
1 ATTTTA-TAGTATCATATATTATGATTTTAAAA-A-A-TTCATATAAGAATATTTCATATTAAGA
* ** *
21455016 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA-TTGATTATTAAGA
1 ATTTTATAGTATCATATATTATGATTTTAAAAAATTCATATAAGAATATTTCA-TATTAAGA
21455077 ATTTTAT
1 ATTTTAT
21455084 TATAAATTAT
Statistics
Matches: 95, Mismatches: 21, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
58 12 0.13
59 29 0.31
60 8 0.08
61 37 0.39
62 9 0.09
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATTTTATAGTATCATATATTATGATTTTAAAAAATTCATATAAGAATATTTCATATTAAGA
Found at i:21455030 original size:59 final size:59
Alignment explanation
Indices: 21454850--21455035 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 59
21454840 ATGATAAATT
* ** * *
21454850 ATATATTTTTATTAACTTATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTATC
* * * * * * * *
21454909 ATATATTATGATTTTAAAA-A-A-TTCATATAAGAATATTTCATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTCAAATT-A-TATTTTA-TAGTATC
21454970 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
21455029 ATATATT
1 ATATATT
21455036 ATGATTTGAG
Statistics
Matches: 95, Mismatches: 21, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
58 10 0.11
59 38 0.40
60 7 0.07
61 31 0.33
62 9 0.09
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (59 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
Found at i:21455037 original size:120 final size:122
Alignment explanation
Indices: 21454843--21455133 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 122
21454833 TAGTATGATG
* **
21454843 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* *
21454908 TATATATTATGATTTTAAAAAATTCATATAAGAATATTTCA-TATTAAGAATTTTA-T
66 CATATATTATGATTTGAAAAAATTCATATAAGAATA-TTCATTATTAAGAATTTTATT
* *
21454964 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
** *
21455027 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAAAAAATTCATATAAGAATATTCATTATTAAGAATTTTATT
21455085 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
21455134 ATATGATTAA
Statistics
Matches: 153, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
119 5 0.03
120 102 0.67
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAAAAAATTCATATAAGAATATTCATTATTAAGAATTTTATT
Found at i:21455112 original size:18 final size:19
Alignment explanation
Indices: 21455077--21455113 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21455067 ATTATTAAGA
21455077 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
21455096 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
21455114 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:21455384 original size:16 final size:16
Alignment explanation
Indices: 21455349--21455401 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
21455339 GATTAGCTAT
21455349 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
21455366 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
21455382 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21455398 TACA
1 TACA
21455402 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 22 0.65
17 12 0.35
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21456282 original size:24 final size:22
Alignment explanation
Indices: 21456237--21456282 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
21456227 TTGATGGTAA
*
21456237 ACTTTATTGATAATCAATAAAT
1 ACTTTATTGATAATCAAGAAAT
*
21456259 ACTTTATTTGTATAATTAAGAAAT
1 ACTTTA-TTG-ATAATCAAGAAAT
21456283 TAAATAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (22 bp):
ACTTTATTGATAATCAAGAAAT
Found at i:21457495 original size:28 final size:29
Alignment explanation
Indices: 21457447--21457532 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 29
21457437 TAGAGTTTAG
**
21457447 GGGTTCTGAAAAAAATAATTTTGGTGAAAT
1 GGGTTCTG-AAAAAATAATTTTGACGAAAT
* *
21457477 GGGTTCT-AAAAAATAATTTTAACGAGAT
1 GGGTTCTGAAAAAATAATTTTGACGAAAT
* *
21457505 GGGTTCTGAAGAAATAATTTTGAAGAAA
1 GGGTTCTGAAAAAATAATTTTGACGAAA
21457533 AAACTCTTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 24 0.51
29 16 0.34
30 7 0.15
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (29 bp):
GGGTTCTGAAAAAATAATTTTGACGAAAT
Found at i:21458144 original size:193 final size:194
Alignment explanation
Indices: 21457548--21458190 Score: 859
Period size: 193 Copynumber: 3.3 Consensus size: 194
21457538 CTTTAAGAAT
* *
21457548 GATGCAC-AGTCAGTAAAAGTACTGAAAACGCTTCCAGCTGGATGCCCTTTTCAGTACTGCTGCT
1 GATGCACTA-TCAGCAAAAGTACTGAAAACGCTTCCAGCTGGACGCCCTTTTCAGTACTGCTGCT
* * * *
21457612 TCT-AAAAAATTAATTTGAAGAGATGATT-TTGAAAAAATATCTCTAGATTCCCGGGATATTTAA
65 TCTGAAAAAATAAATTTGAGGAGATGATTCTT-AAAAAATATCTCGAGATTCCCGGGATATTTGA
* * * * * *
21457675 AAGGTTTGTGAAAAATGCCCCGAATGGTGGGGGTTGAGGTTTGTAGAGGAACAACACTCCAAGTA
129 AAGGTTTGTGAAAAATGCCCCGAATAGTAGGGGTTAAGGTTTGTAGAGGAAAAACGCTCCAAGCA
21457740 G
194 G
* * * * * *
21457741 GATGCATTATTAGTAAAAGTACTGAAAACGATTCCAGCTAGACACCCTTTTCAGTACTGCTGC-T
1 GATGCACTATCAGCAAAAGTACTGAAAACGCTTCCAGCTGGACGCCCTTTTCAGTACTGCTGCTT
* * *
21457805 CTG-AAAAATAAATTTGAGGAGATGATTCTGAAAAAATATCTTGAGATTCCCGAGATATTTGAAA
66 CTGAAAAAATAAATTTGAGGAGATGATTCTTAAAAAATATCTCGAGATTCCCGGGATATTTGAAA
* * * * *
21457869 GGTTTGTGAAAAATGCCCCAAATAGTAGAGGCTAAGGTTTGTAGAGAAAAAAACGCTCCAATCAG
131 GGTTTGTGAAAAATGCCCCGAATAGTAGGGGTTAAGGTTTGTAGAG-GAAAAACGCTCCAAGCAG
* * * * *
21457934 GATACACTATTAGCAAAAGTATTGAAAATGCTTCCAGCTGGATGCCCTTTTCAGTACTGCTGCTT
1 GATGCACTATCAGCAAAAGTACTGAAAACGCTTCCAGCTGGACGCCCTTTTCAGTACTGCTGCTT
* *
21457999 CTGAAAAAATAAATGTGAGGAGATGATTCTTAAAAAATGTCTCGAGATTCCCGGGATATTTGAAA
66 CTGAAAAAATAAATTTGAGGAGATGATTCTTAAAAAATATCTCGAGATTCCCGGGATATTTGAAA
* *
21458064 GGTTTGTGAAAAATTCCCCGAATAGT-GGGGTTAATGTTTGTAGAGGAAAAACGCTCCAAGCAG
131 GGTTTGTGAAAAATGCCCCGAATAGTAGGGGTTAAGGTTTGTAGAGGAAAAACGCTCCAAGCAG
* * *
21458127 GATGCACTATCAGCAAAAGT-CTTGAAAATGCTTCTAGCTGGACGCCCTTTTCAGTACTTCTGCT
1 GATGCACTATCAGCAAAAGTAC-TGAAAACGCTTCCAGCTGGACGCCCTTTTCAGTACTGCTGCT
21458191 GATAGTGCGT
Statistics
Matches: 392, Mismatches: 51, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
192 95 0.24
193 196 0.50
194 21 0.05
195 80 0.20
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (194 bp):
GATGCACTATCAGCAAAAGTACTGAAAACGCTTCCAGCTGGACGCCCTTTTCAGTACTGCTGCTT
CTGAAAAAATAAATTTGAGGAGATGATTCTTAAAAAATATCTCGAGATTCCCGGGATATTTGAAA
GGTTTGTGAAAAATGCCCCGAATAGTAGGGGTTAAGGTTTGTAGAGGAAAAACGCTCCAAGCAG
Found at i:21458839 original size:32 final size:32
Alignment explanation
Indices: 21458798--21458909 Score: 145
Period size: 32 Copynumber: 3.5 Consensus size: 32
21458788 TAGAAGAATA
* *
21458798 TTGTTATCATTTAACAAAATTAAAGTTGATTT
1 TTGTTATCATTTCACAAAATTAAAGTTGATAT
*
21458830 TTGTTATCATTTCACAAAATTGAAGTTG-TAAT
1 TTGTTATCATTTCACAAAATTAAAGTTGAT-AT
* * * *
21458862 TTGTTACCATTTCACAAAATGAAAGCTAATAT
1 TTGTTATCATTTCACAAAATTAAAGTTGATAT
21458894 TTGTTATCATTTCACA
1 TTGTTATCATTTCACA
21458910 GAACTGCGCG
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
31 1 0.01
32 67 0.97
33 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.43
Consensus pattern (32 bp):
TTGTTATCATTTCACAAAATTAAAGTTGATAT
Found at i:21459215 original size:17 final size:18
Alignment explanation
Indices: 21459193--21459236 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
21459183 CCCCAACCCT
21459193 AAACCCTAACAA-ACTAA
1 AAACCCTAACAACACTAA
*
21459210 AAACCCTAACAACCCTAA
1 AAACCCTAACAACACTAA
*
21459228 ACACCCTAA
1 AAACCCTAA
21459237 TATAACACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.52, C:0.36, G:0.00, T:0.11
Consensus pattern (18 bp):
AAACCCTAACAACACTAA
Found at i:21459741 original size:20 final size:20
Alignment explanation
Indices: 21459697--21459741 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
21459687 AAAAATACAA
21459697 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
* *
21459717 CAAAAATTTAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
21459737 AAAAA
1 AAAAA
21459742 TCCCAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:21471047 original size:12 final size:13
Alignment explanation
Indices: 21471032--21471061 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21471022 TAGTTCAAGG
21471032 ATCAGTTC-TTAT
1 ATCAGTTCTTTAT
21471044 ATCAGTTCTTTAT
1 ATCAGTTCTTTAT
21471057 ATCAG
1 ATCAG
21471062 ACTGATATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.47
Consensus pattern (13 bp):
ATCAGTTCTTTAT
Found at i:21476387 original size:20 final size:20
Alignment explanation
Indices: 21476362--21476401 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21476352 ATTTGAACCC
*
21476362 ATATTATTTGCATCAATAAA
1 ATATTAATTGCATCAATAAA
* *
21476382 ATATTAATTGTATCACTAAA
1 ATATTAATTGCATCAATAAA
21476402 CCAAAACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
ATATTAATTGCATCAATAAA
Found at i:21480041 original size:55 final size:55
Alignment explanation
Indices: 21479929--21480037 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 55
21479919 TATCGCCGTT
* **
21479929 TAATATTTTTCACAAAACCCTTCTCTAATATCTGATTTGTAAAGTTGCCCCAAAA
1 TAATATTTTTCACAAAACCCTTCTCTAATATCTGATTTCTAAAGGGGCCCCAAAA
* * *
21479984 TAATATTTTTCACAAAA-CCTTTTTTAATGTCTGATTTCT-AAGGGGCTCCCAAAA
1 TAATATTTTTCACAAAACCCTTCTCTAATATCTGATTTCTAAAGGGGC-CCCAAAA
21480038 ATAAATGCAG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 5 0.11
54 25 0.53
55 17 0.36
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (55 bp):
TAATATTTTTCACAAAACCCTTCTCTAATATCTGATTTCTAAAGGGGCCCCAAAA
Found at i:21480931 original size:12 final size:11
Alignment explanation
Indices: 21480904--21480944 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
21480894 AATAATATAA
* *
21480904 AAATTATTAAA
1 AAATTATGAAG
21480915 AAATTATGAAG
1 AAATTATGAAG
21480926 AGAATTATGAAG
1 A-AATTATGAAG
21480938 AAATTAT
1 AAATTAT
21480945 AATTCTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (11 bp):
AAATTATGAAG
Found at i:21484696 original size:18 final size:20
Alignment explanation
Indices: 21484672--21484719 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
21484662 TTAAACTGAG
* *
21484672 TTTTTTTAATTTTTTAA-AG
1 TTTTTTTAATTTATTAATAA
21484691 TTTTTTTAA-TTATTAATAA
1 TTTTTTTAATTTATTAATAA
21484710 -TTTTTTAATT
1 TTTTTTTAATT
21484720 GAACTGGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTTTAATTTATTAATAA
Found at i:21488614 original size:22 final size:23
Alignment explanation
Indices: 21488589--21488631 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21488579 TTACAAGCAT
*
21488589 AAATGACCA-CATTTCATAACTC
1 AAATGACAATCATTTCATAACTC
*
21488611 AAATGGCAATCATTTCATAAC
1 AAATGACAATCATTTCATAAC
21488632 CATTTCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (23 bp):
AAATGACAATCATTTCATAACTC
Found at i:21488810 original size:23 final size:23
Alignment explanation
Indices: 21488780--21488826 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
21488770 ACACATATAC
21488780 ATAACCAATATTTAGCCAAGTTA
1 ATAACCAATATTTAGCCAAGTTA
21488803 ATAACCAATATTTAGCCAAGTTA
1 ATAACCAATATTTAGCCAAGTTA
21488826 A
1 A
21488827 GCCAAATCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.30
Consensus pattern (23 bp):
ATAACCAATATTTAGCCAAGTTA
Found at i:21489577 original size:20 final size:20
Alignment explanation
Indices: 21489542--21489649 Score: 69
Period size: 20 Copynumber: 5.4 Consensus size: 20
21489532 TTTCTATTTG
* *
21489542 TATAAACTGTAATTCATTCA
1 TATAAACAGTAGTTCATTCA
* * *
21489562 TATAACCAGTAGTTCATCCG
1 TATAAACAGTAGTTCATTCA
*
21489582 TGTAAACAGTAGTTCATT-A
1 TATAAACAGTAGTTCATTCA
* *
21489601 T-TAATAACAGTAATTCA-ACTA
1 TAT-A-AACAGTAGTTCATTC-A
* * *
21489622 TATCAACAGTAATTCATCCA
1 TATAAACAGTAGTTCATTCA
21489642 TATAAACA
1 TATAAACA
21489650 CATATCTTAT
Statistics
Matches: 68, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
18 1 0.01
19 2 0.03
20 61 0.90
21 3 0.04
22 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (20 bp):
TATAAACAGTAGTTCATTCA
Found at i:21489829 original size:23 final size:23
Alignment explanation
Indices: 21489801--21489975 Score: 190
Period size: 23 Copynumber: 7.5 Consensus size: 23
21489791 ATCGATAGGA
*
21489801 TCTTTTCAGCTGAAACGGTAAGC
1 TCTTTTGAGCTGAAACGGTAAGC
*
21489824 TCTTTTGAGCTGAAACGATAAGC
1 TCTTTTGAGCTGAAACGGTAAGC
* * * *
21489847 TCCTTTAAGTTGAAACGGTAAGT
1 TCTTTTGAGCTGAAACGGTAAGC
* * * *
21489870 TCTTTCGAG-TTAAATGGTTAGC
1 TCTTTTGAGCTGAAACGGTAAGC
* *
21489892 TCCTTTAAGCTGAAACGGTAAGC
1 TCTTTTGAGCTGAAACGGTAAGC
21489915 TCTTTTGAGCTGAAACGGTAAGC
1 TCTTTTGAGCTGAAACGGTAAGC
*
21489938 TCCTTTGAGCTGAAATATCGGTAAGC
1 TCTTTTGAGCTG-AA-A-CGGTAAGC
*
21489964 TCTTTCGAGCTG
1 TCTTTTGAGCTG
21489976 TGGTGAGTCC
Statistics
Matches: 123, Mismatches: 25, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
22 15 0.12
23 87 0.71
24 2 0.02
25 1 0.01
26 18 0.15
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (23 bp):
TCTTTTGAGCTGAAACGGTAAGC
Found at i:21491048 original size:3 final size:3
Alignment explanation
Indices: 21491042--21491083 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
21491032 TTGTTGTGTT
21491042 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21491084 GGCTAATTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21492843 original size:46 final size:46
Alignment explanation
Indices: 21492783--21493047 Score: 332
Period size: 46 Copynumber: 5.9 Consensus size: 46
21492773 TTTGACGTGA
* * * * * *
21492783 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAAGT
** * * *
21492829 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
21492875 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
21492921 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
21492967 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
21493005 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
21493048 GAGAGCACAC
Statistics
Matches: 196, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 149 0.76
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
Found at i:21493013 original size:38 final size:38
Alignment explanation
Indices: 21492962--21493037 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
21492952 CATTTCATAT
21492962 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
21493000 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
21493038 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:21494288 original size:19 final size:19
Alignment explanation
Indices: 21494252--21494289 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21494242 TTTCATAATG
*
21494252 AAAATTTTTAAATTTTCCC
1 AAAATTTTTAAATGTTCCC
21494271 AAAAGTTTTTAAA-GTTCCC
1 AAAA-TTTTTAAATGTTCCC
21494290 GGTTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (19 bp):
AAAATTTTTAAATGTTCCC
Found at i:21497281 original size:18 final size:18
Alignment explanation
Indices: 21497255--21497305 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
21497245 GTACATTTGG
21497255 TCAAGTGAAGAAGAATTT
1 TCAAGTGAAGAAGAATTT
*
21497273 TCAAATGAAGAAGAATTT
1 TCAAGTGAAGAAGAATTT
21497291 TCAAGTGAAGAAGAA
1 TCAAGTGAAGAAGAA
21497306 CAAGATGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.49, C:0.06, G:0.22, T:0.24
Consensus pattern (18 bp):
TCAAGTGAAGAAGAATTT
Found at i:21497314 original size:33 final size:33
Alignment explanation
Indices: 21497255--21497327 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 33
21497245 GTACATTTGG
*
21497255 TCAAGTGAAGAAGAATTTTCAAATGAAGAAGAATTT
1 TCAAGTGAAGAAGAA---TCAAATGAAGAAGAAATT
21497291 TCAAGTGAAGAAGAA-CAAGATGAAGAAGAAATT
1 TCAAGTGAAGAAGAATCAA-ATGAAGAAGAAATT
21497324 TCAA
1 TCAA
21497328 AGGAGGATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
32 3 0.09
33 17 0.49
36 15 0.43
ACGTcount: A:0.51, C:0.07, G:0.21, T:0.22
Consensus pattern (33 bp):
TCAAGTGAAGAAGAATCAAATGAAGAAGAAATT
Found at i:21497862 original size:25 final size:26
Alignment explanation
Indices: 21497816--21497867 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
21497806 TTTTATAATC
*
21497816 TTAATACAATGAATTTATAAAAATAA
1 TTAATAAAATGAATTTATAAAAATAA
*
21497842 TTAATAAAATG-ATTTATAAAAGTAA
1 TTAATAAAATGAATTTATAAAAATAA
21497867 T
1 T
21497868 AACTTGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (26 bp):
TTAATAAAATGAATTTATAAAAATAA
Found at i:21499971 original size:24 final size:24
Alignment explanation
Indices: 21499944--21499989 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
21499934 TAGACGACGG
**
21499944 ACAAATAGGATTGGATGACGATGA
1 ACAAATAGGATCAGATGACGATGA
21499968 ACAAATAGGATCAGATGACGAT
1 ACAAATAGGATCAGATGACGAT
21499990 CCATTCTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (24 bp):
ACAAATAGGATCAGATGACGATGA
Found at i:21502275 original size:27 final size:28
Alignment explanation
Indices: 21502222--21502285 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
21502212 CTAGTTTGGT
*
21502222 TCCATGCTCCCTTTTTCTCTTCTGTTCA
1 TCCATGCTCCCTTTTTCTCTTCGGTTCA
21502250 TCCATGCTCCCTTTTTCTCTT-GGTTCA
1 TCCATGCTCCCTTTTTCTCTTCGGTTCA
21502277 TCCATGCTC
1 TCCATGCTC
21502286 GGCTTCCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 14 0.40
28 21 0.60
ACGTcount: A:0.08, C:0.36, G:0.09, T:0.47
Consensus pattern (28 bp):
TCCATGCTCCCTTTTTCTCTTCGGTTCA
Found at i:21507976 original size:7 final size:7
Alignment explanation
Indices: 21507964--21507988 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21507954 AATTTCAAAG
21507964 TATTATA
1 TATTATA
21507971 TATTATA
1 TATTATA
21507978 TATTATA
1 TATTATA
21507985 TATT
1 TATT
21507989 CTAAGTTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTATA
Found at i:21510679 original size:9 final size:9
Alignment explanation
Indices: 21510657--21510705 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
21510647 TATTCTTCAT
21510657 TTTTTTGAAA
1 TTTTTT-AAA
*
21510667 TTTTAT-AA
1 TTTTTTAAA
21510675 TTTTTTAAA
1 TTTTTTAAA
21510684 TTTTTTAAA
1 TTTTTTAAA
21510693 TTTTTTAAA
1 TTTTTTAAA
21510702 TTTT
1 TTTT
21510706 ATTTTGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
8 7 0.19
9 24 0.67
10 5 0.14
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:21511848 original size:17 final size:17
Alignment explanation
Indices: 21511812--21511872 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
21511802 TTATAAAAAC
* **
21511812 TAAATAAAAATATTCTA
1 TAAATATAAATATTAAA
21511829 TAAATATAAATATTAAA
1 TAAATATAAATATTAAA
21511846 TAAA-ATAATTATATTAAA
1 TAAATATAA--ATATTAAA
21511864 -AAATA-AAAT
1 TAAATATAAAT
21511873 TTTCCCCACC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 2 0.05
16 4 0.11
17 23 0.61
18 9 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAATATAAATATTAAA
Found at i:21514332 original size:18 final size:18
Alignment explanation
Indices: 21514284--21514334 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
21514274 GTACATTTGG
*
21514284 TCAAGTGAAGAAAAATTT
1 TCAAGTGAAGAAGAATTT
*
21514302 TCAAATGAAGAAGAATTT
1 TCAAGTGAAGAAGAATTT
*
21514320 TTAAGTGAAGAAGAA
1 TCAAGTGAAGAAGAA
21514335 CAAGATGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.51, C:0.04, G:0.20, T:0.25
Consensus pattern (18 bp):
TCAAGTGAAGAAGAATTT
Found at i:21517506 original size:24 final size:24
Alignment explanation
Indices: 21517473--21517525 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
21517463 GCATATGTTA
**
21517473 GACGAAGAACAAATAGGATTGGAT
1 GACGAAGAACAAATAGGATCAGAT
*
21517497 GACGACGAACAAATAGGATCAGAT
1 GACGAAGAACAAATAGGATCAGAT
21517521 GACGA
1 GACGA
21517526 TCAATTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.13, G:0.28, T:0.13
Consensus pattern (24 bp):
GACGAAGAACAAATAGGATCAGAT
Found at i:21519212 original size:40 final size:38
Alignment explanation
Indices: 21519146--21519220 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 38
21519136 TAATTCATTA
21519146 ATTTTTAAAAATTAAAAAATTCAAAAAATATATAAAAATT
1 ATTTTTAAAAATTAAAAAATTCAAAAAA-ATA-AAAAATT
* *
21519186 ATTTTTTAAAATTAAAAAGTAT-AAAAAAATAAAAA
1 ATTTTTAAAAATTAAAAAAT-TCAAAAAAATAAAAA
21519221 TATACATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 4 0.12
39 3 0.09
40 24 0.75
41 1 0.03
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (38 bp):
ATTTTTAAAAATTAAAAAATTCAAAAAAATAAAAAATT
Found at i:21523975 original size:32 final size:31
Alignment explanation
Indices: 21523893--21523975 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 31
21523883 TCAGCCCCAC
* * **
21523893 TAACGGGTTATAATAGTTAATTTAAGCTCGT
1 TAACAGGTTATAATAGTTAGTACAAGCTCGT
* * *
21523924 TAACAAGTTAAAATGGTTAGTACAAGCCTCGT
1 TAACAGGTTATAATAGTTAGTACAAG-CTCGT
*
21523956 TAACAGGTGATAATAGTTAG
1 TAACAGGTTATAATAGTTAG
21523976 CACAGACCCT
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
31 19 0.47
32 21 0.52
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (31 bp):
TAACAGGTTATAATAGTTAGTACAAGCTCGT
Found at i:21524934 original size:13 final size:13
Alignment explanation
Indices: 21524916--21524940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21524906 TTCTTTTTAA
21524916 TTTTAATTAATAG
1 TTTTAATTAATAG
21524929 TTTTAATTAATA
1 TTTTAATTAATA
21524941 AACATGTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTTTAATTAATAG
Found at i:21525227 original size:21 final size:22
Alignment explanation
Indices: 21525184--21525227 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
21525174 ATATAGACAA
* * *
21525184 AATAATAAATATGTAATTCTAT
1 AATAATAAATATATAACTATAT
21525206 AATAA-AAATATATAACTATAT
1 AATAATAAATATATAACTATAT
21525227 A
1 A
21525228 TATTATTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
AATAATAAATATATAACTATAT
Found at i:21526308 original size:2 final size:2
Alignment explanation
Indices: 21526301--21526341 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
21526291 GCAGATTGTT
21526301 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21526342 TCATGTTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21536626 original size:26 final size:26
Alignment explanation
Indices: 21536597--21536669 Score: 112
Period size: 26 Copynumber: 2.8 Consensus size: 26
21536587 CCCGTTATAT
*
21536597 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
* *
21536623 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTTGTGAGCTTCCCGATTAAA
21536649 GGCTCTTTG-GAGCTTCCCGAT
1 GGCTCTTTGTGAGCTTCCCGAT
21536670 ATGACTCACT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 11 0.26
26 32 0.74
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.36
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCGATTAAA
Found at i:21540009 original size:25 final size:26
Alignment explanation
Indices: 21539950--21540009 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 26
21539940 TTATTCTTTC
*
21539950 AATTAATTATATTTATAATAATTATTA
1 AATT-ATTATATTTATAATAATTAATA
*
21539977 AATT-TTATTTTTATAA-AATTAA-A
1 AATTATTATATTTATAATAATTAATA
21540000 TAATTATTAT
1 -AATTATTAT
21540010 CATTATCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 1 0.03
24 9 0.31
25 15 0.52
27 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATTATTATATTTATAATAATTAATA
Found at i:21540932 original size:62 final size:61
Alignment explanation
Indices: 21540797--21540933 Score: 177
Period size: 62 Copynumber: 2.2 Consensus size: 61
21540787 TAAATTTATG
*
21540797 TTTTATTTAAAATTTGAAATTAGTAAAAACTCAATGTTTGGTTTATCATTATTTAAAATTA
1 TTTTATTTAAAATTTGAAATTAGTAAAAACTCAATGTTTGCTTTATCATTATTTAAAATTA
* * * * *
21540858 TTTCACTATTAAAATTTGAAATTAGTAAACA-TCAGTGTTTGCTTTATCATTGTTTTAAATTAA
1 TTTTA-T-TTAAAATTTGAAATTAGTAAAAACTCAATGTTTGCTTTATCATTATTTAAAATT-A
21540921 TTTTATGTTAAAA
1 TTTTAT-TTAAAA
21540934 AATGAATGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
61 4 0.06
62 34 0.52
63 27 0.42
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (61 bp):
TTTTATTTAAAATTTGAAATTAGTAAAAACTCAATGTTTGCTTTATCATTATTTAAAATTA
Found at i:21544600 original size:18 final size:18
Alignment explanation
Indices: 21544577--21544613 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21544567 TGATCGTGGC
*
21544577 ATAATTGGTGGTTTACTA
1 ATAATTGGTGATTTACTA
21544595 ATAATTGGTGATTTACTA
1 ATAATTGGTGATTTACTA
21544613 A
1 A
21544614 CCCCGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATAATTGGTGATTTACTA
Found at i:21552774 original size:131 final size:131
Alignment explanation
Indices: 21552533--21552798 Score: 347
Period size: 131 Copynumber: 2.0 Consensus size: 131
21552523 CATTCATTCA
* * * *
21552533 AAAATTCTTCAAAACAAAGACGAGATTCGATGTTTAGAAATTCGAGGAATCGTGCCCTTACGTGT
1 AAAATTCTTCAAAACAAAGAAGACATTCGATATTTAGAAATTCGAGGAATCGTGCCCTAACGTGT
* * * * *
21552598 TGGGTTACAATTTCACGTTTGCTCAAAATAATTGAATATCACTTCAAAATTTTATTCATGTCTTT
66 TGGGTTACAATTTCACGTTTGCCCAAAATAATCGAATATCACTTCAAAATTTCATTCATATCTTC
21552663 T
131 T
* * *
21552664 AAAATTCTTCCAAACGAAGAAGACATTCGATATTTAGTAATTCGCA-GAATCGTGCCCTAACGTG
1 AAAATTCTTCAAAACAAAGAAGACATTCGATATTTAGAAATTCG-AGGAATCGTGCCCTAACGTG
* * * * *
21552728 TTGGGTTGCAATTTCGCGTTTGCCCAAAATAATCGAGTGTTC-CTTCAAGATTTCATTCATATCT
65 TTGGGTTACAATTTCACGTTTGCCCAAAATAATCGAAT-ATCACTTCAAAATTTCATTCATATCT
21552792 TCT
129 TCT
21552795 AAAA
1 AAAA
21552799 ATTATTTAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
131 113 0.97
132 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (131 bp):
AAAATTCTTCAAAACAAAGAAGACATTCGATATTTAGAAATTCGAGGAATCGTGCCCTAACGTGT
TGGGTTACAATTTCACGTTTGCCCAAAATAATCGAATATCACTTCAAAATTTCATTCATATCTTC
T
Found at i:21563533 original size:23 final size:25
Alignment explanation
Indices: 21563505--21563555 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
21563495 TGATATAAAA
*
21563505 ATTTTAAATTTT-AAAATTATTTTT
1 ATTTAAAATTTTAAAAATTATTTTT
21563529 ATTTAAAATTTTCAAAAATTATTTTT
1 ATTTAAAATTTT-AAAAATTATTTTT
21563555 A
1 A
21563556 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.46
26 13 0.54
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTAAAATTTTAAAAATTATTTTT
Found at i:21563560 original size:24 final size:23
Alignment explanation
Indices: 21563510--21563561 Score: 61
Period size: 26 Copynumber: 2.2 Consensus size: 23
21563500 TAAAAATTTT
*
21563510 AAATTTTAAAATTATTTTTATTTA
1 AAATTTTAAAATTATTTTTA-TAA
21563534 AAATTTTCAAAAATTATTTTTA-AA
1 AAATTTT--AAAATTATTTTTATAA
21563558 AAAT
1 AAAT
21563562 AAAAATGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 12 0.48
26 13 0.52
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATTTTAAAATTATTTTTATAA
Found at i:21564537 original size:8 final size:8
Alignment explanation
Indices: 21564524--21564550 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
21564514 AGGCCTTTAA
21564524 AAAATTTT
1 AAAATTTT
21564532 AAAATTTT
1 AAAATTTT
21564540 AAAATTTT
1 AAAATTTT
21564548 AAA
1 AAA
21564551 TTAGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:21575062 original size:17 final size:18
Alignment explanation
Indices: 21575037--21575076 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
21575027 CCATCTTTTG
* *
21575037 TTTTATTGTTGATG-AAC
1 TTTTGTTGTGGATGAAAC
21575054 TTTTGTTGTGGATGAAAC
1 TTTTGTTGTGGATGAAAC
21575072 TTTTG
1 TTTTG
21575077 AAGTGAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.53
Consensus pattern (18 bp):
TTTTGTTGTGGATGAAAC
Found at i:21587892 original size:9 final size:9
Alignment explanation
Indices: 21587878--21587906 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
21587868 AACACCCCCC
21587878 TTTTTCTTT
1 TTTTTCTTT
21587887 TTTTTC-TT
1 TTTTTCTTT
21587895 TTTTTCTTT
1 TTTTTCTTT
21587904 TTT
1 TTT
21587907 GGGGGGGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:21601230 original size:3 final size:3
Alignment explanation
Indices: 21601222--21601256 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21601212 AACAAATAGG
21601222 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
21601257 GGACTAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:21603712 original size:20 final size:18
Alignment explanation
Indices: 21603684--21603722 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
21603674 TACTTATTAT
*
21603684 TTAATAAATAATAATTATAA
1 TTAAAAAAT-ATAA-TATAA
21603704 TTAAAAAATATAATATAA
1 TTAAAAAATATAATATAA
21603722 T
1 T
21603723 AATATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAAAAATATAATATAA
Found at i:21603735 original size:27 final size:26
Alignment explanation
Indices: 21603686--21603769 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
21603676 CTTATTATTT
*
21603686 AATAAATAATAAT-TATAATTAAAA-A
1 AATAAATAATAATATA-AAGTAAAAGA
21603711 ATATAATATAATAATATAAAGTAAAAGA
1 A-ATAA-ATAATAATATAAAGTAAAAGA
* *
21603739 AATAAAATAAATAATAAAAAGAATAAAGA
1 AAT-AAAT-AATAATATAAAGTA-AAAGA
21603768 AA
1 AA
21603770 CAAAAGTAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
25 1 0.02
26 4 0.08
27 19 0.39
28 18 0.37
29 7 0.14
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (26 bp):
AATAAATAATAATATAAAGTAAAAGA
Found at i:21603741 original size:29 final size:29
Alignment explanation
Indices: 21603686--21603774 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 29
21603676 CTTATTATTT
** * *
21603686 AATAAATAATAATTATAATTAAA-AAATAT
1 AATAAATAATAAAAAGAA-TAAAGAAATAA
* *
21603715 AATATAATAATATAAAGTA-AAAGAAATAA
1 AATA-AATAATAAAAAGAATAAAGAAATAA
*
21603744 AATAAATAATAAAAAGAATAAAGAAACAA
1 AATAAATAATAAAAAGAATAAAGAAATAA
21603773 AA
1 AA
21603775 GTAAGAAACA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 15 0.31
29 24 0.50
30 9 0.19
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (29 bp):
AATAAATAATAAAAAGAATAAAGAAATAA
Found at i:21610262 original size:16 final size:16
Alignment explanation
Indices: 21610241--21610274 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21610231 ATATTAAATG
*
21610241 ATTTTATAAATTTATA
1 ATTTTATAAATTAATA
*
21610257 ATTTTATTAATTAATA
1 ATTTTATAAATTAATA
21610273 AT
1 AT
21610275 ATATTATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTATAAATTAATA
Found at i:21610814 original size:17 final size:17
Alignment explanation
Indices: 21610794--21610826 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21610784 TTAATTATTA
21610794 TAAAT-AATATATTAGAT
1 TAAATAAATA-ATTAGAT
21610811 TAAATAAATAATTAGA
1 TAAATAAATAATTAGA
21610827 ATTTGCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TAAATAAATAATTAGAT
Found at i:21611028 original size:13 final size:13
Alignment explanation
Indices: 21611010--21611034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21611000 CAAGTAATTT
21611010 TTTTAATAAAATA
1 TTTTAATAAAATA
21611023 TTTTAATAAAAT
1 TTTTAATAAAAT
21611035 TAAAATTTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTAATAAAATA
Found at i:21616503 original size:6 final size:6
Alignment explanation
Indices: 21616494--21616527 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
21616484 AAATGAAATC
* *
21616494 CCTGAG CCTGGG CCTGGG CCTGGT CCTGGG CCTG
1 CCTGGG CCTGGG CCTGGG CCTGGG CCTGGG CCTG
21616528 ACCAACCTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.35, G:0.41, T:0.21
Consensus pattern (6 bp):
CCTGGG
Found at i:21618920 original size:35 final size:36
Alignment explanation
Indices: 21618881--21618965 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 36
21618871 ATCCGTCTAT
21618881 GGCAACCTTTAAAAGGTTGGGAT-TGACTCATTTAA
1 GGCAACCTTTAAAAGGTTGGGATATGACTCATTTAA
* * **
21618916 GGCAACCTTAAAAAGGTTGGGATATGCCTTGTTTAA
1 GGCAACCTTTAAAAGGTTGGGATATGACTCATTTAA
* *
21618952 AGCAACCCTTAAAA
1 GGCAACCTTTAAAA
21618966 AAATTTGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 22 0.52
36 20 0.48
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (36 bp):
GGCAACCTTTAAAAGGTTGGGATATGACTCATTTAA
Found at i:21619027 original size:38 final size:36
Alignment explanation
Indices: 21618805--21619193 Score: 186
Period size: 38 Copynumber: 10.6 Consensus size: 36
21618795 TAAACCTGTA
* * *
21618805 TAAGGCAA-CTATAAAAAGGTTG-GTATAGTTCTTGTC
1 TAAGGCAACCTTTAAAAAAGTTGAG-ATAG-ACTTGTC
* * * *
21618841 TAAGGCAACTTTTAAGAATAGTTGGGATAGA-TCCGTC
1 TAAGGCAACCTTTAA-AAAAGTTGAGATAGACT-TGTC
* * * * ** *
21618878 TATGGCAACCTTT-AAAAGGTTGGGATTGACTCATT
1 TAAGGCAACCTTTAAAAAAGTTGAGATAGACTTGTC
* * * *
21618913 TAAGGCAACC-TTAAAAAGGTTGGGATATGCCTTGTT
1 TAAGGCAACCTTTAAAAAAGTTGAGATA-GACTTGTC
* * * * *
21618949 TAAAGCAACCCTTAAAAAAATTTG-GTATAAACCTTATC
1 TAAGGCAA-CCTTTAAAAAAGTTGAG-ATAGA-CTTGTC
* *
21618987 TAAAGCAACTTTTTAAAAAAGTTGAGATAGATCTTGTC
1 TAAGGCAAC-CTTTAAAAAAGTTGAGATAGA-CTTGTC
* * * * * *
21619025 TAAGGCAACCTTTAGGAAATGTTGGGATAGGCATGTT
1 TAAGGCAACCTTTA-AAAAAGTTGAGATAGACTTGTC
*
21619062 TAAGGCAACCTTTTAAAAATGTT-AGAATAGACATTGTC
1 TAAGGCAACC-TTTAAAAAAGTTGAG-ATAGAC-TTGTC
* * *
21619100 TAAGGCAACCTTAAAAAAAGGTTGGGATAGACTTGTT
1 TAAGGCAACCTTTAAAAAA-GTTGAGATAGACTTGTC
* * * * *
21619137 TAAAGCAA-CGTTAAAAAGGTTGCGATAGA-TTCTTC
1 TAAGGCAACCTTTAAAAAAGTTGAGATAGACTT-GTC
* *
21619172 TAAGGTAACC-TTAAAAACGTTG
1 TAAGGCAACCTTTAAAAAAGTTG
21619194 GTATATATCT
Statistics
Matches: 273, Mismatches: 59, Indels: 43
0.73 0.16 0.11
Matches are distributed among these distances:
34 4 0.01
35 64 0.23
36 32 0.12
37 70 0.26
38 100 0.37
39 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (36 bp):
TAAGGCAACCTTTAAAAAAGTTGAGATAGACTTGTC
Found at i:21619092 original size:75 final size:75
Alignment explanation
Indices: 21618987--21619188 Score: 209
Period size: 75 Copynumber: 2.7 Consensus size: 75
21618977 AAACCTTATC
* * ** *
21618987 TAAAGCAACTTTTTAAAAAAGTTGAGATAGATC-TTGTCTAAGGCAACCTTTAGGAAATGTTGGG
1 TAAAGCAACCTTTTAAAAAAGTTGAGATAGA-CATTGTCTAAGGCAACCTTAAAAAAAGGTTGGG
*
21619051 ATAGGCATGTT
65 ATAGACATGTT
* *
21619062 TAAGGCAACCTTTTAAAAATGTT-AGAATAGACATTGTCTAAGGCAACCTTAAAAAAAGGTTGGG
1 TAAAGCAACCTTTTAAAAAAGTTGAG-ATAGACATTGTCTAAGGCAACCTTAAAAAAAGGTTGGG
*
21619126 ATAGACTTGTT
65 ATAGACATGTT
* * * * *
21619137 TAAAGCAA-C-GTTAAAAAGGTTGCGATAG--ATTCTTCTAAGGTAACCTTAAAAA
1 TAAAGCAACCTTTTAAAAAAGTTGAGATAGACATT-GTCTAAGGCAACCTTAAAAA
21619189 CGTTGGTATA
Statistics
Matches: 108, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
71 3 0.03
72 18 0.17
73 14 0.13
74 5 0.05
75 68 0.63
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (75 bp):
TAAAGCAACCTTTTAAAAAAGTTGAGATAGACATTGTCTAAGGCAACCTTAAAAAAAGGTTGGGA
TAGACATGTT
Found at i:21623484 original size:17 final size:17
Alignment explanation
Indices: 21623462--21623494 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21623452 TGCATATTTG
21623462 AATAAAAACAACCCAAA
1 AATAAAAACAACCCAAA
*
21623479 AATAAAAACAGCCCAA
1 AATAAAAACAACCCAA
21623495 GGAAATATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.24, G:0.03, T:0.06
Consensus pattern (17 bp):
AATAAAAACAACCCAAA
Found at i:21628704 original size:26 final size:26
Alignment explanation
Indices: 21628669--21628736 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
21628659 TTAAATATTA
* **
21628669 AAATAAATAAAATTTATCTTTATGAT
1 AAATAAATAAAATTAAAATTTATGAT
* *
21628695 AATTAAATAATATTAAAATTTATGAT
1 AAATAAATAAAATTAAAATTTATGAT
21628721 AAATAATATATAAATT
1 AAATAA-ATA-AAATT
21628737 CCTAAATAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
26 26 0.79
27 3 0.09
28 4 0.12
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (26 bp):
AAATAAATAAAATTAAAATTTATGAT
Found at i:21629434 original size:35 final size:35
Alignment explanation
Indices: 21629395--21629463 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
21629385 ACTTGCCTCT
21629395 TCCCACTCTCCCATGCTATCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTATCTGCCACCAGCACCAC
*
21629430 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTATCTGCCACCAGCACCA
21629464 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.19, C:0.51, G:0.10, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTATCTGCCACCAGCACCAC
Found at i:21630326 original size:3 final size:3
Alignment explanation
Indices: 21630311--21630360 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
21630301 GTTATTTTCA
* *
21630311 TAT TAT TAA TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
21630357 TAT T
1 TAT T
21630361 GTACATTAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21630699 original size:22 final size:23
Alignment explanation
Indices: 21630671--21630728 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
21630661 GTCAATTTTT
21630671 TTTATATATATTATATGAATA-A
1 TTTATATATATTATATGAATATA
* *
21630693 TTTATATATAATATTATGTATATA
1 TTTATATATATTA-TATGAATATA
21630717 TTT-TA-ATATTAT
1 TTTATATATATTAT
21630729 CAGTTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.03
22 17 0.55
23 9 0.29
24 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (23 bp):
TTTATATATATTATATGAATATA
Found at i:21638267 original size:11 final size:11
Alignment explanation
Indices: 21638253--21638279 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21638243 AATATTAAAA
21638253 ATATATAGAAC
1 ATATATAGAAC
21638264 ATATATAGAAC
1 ATATATAGAAC
21638275 ATATA
1 ATATA
21638280 CAATACGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
ATATATAGAAC
Found at i:21638742 original size:124 final size:126
Alignment explanation
Indices: 21638564--21638808 Score: 329
Period size: 124 Copynumber: 2.0 Consensus size: 126
21638554 AAAAAGTAAA
* * * *
21638564 TATAATAAAATGATATTAAAATAAAGTCATTAAAAACAGTAATATATGTATATATACAT-CTAAT
1 TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATAC--AT
* * * *
21638628 -AAGAATATATAGTAATGT-TAATGATAATAATAAAAATAATAATATTGAAATACAAAAGCTAT
64 GAAG-ATATACACTAATGTACAATAATAATAATAAAAATAATAATATTGAAATACAAAAGCTAT
* *
21638690 TATAATAAAA-AATATTAAAATAAAGT-AATAAAAACATTACTACATATATATATACATACATGA
1 TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATACATGA
*
21638753 AGATATACACTAATGTACAATAATAATAATAATAATAATAATATTGAAATACAAAA
66 AGATATACACTAATGTACAATAATAATAATAAAAATAATAATATTGAAATACAAAA
21638809 AATGTAATAT
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
123 14 0.13
124 65 0.62
125 16 0.15
126 10 0.10
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (126 bp):
TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATACATGA
AGATATACACTAATGTACAATAATAATAATAAAAATAATAATATTGAAATACAAAAGCTAT
Found at i:21638779 original size:3 final size:3
Alignment explanation
Indices: 21638771--21638795 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21638761 ACTAATGTAC
21638771 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
21638796 TTGAAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21639316 original size:11 final size:11
Alignment explanation
Indices: 21639273--21639307 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
21639263 AAAAAAAAGA
*
21639273 AGAGAGAAGGA
1 AGAGAGAAGGG
21639284 AGAGAGAAGGG
1 AGAGAGAAGGG
21639295 AGAGAGAAGGG
1 AGAGAGAAGGG
21639306 AG
1 AG
21639308 GGGGAAGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:21639438 original size:17 final size:18
Alignment explanation
Indices: 21639410--21639443 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21639400 AAGGTAAAAA
*
21639410 TTTATATTTTTTTTATTG
1 TTTATATTTTTTGTATTG
21639428 TTTAT-TTTTTTGTATT
1 TTTATATTTTTTGTATT
21639444 TTCTTTTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTATATTTTTTGTATTG
Found at i:21640135 original size:13 final size:13
Alignment explanation
Indices: 21640119--21640144 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21640109 TTTATTTGGT
21640119 TTATTGGGTTTTG
1 TTATTGGGTTTTG
21640132 TTATTGGGTTTTG
1 TTATTGGGTTTTG
21640145 GGGGTGGCCC
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:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TTATTGGGTTTTG
Found at i:21640986 original size:72 final size:72
Alignment explanation
Indices: 21640750--21641002 Score: 373
Period size: 73 Copynumber: 3.5 Consensus size: 72
21640740 ACATGTGAAC
* *
21640750 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
* *
21640814 CAGCGTGTCC
63 CAACGTGTCT
* * *
21640824 TGAGGCTCAACTCATTTCTCGTAATATGGGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
21640889 ACGTGTCT
65 ACGTGTCT
* *
21640897 AGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTGAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
21640962 TGTGTCT
66 CGTGTCT
21640969 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
21641003 TTCTTTCAAA
Statistics
Matches: 163, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
72 66 0.40
73 69 0.42
74 28 0.17
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:21641084 original size:88 final size:89
Alignment explanation
Indices: 21640969--21641182 Score: 256
Period size: 92 Copynumber: 2.4 Consensus size: 89
21640959 GAATGTGTCT
** *
21640969 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTCTTTCAAAAACATAATAATGAAAATAG-
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTTTCAAAAACA-AA-AATCAAAA-AGC
21641032 AAATGGAAAATACCTC-G-GTGTGACC
63 AAATGGAAAATACCTCGGCGTGTGACC
* * * *
21641057 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAGAAATCAAAAGGCT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTCTTTCAAAAACAAAAATCAAAAAGC-
* * *
21641122 TAATTGAAAATACCTCGGCGTGTGTCC
63 AAATGGAAAATACCTCGGCGTGTGACC
21641149 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
21641183 AATTAAAACA
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
88 33 0.30
89 7 0.06
90 15 0.14
91 13 0.12
92 41 0.38
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (89 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTTTCAAAAACAAAAATCAAAAAGCAAA
TGGAAAATACCTCGGCGTGTGACC
Found at i:21641712 original size:73 final size:72
Alignment explanation
Indices: 21641408--21641749 Score: 427
Period size: 72 Copynumber: 4.7 Consensus size: 72
21641398 GTAATCTGAA
** * *
21641408 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCTCAGCA
1 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACCTCA--A
* *
21641473 TGTGAAC-CGAG
62 CGTG-TCTCGAG
** * *
21641484 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACCTCAACG
*
21641549 TGTCTTGAG
64 TGTCTCGAG
* *
21641558 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTG
1 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTG
*
21641623 TCTTGAG
66 TCTCGAG
* * * *
21641630 GCTTAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGTAGAAATTGAAATTACCTCCACGT
1 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAACGT
21641695 GTCTCGAG
65 GTCTCGAG
21641703 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTG-AAACAGAAAT
1 GCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGAAAACAGAAAT
21641750 AAAAGCATCA
Statistics
Matches: 245, Mismatches: 18, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
72 84 0.34
73 62 0.25
74 39 0.16
76 60 0.24
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTG
TCTCGAG
Found at i:21641744 original size:145 final size:146
Alignment explanation
Indices: 21641408--21641749 Score: 431
Period size: 145 Copynumber: 2.3 Consensus size: 146
21641398 GTAATCTGAA
** * *
21641408 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCTCAGCA
1 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTT-GAAACAGAAATTGAAAATACCTCA-CA
* *
21641473 TGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAA
63 CGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TATTTTGAAAACAGAAATTGAAA
*
21641538 ATACCTCAACGTGTCTTGAG
127 ATACCTCAACGTGTCTCGAG
* *
21641558 GCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGAAAACAAAAATTGAAATTACCTCA-ACG
1 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTG-AAACAGAAATTGAAAATACCTCACACG
* * * ** * * *
21641621 TG-TCTTGAGGCTTAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAAGTAGAAATTGAAAT
65 TGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAA-CAGAAATTGAAAA
*
21641684 TACCTCCACGTGTCTCGAG
128 TACCTCAACGTGTCTCGAG
21641703 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAACAGAAAT
1 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAACAGAAAT
21641750 AAAAGCATCA
Statistics
Matches: 169, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
144 9 0.05
145 69 0.41
146 38 0.22
148 25 0.15
150 28 0.17
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (146 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAACAGAAATTGAAAATACCTCACACGT
GAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGAAATTGAAAATAC
CTCAACGTGTCTCGAG
Found at i:21643965 original size:32 final size:30
Alignment explanation
Indices: 21643918--21643983 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 30
21643908 TGGCATTTGA
21643918 TTTTTTTTTTGTTTTTTTCTTGTCCTTTTTTC
1 TTTTTTTTTTGTTTTTTTCTT-TCC-TTTTTC
*
21643950 TTTTTTGTTTT-TTTTTTTCTTTTCTTTTTC
1 TTTTTT-TTTTGTTTTTTTCTTTCCTTTTTC
21643980 TTTT
1 TTTT
21643984 CATGACTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 10 0.31
31 2 0.06
32 16 0.50
33 4 0.12
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.85
Consensus pattern (30 bp):
TTTTTTTTTTGTTTTTTTCTTTCCTTTTTC
Found at i:21643984 original size:11 final size:10
Alignment explanation
Indices: 21643918--21643983 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 10
21643908 TGGCATTTGA
21643918 TTTTTTTTT-
1 TTTTTTTTTC
*
21643927 TGTTTTTTTC
1 TTTTTTTTTC
21643937 TTGTCCTTTTTTC
1 TT-T--TTTTTTC
*
21643950 TTTTTTGTT-
1 TTTTTTTTTC
21643959 TTTTTTTTTC
1 TTTTTTTTTC
21643969 TTTTCTTTTTC
1 TTTT-TTTTTC
21643980 TTTT
1 TTTT
21643984 CATGACTGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
9 16 0.34
10 10 0.21
11 11 0.23
12 1 0.02
13 9 0.19
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:21648009 original size:11 final size:11
Alignment explanation
Indices: 21647995--21648021 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21647985 AATATTAAAA
21647995 ATATATAGAAC
1 ATATATAGAAC
21648006 ATATATAGAAC
1 ATATATAGAAC
21648017 ATATA
1 ATATA
21648022 CAATACGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
ATATATAGAAC
Found at i:21648546 original size:121 final size:125
Alignment explanation
Indices: 21648307--21648548 Score: 325
Period size: 121 Copynumber: 2.0 Consensus size: 125
21648297 AAAAAGTAAA
* * * * *
21648307 TATAATAAAATGATATTAAAATAAAGTCATTAAAAACAGTAATATATGTATATATACATCTAATA
1 TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATATAATA
* *
21648372 AGAATATATAGTAATGTTAATGATAATAATAAAAATAATAATATTGAAATACAAAAGCTAT
66 AGAATATACACTAATGTTAA-GATAATAATAAAAATAATAATATTGAAATACAAAAGCTAT
* *
21648433 TATAATAAAA-AATATTAAAATAAAGT-AATAAAAACATTACTACATATATATATACATAT-ATG
1 TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATATAAT-
*
21648495 AAG-ATATACACTAATG-TACA-ATAATAATAATAATAATAATATTGAAATACAAAA
65 AAGAATATACACTAATGTTA-AGATAATAATAAAAATAATAATATTGAAATACAAAA
21648549 AATGTAATAT
Statistics
Matches: 104, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
121 33 0.32
122 2 0.02
123 14 0.13
124 30 0.29
125 15 0.14
126 10 0.10
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (125 bp):
TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATATAATA
AGAATATACACTAATGTTAAGATAATAATAAAAATAATAATATTGAAATACAAAAGCTAT
Found at i:21649059 original size:11 final size:11
Alignment explanation
Indices: 21649016--21649050 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
21649006 AAAAAAAAGA
*
21649016 AGAGAGAAGGA
1 AGAGAGAAGGG
21649027 AGAGAGAAGGG
1 AGAGAGAAGGG
21649038 AGAGAGAAGGG
1 AGAGAGAAGGG
21649049 AG
1 AG
21649051 GGGGAAGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:21649882 original size:13 final size:13
Alignment explanation
Indices: 21649866--21649891 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21649856 TTTATTTGGT
21649866 TTATTGGGTTTTG
1 TTATTGGGTTTTG
21649879 TTATTGGGTTTTG
1 TTATTGGGTTTTG
21649892 GGGGTGGCCC
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:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TTATTGGGTTTTG
Found at i:21655563 original size:81 final size:81
Alignment explanation
Indices: 21655428--21655592 Score: 321
Period size: 81 Copynumber: 2.0 Consensus size: 81
21655418 ATAATCATAT
*
21655428 AGGCATAAAGGCATTTAAGACAAACATGTGCATATCATGATAACGTCATGCATGACATATACAGA
1 AGGCATAAAGGCATTTAAAACAAACATGTGCATATCATGATAACGTCATGCATGACATATACAGA
21655493 TACTCAGTAGAGCGAG
66 TACTCAGTAGAGCGAG
21655509 AGGCATAAAGGCATTTAAAACAAACATGTGCATATCATGATAACGTCATGCATGACATATACAGA
1 AGGCATAAAGGCATTTAAAACAAACATGTGCATATCATGATAACGTCATGCATGACATATACAGA
21655574 TACTCAGTAGAGCGAG
66 TACTCAGTAGAGCGAG
21655590 AGG
1 AGG
21655593 AGGTGATGAT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (81 bp):
AGGCATAAAGGCATTTAAAACAAACATGTGCATATCATGATAACGTCATGCATGACATATACAGA
TACTCAGTAGAGCGAG
Found at i:21655800 original size:74 final size:74
Alignment explanation
Indices: 21655686--21656058 Score: 629
Period size: 74 Copynumber: 5.0 Consensus size: 74
21655676 TTCCGTTTTC
* ** * *
21655686 AAAAATCAACTTATATTGCGAGAAATGGGTTGAGCTTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
21655751 TATTTTCAA
66 TATTTTCAA
21655760 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
21655825 TATTTTCAA
66 TATTTTCAA
* *
21655834 AAAAATCAACTCATATTGCGAGAGGTGAGGTGAGCCTCGGGACACGCTTAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
21655899 TATTTTCAA
66 TATTTTCAA
21655908 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
*
21655973 TATTTTTAA
66 TATTTTCAA
* * * *
21655982 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
*
21656047 TGTTTTCAA
66 TATTTTCAA
21656056 AAA
1 AAA
21656059 TGAGTTGAGC
Statistics
Matches: 283, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 283 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
TATTTTCAA
Found at i:21656158 original size:126 final size:126
Alignment explanation
Indices: 21655933--21656184 Score: 339
Period size: 126 Copynumber: 2.0 Consensus size: 126
21655923 TTGCGAGAGG
**
21655933 TGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTTAAAAAAATCAACTCATAT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTCTATTTTTAAAAAAATCAACTCATAT
* * *
21655998 TGCGAGAGATGAATTGAGCCTTGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAA
66 TGCGAGAGATGAATTGAGCCTCGGCACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *
21656059 TGAGTTGAGCCTCAAGACATGTTGAGGT-ATTTTCAATTTCTA-TTTT-CAAAAATCAACTCATA
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT-AATTTCTATTTTTAAAAAAATCAACTCATA
* * * * *
21656121 TTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTAATTTTAATTTGTGTTGTCAAAAA
65 TTGCGAGAGATGAATTGAGCCTCGG--CACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
21656185 AATTAACTCG
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
124 37 0.34
125 9 0.08
126 64 0.58
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (126 bp):
TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTCTATTTTTAAAAAAATCAACTCATAT
TGCGAGAGATGAATTGAGCCTCGGCACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:21656182 original size:74 final size:75
Alignment explanation
Indices: 21656059--21656372 Score: 383
Period size: 76 Copynumber: 4.2 Consensus size: 75
21656049 TTTTCAAAAA
* * *
21656059 TGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAA-TTTCTAT-T-TTCAAAAATCAACTCATA
1 TGAGTTGAGCCTCAAGACATGCTGAGGTATTGTCAATTTTTTATATGTTCAAAAATCAACTCATA
21656121 TTGCGAGAGG
66 TTGCGAGAGG
* * * * *
21656131 TGAGTTGAGCCTC-GGTTCACATGCTGAGGTAATT-TTAA-TTTGTGT-TG-TCAAAAAAATTAA
1 TGAGTTGAGCCTCAAG---ACATGCTGAGGT-ATTGTCAATTTTTTATATGTTC--AAAAATCAA
*
21656191 CTCGTATTGCGAGAGG
60 CTCATATTGCGAGAGG
* *
21656207 CGAGTTGAGCCTCAAGACATGCTGAGGTATTGTCAATTTTTTGTATGTTTCAAAAATCAACTCAT
1 TGAGTTGAGCCTCAAGACATGCTGAGGTATTGTCAATTTTTTATATG-TTCAAAAATCAACTCAT
21656272 ATTGCGAGAGG
65 ATTGCGAGAGG
*
21656283 TGAGTTGAGCCTCAAGACATGATGAGGTATTGTCAATTTTTTATATGTTTCAAAAATCAACTCAT
1 TGAGTTGAGCCTCAAGACATGCTGAGGTATTGTCAATTTTTTATATG-TTCAAAAATCAACTCAT
21656348 ATTGCGAGAGG
65 ATTGCGAGAGG
*
21656359 TGAATTGAGCCTCA
1 TGAGTTGAGCCTCA
21656373 GGACGCGCTG
Statistics
Matches: 212, Mismatches: 17, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
71 1 0.00
72 13 0.06
73 3 0.01
74 37 0.17
75 9 0.04
76 146 0.69
77 1 0.00
78 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (75 bp):
TGAGTTGAGCCTCAAGACATGCTGAGGTATTGTCAATTTTTTATATGTTCAAAAATCAACTCATA
TTGCGAGAGG
Found at i:21656217 original size:200 final size:199
Alignment explanation
Indices: 21655883--21656245 Score: 525
Period size: 200 Copynumber: 1.8 Consensus size: 199
21655873 GGACACGCTT
21655883 AGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 AGGTAATTTTAATTTCTATTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* * * *
21655948 GACACGCTGAGGTAATTTTAATTTCTATTTTTAAAAAAATCAACTCATATTGCGAGAGATGAATT
65 CACACGCTGAGGTAATTTTAATTTCTATTGTCAAAAAAATCAACTCATATTGCGAGAGACGAATT
***
21656013 GAGCCTTGGGACACGCTGAGGTAATT-TCAATTTCTGTTTTCAAAAATGAGTTGAGCCTCAAGAC
130 GAGCCTCAAGACACGCTGAGGT-ATTGTCAATTTCTGTTTTCAAAAATGAGTTGAGCCTCAAGAC
21656077 ATGTTG
194 ATGTTG
21656083 AGGT-ATTTTCAATTTCTATTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 AGGTAATTTT-AATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* * * * * * *
21656146 TTCACATGCTGAGGTAATTTTAATTTGTGTTGTCAAAAAAATTAACTCGTATTGCGAGAGGCGAG
65 --CACACGCTGAGGTAATTTTAATTTCTATTGTCAAAAAAATCAACTCATATTGCGAGAGACGAA
*
21656211 TTGAGCCTCAAGACATGCTGAGGTATTGTCAATTT
128 TTGAGCCTCAAGACACGCTGAGGTATTGTCAATTT
21656246 TTTGTATGTT
Statistics
Matches: 144, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
198 40 0.28
199 8 0.06
200 96 0.67
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (199 bp):
AGGTAATTTTAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC
ACACGCTGAGGTAATTTTAATTTCTATTGTCAAAAAAATCAACTCATATTGCGAGAGACGAATTG
AGCCTCAAGACACGCTGAGGTATTGTCAATTTCTGTTTTCAAAAATGAGTTGAGCCTCAAGACAT
GTTG
Found at i:21657023 original size:35 final size:35
Alignment explanation
Indices: 21656984--21657052 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
21656974 ACTTGCCTCT
*
21656984 TCCCACTTTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
21657019 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
21657053 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:21657909 original size:3 final size:3
Alignment explanation
Indices: 21657894--21657962 Score: 102
Period size: 3 Copynumber: 22.3 Consensus size: 3
21657884 GTTATTTTCA
*
21657894 TAT TAT TAA TAT TAT TATT TAT TAT TATT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT
*
21657941 TAT TAT TAT TAT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
21657963 GTACATTAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 54 0.90
4 6 0.10
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:21658069 original size:3 final size:3
Alignment explanation
Indices: 21658061--21658092 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
21658051 TGTGTTTCAA
*
21658061 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
21658093 ATGTTACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:21661737 original size:15 final size:15
Alignment explanation
Indices: 21661687--21661740 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
21661677 AAACCCTAAG
*
21661687 CCTT-AAACCACAAA
1 CCTTAAAACCTCAAA
21661701 CCTT-AAACCTCAAGA
1 CCTTAAAACCTCAA-A
*
21661716 CCATAAAATCCT-AAA
1 CCTTAAAA-CCTCAAA
21661731 CCTTAAAACC
1 CCTTAAAACC
21661741 ATACGCCCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 14 0.41
15 12 0.35
16 5 0.15
17 3 0.09
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (15 bp):
CCTTAAAACCTCAAA
Found at i:21661756 original size:7 final size:7
Alignment explanation
Indices: 21661746--21661802 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
21661736 AAACCATACG
21661746 CCCTAAA
1 CCCTAAA
21661753 CCCTAAA
1 CCCTAAA
*
21661760 CTCATAAA
1 C-CCTAAA
21661768 CCCTAAA
1 CCCTAAA
* *
21661775 TCCAAAA
1 CCCTAAA
21661782 CCCTAAA
1 CCCTAAA
21661789 CCCTACAA
1 CCCTA-AA
21661797 -CCTAAA
1 CCCTAAA
21661803 TATATAAGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
6 2 0.05
7 32 0.76
8 8 0.19
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.16
Consensus pattern (7 bp):
CCCTAAA
Found at i:21661765 original size:22 final size:22
Alignment explanation
Indices: 21661677--21661802 Score: 82
Period size: 22 Copynumber: 5.8 Consensus size: 22
21661667 ATTTTTATCA
* * *
21661677 AAACCCT-AAGCCTTAAACCAC
1 AAACCCTAAACCCTAAAACCAT
* *
21661698 AAACCTTAAA-CCTCAAGACCAT
1 AAACCCTAAACCCT-AAAACCAT
* *
21661720 AAAATCCTAAACCTTAAAACCAT
1 -AAACCCTAAACCCTAAAACCAT
**
21661743 ACGCCCTAAACCCT-AAACTCAT
1 AAACCCTAAACCCTAAAAC-CAT
* *
21661765 AAACCCTAAATCC-AAAACCCT
1 AAACCCTAAACCCTAAAACCAT
21661786 AAACCCTACAA-CCTAAA
1 AAACCCTA-AACCCTAAA
21661803 TATATAAGCT
Statistics
Matches: 81, Mismatches: 16, Indels: 15
0.72 0.14 0.13
Matches are distributed among these distances:
21 25 0.31
22 39 0.48
23 15 0.19
24 2 0.02
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.17
Consensus pattern (22 bp):
AAACCCTAAACCCTAAAACCAT
Found at i:21661767 original size:15 final size:16
Alignment explanation
Indices: 21661749--21661789 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
21661739 CCATACGCCC
21661749 TAAACCCTAAACT-CA
1 TAAACCCTAAACTCCA
21661764 TAAACCCTAAA-TCCA
1 TAAACCCTAAACTCCA
21661779 -AAACCCTAAAC
1 TAAACCCTAAAC
21661790 CCTACAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (16 bp):
TAAACCCTAAACTCCA
Found at i:21661970 original size:7 final size:7
Alignment explanation
Indices: 21661955--21662026 Score: 90
Period size: 7 Copynumber: 10.0 Consensus size: 7
21661945 GGCCAACTCT
*
21661955 TAAATCC
1 TAAACCC
21661962 TAAACCC
1 TAAACCC
21661969 TAAACCC
1 TAAACCC
* *
21661976 TAAGCCA
1 TAAACCC
21661983 TAAACCC
1 TAAACCC
*
21661990 TAAATCC
1 TAAACCC
21661997 TAAACCC
1 TAAACCC
21662004 TAAACCC
1 TAAACCC
21662011 TAAACACCC
1 T-AA-ACCC
21662020 TAAACCC
1 TAAACCC
21662027 ATTAGGCATG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
7 47 0.84
8 4 0.07
9 5 0.09
ACGTcount: A:0.43, C:0.39, G:0.01, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:21662369 original size:130 final size:134
Alignment explanation
Indices: 21662136--21662750 Score: 382
Period size: 132 Copynumber: 4.6 Consensus size: 134
21662126 GGCATAGTGT
** * * * * *
21662136 TGGACAAAGCTGACTCTTATTTAAGCGTTGCATTAAGCATGCATATCACAACCCTTATATAAAAA
1 TGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGA
* * *
21662201 GTTAACCT-AAGCGTATGTCGACAAGTCTATCCCAACACTT-A-G-G-A-AAATATATATCGTCT
66 GTTGA-CTAAAGCATATGTCGACAAGTCTATCCCAACACTTAAGGCGCACAAAAAT-TATCGTCT
*
21662260 TAGGAC
129 TAGAAC
* *
21662266 TGGACAAAGCCAACTCTTATTTATGCGTTGCCTTTGGCATGCATATCCCAACCCTTATACAAAGA
1 TGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGA
* * * ** *
21662331 GTTGGCTAAAGCATATGTTGGCCGGTCTATCCCAACACTTCGGAAAGTGTCGCACAAAAATTATT
66 GTTGACTAAAGCATATGTCGACAAGTCTATCCCAACACTT----AAG-G-CGCACAAAAATTATC
21662396 GTCTTAGAAC
125 GTCTTAGAAC
* *
21662406 -GAGACCAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAA
1 TG-GA-CAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
* * * * *
21662470 GAGTTGACCAAAGC--A--T-----AGTCTATCCCAACACTTAGGAAAGTGTCACCAAAAAAGTG
64 GAGTTGACTAAAGCATATGTCGACAAGTCTATCCCAACACTT---AAGGCG-CA-C-AAAAATTA
*
21662526 TCGTCTTAGGAC
123 TCGTCTTAGAAC
** * * * * *
21662538 TATACAAAAGCCAACTTTTATTCAAGCGTTGCCTTAGACATACATATCCCTACCCTTATACAAAG
1 TGGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
* * * * * *
21662603 AGTTGGCCAAAGC--A--T-----AGTCTACCCCAACACTTAGTAAAATGTCGC-CACAAAAGTG
65 AGTTGACTAAAGCATATGTCGACAAGTCTATCCCAACAC-T--T--AA-GGCGCACA-AAAATTA
*
21662658 TCGTCTTAGGAC
123 TCGTCTTAGAAC
** * * * *
21662670 TATACAAAAGCCAACTTTTATTCAAGCGTTGCCTTAGGCATACATATACCAACCCTTATACAAAG
1 TGGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
* *
21662735 AGTTGGCCAAAGCATA
65 AGTTGACTAAAGCATA
21662751 GTCTATCCCA
Statistics
Matches: 410, Mismatches: 49, Indels: 48
0.81 0.10 0.09
Matches are distributed among these distances:
129 3 0.01
130 89 0.22
131 6 0.01
132 212 0.52
133 1 0.00
134 4 0.01
135 3 0.01
137 2 0.00
139 3 0.01
140 15 0.04
141 72 0.18
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (134 bp):
TGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGA
GTTGACTAAAGCATATGTCGACAAGTCTATCCCAACACTTAAGGCGCACAAAAATTATCGTCTTA
GAAC
Found at i:21662716 original size:264 final size:264
Alignment explanation
Indices: 21662254--21662854 Score: 812
Period size: 264 Copynumber: 2.2 Consensus size: 264
21662244 AAAATATATA
* * * * *
21662254 TCGTCTTAGGACTGGAC-AAAGCCAACTCTTATTTATGCGTTGCCTTTGGCATGCATATCCCAAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * * *
21662318 CCTTATACAAAGAGTTGGCTAAAGCATATGTTGGCCGGTCTATCCCAACACTTCGGAAAGTGTCG
66 CCTTATACAAAGAGTTGGCCAAAGCATA--------GGTCTACCCCAACACTTAGGAAAATGTCG
* * *
21662383 CACAAAAATTATTGTCTTAGAACGAGACCAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATA
123 CACAAAAAGTATCGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATA
*
21662448 CATATCCCAACCCTTATACAAAGAGTTGACCAAAGCATAGTCTATCCCAACACTTAGGAAAGTGT
188 CATATACCAACCCTTATACAAAGAGTTGACCAAAGCATAGTCTATCCCAACACTTAGGAAA-TGT
21662513 CACCAAAAAAGTG
252 CACCAAAAAAGTG
* * * *
21662526 TCGTCTTAGGACTATACAAAAGCCAACTTTTATTCAAGCGTTGCCTTAGACATACATATCCCTAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
*
21662591 CCTTATACAAAGAGTTGGCCAAAGCATA-GTCTACCCCAACACTTAGTAAAATGTCGC-CACAAA
66 CCTTATACAAAGAGTTGGCCAAAGCATAGGTCTACCCCAACACTTAGGAAAATGTCGCACA-AAA
* * * * *
21662654 AGTGTCGTCTTAGGACTATACAAAAGCCAACTTTTATTCAAGCGTTGCCTTAGGCATACATATAC
130 AGTATCGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATAC
* ** *
21662719 CAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAATGTTGCCACAA
195 CAACCCTTATACAAAGAGTTGACCAAAGCATAGTCTATCCCAACACTTAGGAAATGTCACCAAAA
21662784 AAGTG
260 AAGTG
* * * *
21662789 TCGTCTTAGGACTAGATAAAAACTAACTCTTATTCAAGCGTTGCTTTAGGCATACATATCCCAAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
21662854 C
66 C
21662855 TTTAGGAAAG
Statistics
Matches: 292, Mismatches: 35, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
263 73 0.25
264 137 0.47
272 15 0.05
273 67 0.23
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (264 bp):
TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
CCTTATACAAAGAGTTGGCCAAAGCATAGGTCTACCCCAACACTTAGGAAAATGTCGCACAAAAA
GTATCGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATACC
AACCCTTATACAAAGAGTTGACCAAAGCATAGTCTATCCCAACACTTAGGAAATGTCACCAAAAA
AGTG
Found at i:21662876 original size:131 final size:132
Alignment explanation
Indices: 21662355--21662854 Score: 752
Period size: 132 Copynumber: 3.8 Consensus size: 132
21662345 ATGTTGGCCG
* * * * * * *
21662355 GTCTATCCCAACACTTCGGAAAGTGTCG-CACAAAAATTATTGTCTTAGAACGAGACCAAAGCCA
1 GTCTATCCCAACACTTAGGAAAGTGTCGCCAC-AAAAGTGTCGTCTTAGGACTAGACAAAAGCCA
*
21662419 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGACCAAAGC
65 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
21662484 ATA
130 ATA
* * *
21662487 GTCTATCCCAACACTTAGGAAAGTGTCACCAAAAAAGTGTCGTCTTAGGACTATACAAAAGCCAA
1 GTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAA
* * *
21662552 CTTTTATTCAAGCGTTGCCTTAGACATACATATCCCTACCCTTATACAAAGAGTTGGCCAAAGCA
66 CTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCA
21662617 TA
131 TA
* * * *
21662619 GTCTACCCCAACACTTAGTAAAATGTCGCCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCAA
1 GTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAA
* *
21662684 CTTTTATTCAAGCGTTGCCTTAGGCATACATATACCAACCCTTATACAAAGAGTTGGCCAAAGCA
66 CTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCA
21662749 TA
131 TA
* * * *
21662751 GTCTATCCCAACACTTAGGAAA-TGTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACTAA
1 GTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAA
*
21662815 CTCTTATTCAAGCGTTGCTTTAGGCATACATATCCCAACC
66 CTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACC
21662855 TTTAGGAAAG
Statistics
Matches: 335, Mismatches: 32, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
131 74 0.22
132 259 0.77
133 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (132 bp):
GTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAA
CTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCA
TA
Found at i:21662921 original size:91 final size:90
Alignment explanation
Indices: 21662754--21662945 Score: 278
Period size: 91 Copynumber: 2.1 Consensus size: 90
21662744 AAGCATAGTC
*
21662754 TATCCCAACACTTAGGAAATGTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACTAACTCT
1 TATCCCAAC-CTTAGGAAATGTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACCAACTCT
21662819 TATTCAAGCGTTGCTTTAGGCATACA
65 TATTCAAGCGTTGCTTTAGGCATACA
* * *
21662845 TATCCCAACCTTTAGGAAAGTGTTGCCCCAAAAGTGTCGTCTTAGGACTAGA-CAAAGCCAACTC
1 TATCCCAACC-TTAGGAAA-TGTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACCAACTC
* * *
21662909 TTATTTAAGCGTTGCTTTGGGCATGCA
64 TTATTCAAGCGTTGCTTTAGGCATACA
*
21662936 TATACCAACC
1 TATCCCAACC
21662946 CTTATACAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
90 1 0.01
91 59 0.65
92 31 0.34
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (90 bp):
TATCCCAACCTTAGGAAATGTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACCAACTCTT
ATTCAAGCGTTGCTTTAGGCATACA
Found at i:21662962 original size:92 final size:92
Alignment explanation
Indices: 21662774--21662962 Score: 256
Period size: 92 Copynumber: 2.1 Consensus size: 92
21662764 CTTAGGAAAT
*
21662774 GTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACTAACTCTTATTCAAGCGTTGCTTTAGG
1 GTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACCAACTCTTATTCAAGCGTTGCTTTAGG
* * *
21662839 CATACATATCCCAACCTTTAGGAAAGT
66 CATACATATACCAACCTTTAGCAAAGA
* * * * *
21662866 GTTGCCCCAAAAGTGTCGTCTTAGGACTAGA-CAAAGCCAACTCTTATTTAAGCGTTGCTTTGGG
1 GTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACCAACTCTTATTCAAGCGTTGCTTTAGG
*
21662930 CATGCATATACCAACCCTTATA-CAAAGA
66 CATACATATACCAA-CCTT-TAGCAAAGA
21662958 GTTGC
1 GTTGC
21662963 TAAAGTCCAG
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
91 40 0.47
92 43 0.51
93 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (92 bp):
GTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACCAACTCTTATTCAAGCGTTGCTTTAGG
CATACATATACCAACCTTTAGCAAAGA
Found at i:21663080 original size:119 final size:119
Alignment explanation
Indices: 21662867--21663081 Score: 306
Period size: 120 Copynumber: 1.8 Consensus size: 119
21662857 TAGGAAAGTG
* ** *
21662867 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGCTTTGGGCA
1 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCCTATAAAAGCGTTGCTTTAGGCA
*
21662932 TGCATATACCAACCCTTATACAAAGAGTTGCTAAAGTCCAGTCTATACCAACAC
66 TGCATATACCAACACTTATACAAAGAGTTGCTAAAGTCCAGTCTATACCAACAC
* ***
21662986 TTGCCCCAAAAGTGTCGTCTTAGGACTATACTTTTGCCAACTCCTATAAAAGCGTTGCTTTAGGC
1 TTGCCCCAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCCTATAAAAGCGTTGCTTTAGGC
* * *
21663051 TTGCATATCCCAACACTTAT-GAAAGAGTTGC
65 ATGCATATACCAACACTTATACAAAGAGTTGC
21663082 CTAACGCGTA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
119 40 0.48
120 43 0.52
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (119 bp):
TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCCTATAAAAGCGTTGCTTTAGGCA
TGCATATACCAACACTTATACAAAGAGTTGCTAAAGTCCAGTCTATACCAACAC
Found at i:21664953 original size:48 final size:48
Alignment explanation
Indices: 21664882--21664973 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
21664872 TAAGTAATTT
*
21664882 AAGTTGAACCACTATAGATTCTTGAATTTCCTTTAATTACCATAACTG
1 AAGTTGAACCACTATAAATTCTTGAATTTCCTTTAATTACCATAACTG
*
21664930 AAGTTGAACCACTATAAATTCTTGAATTTCCTTTAATTGCCATA
1 AAGTTGAACCACTATAAATTCTTGAATTTCCTTTAATTACCATA
21664974 TTTTCTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (48 bp):
AAGTTGAACCACTATAAATTCTTGAATTTCCTTTAATTACCATAACTG
Found at i:21668131 original size:20 final size:20
Alignment explanation
Indices: 21668080--21668133 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
21668070 AATAATATGT
*
21668080 TAATAAAAATAACAGTAGTAG
1 TAATAAAAATAA-AGTAATAG
*
21668101 TAATAATAATAAAGTAATAG
1 TAATAAAAATAAAGTAATAG
21668121 TAATAAAAATAAA
1 TAATAAAAATAAA
21668134 AATAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (20 bp):
TAATAAAAATAAAGTAATAG
Found at i:21668197 original size:3 final size:3
Alignment explanation
Indices: 21667952--21668177 Score: 67
Period size: 3 Copynumber: 76.0 Consensus size: 3
21667942 TAATAAGAGA
* * * * * *
21667952 AAT AAT -AT AAT AAT AAT GAT AAT ACT AAAG AAA AAA AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* * *
21667997 AAT AGT AAT AAAT AGAA AAT AAT AGT ACATT AAT AAT AAT ATAT AA-
1 AAT AAT AAT -AAT A-AT AAT AAT AAT A-A-T AAT AAT AAT A-AT AAT
* **
21668043 AA- AAT AGGA- AAT AAT AAT -AT GAT AA- AA- AAT AAT -AT GTT AAT
1 AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
21668084 AAA AAT AAC AGT AGT AGT AAT AAT AAT AA- AGT AAT AGT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
21668131 AAA AAT AAA AAT AAT AGT AAT AAT -GT ATT AAT AAG AAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21668178 GAAACGAGAT
Statistics
Matches: 163, Mismatches: 44, Indels: 32
0.68 0.18 0.13
Matches are distributed among these distances:
2 17 0.10
3 132 0.81
4 11 0.07
5 3 0.02
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:21668246 original size:12 final size:12
Alignment explanation
Indices: 21668229--21668257 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
21668219 AAAGAAATAG
21668229 TAATAATAGTAA
1 TAATAATAGTAA
21668241 TAATAATAGTAA
1 TAATAATAGTAA
21668253 TAATA
1 TAATA
21668258 TAAACAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
TAATAATAGTAA
Found at i:21668266 original size:21 final size:21
Alignment explanation
Indices: 21668224--21668266 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
21668214 ACATAAAAGA
*
21668224 AATAGTAATAATAGTAATAAT
1 AATAGTAATAATAGTAACAAT
21668245 AATAGTAATAATA-TAAACAAT
1 AATAGTAATAATAGT-AACAAT
21668266 A
1 A
21668267 TATGTATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (21 bp):
AATAGTAATAATAGTAACAAT
Found at i:21668385 original size:3 final size:3
Alignment explanation
Indices: 21668377--21668407 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
21668367 AAGTACAAGT
21668377 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21668408 GTAAATGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:21675139 original size:29 final size:28
Alignment explanation
Indices: 21675076--21675140 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
21675066 AATATTTATA
21675076 AATAATTATATTACAAAACTTTTATAAC
1 AATAATTATATTACAAAACTTTTATAAC
* * *
21675104 AAGTAATTATTTTATAACCAACTTTT-TGAC
1 AA-TAATTATATTACAA--AACTTTTATAAC
21675134 AATAATT
1 AATAATT
21675141 TTAGAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 2 0.06
29 17 0.55
30 5 0.16
31 7 0.23
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (28 bp):
AATAATTATATTACAAAACTTTTATAAC
Found at i:21687177 original size:56 final size:56
Alignment explanation
Indices: 21687098--21687214 Score: 189
Period size: 56 Copynumber: 2.1 Consensus size: 56
21687088 AGCCATGAAT
* *
21687098 ATTTTTATAAATACTTACGAAGTGTTATTAAGGTTGTATTAAATTTTCATTAAGAA
1 ATTTTTATAAATACTTACAAAGTGTTATTAAGGTTGTATTAAAGTTTCATTAAGAA
* * *
21687154 ATTTTTATAAATATTTACAAAGTGTTATTAAGGTTGTGTTAAAGTTTCGTTAAGAA
1 ATTTTTATAAATACTTACAAAGTGTTATTAAGGTTGTATTAAAGTTTCATTAAGAA
21687210 ATTTT
1 ATTTT
21687215 AATGTTTAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (56 bp):
ATTTTTATAAATACTTACAAAGTGTTATTAAGGTTGTATTAAAGTTTCATTAAGAA
Found at i:21688115 original size:15 final size:15
Alignment explanation
Indices: 21688095--21688128 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21688085 TATGGTTTTG
21688095 ATTGTTTAATATAT-A
1 ATTGTTT-ATATATGA
21688110 ATTGTTTATATATGA
1 ATTGTTTATATATGA
21688125 ATTG
1 ATTG
21688129 AGTTTATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGTTTATATATGA
Found at i:21688247 original size:45 final size:45
Alignment explanation
Indices: 21688198--21688297 Score: 141
Period size: 45 Copynumber: 2.2 Consensus size: 45
21688188 ACAAGAAACG
* *
21688198 AGTAAGACCATGA-TTGAAAGATGTTATGGCATCACT-ATTCTATCA
1 AGTAAGACCATGACTT-AAAGACGTTATGACATCA-TGATTCTATCA
*
21688243 AGTAAGACCATGACTTAAAGACGTTATGACATCATGATTCTATCG
1 AGTAAGACCATGACTTAAAGACGTTATGACATCATGATTCTATCA
21688288 AGTAAGACCA
1 AGTAAGACCA
21688298 CAGCTAAAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
44 1 0.02
45 47 0.94
46 2 0.04
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (45 bp):
AGTAAGACCATGACTTAAAGACGTTATGACATCATGATTCTATCA
Done.