Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 141 of 171
Found at i:43244177 original size:43 final size:43
Alignment explanation
Indices: 43244108--43244207 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
43244098 TGTTATTCCT
43244108 TGACATGTTATTAAATTATATGACTTGACT-TGTCTTAATATCA
1 TGACATGTTATTAAATTATATGACTTGACTCT-TCTTAATATCA
* * *
43244151 TGGCATGTTATTAAATTATATTACTTGACTCTTGTTAATATCA
1 TGACATGTTATTAAATTATATGACTTGACTCTTCTTAATATCA
43244194 TGACATGTTATTAA
1 TGACATGTTATTAA
43244208 TTGTGCAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 51 0.98
44 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (43 bp):
TGACATGTTATTAAATTATATGACTTGACTCTTCTTAATATCA
Found at i:43245154 original size:21 final size:21
Alignment explanation
Indices: 43245115--43245155 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43245105 TTTCACATAT
*
43245115 GATTTAGGGGTTATGGTTTAG
1 GATTTAGGGCTTATGGTTTAG
43245136 GATTTAGGGCTTCAT-GTTTA
1 GATTTAGGGCTT-ATGGTTTA
43245156 AAGTTTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.20, C:0.05, G:0.32, T:0.44
Consensus pattern (21 bp):
GATTTAGGGCTTATGGTTTAG
Found at i:43246940 original size:20 final size:17
Alignment explanation
Indices: 43246904--43246942 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
43246894 AATTTATAAC
43246904 AAATAAATATCAAACTA
1 AAATAAATATCAAACTA
43246921 AAATAAAATATGCTAAACTA
1 AAAT-AAATAT-C-AAACTA
43246941 AA
1 AA
43246943 TTGTATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 6 0.32
19 1 0.05
20 8 0.42
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (17 bp):
AAATAAATATCAAACTA
Found at i:43247775 original size:21 final size:21
Alignment explanation
Indices: 43247746--43247790 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
43247736 TCGGTTATAA
* *
43247746 TTTTCATATTTTCTCATATTT
1 TTTTAATATTTTCTCATAATT
43247767 TTTTAATATTTTCTCATAATT
1 TTTTAATATTTTCTCATAATT
43247788 TTT
1 TTT
43247791 GTATATCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTAATATTTTCTCATAATT
Found at i:43247801 original size:18 final size:19
Alignment explanation
Indices: 43247778--43247813 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
43247768 TTTAATATTT
*
43247778 TCTCATA-ATTTTTGTATA
1 TCTCATATATTTTAGTATA
43247796 TCTCATATATTTTAGTAT
1 TCTCATATATTTTAGTAT
43247814 TCTTTCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (19 bp):
TCTCATATATTTTAGTATA
Found at i:43249860 original size:23 final size:23
Alignment explanation
Indices: 43249830--43249873 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
43249820 GTGTATGCCA
*
43249830 ATTTTGTAGTGTATGTTTATTTT
1 ATTTTGTAGTGTATATTTATTTT
43249853 ATTTTGTAGTGTATATTTATT
1 ATTTTGTAGTGTATATTTATT
43249874 AAGATAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (23 bp):
ATTTTGTAGTGTATATTTATTTT
Found at i:43251933 original size:18 final size:18
Alignment explanation
Indices: 43251910--43251948 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
43251900 TTCCATTATC
43251910 ATTGTTTTTAATTCTTTA
1 ATTGTTTTTAATTCTTTA
43251928 ATTGTTTTTAATTCTTTA
1 ATTGTTTTTAATTCTTTA
43251946 ATT
1 ATT
43251949 TTCTTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (18 bp):
ATTGTTTTTAATTCTTTA
Found at i:43251958 original size:18 final size:18
Alignment explanation
Indices: 43251910--43251958 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
43251900 TTCCATTATC
*
43251910 ATTGTTTTTAATTCTTTA
1 ATTGTTTTAAATTCTTTA
*
43251928 ATTGTTTTTAATTCTTTA
1 ATTGTTTTAAATTCTTTA
43251946 ATT-TTCTTAAATT
1 ATTGTT-TTAAATT
43251959 GCATCGAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 2 0.07
18 27 0.93
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.65
Consensus pattern (18 bp):
ATTGTTTTAAATTCTTTA
Found at i:43257065 original size:131 final size:131
Alignment explanation
Indices: 43256831--43257092 Score: 364
Period size: 131 Copynumber: 2.0 Consensus size: 131
43256821 ATTTTGGGAT
* * * *
43256831 TTACAGGTTATATGGGTACTGGTCTTGGATGTCGTATCGATGGCTGAGGTCCTACATTGGTTGTG
1 TTACAAGTTATATGGGTACTAGTCTTGAATGTCGTATCGATGGCTGAGGTCCTACATTGGTTGCG
* * *
43256896 AATTCTCTACAGCTTGTGTGAGCAGCATCATGTAGCCCACATCTCGACCCACAACTCGTATGAGC
66 AATTCTCCACAACTCGTGTGAGCAGCATCATGTAGCCCACATCTCGACCCACAACTCGTATGAGC
43256961 A
131 A
** * *
43256962 TTACAAGTTATATGGGTGTTAGTCTTGAATGTCCG-ATCGATGGCTGAGGTCTTGCATTGGTTGC
1 TTACAAGTTATATGGGTACTAGTCTTGAATGT-CGTATCGATGGCTGAGGTCCTACATTGGTTGC
* * * * *
43257026 GGATTCTCCACAACTCGTGTGAGCAGTATCGTGTAGCCCACATCTCGACCCACAGCTCGTGTGAG
65 GAATTCTCCACAACTCGTGTGAGCAGCATCATGTAGCCCACATCTCGACCCACAACTCGTATGAG
43257091 CA
130 CA
43257093 GGCCCATTTC
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
131 112 0.98
132 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (131 bp):
TTACAAGTTATATGGGTACTAGTCTTGAATGTCGTATCGATGGCTGAGGTCCTACATTGGTTGCG
AATTCTCCACAACTCGTGTGAGCAGCATCATGTAGCCCACATCTCGACCCACAACTCGTATGAGC
A
Found at i:43257234 original size:157 final size:157
Alignment explanation
Indices: 43256945--43257249 Score: 441
Period size: 157 Copynumber: 1.9 Consensus size: 157
43256935 CATCTCGACC
* * *
43256945 CACAACTCGTATGAGCATTACAAGTTATATGGGTGTTAGTCTTGAATGTCCGATCGATGGCTGAG
1 CACAACTCGTATGAGCATTACAAGTTATATGGGTGCTAGTCTTGAATGTCCGAGCGAAGGCTGAG
* * * * * * *
43257010 GTCTTGCATTGGTTGCGGATTCTCCACAACTCGTGTGAGCAGTATCGTGTAGCCCACATCTCGAC
66 GTCCTGCATTAGTTGCGAATTCTCCACAACTCGTGTAAGCAGCATCGTGTAGACCACATCTCAAC
43257075 CCACAGCTCGTGTGAGCAGGCCCATTT
131 CCACAGCTCGTGTGAGCAGGCCCATTT
* * * *
43257102 CACAACTCGTGTGAGCATTACACGTTATATGGGTGCTGGTCTT-AGATGTCCTAGCGAAGGCTGA
1 CACAACTCGTATGAGCATTACAAGTTATATGGGTGCTAGTCTTGA-ATGTCCGAGCGAAGGCTGA
* *
43257166 GGTCCTGCATTAGTTGCGAATTCTCTACAGCTCGTGTAAGCAGCATCGTGTAGACCACATCTCAA
65 GGTCCTGCATTAGTTGCGAATTCTCCACAACTCGTGTAAGCAGCATCGTGTAGACCACATCTCAA
*
43257231 CCCATAGCTCGTGTGAGCA
130 CCCACAGCTCGTGTGAGCA
43257250 TTATAGGTTA
Statistics
Matches: 130, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
156 1 0.01
157 129 0.99
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (157 bp):
CACAACTCGTATGAGCATTACAAGTTATATGGGTGCTAGTCTTGAATGTCCGAGCGAAGGCTGAG
GTCCTGCATTAGTTGCGAATTCTCCACAACTCGTGTAAGCAGCATCGTGTAGACCACATCTCAAC
CCACAGCTCGTGTGAGCAGGCCCATTT
Found at i:43257342 original size:131 final size:132
Alignment explanation
Indices: 43257102--43257381 Score: 359
Period size: 131 Copynumber: 2.1 Consensus size: 132
43257092 AGGCCCATTT
* * * * * * *
43257102 CACAACTCGTGTGAGCATTACACGTTATATGGGTGCTGGTCTTAGATGTCCTAGCGAAGGCTGAG
1 CACAGCTCGTGTGAGCATTACACGTTATATGGATACTGGTCTTAGATGTCCTACCGAAGACTAAA
*
43257167 GTCCTGCATTAGTTGCGAATTCTCTACAGCTCGTGTAAGCAGCATCGTGTAG-ACCACATCTCAA
66 GTCCTGCATTAGTTGCGAATTCTCTACAGCTCATGTAAGCAGCATCGTGTAGCACCACATCTCAA
43257231 CC
131 CC
* * * *
43257233 CATAGCTCGTGTGAGCATTATAGGTTATATGGATACTGGTCTTAGATGTCCTACCGATGACTAAA
1 CACAGCTCGTGTGAGCATTACACGTTATATGGATACTGGTCTTAGATGTCCTACCGAAGACTAAA
* * * * *
43257298 GTCTTGCATTGGTTGC-AGATTCT-TCACAGCTCATGTGAGTAGCATCGTGTAGCCCCACATCTC
66 GTCCTGCATTAGTTGCGA-ATTCTCT-ACAGCTCATGTAAGCAGCATCGTGTAGCACCACATCTC
*
43257361 GACC
129 AACC
43257365 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
43257382 GGCCTATTTC
Statistics
Matches: 127, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
130 2 0.02
131 97 0.76
132 28 0.22
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (132 bp):
CACAGCTCGTGTGAGCATTACACGTTATATGGATACTGGTCTTAGATGTCCTACCGAAGACTAAA
GTCCTGCATTAGTTGCGAATTCTCTACAGCTCATGTAAGCAGCATCGTGTAGCACCACATCTCAA
CC
Found at i:43261574 original size:40 final size:40
Alignment explanation
Indices: 43261530--43261609 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
43261520 TGGGTCGTGG
*
43261530 TTTCAATCTACCCCATGATCGGGAAAAGAGATCGGATGGT
1 TTTCAAACTACCCCATGATCGGGAAAAGAGATCGGATGGT
** *
43261570 TTTCAAACTACCCCATGATCGGGGTAAGAGATTGGATGGT
1 TTTCAAACTACCCCATGATCGGGAAAAGAGATCGGATGGT
43261610 GATGTAACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (40 bp):
TTTCAAACTACCCCATGATCGGGAAAAGAGATCGGATGGT
Found at i:43262026 original size:98 final size:97
Alignment explanation
Indices: 43261923--43262139 Score: 222
Period size: 98 Copynumber: 2.2 Consensus size: 97
43261913 TTGCGGCCTC
* * * * *
43261923 AACCTTTCCCATTGC-ATCTTCATGCCA-TAGGATTCGTCGTTGCGGCCTCAATCCTTGCCAACA
1 AACCTTTCCC-TT-CAATCTTCATGCCACCA-GACTCGCCGTTGCGGCCTAAATCCTTCCCAACA
*
43261986 TGTTTCTGAGGTACAAGGTTCGCCATCGCGACTTA
63 TGTTTCTAAGGTACAAGGTTCGCCATCGCGACTTA
* ** * * **
43262021 AACCTTTGCCTTCATATCTTCATGGTACCAGACTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG
1 AACCTTTCCCTTCA-ATCTTCATGCCACCAGACTCGCCGTTGCGGCCTAAATCCTTCCCAACATG
* * * *
43262086 TTTCTAAGGTATAAGGTTCGTCGTTGCGACTTA
65 TTTCTAAGGTACAAGGTTCGCCATCGCGACTTA
43262119 AACCTTTCCCTTCATATCTTC
1 AACCTTTCCCTTCA-ATCTTC
43262140 GTGGTACTAG
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
96 1 0.01
97 2 0.02
98 94 0.96
99 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.35
Consensus pattern (97 bp):
AACCTTTCCCTTCAATCTTCATGCCACCAGACTCGCCGTTGCGGCCTAAATCCTTCCCAACATGT
TTCTAAGGTACAAGGTTCGCCATCGCGACTTA
Found at i:43262058 original size:49 final size:49
Alignment explanation
Indices: 43261995--43262472 Score: 229
Period size: 49 Copynumber: 9.8 Consensus size: 49
43261985 ATGTTTCTGA
** * * *
43261995 GGTACAAGGTTCGCCATCGCGACTTAAACCTTTGCCTTCATATCTTCAT
1 GGTACAAGACTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTTCAT
* * * * *
43262044 GGTACCAGACTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGT-TTCTAA
1 GGTACAAGACTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTTC-AT
* ** * *
43262093 GGTATAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTCATATCTTCGT
1 GGTACAAGACTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTTCAT
* * * * * ** *
43262142 GGTACTAGATTCGTCGTTGC-AGCTTAAATCTTTCCCATCGCATCTTCTT
1 GGTACAAGACTCGCCGTTGCGA-CTTAAACCTTTCCCTTCATATCTTCAT
* * * * * * ** *
43262191 GGTATCGA-ATTCACCGTTACGGCCTTAATCCTTT-CCAGCATGT-TTC-T
1 GGTA-CAAGACTCGCCGTTGC-GACTTAAACCTTTCCCTTCATATCTTCAT
** * * * * *
43262238 GAGGTACAAGGTTTGTCGTTGCGACTTAAACTTTTCCTTTCATATCTTCGT
1 --GGTACAAGACTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTTCAT
* * * * *
43262289 GGTACCAA-ACTCACCGTTGCGGCTTAAATCTTTCCCTTCATGT-TTCTAA
1 GGTA-CAAGACTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTTC-AT
* * *
43262338 GGTACAAGATTCACCGTTGCGACTTAAACCTTTCCC-TCTATATCTTCGT
1 GGTACAAGACTCGCCGTTGCGACTTAAACCTTTCCCTTC-ATATCTTCAT
* * **** * ** * * * *
43262387 GGTACTAGATTTATTGTTGCGGCTTAAATATTTCCTTTCATGTTTTTGA-
1 GGTACAAGACTCGCCGTTGCGACTTAAACCTTTCCCTTCAT-ATCTTCAT
** *
43262436 GGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCT
1 GGTACAAGACTCGCCGTTGCGACTTAAACCTTTCCCT
43262473 CCATCTTTCC
Statistics
Matches: 317, Mismatches: 93, Indels: 38
0.71 0.21 0.08
Matches are distributed among these distances:
47 1 0.00
48 27 0.09
49 260 0.82
50 28 0.09
51 1 0.00
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.37
Consensus pattern (49 bp):
GGTACAAGACTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTTCAT
Found at i:43262145 original size:98 final size:98
Alignment explanation
Indices: 43261984--43262177 Score: 289
Period size: 98 Copynumber: 2.0 Consensus size: 98
43261974 TCCTTGCCAA
* *
43261984 CATGTTTCTGAGGTACAAGGTTCGCCATCGCGACTTAAACCTTTGCCTTCATATCTTCATGGTAC
1 CATGTTTCTAAGGTACAAGGTTCGCCATCGCGACTTAAACCTTTCCCTTCATATCTTCATGGTAC
*
43262049 CAGACTCGCCGTTGCGGCTTAAATCTTTCCCTT
66 CAGACTCGCCGTTGCAGCTTAAATCTTTCCCTT
* * * * *
43262082 CATGTTTCTAAGGTATAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTCATATCTTCGTGGTAC
1 CATGTTTCTAAGGTACAAGGTTCGCCATCGCGACTTAAACCTTTCCCTTCATATCTTCATGGTAC
* * *
43262147 TAGATTCGTCGTTGCAGCTTAAATCTTTCCC
66 CAGACTCGCCGTTGCAGCTTAAATCTTTCCC
43262178 ATCGCATCTT
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (98 bp):
CATGTTTCTAAGGTACAAGGTTCGCCATCGCGACTTAAACCTTTCCCTTCATATCTTCATGGTAC
CAGACTCGCCGTTGCAGCTTAAATCTTTCCCTT
Found at i:43262146 original size:147 final size:147
Alignment explanation
Indices: 43261995--43262293 Score: 336
Period size: 147 Copynumber: 2.0 Consensus size: 147
43261985 ATGTTTCTGA
* * * * *
43261995 GGTACAAGGTTCGCCATCGC-GACTTAAACCTTTGCCTTCATATCTTCATGGTACC-AGACTCGC
1 GGTACAAGATTCGCCATCGCAG-CTTAAACCTTTCCCATCACATCTTCATGGTACCGA-ACTCAC
* ** *
43262058 CGTTGCGG-CTTAAAT-CTTTCCCTTCATGTTTCTAAGGTATAAGGTTCGTCGTTGCGACTTAAA
64 CGTTACGGCCTT-AATCCTTT-CCAGCATGTTTCTAAGGTACAAGGTTCGTCGTTGCGACTTAAA
43262121 CCTTTCCCTTCATATCTTCGT
127 CCTTTCCCTTCATATCTTCGT
* * * * * * * * *
43262142 GGTACTAGATTCGTCGTTGCAGCTTAAATCTTTCCCATCGCATCTTCTTGGTATCGAATTCACCG
1 GGTACAAGATTCGCCATCGCAGCTTAAACCTTTCCCATCACATCTTCATGGTACCGAACTCACCG
* * *
43262207 TTACGGCCTTAATCCTTTCCAGCATGTTTCTGAGGTACAAGGTTTGTCGTTGCGACTTAAACTTT
66 TTACGGCCTTAATCCTTTCCAGCATGTTTCTAAGGTACAAGGTTCGTCGTTGCGACTTAAACCTT
*
43262272 TCCTTTCATATCTTCGT
131 TCCCTTCATATCTTCGT
43262289 GGTAC
1 GGTAC
43262294 CAAACTCACC
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
147 117 0.93
148 9 0.07
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (147 bp):
GGTACAAGATTCGCCATCGCAGCTTAAACCTTTCCCATCACATCTTCATGGTACCGAACTCACCG
TTACGGCCTTAATCCTTTCCAGCATGTTTCTAAGGTACAAGGTTCGTCGTTGCGACTTAAACCTT
TCCCTTCATATCTTCGT
Found at i:43262242 original size:245 final size:245
Alignment explanation
Indices: 43261960--43262421 Score: 703
Period size: 245 Copynumber: 1.9 Consensus size: 245
43261950 TAGGATTCGT
*
43261960 CGTTGCGGCCTCAATCCTTGCCAACATGTTTCTGAGGTACAAGGTTCGCCATCGCGACTTAAACC
1 CGTTACGGCCTCAATCCTTGCCAACATGTTTCTGAGGTACAAGGTTCGCCATCGCGACTTAAA-C
* *
43262025 TTTGCC-TTCATATCTTCATGGTACCAGACTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTT
65 TTTGCCTTTCATATCTTCATGGTACCAAACTCACCGTTGCGGCTTAAATCTTTCCCTTCATGTTT
* * **
43262089 CTAAGGTATAAGGTTCGTCGTTGCGACTTAAACCTTTCCCT-TCATATCTTCGTGGTACTAGATT
130 CTAAGGTACAAGATTCACCGTTGCGACTTAAACCTTTCCCTCT-ATATCTTCGTGGTACTAGATT
* *
43262153 CGTCGTTGCAGCTTAAATCTTTCCCATCGCATCTTCTTGGTATCGAATTCAC
194 CATCGTTGCAGCTTAAATATTTCCCATCGCATCTTCTTGGTATCGAATTCAC
* * * * * * *
43262205 CGTTACGGCCTTAATCCTTTCCAGCATGTTTCTGAGGTACAAGGTTTGTCGTTGCGACTTAAACT
1 CGTTACGGCCTCAATCCTTGCCAACATGTTTCTGAGGTACAAGGTTCGCCATCGCGACTTAAACT
* *
43262270 TTTCCTTTCATATCTTCGTGGTACCAAACTCACCGTTGCGGCTTAAATCTTTCCCTTCATGTTTC
66 TTGCCTTTCATATCTTCATGGTACCAAACTCACCGTTGCGGCTTAAATCTTTCCCTTCATGTTTC
*
43262335 TAAGGTACAAGATTCACCGTTGCGACTTAAACCTTTCCCTCTATATCTTCGTGGTACTAGATTTA
131 TAAGGTACAAGATTCACCGTTGCGACTTAAACCTTTCCCTCTATATCTTCGTGGTACTAGATTCA
* *
43262400 TTGTTGCGGCTTAAATATTTCC
196 TCGTTGCAGCTTAAATATTTCC
43262422 TTTCATGTTT
Statistics
Matches: 194, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
244 6 0.03
245 187 0.96
246 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (245 bp):
CGTTACGGCCTCAATCCTTGCCAACATGTTTCTGAGGTACAAGGTTCGCCATCGCGACTTAAACT
TTGCCTTTCATATCTTCATGGTACCAAACTCACCGTTGCGGCTTAAATCTTTCCCTTCATGTTTC
TAAGGTACAAGATTCACCGTTGCGACTTAAACCTTTCCCTCTATATCTTCGTGGTACTAGATTCA
TCGTTGCAGCTTAAATATTTCCCATCGCATCTTCTTGGTATCGAATTCAC
Found at i:43262244 original size:98 final size:97
Alignment explanation
Indices: 43262142--43262479 Score: 256
Period size: 98 Copynumber: 3.5 Consensus size: 97
43262132 ATATCTTCGT
* * * * * *
43262142 GGTACTAGATTCGTCGTTGC-AGCTTAAATCTTTCCCATCGCATCTTCTTGGTATCGAATTCACC
1 GGTACAAGATTCGTCGTTGCGA-CTTAAA-CTTTCCCATCACATCTTCGTGGTACCAAACTCACC
*
43262206 GTTACGGCCTT-AATCCTTT-CCAGCATGTTTCTGA
64 GTTACGG-CTTAAAT-CTTTCCCAGCATGTTTCTAA
* * ** *
43262240 GGTACAAGGTTTGTCGTTGCGACTTAAACTTTTCCTTTCATATCTTCGTGGTACCAAACTCACCG
1 GGTACAAGATTCGTCGTTGCGACTTAAAC-TTTCCCATCACATCTTCGTGGTACCAAACTCACCG
* **
43262305 TTGCGGCTTAAATCTTTCCCTTCATGTTTCTAA
65 TTACGGCTTAAATCTTTCCCAGCATGTTTCTAA
** * * * * * **
43262338 GGTACAAGATTCACCGTTGCGACTTAAACCTTTCCC-TCTATATCTTCGTGGTACTAGATTTATT
1 GGTACAAGATTCGTCGTTGCGACTTAAA-CTTTCCCATC-ACATCTTCGTGGTACCAAACTCACC
* * *** * *
43262402 GTTGCGGCTTAAATATTTCCTTTCATGTTTTTGA
64 GTTACGGCTTAAATCTTTCCCAGCATGTTTCTAA
* * *
43262436 GGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCC-TC-CATCTT
1 GGTACAAGATTCGTCGTTGCGACTTAAA-CTTTCCCATCACATCTT
43262480 TCCATGGAAT
Statistics
Matches: 200, Mismatches: 34, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
96 5 0.03
97 10 0.05
98 183 0.92
99 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (97 bp):
GGTACAAGATTCGTCGTTGCGACTTAAACTTTCCCATCACATCTTCGTGGTACCAAACTCACCGT
TACGGCTTAAATCTTTCCCAGCATGTTTCTAA
Found at i:43262350 original size:147 final size:146
Alignment explanation
Indices: 43262082--43262372 Score: 363
Period size: 147 Copynumber: 2.0 Consensus size: 146
43262072 TCTTTCCCTT
*
43262082 CATGTTTCTAAGGTATAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTCATATCTTCGTGGTAC
1 CATGTTTCTAAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTCATATCTTCGTGGTAC
* * * ** * *
43262147 TAGATTCGTCGTTGCAGCTTAAATCTTTCCCATCGCATCTTCTTGGTATCGAATTCACCGTTACG
66 CAAACTCACCGTTGCAGCTTAAATCTTTCCCATCGCATCTTCTAGGTATCAAATTCACCGTTAC-
* *
43262212 GCCTTAATCCTTTCCAG
130 GACTTAAACCTTTCCAG
* * * *
43262229 CATGTTTCTGAGGTACAAGGTTTGTCGTTGCGACTTAAACTTTTCCTTTCATATCTTCGTGGTAC
1 CATGTTTCTAAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTCATATCTTCGTGGTAC
* * *
43262294 CAAACTCACCGTTGCGGCTTAAATCTTTCCC-T-TCATGTTTCTAAGGTA-CAAGATTCACCGTT
66 CAAACTCACCGTTGCAGCTTAAATCTTTCCCATCGCAT-CTTCT-AGGTATCAA-ATTCACCGTT
*
43262356 GCGACTTAAACCTTTCC
128 ACGACTTAAACCTTTCC
43262373 CTCTATATCT
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
145 3 0.02
146 20 0.16
147 100 0.81
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (146 bp):
CATGTTTCTAAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTCATATCTTCGTGGTAC
CAAACTCACCGTTGCAGCTTAAATCTTTCCCATCGCATCTTCTAGGTATCAAATTCACCGTTACG
ACTTAAACCTTTCCAG
Found at i:43262406 original size:147 final size:147
Alignment explanation
Indices: 43262106--43262427 Score: 332
Period size: 147 Copynumber: 2.2 Consensus size: 147
43262096 ATAAGGTTCG
* * * * * **
43262106 TCGTTGCGACTTAAACCTTTCCCTTCATATCTTCGTGGTACTAGATTCGTCGTTGCAGCTTAAAT
1 TCGTTGCGACTTAAACTTTTCCTTTCATATCTTCGTGGTACCAAACTCACCGTTGCAGCTTAAAT
* * * * *
43262171 CTTTCCCATCGCATCTTCTTGGTATCGAATTCACCGTTACGGCCTTAATCCTTTCCAGCATGTTT
66 CTTTCCCATCGCATCTTCTAGGTATCAAATTCACCGTTACGGACTTAAACCTTTCCAGCATATTT
* *
43262236 CTGAGGTACAAGGTTTG
131 CTGAGGTACAAGATTTA
*
43262253 TCGTTGCGACTTAAACTTTTCCTTTCATATCTTCGTGGTACCAAACTCACCGTTGCGGCTTAAAT
1 TCGTTGCGACTTAAACTTTTCCTTTCATATCTTCGTGGTACCAAACTCACCGTTGCAGCTTAAAT
* * * **
43262318 CTTTCCC-T-TCATGTTTCTAAGGTA-CAAGATTCACCGTTGC-GACTTAAACCTTTCCCTCTAT
66 CTTTCCCATCGCAT-CTTCT-AGGTATCAA-ATTCACCGTTACGGACTTAAACCTTTCCAGC-AT
* *
43262379 ATCTTC-GTGGTACTAGATTTA
127 AT-TTCTGAGGTACAAGATTTA
* *
43262400 TTGTTGCGGCTTAAA-TATTTCCTTTCAT
1 TCGTTGCGACTTAAACT-TTTCCTTTCAT
43262428 GTTTTTGAGG
Statistics
Matches: 145, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
145 3 0.02
146 22 0.15
147 117 0.81
148 3 0.02
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (147 bp):
TCGTTGCGACTTAAACTTTTCCTTTCATATCTTCGTGGTACCAAACTCACCGTTGCAGCTTAAAT
CTTTCCCATCGCATCTTCTAGGTATCAAATTCACCGTTACGGACTTAAACCTTTCCAGCATATTT
CTGAGGTACAAGATTTA
Found at i:43262504 original size:98 final size:98
Alignment explanation
Indices: 43262229--43262476 Score: 262
Period size: 98 Copynumber: 2.5 Consensus size: 98
43262219 TCCTTTCCAG
* * *** * * * * *
43262229 CATGTTTCTGAGGTACAAGGTTTGTCGTTGCGACTTAAACTTTTCCTTTCATATCTTCGTGGTAC
1 CATGTTTCTAAGGTACAAGATTCACCGTTGCGACTTAAACCTTTCCCTCCATATCTTCATGGAAC
* * * * * *
43262294 CAAACTCACCGTTGCGGCTTAAATCTTTCCCTT
66 TAGATTTATCGTTGCGGCTTAAATATTTCCCTT
* * *
43262327 CATGTTTCTAAGGTACAAGATTCACCGTTGCGACTTAAACCTTTCCCTCTATATCTTCGTGGTAC
1 CATGTTTCTAAGGTACAAGATTCACCGTTGCGACTTAAACCTTTCCCTCCATATCTTCATGGAAC
* *
43262392 TAGATTTATTGTTGCGGCTTAAATATTTCCTTT
66 TAGATTTATCGTTGCGGCTTAAATATTTCCCTT
* * * * *
43262425 CATGTTTTTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCCAT
1 CATGTTTCTAAGGTACAAGATTCACCGTTGCGACTTAAACCTTTCCCTCCAT
43262477 CTTTCCATGG
Statistics
Matches: 127, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
98 127 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (98 bp):
CATGTTTCTAAGGTACAAGATTCACCGTTGCGACTTAAACCTTTCCCTCCATATCTTCATGGAAC
TAGATTTATCGTTGCGGCTTAAATATTTCCCTT
Found at i:43268896 original size:19 final size:19
Alignment explanation
Indices: 43268872--43268914 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
43268862 AAACATAAAT
43268872 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
43268891 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
43268910 TAAAT
1 TAAAT
43268915 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:43270939 original size:2 final size:2
Alignment explanation
Indices: 43270934--43270983 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
43270924 CTCTCTATGC
43270934 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43270976 AT AT AT AT
1 AT AT AT AT
43270984 TTAAAAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43271407 original size:2 final size:2
Alignment explanation
Indices: 43271400--43271433 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
43271390 AATGTATGTT
43271400 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
43271434 AATGAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43271481 original size:2 final size:2
Alignment explanation
Indices: 43271474--43271503 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
43271464 CTCTATAGAC
*
43271474 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43271504 GTCCATATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43271511 original size:16 final size:16
Alignment explanation
Indices: 43271476--43271516 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
43271466 CTATAGACAT
*
43271476 ATATATATATATGTAT
1 ATATATATATATGTAC
*
43271492 ATATATATATATGTCC
1 ATATATATATATGTAC
*
43271508 ATATGTATA
1 ATATATATA
43271517 ACAAAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (16 bp):
ATATATATATATGTAC
Found at i:43271824 original size:18 final size:18
Alignment explanation
Indices: 43271793--43271827 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43271783 ATGGTCTCAG
* *
43271793 GCAGAGGGACGGTCTCGA
1 GCAGAGGAAAGGTCTCGA
43271811 GCAGAGGAAAGGTCTCG
1 GCAGAGGAAAGGTCTCG
43271828 GGAGCAGATG
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:0.26, C:0.20, G:0.43, T:0.11
Consensus pattern (18 bp):
GCAGAGGAAAGGTCTCGA
Found at i:43273563 original size:80 final size:80
Alignment explanation
Indices: 43273464--43273622 Score: 255
Period size: 80 Copynumber: 2.0 Consensus size: 80
43273454 CAAATACTCC
* * * **
43273464 TAACATATTTGAAGTTAATAATAAATTCATTTCATTCATTTCTTATACAAGAATGGAAATTCAAG
1 TAACATAATTGAAGTTAATAAGAAATTCATTTCATTCATTTATTATACAAGAACAGAAATTCAAG
43273529 TTGTAGGAATATATG
66 TTGTAGGAATATATG
* *
43273544 TAACATAATTGAAGTTAATAAGAAATTCATTTCATTTATTTATTATACAAGAACATAAATTCAAG
1 TAACATAATTGAAGTTAATAAGAAATTCATTTCATTCATTTATTATACAAGAACAGAAATTCAAG
43273609 TTGTAGGAATATAT
66 TTGTAGGAATATAT
43273623 AATAATACAT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (80 bp):
TAACATAATTGAAGTTAATAAGAAATTCATTTCATTCATTTATTATACAAGAACAGAAATTCAAG
TTGTAGGAATATATG
Found at i:43286049 original size:28 final size:31
Alignment explanation
Indices: 43285964--43286049 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 31
43285954 ATTAAATCAA
* ** * *
43285964 AATTAATGTTTCAAATATACATTTAAACCAT
1 AATTAAAGTTTCATGTATACAATTACACCAT
*
43285995 AATTAAAGTTTCATGTGTACAGA-TACACCA-
1 AATTAAAGTTTCATGTATACA-ATTACACCAT
43286025 AATTAAAG-TT-ATGTATACAATTACA
1 AATTAAAGTTTCATGTATACAATTACA
43286050 TATTAAACCA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
27 1 0.02
28 12 0.26
29 2 0.04
30 8 0.17
31 23 0.50
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (31 bp):
AATTAAAGTTTCATGTATACAATTACACCAT
Found at i:43302655 original size:42 final size:42
Alignment explanation
Indices: 43302512--43302668 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
43302502 GGCTTGTCCA
** * * * * *
43302512 ATGATGCACTTATGTGTGAGTATGTTTTTTTTAGTTCATCCG
1 ATGATGCACTTATGTGCCAATATATTTTCTTTGGGTCATCCG
* * * * **
43302554 ATGATGCACTTATGTGTCGATATATTTCCTTTGGTTTGTCCG
1 ATGATGCACTTATGTGCCAATATATTTTCTTTGGGTCATCCG
* *
43302596 ATGATGCACTAATGTGCCAATATATTTTCTTTGGGTCATCAG
1 ATGATGCACTTATGTGCCAATATATTTTCTTTGGGTCATCCG
* * *
43302638 ATAATGCACTTACGTGCCAGTATATTTTCTT
1 ATGATGCACTTATGTGCCAATATATTTTCTT
43302669 CGATTTTTCT
Statistics
Matches: 94, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 94 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (42 bp):
ATGATGCACTTATGTGCCAATATATTTTCTTTGGGTCATCCG
Found at i:43302662 original size:84 final size:84
Alignment explanation
Indices: 43302505--43302687 Score: 188
Period size: 84 Copynumber: 2.2 Consensus size: 84
43302495 ATACTTCGGC
* * ** * * * * * * *
43302505 TTGTCCAATGATGCACTTATGTGTGAGTATGTTTTTTTTAGTTCATCCGATGATGCACTTATGTG
1 TTGTCCGATGATGCACTAATGTGCCAATATATTTTCTTTAGGTCATCAGATAATGCACTTACGTG
* * *
43302570 TCGATATATTTCCTTTGGT
66 CCGATATATTTCCTTCGAT
*
43302589 TTGTCCGATGATGCACTAATGTGCCAATATATTTTCTTTGGGTCATCAGATAATGCACTTACGTG
1 TTGTCCGATGATGCACTAATGTGCCAATATATTTTCTTTAGGTCATCAGATAATGCACTTACGTG
*
43302654 CC-AGTATATTTTCTTCGAT
66 CCGA-TATATTTCCTTCGAT
* *
43302673 TTTTCTGATGATGCA
1 TTGTCCGATGATGCA
43302688 GTTCAGTGCT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
83 1 0.01
84 79 0.99
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.43
Consensus pattern (84 bp):
TTGTCCGATGATGCACTAATGTGCCAATATATTTTCTTTAGGTCATCAGATAATGCACTTACGTG
CCGATATATTTCCTTCGAT
Found at i:43302687 original size:42 final size:42
Alignment explanation
Indices: 43302512--43302687 Score: 147
Period size: 42 Copynumber: 4.2 Consensus size: 42
43302502 GGCTTGTCCA
** * * * * *
43302512 ATGATGCACTTATGTGTGAGTATGTTTTTTTTAGTTCATCCG
1 ATGATGCACTTATGTGCCAGTATATTTTCTTTGGTTTATCAG
* * * *
43302554 ATGATGCACTTATGTGTC-GATATATTTCCTTTGGTTTGTCCG
1 ATGATGCACTTATGTGCCAG-TATATTTTCTTTGGTTTATCAG
* * * *
43302596 ATGATGCACTAATGTGCCAATATATTTTCTTTGGGTCATCAG
1 ATGATGCACTTATGTGCCAGTATATTTTCTTTGGTTTATCAG
* * * * * *
43302638 ATAATGCACTTACGTGCCAGTATATTTTCTTCGATTTTTCTG
1 ATGATGCACTTATGTGCCAGTATATTTTCTTTGGTTTATCAG
43302680 ATGATGCA
1 ATGATGCA
43302688 GTTCAGTGCT
Statistics
Matches: 106, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 1 0.01
42 105 0.99
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (42 bp):
ATGATGCACTTATGTGCCAGTATATTTTCTTTGGTTTATCAG
Found at i:43304944 original size:31 final size:31
Alignment explanation
Indices: 43304906--43304971 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
43304896 TTAGTACAAC
*
43304906 ATAATTGAAAATCTCTTAAATGTTAATTAAT
1 ATAATTGAAAATATCTTAAATGTTAATTAAT
* *
43304937 ATAATTGAAAATATTTTACATGTTAATTAAT
1 ATAATTGAAAATATCTTAAATGTTAATTAAT
43304968 ATAA
1 ATAA
43304972 AATTAGACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (31 bp):
ATAATTGAAAATATCTTAAATGTTAATTAAT
Found at i:43309958 original size:16 final size:17
Alignment explanation
Indices: 43309929--43309960 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
43309919 TAGTTTAATT
43309929 AATTAAATTAATTTTCC
1 AATTAAATTAATTTTCC
43309946 AATTAAA-TAATTTTC
1 AATTAAATTAATTTTC
43309961 TCAACTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATTAATTTTCC
Found at i:43319553 original size:24 final size:23
Alignment explanation
Indices: 43319526--43319578 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
43319516 TAAGCCTTAT
*
43319526 TTATTTCTTATAATTTAGG-TTTAG
1 TTATTTCTT-T-ATTCAGGTTTTAG
43319550 TTATTTTCTTTATTCAGGTTTTAG
1 TTA-TTTCTTTATTCAGGTTTTAG
43319574 TTATT
1 TTATT
43319579 GTTACTCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 8 0.31
24 12 0.46
25 6 0.23
ACGTcount: A:0.21, C:0.06, G:0.11, T:0.62
Consensus pattern (23 bp):
TTATTTCTTTATTCAGGTTTTAG
Found at i:43321801 original size:2 final size:2
Alignment explanation
Indices: 43321788--43321819 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
43321778 GTGGTTAAGC
*
43321788 CA CA CA CT CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
43321820 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.50, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:43325211 original size:60 final size:60
Alignment explanation
Indices: 43325118--43325239 Score: 201
Period size: 60 Copynumber: 2.0 Consensus size: 60
43325108 TCTCGTCCAT
*
43325118 GTCGATAAGTTTGTGTTCCCAGCAGACTTCATCATACTTGATTGTGAAGCCA-ATAAGGAG
1 GTCGATAAGTTTGTGTTCCCAGCAGACTTCATCATACTTGAATGTGAAG-CAGATAAGGAG
* *
43325178 GTCGATAAGTTTGTGTTCCCAGTAGGCTTCATCATACTTGAATGTGAAGCAGATAAGGAG
1 GTCGATAAGTTTGTGTTCCCAGCAGACTTCATCATACTTGAATGTGAAGCAGATAAGGAG
43325238 GT
1 GT
43325240 GACCATTATT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 2 0.03
60 56 0.97
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (60 bp):
GTCGATAAGTTTGTGTTCCCAGCAGACTTCATCATACTTGAATGTGAAGCAGATAAGGAG
Found at i:43329924 original size:15 final size:15
Alignment explanation
Indices: 43329904--43329949 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
43329894 ATCATAAATT
43329904 TTTTTCTTCTTTTTC
1 TTTTTCTTCTTTTTC
43329919 TTTTTCTTCCTTTTTC
1 TTTTTCTT-CTTTTTC
*
43329935 TCATTT-TTCTTTTTC
1 T-TTTTCTTCTTTTTC
43329950 AAGTGATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 15 0.54
16 10 0.36
17 3 0.11
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTCTTCTTTTTC
Found at i:43330650 original size:6 final size:6
Alignment explanation
Indices: 43330639--43330664 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
43330629 GTTGCCTTTG
43330639 TTTTCT TTTTCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT
43330665 GGGTGCTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:43330712 original size:24 final size:24
Alignment explanation
Indices: 43330683--43330730 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
43330673 ACCCTCTTCC
* *
43330683 TTGTGCTTCTTCTTCTTTTTATCT
1 TTGTGCCTCTTCCTCTTTTTATCT
43330707 TTGTGCCTCTTCCTCTTTTTATCT
1 TTGTGCCTCTTCCTCTTTTTATCT
43330731 GTCGAACCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.04, C:0.25, G:0.08, T:0.62
Consensus pattern (24 bp):
TTGTGCCTCTTCCTCTTTTTATCT
Found at i:43332813 original size:20 final size:21
Alignment explanation
Indices: 43332775--43332820 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
43332765 GCAATGAATT
43332775 TAAAACAAAACAAAAAAAA-G
1 TAAAACAAAACAAAAAAAATG
*
43332795 TAAAACAAATA-AAAGAAAATG
1 TAAAACAAA-ACAAAAAAAATG
43332816 TAAAA
1 TAAAA
43332821 ATGCATCGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.11
Consensus pattern (21 bp):
TAAAACAAAACAAAAAAAATG
Found at i:43348507 original size:24 final size:24
Alignment explanation
Indices: 43348478--43348525 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
43348468 TGTCATTGCA
*
43348478 ATTTTTCTGTTAATTT-TTGTCTTTT
1 ATTTTACT-TTAATTTGTT-TCTTTT
43348503 ATTTTACTTTAATTTGTTTCTTT
1 ATTTTACTTTAATTTGTTTCTTT
43348526 AGTTTTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.15, C:0.08, G:0.06, T:0.71
Consensus pattern (24 bp):
ATTTTACTTTAATTTGTTTCTTTT
Found at i:43356112 original size:15 final size:15
Alignment explanation
Indices: 43356088--43356119 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
43356078 TAAATCGTAG
*
43356088 AATAATTAATTTTTA
1 AATAAGTAATTTTTA
43356103 AATAAGTAATTTTTA
1 AATAAGTAATTTTTA
43356118 AA
1 AA
43356120 GGTGTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
AATAAGTAATTTTTA
Found at i:43364513 original size:16 final size:16
Alignment explanation
Indices: 43364492--43364524 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
43364482 GAATGGCAAG
43364492 TGAAAGCAACTTAGAT
1 TGAAAGCAACTTAGAT
43364508 TGAAAGCAACTTAGAT
1 TGAAAGCAACTTAGAT
43364524 T
1 T
43364525 AGCTTAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.27
Consensus pattern (16 bp):
TGAAAGCAACTTAGAT
Found at i:43365609 original size:17 final size:17
Alignment explanation
Indices: 43365587--43365622 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
43365577 ATTTAAAATA
*
43365587 TTATAAATAATTTTATT
1 TTATAAATAAATTTATT
*
43365604 TTATAATTAAATTTATT
1 TTATAAATAAATTTATT
43365621 TT
1 TT
43365623 TTTATATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATAAATAAATTTATT
Found at i:43367817 original size:30 final size:30
Alignment explanation
Indices: 43367780--43368177 Score: 434
Period size: 30 Copynumber: 13.4 Consensus size: 30
43367770 TAGAAACCAT
* * *
43367780 ATTTTGACCCCTAAACTTCTACAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * * * *
43367810 ATCTTGACCCCAAAACTTTTCCAAAGTTGC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
*
43367840 ATTTTAACCCCTAAACTTATCCAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* *
43367870 ATTTTAA--CCTAAAACTTTTCCAAATTTTC
1 ATTTTAACCCCT-AAACTTTTCCAAAATTAC
*
43367899 ATTTTAA-CCCTCAAACTTCTCCAAAATTAC
1 ATTTTAACCCCT-AAACTTTTCCAAAATTAC
* *
43367929 ATTTTAACCCCTAAACTTTTCTAAAATGAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
43367959 ATTTTAACCCCTAAACTTTTCCAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * *
43367989 ATTTTAACCCTTAAACTTTTCTAAAATTAT
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
*
43368019 ATTTTGACCCCTAAACTTTTCCAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * * *
43368049 ATTTTAACCCCTAAACTTCTCAAAAATCAT
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
** *
43368079 ATTTTAACCCC-AAACTTCCCCAAAATCAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * *
43368108 ATTTTAACTCC-AAAC-TTTCATAAAATTTC
1 ATTTTAACCCCTAAACTTTTC-CAAAATTAC
*
43368137 ATTTTAA-CCCTCAAA-TTCTTCTAAAATTAC
1 ATTTTAACCCCT-AAACTT-TTCCAAAATTAC
43368167 ATTTTAACCCC
1 ATTTTAACCCC
43368178 AAATCATTCG
Statistics
Matches: 312, Mismatches: 47, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
28 7 0.02
29 64 0.21
30 231 0.74
31 10 0.03
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (30 bp):
ATTTTAACCCCTAAACTTTTCCAAAATTAC
Found at i:43372795 original size:29 final size:28
Alignment explanation
Indices: 43372732--43373059 Score: 259
Period size: 30 Copynumber: 11.1 Consensus size: 28
43372722 CCCAGTAGGT
* * * *
43372732 CCCTAAACTTTTTAGAAATCATATTTTGA
1 CCCTAAACTTTTCA-AAATTACATTTTAA
*
43372761 CTCCTAAACTTTTACAAAATTACATTTTGA
1 C-CCTAAACTTTT-CAAAATTACATTTTAA
* *
43372791 CCCTAAAACTTTTCCAAAGTTACATTTTGAC
1 CCCT-AAACTTTT-CAAAATTACATTTT-AA
*
43372822 CCCTAAACTTATC-AAATTACATTTTAA
1 CCCTAAACTTTTCAAAATTACATTTTAA
*
43372849 -CCTCAAACTTTTCCAAAATTACATTTTGA
1 CCCT-AAACTTTT-CAAAATTACATTTTAA
* *
43372878 CCCTCAAACTTTTCTAAAATTATATTTTGAC
1 CCCT-AAACTTTTC-AAAATTACATTTT-AA
43372909 CCCTAAACTTTTCCAAAATTACATTTTAA
1 CCCTAAACTTTT-CAAAATTACATTTTAA
* * * *
43372938 TCCCTAGACTTCTCAAAAATCATATTTTAA
1 -CCCTAAACTTTTC-AAAATTACATTTTAA
** *
43372968 CCCCTAAACTTCCCCAAAATCACATTTTAA
1 -CCCTAAACTT-TTCAAAATTACATTTTAA
* *
43372998 CCCCAAAC-TTTCATAAAATTTCATTTTAA
1 CCCTAAACTTTTC--AAAATTACATTTTAA
43373027 CCCTCAAA-TTCTTCTAAAATTACATTTTAA
1 CCCT-AAACTT-TTC-AAAATTACATTTTAA
43373057 CCC
1 CCC
43373060 CAAATCATTC
Statistics
Matches: 248, Mismatches: 32, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.01
27 9 0.04
28 13 0.05
29 44 0.18
30 164 0.66
31 15 0.06
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.37
Consensus pattern (28 bp):
CCCTAAACTTTTCAAAATTACATTTTAA
Found at i:43373047 original size:30 final size:29
Alignment explanation
Indices: 43372766--43373063 Score: 264
Period size: 30 Copynumber: 10.1 Consensus size: 29
43372756 TTTGACTCCT
* *
43372766 AAACTTTTAC-AAAATTACATTTTGACCCTA
1 AAACTTTT-CTAAAATTACATTTTAACCC-C
* * *
43372796 AAACTTTTCCAAAGTTACATTTTGACCCC
1 AAACTTTTCTAAAATTACATTTTAACCCC
* *
43372825 TAAACTTATC--AAATTACATTTTAACCTC
1 -AAACTTTTCTAAAATTACATTTTAACCCC
* *
43372853 AAACTTTTCCAAAATTACATTTTGACCCTC
1 AAACTTTTCTAAAATTACATTTTAACCC-C
* *
43372883 AAACTTTTCTAAAATTATATTTTGACCCC
1 AAACTTTTCTAAAATTACATTTTAACCCC
* *
43372912 TAAACTTTTCCAAAATTACATTTTAATCCCT
1 -AAACTTTTCTAAAATTACATTTTAA-CCCC
* * * * *
43372943 AGACTTCTCAAAAATCATATTTTAACCCC
1 AAACTTTTCTAAAATTACATTTTAACCCC
** * *
43372972 TAAACTTCCCCAAAATCACATTTTAACCCC
1 -AAACTTTTCTAAAATTACATTTTAACCCC
*
43373002 AAAC-TTTCATAAAATTTCATTTTAACCCTC
1 AAACTTTTC-TAAAATTACATTTTAACCC-C
43373032 AAA-TTCTTCTAAAATTACATTTTAACCCC
1 AAACTT-TTCTAAAATTACATTTTAACCCC
43373061 AAA
1 AAA
43373064 TCATTCTAAA
Statistics
Matches: 225, Mismatches: 31, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
27 8 0.04
28 17 0.08
29 44 0.20
30 150 0.67
31 6 0.03
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (29 bp):
AAACTTTTCTAAAATTACATTTTAACCCC
Found at i:43384875 original size:209 final size:209
Alignment explanation
Indices: 43384515--43385296 Score: 952
Period size: 209 Copynumber: 3.7 Consensus size: 209
43384505 AAATTAAAAA
* *
43384515 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATTGATGAAGTGAAGCTCAATATGAGTG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATATGAGTG
* * ** *
43384580 AAACTTCAAACCCCCATCTTTCTGATGAGATACAGAGAAGTGGGTCAAAATAATAAAGAGGTCAT
66 AAACTTCAAACTCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCAT
* * *
43384645 CTTCTTGATAAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATTAGATACAGGAAACTGGAT
131 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGGAAACTGGAT
**
43384710 TGGAATAATGAGAC
196 TAAAATAATGAGAC
* * *
43384724 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATAAAGCGAAGCTCAATGTGAGCG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATATGAGTG
* * * *
43384789 AAACTTCAAACTCTCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGTGGCCGT
66 AAACTTCAAACTCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCAT
* ** * *
43384854 CTTCTTGATGAGATACAGAGAAGCAGACCAAATCCGTCTTCTTGATGAGATACAGAGAAGC-GGA
131 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAG-GAAACTGGA
*
43384918 TTAAAATAAGTGATAC
195 TTAAAATAA-TGAGAC
* * * * *
43384934 GGTCATCTTCCTGATGAGATATAGTGAAGTAGACCAAATCGAGGAAGCCAAGCTTAATATGAGTG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATATGAGTG
* * * * * *
43384999 AAACTTCGAACT-CCATCTTCCTTATGAGATACTA-AGAAGTGGGTCAAAGCAAGAAAGCGATCG
66 AAACTTCAAACTCCCATCTTCCTGATGAGATAC-AGAGAAGTGGGTCAAAGCAATAAAGTGGTCA
* * *
43385062 TCTTCCTGATGAGATACAAAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACA-GAGAAGTGG
130 TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGGA-AACTGG
* *
43385126 ATTAAAACAA--ACGAG
194 ATTAAAATAATGA-GAC
* * * * * *
43385141 GGTTCATCTTCCTGATGAAATACAGAGAAGTATG-CCAAATCAAATGAAGCAAAGTTCAATGTAA
1 GG-TCATCTTCCTGATGAGATACAGAGAAGTA-GACCAAATC-GATGAAGCGAAGCTCAATATGA
* * *
43385205 GTGAAACTTCAAAC-CCCTATCTTCTTGATGAGATACAGAGAAGTGAGTCGAAA-CAATAAAATG
63 GTGAAACTTCAAACTCCC-ATCTTCCTGATGAGATACAGAGAAGTGGGTC-AAAGCAATAAAGTG
*
43385268 GTCATCTTCCTAATGAGATACAGAGAAGT
126 GTCATCTTCCTGATGAGATACAGAGAAGT
43385297 AAACCAAGAA
Statistics
Matches: 489, Mismatches: 71, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
206 1 0.00
207 5 0.01
208 34 0.07
209 311 0.64
210 135 0.28
211 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (209 bp):
GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATATGAGTG
AAACTTCAAACTCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCAT
CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGGAAACTGGAT
TAAAATAATGAGAC
Found at i:43385293 original size:419 final size:418
Alignment explanation
Indices: 43384515--43385295 Score: 1045
Period size: 419 Copynumber: 1.9 Consensus size: 418
43384505 AAATTAAAAA
* * **
43384515 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATTGATGAAGTGAAGCTCAATATGAGTG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGAGGAAGCCAAGCTCAATATGAGTG
* * * *
43384580 AAACTTCAAACCCCCATCTTTCTGATGAGATACAGAGAAGTGGGTCAAAATAATAAAGAGGTCAT
66 AAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAAGAAAGAGATCAT
* * *
43384645 CTTCTTGATAAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATTAGATACAGGAAACTGGAT
131 CTTCCTGATAAGATACAAAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGGAAACTGGAT
** * * * *
43384710 TGGAATAATGAGACGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATAAAGCGAA
196 TAAAACAA-GAGACGGTCATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCAATAAAGCAAA
* * * *
43384775 GCTCAATGTGAGCGAAACTTCAAACTCTCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGC
260 GCTCAATGTAAGCGAAACTTCAAACCCTCATCTTCCTGATGAGATACAGAGAAGTGAGTCAAAGC
* * * *
43384840 AATAAAGTGGCCGTCTTCTTGATGAGATACAGAGAAGCAGACCAAATCCGTCTTCTTGATGAGAT
325 AATAAAATGGCCATCTTCCTAATGAGATACAGAGAAGCAGACCAAATCCGTCTTCTTGATGAGAT
43384905 ACAGAGAAGCGGATTAAAATAAGTGATAC
390 ACAGAGAAGCGGATTAAAATAAGTGATAC
* * *
43384934 GGTCATCTTCCTGATGAGATATAGTGAAGTAGACCAAATCGAGGAAGCCAAGCTTAATATGAGTG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGAGGAAGCCAAGCTCAATATGAGTG
* * * * * *
43384999 AAACTTCGAA-CTCCATCTTCCTTATGAGATACTA-AGAAGTGGGTCAAAGCAAGAAAGCGATCG
66 AAACTTCAAACCCCCATCTTCCTGATGAGATAC-AGAGAAGTGGGTCAAAACAAGAAAGAGATCA
* * *
43385062 TCTTCCTGATGAGATACAAAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACA-GAGAAGTGG
130 TCTTCCTGATAAGATACAAAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGGA-AACTGG
* *
43385126 ATTAAAACAA-ACGAGGGTTCATCTTCCTGATGAAATACAGAGAAGTATG-CCAAATCAAATGAA
194 ATTAAAACAAGA-GACGG-TCATCTTCCTGATGAAATACAGAGAAGTA-GACCAAATC-AATAAA
* * *
43385189 GCAAAGTTCAATGTAAGTGAAACTTCAAACCC-CTATCTTCTTGATGAGATACAGAGAAGTGAGT
255 GCAAAGCTCAATGTAAGCGAAACTTCAAACCCTC-ATCTTCCTGATGAGATACAGAGAAGTGAGT
*
43385253 CGAAA-CAATAAAATGGTCATCTTCCTAATGAGATACAGAGAAG
319 C-AAAGCAATAAAATGGCCATCTTCCTAATGAGATACAGAGAAG
43385296 TAAACCAAGA
Statistics
Matches: 311, Mismatches: 43, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
416 1 0.00
417 6 0.02
418 140 0.45
419 161 0.52
420 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (418 bp):
GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGAGGAAGCCAAGCTCAATATGAGTG
AAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAAGAAAGAGATCAT
CTTCCTGATAAGATACAAAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGGAAACTGGAT
TAAAACAAGAGACGGTCATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCAATAAAGCAAAG
CTCAATGTAAGCGAAACTTCAAACCCTCATCTTCCTGATGAGATACAGAGAAGTGAGTCAAAGCA
ATAAAATGGCCATCTTCCTAATGAGATACAGAGAAGCAGACCAAATCCGTCTTCTTGATGAGATA
CAGAGAAGCGGATTAAAATAAGTGATAC
Found at i:43387370 original size:90 final size:89
Alignment explanation
Indices: 43387213--43387545 Score: 320
Period size: 90 Copynumber: 3.8 Consensus size: 89
43387203 CCTAATAGAT
* * * * * *
43387213 CCCTAAACTTTTCAGAAATCATATTTTGACCCTTAAACTTCTCTAAAATTACATGTTAACCCCTA
1 CCCTAAACTTTCCA-AAATCACATTTTAACCCTTAAACTTTTCTAAAATTACATTTTAACCCTTA
* *
43387278 AACTTTTCCAAAGTTATATTTTAAC
65 AACTTTTCCAAAATTACATTTTAAC
* * *
43387303 CCCTAAACTTATCCAAAATTACATTTTAACCCTTAAACTTTTTTAAAATTAAATTTTAACCCTTA
1 CCCTAAACTT-TCCAAAATCACATTTTAACCCTTAAACTTTTCTAAAATTACATTTTAACCCTTA
*
43387368 AACTTTTCCAAAATTACATTTTTAC
65 AACTTTTCCAAAATTACATTTTAAC
* * * * * *
43387393 CCCTAAAATTTTCCAAAATCACATTTTAACCC--AAACCTTTT-TGAAATCATATTTTGA-CCTC
1 CCCT-AAACTTTCCAAAATCACATTTTAACCCTTAAA-CTTTTCTAAAATTACATTTTAACCCTT
** * *
43387454 AAACTTCCCCAAAATCACATTTTGA-
64 AAACTTTTCCAAAATTACATTTTAAC
* * ** *
43387479 CCCTAAACTTTCATAAAATTACATTTTAACCCTCGAA-TTCTTCTAAAATTACATTTTAATCC-T
1 CCCTAAACTTTC-CAAAATCACATTTTAACCCTTAAACTT-TTCTAAAATTACATTTTAACCCTT
43387542 AAAC
64 AAAC
43387546 CAGTCGAAAC
Statistics
Matches: 202, Mismatches: 32, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
85 7 0.03
86 23 0.11
87 26 0.13
88 33 0.16
89 7 0.03
90 98 0.49
91 8 0.04
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (89 bp):
CCCTAAACTTTCCAAAATCACATTTTAACCCTTAAACTTTTCTAAAATTACATTTTAACCCTTAA
ACTTTTCCAAAATTACATTTTAAC
Found at i:43387433 original size:29 final size:29
Alignment explanation
Indices: 43387213--43387545 Score: 264
Period size: 30 Copynumber: 11.3 Consensus size: 29
43387203 CCTAATAGAT
* * *
43387213 CCCTAAACTTTT-CAGAAATCATATTTTGA
1 CCCTAAACTTTTCCA-AAATTACATTTTAA
* * *
43387242 CCCTTAAACTTCTCTAAAATTACATGTTAA
1 CCC-TAAACTTTTCCAAAATTACATTTTAA
* *
43387272 CCCCTAAACTTTTCCAAAGTTATATTTTAA
1 -CCCTAAACTTTTCCAAAATTACATTTTAA
*
43387302 CCCCTAAACTTATCCAAAATTACATTTTAA
1 -CCCTAAACTTTTCCAAAATTACATTTTAA
** *
43387332 CCCTTAAACTTTTTTAAAATTAAATTTTAA
1 CCC-TAAACTTTTCCAAAATTACATTTTAA
*
43387362 CCCTTAAACTTTTCCAAAATTACATTTTTAC
1 CCC-TAAACTTTTCCAAAATTACA-TTTTAA
* *
43387393 CCCTAAAATTTTCCAAAATCACATTTTAA
1 CCCTAAACTTTTCCAAAATTACATTTTAA
** * * *
43387422 CCC-AAACCTTTT-TGAAATCATATTTTGA
1 CCCTAAA-CTTTTCCAAAATTACATTTTAA
** * *
43387450 -CCTCAAACTTCCCCAAAATCACATTTTGA
1 CCCT-AAACTTTTCCAAAATTACATTTTAA
*
43387479 CCCTAAAC-TTTCATAAAATTACATTTTAA
1 CCCTAAACTTTTC-CAAAATTACATTTTAA
* *
43387508 CCCTCGAA-TTCTTCTAAAATTACATTTTAA
1 CCCT-AAACTT-TTCCAAAATTACATTTTAA
*
43387538 TCCTAAAC
1 CCCTAAAC
43387546 CAGTCGAAAC
Statistics
Matches: 246, Mismatches: 43, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
27 2 0.01
28 20 0.08
29 57 0.23
30 152 0.62
31 15 0.06
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (29 bp):
CCCTAAACTTTTCCAAAATTACATTTTAA
Found at i:43387889 original size:20 final size:20
Alignment explanation
Indices: 43387864--43387903 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43387854 TTCGCGTGAA
*
43387864 AATTTCAAAAAATTATGCCC
1 AATTTCAAAAAACTATGCCC
*
43387884 AATTTCGAAAAACTATGCCC
1 AATTTCAAAAAACTATGCCC
43387904 TAACGTGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (20 bp):
AATTTCAAAAAACTATGCCC
Found at i:43389364 original size:43 final size:43
Alignment explanation
Indices: 43389231--43389607 Score: 172
Period size: 43 Copynumber: 8.8 Consensus size: 43
43389221 CATCATCGGC
* *
43389231 CTAAGTTACCGATGGTG-TCTGATGCCCCCGCATATCCAAGGCA
1 CTAAGTTACCGATGGTGTTC-GATGCTCCCGCACATCCAAGGCA
* * * ** * * * *
43389274 CCAAGGTGCCGATACT-TTCCAATGTTCCTGCACCA-CCATTGGC-
1 CTAAGTTACCGATGGTGTT-CGATGCTCCCGCA-CATCCA-AGGCA
*
43389317 CTAAGTTACCGATGGTGTTCAATGCTCCCGCACATCCAAGGCA
1 CTAAGTTACCGATGGTGTTCGATGCTCCCGCACATCCAAGGCA
* ** * * *
43389360 CTAAGGTGTCGATGCT-TTCCGATGGTCCCGCACCA-CCACCGGC-
1 CTAAGTTACCGATGGTGTT-CGATGCTCCCGCA-CATCCA-AGGCA
* *
43389403 CTAAGTTACCGATGGTGTCCGATGCTCCAGCACATCCAAGGCA
1 CTAAGTTACCGATGGTGTTCGATGCTCCCGCACATCCAAGGCA
* * ** * * * * *
43389446 CCAAGGTGTCGATGCT-TCCCGATGGTCTCGCACCA-CCACCGGC-
1 CTAAGTTACCGATGGTGT-TCGATGCTCCCGCA-CATCCA-AGGCA
* *
43389489 CTAAGTTACCAATGGTGTCCGATGCTCCCGCACATCCAAGGCAA
1 CTAAGTTACCGATGGTGTTCGATGCTCCCGCACATCCAAGGC-A
* ** * * * *
43389533 C-AAGGTGTCGATGCT-TCGCGATGATCCCGCACCA-CCACCGGC-
1 CTAAGTTACCGATGGTGT-TCGATGCTCCCGCA-CATCCA-AGGCA
43389575 CTAAGTTACCGATGGTG-TCTGATGCTCCCGCAC
1 CTAAGTTACCGATGGTGTTC-GATGCTCCCGCAC
43389608 GTGTCTGAAA
Statistics
Matches: 242, Mismatches: 66, Indels: 53
0.67 0.18 0.15
Matches are distributed among these distances:
42 22 0.09
43 195 0.81
44 25 0.10
ACGTcount: A:0.21, C:0.34, G:0.23, T:0.22
Consensus pattern (43 bp):
CTAAGTTACCGATGGTGTTCGATGCTCCCGCACATCCAAGGCA
Found at i:43389378 original size:86 final size:86
Alignment explanation
Indices: 43389227--43389607 Score: 543
Period size: 86 Copynumber: 4.4 Consensus size: 86
43389217 TTTGCATCAT
* * * *
43389227 CGGCCTAAGTTACCGATGGTG-TCTGATGCCCCCGCATATCCAAGGCACCAAGGTGCCGATACTT
1 CGGCCTAAGTTACCGATGGTGTTC-GATGCTCCCGCACATCCAAGGCACCAAGGTGTCGATGCTT
* * * *
43389291 TCCAATGTTCCTGCACCACCAT
65 TCCGATGGTCCCGCACCACCAC
* * *
43389313 TGGCCTAAGTTACCGATGGTGTTCAATGCTCCCGCACATCCAAGGCACTAAGGTGTCGATGCTTT
1 CGGCCTAAGTTACCGATGGTGTTCGATGCTCCCGCACATCCAAGGCACCAAGGTGTCGATGCTTT
43389378 CCGATGGTCCCGCACCACCAC
66 CCGATGGTCCCGCACCACCAC
* * *
43389399 CGGCCTAAGTTACCGATGGTGTCCGATGCTCCAGCACATCCAAGGCACCAAGGTGTCGATGCTTC
1 CGGCCTAAGTTACCGATGGTGTTCGATGCTCCCGCACATCCAAGGCACCAAGGTGTCGATGCTTT
*
43389464 CCGATGGTCTCGCACCACCAC
66 CCGATGGTCCCGCACCACCAC
* * *
43389485 CGGCCTAAGTTACCAATGGTGTCCGATGCTCCCGCACATCCAAGGCAACAAGGTGTCGATGC-TT
1 CGGCCTAAGTTACCGATGGTGTTCGATGCTCCCGCACATCCAAGGCACCAAGGTGTCGATGCTTT
*
43389549 CGCGATGATCCCGCACCACCAC
66 C-CGATGGTCCCGCACCACCAC
43389571 CGGCCTAAGTTACCGATGGTG-TCTGATGCTCCCGCAC
1 CGGCCTAAGTTACCGATGGTGTTC-GATGCTCCCGCAC
43389608 GTGTCTGAAA
Statistics
Matches: 266, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
85 3 0.01
86 261 0.98
87 2 0.01
ACGTcount: A:0.21, C:0.34, G:0.23, T:0.22
Consensus pattern (86 bp):
CGGCCTAAGTTACCGATGGTGTTCGATGCTCCCGCACATCCAAGGCACCAAGGTGTCGATGCTTT
CCGATGGTCCCGCACCACCAC
Found at i:43390415 original size:86 final size:86
Alignment explanation
Indices: 43390269--43391200 Score: 798
Period size: 86 Copynumber: 10.9 Consensus size: 86
43390259 ACTCTCTCGT
* * * * * *
43390269 ACATACAAGGCA-TCAAGGTGTCGATGCTTTCTCGATGGTCTCGTACCACCAACGGCCTAAGTTA
1 ACATCCAAGGCACT-AAGGTGCCGATGC-TTCTCGATGGTCCCGCACCACCATCGACCTAAGTTA
* * * *
43390333 CCAATGGTATTCGATACTCCCGC
64 CCGATGGTGTCCGATGCTCCCGC
* ** *
43390356 ACATGCAAGGCACTAAGGTGTTGATGCTTCTCGATGGTCCCGTACCACCATCGACCTAAGTTACC
1 ACATCCAAGGCACTAAGGTGCCGATGCTTCTCGATGGTCCCGCACCACCATCGACCTAAGTTACC
* * * *
43390421 AATGGTGTCCAATTCTCTCGC
66 GATGGTGTCCGATGCTCCCGC
* * * * * * * * *
43390442 ACATCCAAAGCACTAAGATGTCAATACTCCGCCCGATGGTCCCGTACCATCATCGACCTAAGTTA
1 ACATCCAAGGCACTAAGGTGCCGATGCT--TCTCGATGGTCCCGCACCACCATCGACCTAAGTTA
* * *
43390507 TCGATGGTGTCCGATTCTCTCGC
64 CCGATGGTGTCCGATGCTCCCGC
* * * * *
43390530 ACATCCAAGGCA-TGAAGGTGCCGATGGTTC-CCATGGTCCCGCACCACCATCGGCTTAAGTTTC
1 ACATCCAAGGCACT-AAGGTGCCGATGCTTCTCGATGGTCCCGCACCACCATCGACCTAAGTTAC
***
43390593 CGATGGTGTCCGATGCTCATAC
65 CGATGGTGTCCGATGCTCCCGC
* * * * * * * * **
43390615 ACATCTAAGGCACCAAGGTGCTGATACTTCCCGATGGTCTCACACCACTATCGACCTAAGTTGTC
1 ACATCCAAGGCACTAAGGTGCCGATGCTTCTCGATGGTCCCGCACCACCATCGACCTAAGTTACC
43390680 GATGGTGTCCGATGCTCCCGC
66 GATGGTGTCCGATGCTCCCGC
* * * * * * *
43390701 ACATCCAAGGCA-TCAAGGTCCCGATACTTCACGATGGTCTCACACCACCATCAACCTAAGTTGC
1 ACATCCAAGGCACT-AAGGTGCCGATGCTTCTCGATGGTCCCGCACCACCATCGACCTAAGTTAC
* * ** *
43390765 CAATGGTCTCTAATACTCCCGC
65 CGATGGTGTCCGATGCTCCCGC
* * * *
43390787 ACATCCAAGGTACCT-AGGTGCCGATGCTT-TCTGATGGTCTCTCGCATCACCACCGGCCTAAGT
1 ACATCCAAGGCA-CTAAGGTGCCGATGCTTCTC-GATGGTC-C-CGCACCACCATCGACCTAAGT
43390850 TACCGATGGTGTCCGATGCTCCCGC
62 TACCGATGGTGTCCGATGCTCCCGC
* * * * * * *
43390875 ACATCTAAGGCACCAAGGTACCGATGGTTCTCGATGGTCCCGTACCACCATCGGCCTAAGTTATC
1 ACATCCAAGGCACTAAGGTGCCGATGCTTCTCGATGGTCCCGCACCACCATCGACCTAAGTTACC
**
43390940 GATGGTGGTCCGATGCTCTTGC
66 GATGGT-GTCCGATGCTCCCGC
* * * * * *
43390962 ACATCCAAGGTACTAAGGTACCGATG-ATC-C---CG-CAC-CACCACCATCGGCCTAAGTTGA-
1 ACATCCAAGGCACTAAGGTGCCGATGCTTCTCGATGGTCCCGCACCACCATCGACCTAAGTT-AC
*
43391019 CGATGGTGTCCGATGCTCCCGT
65 CGATGGTGTCCGATGCTCCCGC
* * * *
43391041 ACATCCAAGGTACTAAGGTGTCGATGCTTCTCGATGGTCCCGCACCACTA-CTGACTTAAGTTAC
1 ACATCCAAGGCACTAAGGTGCCGATGCTTCTCGATGGTCCCGCACCACCATC-GACCTAAGTTAC
* * *
43391105 CGATGATGTTCGATGCT-CTGAC
65 CGATGGTGTCCGATGCTCCCG-C
* * * * *
43391127 ACATCCAAGGCACCAAGGTACCGATGCTTCCCGATGGTCTCGCACCACCATCGACCTAAGTTATC
1 ACATCCAAGGCACTAAGGTGCCGATGCTTCTCGATGGTCCCGCACCACCATCGACCTAAGTTACC
43391192 GATGGTGTC
66 GATGGTGTC
43391201 TGATTGTGTC
Statistics
Matches: 689, Mismatches: 129, Indels: 55
0.79 0.15 0.06
Matches are distributed among these distances:
79 36 0.05
80 28 0.04
81 4 0.01
82 1 0.00
84 1 0.00
85 76 0.11
86 340 0.49
87 63 0.09
88 138 0.20
89 2 0.00
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (86 bp):
ACATCCAAGGCACTAAGGTGCCGATGCTTCTCGATGGTCCCGCACCACCATCGACCTAAGTTACC
GATGGTGTCCGATGCTCCCGC
Found at i:43390898 original size:43 final size:43
Alignment explanation
Indices: 43390844--43391152 Score: 139
Period size: 43 Copynumber: 7.3 Consensus size: 43
43390834 CACCACCGGC
* *
43390844 CTAAGTTACCGATGGTGTCCGATGCTCCCGCACATCTAAGGCA
1 CTAAGGTACCGATGGTGTCCGATGCTCCCGCACATCCAAGGCA
* * * *
43390887 CCAAGGTACCGATGGT-TCTCGATGGTCCCGTACCA-CCATCGGC-
1 CTAAGGTACCGATGGTGTC-CGATGCTCCCGCA-CATCCA-AGGCA
* * ** *
43390930 CTAAGTTATCGATGGTGGTCCGATGCTCTTGCACATCCAAGGTA
1 CTAAGGTACCGATGGT-GTCCGATGCTCCCGCACATCCAAGGCA
* * *
43390974 CTAAGGTACCGATGAT-CCCGCA--C-CAC-CACCAT-C--GGC-
1 CTAAGGTACCGATGGTGTCCG-ATGCTCCCGCA-CATCCAAGGCA
* * *
43391010 CTAAGTTGA-CGATGGTGTCCGATGCTCCCGTACATCCAAGGTA
1 CTAAGGT-ACCGATGGTGTCCGATGCTCCCGCACATCCAAGGCA
** * * * **
43391053 CTAAGGTGTCGATGCT-TCTCGATGGTCCCGCACCA-CTACTG-A
1 CTAAGGTACCGATGGTGTC-CGATGCTCCCGCA-CATCCAAGGCA
* * * *
43391095 CTTAAGTTACCGATGATGTTCGATGCT-CTGACACATCCAAGGCA
1 C-TAAGGTACCGATGGTGTCCGATGCTCCCG-CACATCCAAGGCA
*
43391139 CCAAGGTACCGATG
1 CTAAGGTACCGATG
43391153 CTTCCCGATG
Statistics
Matches: 191, Mismatches: 48, Indels: 54
0.65 0.16 0.18
Matches are distributed among these distances:
36 13 0.07
37 6 0.03
38 1 0.01
39 8 0.04
40 6 0.03
41 1 0.01
42 15 0.08
43 104 0.54
44 35 0.18
45 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.24
Consensus pattern (43 bp):
CTAAGGTACCGATGGTGTCCGATGCTCCCGCACATCCAAGGCA
Found at i:43391074 original size:166 final size:165
Alignment explanation
Indices: 43390834--43391152 Score: 428
Period size: 166 Copynumber: 1.9 Consensus size: 165
43390824 TCTCTCGCAT
*
43390834 CACCACCGGCCTAAGTTACCGATGGTGTCCGATGCTCCCGCACATCTAAGGCACCAAGGTACCGA
1 CACCACCGGCCTAAGTTACCGATGGTGTCCGATGCTCCCGCACATCCAAGGCACCAAGGTACCGA
* * * * *
43390899 TGGTTCTCGATGGTCCCGTACCACCA-TCGGCCTAAGTTATCGATGGTGGTCCGATGCTCTTG-C
66 TGCTTCTCGATGGTCCCGCACCACCACT-GACCTAAGTTACCGATGAT-GTCCGATGCTC-TGAC
* *
43390962 ACATCCAAGGTACTAAGGTACCGATGATCCCGCACCAC
128 ACATCCAAGGCACCAAGGTACCGATGATCCCGCACCAC
* * * * **
43391000 CACCATCGGCCTAAGTTGA-CGATGGTGTCCGATGCTCCCGTACATCCAAGGTACTAAGGTGTCG
1 CACCACCGGCCTAAGTT-ACCGATGGTGTCCGATGCTCCCGCACATCCAAGGCACCAAGGTACCG
* * *
43391064 ATGCTTCTCGATGGTCCCGCACCACTACTGACTTAAGTTACCGATGATGTTCGATGCTCTGACAC
65 ATGCTTCTCGATGGTCCCGCACCACCACTGACCTAAGTTACCGATGATGTCCGATGCTCTGACAC
43391129 ATCCAAGGCACCAAGGTACCGATG
130 ATCCAAGGCACCAAGGTACCGATG
43391153 CTTCCCGATG
Statistics
Matches: 133, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
164 2 0.02
165 35 0.26
166 94 0.71
167 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.23
Consensus pattern (165 bp):
CACCACCGGCCTAAGTTACCGATGGTGTCCGATGCTCCCGCACATCCAAGGCACCAAGGTACCGA
TGCTTCTCGATGGTCCCGCACCACCACTGACCTAAGTTACCGATGATGTCCGATGCTCTGACACA
TCCAAGGCACCAAGGTACCGATGATCCCGCACCAC
Found at i:43395724 original size:58 final size:58
Alignment explanation
Indices: 43395610--43396034 Score: 506
Period size: 58 Copynumber: 7.3 Consensus size: 58
43395600 ACTCGGGGGC
* * * * *
43395610 AAAATGGTAA-TTTTGATAAAATCGGGTT-AAAATGGAATTTTGGAAAG-TTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATGGGGTTAAAAATGGAATTTT-AAAAGATTCGAGGGT
* * *
43395666 AAAATGGTGATTTTTGGTGAAATGGGGTTTAAAATGGAATTTTAGAAGATTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATGGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
* * * * *
43395724 AAAATGGTAATTTTGGGTGAAATCGGGATTAAAAATAGAATTTTAAAAGATACGGGGGTAT
1 AAAATGGTAATTTTTGGTGAAAT-GGGGTTAAAAATGGAATTTTAAAAGATTCGAGGG--T
* *
43395785 AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATACG-GGGT
1 AAAATGGTAATTTTTGGTGAAAT-GGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
* ** *
43395843 AAAATGGTAATTTTTTGGTGAAGTCGGGGTTAAAAAT-GAATTTTGGAAGATTTG-GGGT
1 AAAATGGTAA-TTTTTGGTGAAAT-GGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
* *
43395901 AAAATGGTAATTTTTGGTAAAATTGGGGTTAAAAAATGGAATTTTTAAAGA-TCGAGGGT
1 AAAATGGTAATTTTTGGTGAAA-TGGGGTT-AAAAATGGAATTTTAAAAGATTCGAGGGT
43395960 AAAATGGTAA-TTTTGGTGAAATGGGGTTAAAAATGGAATTTTAAAAGATTCGAGGTGT
1 AAAATGGTAATTTTTGGTGAAATGGGGTTAAAAATGGAATTTTAAAAGATTCGAGG-GT
43396018 AAAAATGGTAATTTTTG
1 -AAAATGGTAATTTTTG
43396035 AAAGTTTCGG
Statistics
Matches: 322, Mismatches: 32, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
56 28 0.09
57 47 0.15
58 101 0.31
59 87 0.27
60 8 0.02
61 51 0.16
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGTGAAATGGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
Found at i:43396053 original size:30 final size:28
Alignment explanation
Indices: 43395778--43396054 Score: 105
Period size: 30 Copynumber: 9.4 Consensus size: 28
43395768 AAAAGATACG
*
43395778 GGGGTATAAAATGGTAATTTTTGGTGAAA-TCA
1 GGGGTA-AAAATGGTAA-TTTT--TGAAAGT-T
* * *
43395810 GGGTTAAAAATGG-AA-TTTTAAAAGATAC
1 GGGGTAAAAATGGTAATTTTTGAAAG-T-T
* *
43395838 GGGGT-AAAATGGTAATTTTTTGGTGAAGTC
1 GGGGTAAAAATGGTAA-TTTTT-G-AAAGTT
* *
43395868 GGGGTTAAAAAT-G-AATTTTGGAAGATTT
1 GGGG-TAAAAATGGTAATTTTTGAA-AGTT
*
43395896 GGGGT-AAAATGGTAATTTTTGGTAAAATT
1 GGGGTAAAAATGGTAATTTTT-G-AAAGTT
*
43395925 GGGGTTAAAAAATGG-AATTTTT-AAAGATC
1 GGGG-T-AAAAATGGTAATTTTTGAAAG-TT
43395954 GAGGGT-AAAATGGTAATTTTGGTGAAA--T
1 G-GGGTAAAAATGGTAATTTT--TGAAAGTT
*
43395982 GGGGTTAAAAATGG-AA-TTTTAAAAGATT
1 GGGG-TAAAAATGGTAATTTTTGAAAG-TT
43396010 CGAGGTGTAAAAATGGTAATTTTTGAAAGTTT
1 -G-GG-GTAAAAATGGTAATTTTTGAAAG-TT
*
43396042 CGGGGTCAAAATG
1 -GGGGTAAAAATG
43396055 TAGTTTCTTA
Statistics
Matches: 192, Mismatches: 20, Indels: 68
0.69 0.07 0.24
Matches are distributed among these distances:
25 4 0.02
26 9 0.05
27 23 0.12
28 37 0.19
29 23 0.12
30 39 0.20
31 25 0.13
32 32 0.17
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (28 bp):
GGGGTAAAAATGGTAATTTTTGAAAGTT
Found at i:43396420 original size:162 final size:160
Alignment explanation
Indices: 43396189--43396499 Score: 534
Period size: 162 Copynumber: 1.9 Consensus size: 160
43396179 TTGTAAATCT
*
43396189 TGAAAAATTCTTGGGCCAATTTCGTAATTTAATAAAAGTTGATTTGAGGTTAAATAAAAACAAAT
1 TGAAAAATTCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTGAGGTTAAATAAAAACAAAT
43396254 TAAAAATAAAAAAGGACTAAATGCATAAATAATCCAAAAAATGACACGTGGCAGCCCCTGGTACA
66 TAAAAATAAAAAAGGACTAAATGCATAAATAAT-CAAAAAATGACACGT-GCAGCCCCTGGTACA
43396319 GTCAAACAGTCAAAGGACTAATTTATAAACCA
129 GTCAAACAGTCAAAGGACTAATTTATAAACCA
* *
43396351 TGAAAAATTCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTG-GGATTAAATTAAAACATA
1 TGAAAAATTCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTGAGG-TTAAATAAAAACAAA
* * *
43396415 TTAAAAATAAAAAAGGGCTAAATGCATAAATAATCTAAAAATGACACGTGCAGCCCCTGGTGCAG
65 TTAAAAATAAAAAAGGACTAAATGCATAAATAATCAAAAAATGACACGTGCAGCCCCTGGTACAG
43396480 TCAAACAGTCAAAGGACTAA
130 TCAAACAGTCAAAGGACTAA
43396500 ATTGAAAAGA
Statistics
Matches: 142, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
160 35 0.25
161 16 0.11
162 91 0.64
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (160 bp):
TGAAAAATTCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTGAGGTTAAATAAAAACAAAT
TAAAAATAAAAAAGGACTAAATGCATAAATAATCAAAAAATGACACGTGCAGCCCCTGGTACAGT
CAAACAGTCAAAGGACTAATTTATAAACCA
Found at i:43398129 original size:27 final size:26
Alignment explanation
Indices: 43398098--43398160 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
43398088 TTTTGATTTA
* *
43398098 TTAAATTTAATAT-TATTTAAATTAAG
1 TTAAATTTAAAATAAATTTAAA-TAAG
43398124 TTTAAATTTAAAATAAATTTAAATAAG
1 -TTAAATTTAAAATAAATTTAAATAAG
43398151 -TAAATTTAAA
1 TTAAATTTAAA
43398161 TTTAAGATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 10 0.30
27 16 0.48
28 7 0.21
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAAATTTAAAATAAATTTAAATAAG
Found at i:43398133 original size:6 final size:6
Alignment explanation
Indices: 43398112--43398177 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
43398102 ATTTAATATT
* * *
43398112 ATTTAA A-TTAA GTTTAA ATTTAA A-ATAA ATTTAA ATAAGTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA ATTTAA
43398160 ATTTAA GA--TAA ATTTAA A
1 ATTTAA -ATTTAA ATTTAA A
43398178 AATGAATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
4 1 0.02
5 11 0.23
6 29 0.62
7 1 0.02
8 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (6 bp):
ATTTAA
Found at i:43398134 original size:17 final size:17
Alignment explanation
Indices: 43398112--43398177 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 17
43398102 ATTTAATATT
* *
43398112 ATTTAAATTAAGTTTAA
1 ATTTAAAATAAATTTAA
43398129 ATTTAAAATAAATTTAA
1 ATTTAAAATAAATTTAA
*
43398146 A--T-AAGTAAATTTAA
1 ATTTAAAATAAATTTAA
*
43398160 ATTTAAGATAAATTTAA
1 ATTTAAAATAAATTTAA
43398177 A
1 A
43398178 AATGAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
14 12 0.29
15 1 0.02
16 1 0.02
17 27 0.66
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
ATTTAAAATAAATTTAA
Found at i:43398140 original size:11 final size:11
Alignment explanation
Indices: 43398126--43398196 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
43398116 AAATTAAGTT
43398126 TAAATTTAAAA
1 TAAATTTAAAA
43398137 TAAATTT-AAA
1 TAAATTTAAAA
* *
43398147 T-AA-GTAAATT
1 TAAATTTAAA-A
*
43398157 TAAATTTAAGA
1 TAAATTTAAAA
43398168 TAAATTTAAAAA
1 TAAATTT-AAAA
*
43398180 TGAATTTAAAA
1 TAAATTTAAAA
*
43398191 TTAATT
1 TAAATT
43398197 CAAACATTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 5 0.11
11 25 0.53
12 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:43398162 original size:31 final size:29
Alignment explanation
Indices: 43398098--43398194 Score: 99
Period size: 31 Copynumber: 3.3 Consensus size: 29
43398088 TTTTGATTTA
* * * *
43398098 TTAAATTTAATAT-TATTT-AAATTAAGT
1 TTAAATTTAAAATAAATTTAAAAATAAAT
43398125 TTAAATTTAAAATAAATTTAAATAAGTAAAT
1 TTAAATTTAAAATAAATTTAAA-AA-TAAAT
* *
43398156 TTAAATTTAAGATAAATTTAAAAATGAAT
1 TTAAATTTAAAATAAATTTAAAAATAAAT
*
43398185 TTAAAATTAA
1 TTAAATTTAA
43398195 TTCAAACATT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
27 12 0.20
28 4 0.07
29 15 0.25
30 3 0.05
31 25 0.42
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (29 bp):
TTAAATTTAAAATAAATTTAAAAATAAAT
Found at i:43401798 original size:19 final size:20
Alignment explanation
Indices: 43401753--43401802 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
43401743 TTTGTGATAT
*
43401753 TTTTAT-AATTTTTTATAAC
1 TTTTATAAATTATTTATAAC
43401772 TATTTATAAATTATTTA-AAC
1 T-TTTATAAATTATTTATAAC
43401792 TTTTATAAATT
1 TTTTATAAATT
43401803 TTATAATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.39
20 9 0.32
21 8 0.29
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTATAAATTATTTATAAC
Found at i:43401817 original size:19 final size:18
Alignment explanation
Indices: 43401753--43401818 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 18
43401743 TTTGTGATAT
*
43401753 TTTTATAATTTTTTATAAC
1 TTTTATAA-ATTTTATAAC
43401772 TATTTATAAATTATT-TAAAC
1 T-TTTATAAATT-TTAT-AAC
43401792 TTTTATAAATTTTATAATC
1 TTTTATAAATTTTATAA-C
*
43401811 TTATATAA
1 TTTTATAA
43401819 TTTAATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 4 0.10
19 23 0.57
20 13 0.32
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTATAAATTTTATAAC
Found at i:43401849 original size:21 final size:23
Alignment explanation
Indices: 43401823--43401865 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
43401813 ATATAATTTA
*
43401823 ATTTTTAATA-TTTTTT-ATGAT
1 ATTTTTAAGACTTTTTTCATGAT
43401844 ATTTTTAAGACTTTTTTCATGA
1 ATTTTTAAGACTTTTTTCATGA
43401866 GAAAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 6 0.32
23 4 0.21
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (23 bp):
ATTTTTAAGACTTTTTTCATGAT
Found at i:43404606 original size:16 final size:16
Alignment explanation
Indices: 43404565--43404607 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
43404555 AAAATTATGT
*
43404565 TTTTCATCC-TTCTAA
1 TTTTCATCCTTTCAAA
43404580 TTTTC-TACCTTTCAAA
1 TTTTCAT-CCTTTCAAA
43404596 TTTTCATCCTTT
1 TTTTCATCCTTT
43404608 TATTTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 7 0.29
16 15 0.62
17 1 0.04
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTCATCCTTTCAAA
Found at i:43415973 original size:85 final size:85
Alignment explanation
Indices: 43415830--43415993 Score: 310
Period size: 85 Copynumber: 1.9 Consensus size: 85
43415820 AGTCCAAAGA
43415830 TGCTTCAAGAGTCCAAAGGTCTTTGCATAGTCCTATCAAAGCATGACTGGGTTAAGGAGCTGATG
1 TGCTTCAAGAGTCCAAAGGTCTTTGCATAGTCCTATCAAAGCATGACTGGGTTAAGGAGCTGATG
43415895 TCGTGAAACACAAGGCAAGT
66 TCGTGAAACACAAGGCAAGT
*
43415915 TGCTTCAAGAGTCCAAAGGTCTTTGCATGGTCCTATCAAAGCATGACTGGGTTAAGGAGCTGATG
1 TGCTTCAAGAGTCCAAAGGTCTTTGCATAGTCCTATCAAAGCATGACTGGGTTAAGGAGCTGATG
*
43415980 TCGTGACACACAAG
66 TCGTGAAACACAAG
43415994 CTCCCATAAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (85 bp):
TGCTTCAAGAGTCCAAAGGTCTTTGCATAGTCCTATCAAAGCATGACTGGGTTAAGGAGCTGATG
TCGTGAAACACAAGGCAAGT
Found at i:43416178 original size:66 final size:65
Alignment explanation
Indices: 43416108--43416237 Score: 147
Period size: 66 Copynumber: 2.0 Consensus size: 65
43416098 ATCCGCCAAG
* * * *
43416108 GACATTTTAAAACCCAACACAAAA-AAAAGGAAGAGAAAG-AAAAGTCAAGATAAAAAACCAGCA
1 GACATCTTAAAACCCAA-A-AAAATAAAAGAAAAAAAAAGAAAAAGTCAAGAT-AAAAACCAGCA
43416171 AAA
63 AAA
* * * *
43416174 GACATCTTGAAACTCAAAAAAATAAAAGAAAAAAAAAGAAAAAGTCAAGATGAAAACCCGCAAA
1 GACATCTTAAAACCCAAAAAAATAAAAGAAAAAAAAAGAAAAAGTCAAGATAAAAACCAGCAAA
43416238 GGGCATCGCT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
64 4 0.07
65 24 0.44
66 26 0.48
ACGTcount: A:0.62, C:0.15, G:0.13, T:0.10
Consensus pattern (65 bp):
GACATCTTAAAACCCAAAAAAATAAAAGAAAAAAAAAGAAAAAGTCAAGATAAAAACCAGCAAAA
Found at i:43417923 original size:49 final size:49
Alignment explanation
Indices: 43417868--43418443 Score: 434
Period size: 49 Copynumber: 11.8 Consensus size: 49
43417858 CAGGTTTCAT
*
43417868 TACCACGAAGATAT-AGAGGGAAAGATTTAAG-CTGCAATGGCAAATCTAG
1 TACCACGAAGATATGA-AGGGAAAGATTTAAGTC-GCAATGGCGAATCTAG
* * * * * *
43417917 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCACAACGGCGAACCTTG
1 TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
* * * *
43417966 TACCTCAGAA-ACATGAAGGGAAAGATTTAAGTCGTAATGGCGAATCCAG
1 TACCAC-GAAGATATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
* * * * *
43418015 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAATGACGAACCTTG
1 TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
* * * * * *
43418064 TACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCTAA
1 TACCAC-GAAGATATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
* * * * ** * *
43418113 TACCATGAGGATATGGAGGGAAAGGTTTAAGTCGTTATGGCGAACCTTG
1 TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
* * * * * * *
43418162 TACCTCAGAAG-CATGAAGGGAAAGATTTAAGTTGTAACGACGAATCCAG
1 TACCAC-GAAGATATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
* * * * * *
43418211 TACCACGAGGATATGAAGGGAAAGGTTTAAGTCACAATGACGAACCTTG
1 TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
* * * * * * *
43418260 TGCCTCAGAA-ACATGAAGGGAAATATTTAAGTTGCAACGACGAATCTAG
1 TACCAC-GAAGATATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
* * * **
43418309 TACCACGAAGATATGGAA-GGAAAGGTTTAAGTCGCAACGGTGAA-CCCG
1 TACCACGAAGATAT-GAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
* *
43418357 ATACCTCAGAA-ACATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
1 -TACCAC-GAAGATATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
** * * *
43418407 TACCATAAAGATATGGAA-GGTAAGGTTTATGTCGCAA
1 TACCACGAAGATAT-GAAGGGAAAGATTTAAGTCGCAA
43418444 CAGCGTACCT
Statistics
Matches: 400, Mismatches: 110, Indels: 34
0.74 0.20 0.06
Matches are distributed among these distances:
48 19 0.05
49 357 0.89
50 24 0.06
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (49 bp):
TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCTAG
Found at i:43418218 original size:196 final size:196
Alignment explanation
Indices: 43417884--43418479 Score: 811
Period size: 196 Copynumber: 3.0 Consensus size: 196
43417874 GAAGATATAG
* *
43417884 AGGGAAAGATTTAAGCTGCAATGGCAAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGT
1 AGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGT
*
43417949 CACAACGGCGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGTCGTAATGGCGAATCCA
66 CGCAACGGCGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGTCGTAATGGCGAATCCA
*
43418014 GTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAATGACGAACCTTGTACCTCAGAAGCATG
131 GTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAATGACGAACCTTGTACCTCAGAAACATG
43418079 A
196 A
* * * * *
43418080 AGGGAAAGATTTAAGCCGCAACGGTGAATCTAATACCATGAGGATATGGAGGGAAAGGTTTAAGT
1 AGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGT
** * * * * *
43418145 CGTTATGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGTTGTAACGACGAATCCA
66 CGCAACGGCGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGTCGTAATGGCGAATCCA
* * * *
43418210 GTACCACGAGGATATGAAGGGAAAGGTTTAAGTCACAATGACGAACCTTGTGCCTCAGAAACATG
131 GTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAATGACGAACCTTGTACCTCAGAAACATG
43418275 A
196 A
* * * *
43418276 AGGGAAATATTTAAGTTGCAACGACGAATCTAGTACCACGAAGATATGGAAGGAAAGGTTTAAGT
1 AGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGT
* * * *
43418341 CGCAACGGTGAACC-CGATACCTCAGAAACATGAAGGGAAAGATTTAAGTCGCAATGGCGAATCT
66 CGCAACGGCGAACCTTG-TACCTCAGAAACATGAAGGGAAAGATTTAAGTCGTAATGGCGAATCC
** * * * * * *
43418405 AGTACCATAAAGATATGGAAGGTAAGGTTTATGTCGCAA-CAGCGTACCTTGT-TCTCCAGAAAC
130 AGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAATGA-CGAACCTTGTACCT-CAGAAAC
*
43418468 ATAA
193 ATGA
43418472 AGGGAAAG
1 AGGGAAAG
43418480 GTTGAGGCCG
Statistics
Matches: 344, Mismatches: 53, Indels: 6
0.85 0.13 0.01
Matches are distributed among these distances:
195 4 0.01
196 340 0.99
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (196 bp):
AGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGT
CGCAACGGCGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGTCGTAATGGCGAATCCA
GTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAATGACGAACCTTGTACCTCAGAAACATG
A
Found at i:43418499 original size:98 final size:98
Alignment explanation
Indices: 43417884--43418479 Score: 732
Period size: 98 Copynumber: 6.1 Consensus size: 98
43417874 GAAGATATAG
* * *
43417884 AGGGAAAGATTTAAG-CTGCAATGGCAAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAG
1 AGGGAAAGATTTAAGTC-GCAACGGCGAATCTAGTACCACGAAGATATGGAAGGAAAGGTTTAAG
*
43417948 TCACAACGGCGAACCTTGTACCTCAGAAACATGA
65 TCGCAACGGCGAACCTTGTACCTCAGAAACATGA
* * * *
43417982 AGGGAAAGATTTAAGTCGTAATGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGT
1 AGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGATATGGAAGGAAAGGTTTAAGT
* * *
43418047 CGCAATGACGAACCTTGTACCTCAGAAGCATGA
66 CGCAACGGCGAACCTTGTACCTCAGAAACATGA
* * * * * *
43418080 AGGGAAAGATTTAAGCCGCAACGGTGAATCTAATACCATGAGGATATGGAGGGAAAGGTTTAAGT
1 AGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGATATGGAAGGAAAGGTTTAAGT
** * *
43418145 CGTTATGGCGAACCTTGTACCTCAGAAGCATGA
66 CGCAACGGCGAACCTTGTACCTCAGAAACATGA
* * * * *
43418178 AGGGAAAGATTTAAGTTGTAACGACGAATCCAGTACCACGAGGATAT-GAAGGGAAAGGTTTAAG
1 AGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGATATGGAA-GGAAAGGTTTAAG
* * * *
43418242 TCACAATGACGAACCTTGTGCCTCAGAAACATGA
65 TCGCAACGGCGAACCTTGTACCTCAGAAACATGA
* * *
43418276 AGGGAAATATTTAAGTTGCAACGACGAATCTAGTACCACGAAGATATGGAAGGAAAGGTTTAAGT
1 AGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGATATGGAAGGAAAGGTTTAAGT
* *
43418341 CGCAACGGTGAACC-CGATACCTCAGAAACATGA
66 CGCAACGGCGAACCTTG-TACCTCAGAAACATGA
* ** * *
43418374 AGGGAAAGATTTAAGTCGCAATGGCGAATCTAGTACCATAAAGATATGGAAGGTAAGGTTTATGT
1 AGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGATATGGAAGGAAAGGTTTAAGT
* * * *
43418439 CGCAACAGCGTACCTTGT-TCTCCAGAAACATAA
66 CGCAACGGCGAACCTTGTACCT-CAGAAACATGA
43418472 AGGGAAAG
1 AGGGAAAG
43418480 GTTGAGGCCG
Statistics
Matches: 435, Mismatches: 57, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
97 5 0.01
98 425 0.98
99 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (98 bp):
AGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGATATGGAAGGAAAGGTTTAAGT
CGCAACGGCGAACCTTGTACCTCAGAAACATGA
Found at i:43420297 original size:17 final size:17
Alignment explanation
Indices: 43420264--43420297 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43420254 AAGATCTATG
* *
43420264 TTTTTTTAAATATAAGA
1 TTTTTTTAAAAAAAAGA
43420281 TTTTTTTAAAAAAAAGA
1 TTTTTTTAAAAAAAAGA
43420298 GAAATAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTTTTTAAAAAAAAGA
Found at i:43421123 original size:30 final size:30
Alignment explanation
Indices: 43421087--43421344 Score: 313
Period size: 30 Copynumber: 8.6 Consensus size: 30
43421077 CTCAAGAGGT
* *
43421087 CCCTAAACTTTTCTAAAATTACATTTTTAC
1 CCCTAAACTTTTCCAAAATTACATTTTAAC
* * * *
43421117 CCCTAAACTTTTTCTAAAATCATATTTTGAC
1 CCCTAAAC-TTTTCCAAAATTACATTTTAAC
* * *
43421148 CCC-AAAATTTTCCAAAATTTCATTTTAAT
1 CCCTAAACTTTTCCAAAATTACATTTTAAC
43421177 CCCTAAACTTTTCCAAAATTACATTTTAAC
1 CCCTAAACTTTTCCAAAATTACATTTTAAC
** * *
43421207 CTTTAAACTTTTCCAAATTTACATTTTGAC
1 CCCTAAACTTTTCCAAAATTACATTTTAAC
*
43421237 CCCTAAACTTTTCTAAAATTACATTTTAA-
1 CCCTAAACTTTTCCAAAATTACATTTTAAC
* * *
43421266 CCCTAAATTTTTCCAAAATCATATTTTAAC
1 CCCTAAACTTTTCCAAAATTACATTTTAAC
* *
43421296 CCTTAAATTTTTCCAAAATTACATTTTAAC
1 CCCTAAACTTTTCCAAAATTACATTTTAAC
*
43421326 CCCCAAACTTTTCCAAAAT
1 CCCTAAACTTTTCCAAAAT
43421345 CACTGTTTGA
Statistics
Matches: 193, Mismatches: 32, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
29 44 0.23
30 127 0.66
31 22 0.11
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (30 bp):
CCCTAAACTTTTCCAAAATTACATTTTAAC
Found at i:43421278 original size:89 final size:89
Alignment explanation
Indices: 43421086--43421344 Score: 340
Period size: 89 Copynumber: 2.9 Consensus size: 89
43421076 GCTCAAGAGG
* * * * * *
43421086 TCCCTAAACTTTTCTAAAATTACATTTTTACCCCTAAACTTTTTCTAAAATCATATTTTGACCCC
1 TCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAAC-TTTTCCAAAATTACATTTTGACCCC
* *
43421151 AAAATTTTCCAAAATTTCATTTTAA
65 AAACTTTTCCAAAATTACATTTTAA
* *
43421176 TCCCTAAACTTTTCCAAAATTACATTTTAACCTTTAAACTTTTCCAAATTTACATTTTGACCCCT
1 TCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTGACCCC-
*
43421241 AAACTTTTCTAAAATTACATTTTAA
65 AAACTTTTCCAAAATTACATTTTAA
* * * * *
43421266 -CCCTAAATTTTTCCAAAATCATATTTTAACCCTTAAATTTTTCCAAAATTACATTTTAACCCCC
1 TCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTGA-CCCC
43421330 AAACTTTTCCAAAAT
65 AAACTTTTCCAAAAT
43421345 CACTGTTTGA
Statistics
Matches: 148, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
89 87 0.59
90 61 0.41
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (89 bp):
TCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTGACCCCA
AACTTTTCCAAAATTACATTTTAA
Found at i:43421354 original size:119 final size:119
Alignment explanation
Indices: 43421091--43421375 Score: 353
Period size: 119 Copynumber: 2.4 Consensus size: 119
43421081 AGAGGTCCCT
* * * * *
43421091 AAACTTTTCTAAAATTACATTTTTACCCCTAAACTTTTTCTAAAATCATATTTTGACCCCAAAAT
1 AAACTTTTCCAAAATTACATTTTGACCCCTAAAC-TTTTCTAAAATTACATTTTAACCCCAAAAT
* ***
43421156 TTTCCAAAATTTCATTTTAATCCCTAAACTTTTCCAAAATTACATTTTAACCTTT
65 TTTCCAAAATATCATTTTAATCCCTAAACTTTTCCAAAATTACATTTTAACCCCC
* * *
43421211 AAACTTTTCCAAATTTACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCCTAAATTT
1 AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCCCAAAATT
*
43421276 TTCCAAAATCAT-ATTTTAA-CCCTTAAATTTTTCCAAAATTACATTTTAACCCCC
66 TTCCAAAAT-ATCATTTTAATCCC-TAAACTTTTCCAAAATTACATTTTAACCCCC
* * *
43421330 AAACTTTTCCAAAATCAC-TGTTTGACACCC-AAGCTTCTCTAAAATT
1 AAACTTTTCCAAAATTACAT-TTTGAC-CCCTAAACTTTTCTAAAATT
43421376 TTATTTTCAT
Statistics
Matches: 144, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
118 4 0.03
119 105 0.73
120 35 0.24
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (119 bp):
AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCCCAAAATT
TTCCAAAATATCATTTTAATCCCTAAACTTTTCCAAAATTACATTTTAACCCCC
Found at i:43421374 original size:60 final size:60
Alignment explanation
Indices: 43421087--43421375 Score: 256
Period size: 60 Copynumber: 4.8 Consensus size: 60
43421077 CTCAAGAGGT
* * * * * *
43421087 CCCTAAACTTTTCTAAAATTACATTTTTAC-CCCTAAACTTTTTCTAAAATCATATTTTGAC
1 CCCTAAACTTTTCCAAAATCAC-TTTTGACACCCTAAAC-TTTTCTAAAATTACATTTTAAC
* *
43421148 CCC-AAAATTTTCCAAAATTTCA-TTTT-A-ATCCCTAAACTTTTCCAAAATTACATTTTAAC
1 CCCTAAACTTTTCCAAAA--TCACTTTTGACA-CCCTAAACTTTTCTAAAATTACATTTTAAC
** * *
43421207 CTTTAAACTTTTCCAAATTTACATTTTGAC-CCCTAAACTTTTCTAAAATTACATTTTAA-
1 CCCTAAACTTTTCCAAAATCAC-TTTTGACACCCTAAACTTTTCTAAAATTACATTTTAAC
* * * *
43421266 CCCTAAATTTTTCCAAAATCA-TATTTTA-ACCCTTAAATTTTTCCAAAATTACATTTTAAC
1 CCCTAAACTTTTCCAAAATCACT-TTTGACACCC-TAAACTTTTCTAAAATTACATTTTAAC
* * *
43421326 CCCCAAACTTTTCCAAAATCACTGTTTGACACCC-AAGCTTCTCTAAAATT
1 CCCTAAACTTTTCCAAAATCACT-TTTGACACCCTAAACTTTTCTAAAATT
43421376 TTATTTTCAT
Statistics
Matches: 184, Mismatches: 29, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
57 1 0.01
58 9 0.05
59 60 0.33
60 99 0.54
61 9 0.05
62 6 0.03
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.40
Consensus pattern (60 bp):
CCCTAAACTTTTCCAAAATCACTTTTGACACCCTAAACTTTTCTAAAATTACATTTTAAC
Found at i:43423825 original size:49 final size:49
Alignment explanation
Indices: 43423483--43423856 Score: 331
Period size: 49 Copynumber: 7.6 Consensus size: 49
43423473 ACACCCAAGA
* *** * * * *
43423483 GAGGGAAAGATTGAAGCTGCAATTATGAACCGTGTACCCTA-AAGGTGTA
1 GAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAA-ATGTG
* * ** * *
43423532 GAGGGAAGGATTGAAGCCGCAACGATGAATCTTGTACTCTAGAGATGTG
1 GAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAAATGTG
* * *
43423581 GAGGGAAAGATTGAAGTCGCAATGGCAAATCTTGTACCCTAGAACTGTG
1 GAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAAATGTG
* * *
43423630 AAGGGAAAAATTAAAGCCGCAATGGCGAATCTTGTACCCTAGAAATGTG
1 GAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAAATGTG
* * *
43423679 GAGGGAAAGATTGAAGCTGCAATGGTGAATCTCGTACCCTAGAAATGTG
1 GAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAAATGTG
* * * * * * *
43423728 GAGGGAAATATTAAAGCTGCAATGGCGAATCTTATACCTTTA-AGATGAG
1 GAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACC-CTAGAAATGTG
* * * * * * *
43423777 GAGAGAAAGATTGAAGCCACAAAGGCGAATCTTTTACTCTAAAAATGAG
1 GAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAAATGTG
* * * *
43423826 GAAGGG-CATATTGAAGCCGCAAAGGTGAATC
1 G-AGGGAAAGATTGAAGCCGCAATGGCGAATC
43423857 ATACCCTAAA
Statistics
Matches: 267, Mismatches: 54, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
48 2 0.01
49 259 0.97
50 6 0.02
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.22
Consensus pattern (49 bp):
GAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAAATGTG
Found at i:43427049 original size:205 final size:205
Alignment explanation
Indices: 43426697--43427110 Score: 828
Period size: 205 Copynumber: 2.0 Consensus size: 205
43426687 AGAGCACAAG
43426697 CCACCCCTTTTTCATCTCTCAAGACTCCACCACATCCTACCTCCTCAAACACCACACCGGCATAA
1 CCACCCCTTTTTCATCTCTCAAGACTCCACCACATCCTACCTCCTCAAACACCACACCGGCATAA
43426762 TTGAATTTCATCCACCCGGTTAGAGATGGCTCCCAAAGAGAAGCAAACCTATTTTTCAATTTTAA
66 TTGAATTTCATCCACCCGGTTAGAGATGGCTCCCAAAGAGAAGCAAACCTATTTTTCAATTTTAA
43426827 TGAGACTAAACATTTCTTAGGCCAAGACCACCAATCTCCTTCCGAAAAATAACAATCTTCATTAA
131 TGAGACTAAACATTTCTTAGGCCAAGACCACCAATCTCCTTCCGAAAAATAACAATCTTCATTAA
43426892 CTGCCCTCAC
196 CTGCCCTCAC
43426902 CCACCCCTTTTTCATCTCTCAAGACTCCACCACATCCTACCTCCTCAAACACCACACCGGCATAA
1 CCACCCCTTTTTCATCTCTCAAGACTCCACCACATCCTACCTCCTCAAACACCACACCGGCATAA
43426967 TTGAATTTCATCCACCCGGTTAGAGATGGCTCCCAAAGAGAAGCAAACCTATTTTTCAATTTTAA
66 TTGAATTTCATCCACCCGGTTAGAGATGGCTCCCAAAGAGAAGCAAACCTATTTTTCAATTTTAA
43427032 TGAGACTAAACATTTCTTAGGCCAAGACCACCAATCTCCTTCCGAAAAATAACAATCTTCATTAA
131 TGAGACTAAACATTTCTTAGGCCAAGACCACCAATCTCCTTCCGAAAAATAACAATCTTCATTAA
43427097 CTGCCCTCAC
196 CTGCCCTCAC
43427107 CCAC
1 CCAC
43427111 ATCAGTATTA
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 209 1.00
ACGTcount: A:0.32, C:0.33, G:0.10, T:0.26
Consensus pattern (205 bp):
CCACCCCTTTTTCATCTCTCAAGACTCCACCACATCCTACCTCCTCAAACACCACACCGGCATAA
TTGAATTTCATCCACCCGGTTAGAGATGGCTCCCAAAGAGAAGCAAACCTATTTTTCAATTTTAA
TGAGACTAAACATTTCTTAGGCCAAGACCACCAATCTCCTTCCGAAAAATAACAATCTTCATTAA
CTGCCCTCAC
Found at i:43431583 original size:173 final size:173
Alignment explanation
Indices: 43431294--43431616 Score: 504
Period size: 173 Copynumber: 1.9 Consensus size: 173
43431284 GTTCTTCATT
* *
43431294 AAACGTTAAATCAGGTCGCACCTCGATCTCTTCGACCGGAACAATATGGGATAGATCAAAATGAT
1 AAACGTTAAATCAGGTCGCACCTCGATCTCCTCGACCGAAACAATATGGGATAGATCAAAATGAT
* * ** *
43431359 ACCGTCTCAACATGGAGACTTAAAACATGTCATGGATACGGTCAAGCTCAAGAAGG-AACTCAAG
66 ACCGTCTCAACATGGAAACATAAAACACATCATGGATACAGTCAAGCTCAAG-AGGTAACTCAAG
43431423 CTGATACGCTACAGGTCCAACTTGTTCCAAGATCCGACTTCCTC
130 CTGATACGCTACAGGTCCAACTTGTTCCAAGATCCGACTTCCTC
* * * * *
43431467 AAACGTTAAATCAGGTCGTACCTCGATCTCCTCGACTGAAACAATGTGGGATGGATCAGAATGAT
1 AAACGTTAAATCAGGTCGCACCTCGATCTCCTCGACCGAAACAATATGGGATAGATCAAAATGAT
*
43431532 ACCGTCTTAACATGGAAACATAAAACACATCATGGATACAGTCAAGCTCAAGAGGTAACTCAAGC
66 ACCGTCTCAACATGGAAACATAAAACACATCATGGATACAGTCAAGCTCAAGAGGTAACTCAAGC
*
43431597 TGATACGCTATAGGTCCAAC
131 TGATACGCTACAGGTCCAAC
43431617 CCGTTTCAAG
Statistics
Matches: 135, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
172 3 0.02
173 132 0.98
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (173 bp):
AAACGTTAAATCAGGTCGCACCTCGATCTCCTCGACCGAAACAATATGGGATAGATCAAAATGAT
ACCGTCTCAACATGGAAACATAAAACACATCATGGATACAGTCAAGCTCAAGAGGTAACTCAAGC
TGATACGCTACAGGTCCAACTTGTTCCAAGATCCGACTTCCTC
Found at i:43435628 original size:28 final size:28
Alignment explanation
Indices: 43435597--43435659 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
43435587 AAAATAAGAC
43435597 TTTTGGA-TACTCGAGGGCAAAATGGTAA
1 TTTTGGACT-CTCGAGGGCAAAATGGTAA
* * *
43435625 TTTTGAACTCTCGGGGGCCAAATGGTAA
1 TTTTGGACTCTCGAGGGCAAAATGGTAA
43435653 TTTTGGA
1 TTTTGGA
43435660 AAATTTAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
TTTTGGACTCTCGAGGGCAAAATGGTAA
Found at i:43435770 original size:59 final size:59
Alignment explanation
Indices: 43435698--43435831 Score: 148
Period size: 59 Copynumber: 2.3 Consensus size: 59
43435688 ACATCCGGGA
*
43435698 GTAAAA-CGTTAATTTTTAAAAGAATC-AGGATCAAAAATGGAATTTTTGGA-CATTCGGAG
1 GTAAAATCG-TAATTTTTAAAAGAATCGAGG-TCAAAAATGGAATTTTTGGACCATTAGG-G
** ** * *
43435757 GTAAAATCGTAATTTTTGGAAGTCTCGAGGTCAAAAATGGAGTTTTTGGACCTTTAGGG
1 GTAAAATCGTAATTTTTAAAAGAATCGAGGTCAAAAATGGAATTTTTGGACCATTAGGG
*
43435816 GTAAAATGGTAATTTT
1 GTAAAATCGTAATTTT
43435832 GAAATTTTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 54 0.84
60 10 0.16
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (59 bp):
GTAAAATCGTAATTTTTAAAAGAATCGAGGTCAAAAATGGAATTTTTGGACCATTAGGG
Found at i:43435890 original size:146 final size:145
Alignment explanation
Indices: 43435728--43436010 Score: 342
Period size: 146 Copynumber: 1.9 Consensus size: 145
43435718 AGAATCAGGA
* *
43435728 TCAAAAATGGAATTTTTGGACA-TTCGGA-GGT-AAAATCGTAATTTTTGGAAGTCTCGAGGTCA
1 TCAAAAATGGAATTTTT-GA-AGTTCAGAGGGTAAAAAT-GTAATTTTTGGAAGTCTCAAGGTCA
* * * *
43435790 AAAATGGAGTTTTTGGACCTTTAGGGGT-AAAATGGTAATTTT-GAAATTTTTAGGGTCAAAATG
63 AAAATGGAATTTTTGGAACTTTAGGGGTCAAAAT-GTAATTTTAG-AAGTTTTAGGGTCAAAATA
*
43435853 GAATTTTTGGAATTTTGGGG
126 AAATTTTTGGAATTTTGGGG
* * * * *
43435873 TCAAAAATGGGATTTTTTGAAGTTTAGAGGGTAAAAATGTACTTTTTGGAAGTTTCAAGGTTAAA
1 TCAAAAAT-GGAATTTTTGAAGTTCAGAGGGTAAAAATGTAATTTTTGGAAGTCTCAAGGTCAAA
* * *
43435938 AATGGAATTTTTGGAAGTTTGGGGGTCAAAATGTAATTTTAGAAGTTTTAGGGTTAAAATAAAAT
65 AATGGAATTTTTGGAACTTTAGGGGTCAAAATGTAATTTTAGAAGTTTTAGGGTCAAAATAAAAT
43436003 TTTTGGAA
130 TTTTGGAA
43436011 GTTAAAACTG
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
144 1 0.01
145 14 0.12
146 91 0.78
147 11 0.09
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (145 bp):
TCAAAAATGGAATTTTTGAAGTTCAGAGGGTAAAAATGTAATTTTTGGAAGTCTCAAGGTCAAAA
ATGGAATTTTTGGAACTTTAGGGGTCAAAATGTAATTTTAGAAGTTTTAGGGTCAAAATAAAATT
TTTGGAATTTTGGGG
Found at i:43435909 original size:30 final size:30
Alignment explanation
Indices: 43435730--43436124 Score: 212
Period size: 29 Copynumber: 13.7 Consensus size: 30
43435720 AATCAGGATC
**
43435730 AAAAATGGAATTTTTGGACA-TTCGGA-GGT
1 AAAAATGGAATTTTTGGA-AGTTTAGAGGGT
* * *
43435759 -AAAATCGTAATTTTTGGAAGTCTCGA-GGT
1 AAAAAT-GGAATTTTTGGAAGTTTAGAGGGT
* **
43435788 CAAAAATGGAGTTTTTGGACCTTTAG-GGGT
1 -AAAAATGGAATTTTTGGAAGTTTAGAGGGT
* **
43435818 -AAAATGGTAA-TTTT-GAAATTTTTAGGGT
1 AAAAATGG-AATTTTTGGAAGTTTAGAGGGT
* *
43435846 CAAAATGGAATTTTTGGAA-TTTTG-GGGT
1 AAAAATGGAATTTTTGGAAGTTTAGAGGGT
* *
43435874 CAAAAATGGGATTTTTTGAAGTTTAGAGGGT
1 -AAAAATGGAATTTTTGGAAGTTTAGAGGGT
* * *
43435905 AAAAATGTACTTTTTGGAAGTTTCA-AGGTT
1 AAAAATGGAATTTTTGGAAGTTT-AGAGGGT
*
43435935 AAAAATGGAATTTTTGGAAGTTT-GGGGGT
1 AAAAATGGAATTTTTGGAAGTTTAGAGGGT
* * * *
43435964 CAAAATGTAA-TTTTAGAAGTTT-TAGGGT
1 AAAAATGGAATTTTTGGAAGTTTAGAGGGT
* **
43435992 TAAAATAAAATTTTTGGAAG--T------T
1 AAAAATGGAATTTTTGGAAGTTTAGAGGGT
* *
43436014 AAAACTGTAATTTTTGGAAGTTTTA-A-GGT
1 AAAAATGGAATTTTTGGAAG-TTTAGAGGGT
*
43436043 TAAAATGGAATTTTTGGAAGTTTAG-GGGT
1 AAAAATGGAATTTTTGGAAGTTTAGAGGGT
* ** *
43436072 AAAAATGTAATTTTTAAAAGTTTTA-AGGTT
1 AAAAATGGAATTTTTGGAAG-TTTAGAGGGT
* *
43436102 AAAAATGTAATTTTAGAGAAGTT
1 AAAAATGGAATTTTTG-GAAGTT
43436125 CAGGGGTTAA
Statistics
Matches: 285, Mismatches: 53, Indels: 55
0.73 0.13 0.14
Matches are distributed among these distances:
22 17 0.06
25 1 0.00
27 6 0.02
28 53 0.19
29 105 0.37
30 90 0.32
31 13 0.05
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (30 bp):
AAAAATGGAATTTTTGGAAGTTTAGAGGGT
Found at i:43435911 original size:59 final size:57
Alignment explanation
Indices: 43435730--43436086 Score: 193
Period size: 59 Copynumber: 6.3 Consensus size: 57
43435720 AATCAGGATC
* *
43435730 AAAAATGGAATTTTTGGACA-TTCGGAGGTAAAATCGTAATTTTTGGAAGTCTCGA-GGT
1 AAAAATGGAATTTTTGGACATTTCGG-GGTAAAAT-GGAATTTTTGGAAGT-TTGAGGGT
* * * * * *
43435788 CAAAAATGGAGTTTTTGGACCTTTAGGGGTAAAATGGTAA-TTTTGAAATTTTTAGGGT
1 -AAAAATGGAATTTTTGGACATTTCGGGGTAAAATGG-AATTTTTGGAAGTTTGAGGGT
* * * *
43435846 CAAAATGGAATTTTTGGA-ATTTTGGGGTCAAAAATGGGATTTTTTGAAGTTTAGAGGGT
1 AAAAATGGAATTTTTGGACATTTCGGGGT--AAAATGGAATTTTTGGAAGTTT-GAGGGT
* * * * *
43435905 AAAAATGTACTTTTTGGA-AGTTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTGGGGGT
1 AAAAATGGAATTTTTGGACA-TTTC-GGGGT-AAAATGGAATTTTTGGAAGTTTGAGGGT
* * * * ** * * **
43435964 CAAAATGTAATTTTAGAAGTTTTAGGGTTAAAATAAAATTTTTGGAAG--T-----T
1 AAAAATGGAATTTTTGGACATTTCGGGGTAAAATGGAATTTTTGGAAGTTTGAGGGT
* * ** *
43436014 AAAACTGTAATTTTTGGA-AGTTTTAAGGTTAAAATGGAATTTTTGGAAGTTT-AGGGGT
1 AAAAATGGAATTTTTGGACA--TTTCGGGGTAAAATGGAATTTTTGGAAGTTTGA-GGGT
*
43436072 AAAAATGTAATTTTT
1 AAAAATGGAATTTTT
43436087 AAAAGTTTTA
Statistics
Matches: 235, Mismatches: 44, Indels: 39
0.74 0.14 0.12
Matches are distributed among these distances:
50 15 0.06
51 25 0.11
53 1 0.00
55 1 0.00
56 8 0.03
57 36 0.15
58 47 0.20
59 71 0.30
60 28 0.12
61 3 0.01
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (57 bp):
AAAAATGGAATTTTTGGACATTTCGGGGTAAAATGGAATTTTTGGAAGTTTGAGGGT
Found at i:43436014 original size:21 final size:22
Alignment explanation
Indices: 43435990--43436035 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
43435980 AAGTTTTAGG
43435990 GTTAAAA-TAAAATTTTTGGAA
1 GTTAAAACTAAAATTTTTGGAA
**
43436011 GTTAAAACTGTAATTTTTGGAA
1 GTTAAAACTAAAATTTTTGGAA
43436033 GTT
1 GTT
43436036 TTAAGGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (22 bp):
GTTAAAACTAAAATTTTTGGAA
Found at i:43436034 original size:109 final size:109
Alignment explanation
Indices: 43435904--43436105 Score: 325
Period size: 109 Copynumber: 1.9 Consensus size: 109
43435894 GTTTAGAGGG
* * *
43435904 TAAAAATGTACTTTTTGGAAGTTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTGGGGGTCAAAA
1 TAAAAATGTAATTTTTGGAAGTTTCAAGGTT-AAAATGGAATTTTTGGAAGTTTAGGGGTAAAAA
* *
43435969 TGTAA-TTTTAGAAGTTTTAGGGTTAAAATAAAATTTTTGGAAGT
65 TGTAATTTTTAAAAGTTTTAAGGTTAAAATAAAATTTTTGGAAGT
* *
43436013 TAAAACTGTAATTTTTGGAAGTTTTAAGGTTAAAATGGAATTTTTGGAAGTTTAGGGGTAAAAAT
1 TAAAAATGTAATTTTTGGAAGTTTCAAGGTTAAAATGGAATTTTTGGAAGTTTAGGGGTAAAAAT
43436078 GTAATTTTTAAAAGTTTTAAGGTTAAAA
66 GTAATTTTTAAAAGTTTTAAGGTTAAAA
43436106 ATGTAATTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
108 36 0.42
109 49 0.58
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (109 bp):
TAAAAATGTAATTTTTGGAAGTTTCAAGGTTAAAATGGAATTTTTGGAAGTTTAGGGGTAAAAAT
GTAATTTTTAAAAGTTTTAAGGTTAAAATAAAATTTTTGGAAGT
Found at i:43436038 original size:51 final size:49
Alignment explanation
Indices: 43435965--43436064 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 49
43435955 TTTGGGGGTC
*
43435965 AAAATGTAATTTTAGAAGTTTTAGGGTTAAAATAAAATTTTTGGAAGTT
1 AAAATGTAATTTTAGAAGTTTTAAGGTTAAAATAAAATTTTTGGAAGTT
* **
43436014 AAAACTGTAATTTTTGGAAGTTTTAAGGTTAAAATGGAATTTTTGGAAGTT
1 AAAA-TGTAA-TTTTAGAAGTTTTAAGGTTAAAATAAAATTTTTGGAAGTT
43436065 TAGGGGTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 4 0.09
50 5 0.11
51 36 0.80
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.41
Consensus pattern (49 bp):
AAAATGTAATTTTAGAAGTTTTAAGGTTAAAATAAAATTTTTGGAAGTT
Found at i:43436084 original size:58 final size:60
Alignment explanation
Indices: 43436013--43436145 Score: 180
Period size: 58 Copynumber: 2.2 Consensus size: 60
43436003 TTTTGGAAGT
** * *
43436013 TAAAACTGTAATTTTTGGAAGTTTTAAGGTT-AAAATGGAATTTTTG-GAAGTTTAGGGG
1 TAAAACTGTAATTTTTAAAAGTTTTAAGGTTAAAAATGGAATTTTAGAGAAGTTCAGGGG
* *
43436071 TAAAAATGTAATTTTTAAAAGTTTTAAGGTTAAAAATGTAATTTTAGAGAAGTTCAGGGG
1 TAAAACTGTAATTTTTAAAAGTTTTAAGGTTAAAAATGGAATTTTAGAGAAGTTCAGGGG
* *
43436131 TTAAACTATAATTTT
1 TAAAACTGTAATTTT
43436146 GGACAATTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 28 0.44
59 13 0.20
60 23 0.36
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (60 bp):
TAAAACTGTAATTTTTAAAAGTTTTAAGGTTAAAAATGGAATTTTAGAGAAGTTCAGGGG
Found at i:43436158 original size:168 final size:168
Alignment explanation
Indices: 43435854--43436158 Score: 400
Period size: 168 Copynumber: 1.8 Consensus size: 168
43435844 GTCAAAATGG
** * * *
43435854 AATTTTTGGAATTTTGGGGTCAAAAATGGGATTTTTTGAAGTTTAGAGGGTAAAAATGTACTTTT
1 AATTTTTGGAATTTTAAGGTCAAAAATGGAATTTTTGGAAGTTTAGAGGGTAAAAATGTAATTTT
** * ** * *
43435919 TGGAAGTTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTGGGGGTCAAAATGTAATTTTAGAAGT
66 TAAAAGTTTCAAGGTTAAAAATGGAATTTTAGGAAGTTCAGGGGTCAAAATATAATTTTAGAAGA
43435984 TTTAGGGTTAAAATAAAATTTTTGGAAGTTAAAACTGT
131 TTTAGGGTTAAAATAAAATTTTTGGAAGTTAAAACTGT
*
43436022 AATTTTTGGAAGTTTTAAGGT-TAAAATGGAATTTTTGGAAGTTTAG-GGGTAAAAATGTAATTT
1 AATTTTTGGAA-TTTTAAGGTCAAAAATGGAATTTTTGGAAGTTTAGAGGGTAAAAATGTAATTT
* * * * *
43436085 TTAAAAGTTTTAAGGTTAAAAATGTAATTTTAGAGAAGTTCAGGGGTTAAACTATAATTTTGGAC
65 TTAAAAGTTTCAAGGTTAAAAATGGAATTTTAG-GAAGTTCAGGGGTCAAAATATAATTTTAGA-
43436150 A-ATTTAGGG
128 AGATTTAGGG
43436159 ACCTCCAAGG
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
167 44 0.38
168 64 0.55
169 8 0.07
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.39
Consensus pattern (168 bp):
AATTTTTGGAATTTTAAGGTCAAAAATGGAATTTTTGGAAGTTTAGAGGGTAAAAATGTAATTTT
TAAAAGTTTCAAGGTTAAAAATGGAATTTTAGGAAGTTCAGGGGTCAAAATATAATTTTAGAAGA
TTTAGGGTTAAAATAAAATTTTTGGAAGTTAAAACTGT
Found at i:43437221 original size:25 final size:25
Alignment explanation
Indices: 43437192--43437242 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
43437182 TGGCAGTGGC
* *
43437192 GGTGGCAGAGTAGGTTGAAGCGGGT
1 GGTGGCAGAGCAAGTTGAAGCGGGT
* *
43437217 GGTGGCAGTGCAAGTTGAAGCTGGT
1 GGTGGCAGAGCAAGTTGAAGCGGGT
43437242 G
1 G
43437243 ACACTGTTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.10, G:0.49, T:0.22
Consensus pattern (25 bp):
GGTGGCAGAGCAAGTTGAAGCGGGT
Found at i:43437513 original size:18 final size:17
Alignment explanation
Indices: 43437475--43437532 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
43437465 GACTTTTATT
* *
43437475 TTTAAATTTATAATAAG
1 TTTAAATTTAAAATAAA
43437492 TTTAAATTTGAAAATAAA
1 TTTAAATTT-AAAATAAA
*
43437510 TTT-AATCTTAAAATCAA
1 TTTAAAT-TTAAAATAAA
43437527 TTTAAA
1 TTTAAA
43437533 ATGGGTTTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 22 0.63
18 13 0.37
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:43438257 original size:52 final size:52
Alignment explanation
Indices: 43438201--43438356 Score: 167
Period size: 52 Copynumber: 3.2 Consensus size: 52
43438191 TAATCCAACT
43438201 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
1 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
* * ***
43438253 TTACTACAACTTC-AGAGAGATA--AA-T-A--CTT---GC-T-ATCCAACT-
1 TTACTGCAACTTCAAGAG-GATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
43438293 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
1 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
43438345 TTACTGCAACTT
1 TTACTGCAACTT
43438357 TAGAGAGATA
Statistics
Matches: 80, Mismatches: 10, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
40 16 0.20
41 9 0.11
42 3 0.04
43 3 0.04
44 1 0.01
46 4 0.05
48 1 0.01
49 3 0.04
50 3 0.04
51 9 0.11
52 28 0.35
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (52 bp):
TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
Found at i:43438355 original size:92 final size:92
Alignment explanation
Indices: 43438193--43438371 Score: 340
Period size: 92 Copynumber: 1.9 Consensus size: 92
43438183 TTTGTTTTTA
43438193 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
43438258 ACAACTTCAGAGAGATAAATACTTGCT
66 ACAACTTCAGAGAGATAAATACTTGCT
43438285 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
* *
43438350 GCAACTTTAGAGAGATAAATAC
66 ACAACTTCAGAGAGATAAATAC
43438372 CTGTTTATTG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (92 bp):
ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
ACAACTTCAGAGAGATAAATACTTGCT
Found at i:43438692 original size:99 final size:100
Alignment explanation
Indices: 43438444--43438704 Score: 350
Period size: 100 Copynumber: 2.6 Consensus size: 100
43438434 GATTCGACCT
* *
43438444 TTCATGCTTCTAAGGTAC-CGGGTTCGTCGTTGCGACTTAAACCTTTCCCTTTTAGTATCTTTGA
1 TTCATGCTTCTAAGGTACAC-GGTTCGCCGTTGCGACTTAGACCTTTCCC-TTTAGTATCTTTGA
43438508 AGTACTAGATCCGTCATTGCAGTCTTAGATCTTTCCC
64 AGTACTAGATCCGTCATTGCAGTCTTAGATCTTTCCC
* * * **
43438545 TTCATGCTTCTAAGGTACACGGTCCACCGTTGCGACTTAGACCTTTTCCTTTAGT-TCTTTGTGG
1 TTCATGCTTCTAAGGTACACGGTTCGCCGTTGCGACTTAGACCTTTCCCTTTAGTATCTTTGAAG
*
43438609 TACTAGATCCG-CGATTGCAGTCTTAGATCTTT-TC
66 TACTAGATCCGTC-ATTGCAGTCTTAGATCTTTCCC
* * *
43438643 TGTCGTGTCTTTTAAGGTACACGGTTCGCCGTTACGACTTAGACCTTTCCCTTTAGTATCTT
1 T-TCATG-CTTCTAAGGTACACGGTTCGCCGTTGCGACTTAGACCTTTCCCTTTAGTATCTT
43438705 ATTAGAGTTA
Statistics
Matches: 141, Mismatches: 14, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
98 3 0.02
99 41 0.29
100 50 0.35
101 46 0.33
102 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.39
Consensus pattern (100 bp):
TTCATGCTTCTAAGGTACACGGTTCGCCGTTGCGACTTAGACCTTTCCCTTTAGTATCTTTGAAG
TACTAGATCCGTCATTGCAGTCTTAGATCTTTCCC
Found at i:43441370 original size:6 final size:6
Alignment explanation
Indices: 43441361--43441445 Score: 104
Period size: 6 Copynumber: 14.3 Consensus size: 6
43441351 TTTTAATTTT
*
43441361 ATTTAA ATTTAA ATTT-A TTTTAA ATTTAA ATTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* *
43441409 CTTTAA ATTTAA ATTT-A CTTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
43441446 AAAAATTAAG
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
5 12 0.18
6 50 0.74
8 6 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:43441382 original size:17 final size:16
Alignment explanation
Indices: 43441352--43441442 Score: 123
Period size: 17 Copynumber: 5.6 Consensus size: 16
43441342 TAAATTGATT
*
43441352 TTTAATTTTATTTAAA
1 TTTAAATTTATTTAAA
43441368 TTTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
*
43441385 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
43441399 TTTAAATTTACTTTAAA
1 TTTAAATTTA-TTTAAA
43441416 TTTAAATTTACTTTAAA
1 TTTAAATTTA-TTTAAA
43441433 TTTAAATTTA
1 TTTAAATTTA
43441443 AATAAAAATT
Statistics
Matches: 68, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
14 11 0.16
15 2 0.03
16 11 0.16
17 44 0.65
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:43441414 original size:48 final size:47
Alignment explanation
Indices: 43441352--43441443 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 47
43441342 TAAATTGATT
* *
43441352 TTTAATTTTATTTAAATTTAAATTTATTTTAAATTTAAATTTAATTA
1 TTTAAATTTATTTAAATTTAAATTTACTTTAAATTTAAATTTAATTA
43441399 TTTAAATTTACTTTAAATTTAAATTTACTTTAAATTTAAATTTAA
1 TTTAAATTTA-TTTAAATTTAAATTTACTTTAAATTTAAATTTAA
43441444 ATAAAAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
47 9 0.21
48 33 0.79
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (47 bp):
TTTAAATTTATTTAAATTTAAATTTACTTTAAATTTAAATTTAATTA
Found at i:43441436 original size:11 final size:10
Alignment explanation
Indices: 43441367--43441419 Score: 56
Period size: 11 Copynumber: 5.1 Consensus size: 10
43441357 TTTTATTTAA
43441367 ATTTAAATTT
1 ATTTAAATTT
43441377 ATTTTAAATTT
1 A-TTTAAATTT
43441388 AAATTT-AA-TT
1 --ATTTAAATTT
43441398 ATTTAAATTT
1 ATTTAAATTT
43441408 ACTTTAAATTT
1 A-TTTAAATTT
43441419 A
1 A
43441420 AATTTACTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 4 0.11
9 2 0.05
10 6 0.16
11 21 0.57
12 3 0.08
13 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:43441463 original size:48 final size:47
Alignment explanation
Indices: 43441363--43441468 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 47
43441353 TTAATTTTAT
* ** * *
43441363 TTAAATTTAAATTTATTTTAAATTTAAATTTAATTATTTAAATTTACT
1 TTAAATTTAAATTTACTTTAAATTTAAATTTAA-TATAAAAATTGACA
43441411 TTAAATTTAAATTTACTTTAAATTTAAATTTAA-ATAAAAATTAAGACA
1 TTAAATTTAAATTTACTTTAAATTTAAATTTAATATAAAAATT--GACA
*
43441459 TTAAAATTAA
1 TTAAATTTAA
43441469 CATAAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
46 7 0.14
48 43 0.86
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (47 bp):
TTAAATTTAAATTTACTTTAAATTTAAATTTAATATAAAAATTGACA
Found at i:43441595 original size:13 final size:14
Alignment explanation
Indices: 43441558--43441605 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
43441548 CCGTTTTTCA
43441558 GCCCAATTACAAAG
1 GCCCAATTACAAAG
*
43441572 GCCCAATTACAAAT
1 GCCCAATTACAAAG
* *
43441586 GTCC-ATTAC-ATG
1 GCCCAATTACAAAG
43441598 GCCCAATT
1 GCCCAATT
43441606 GGCCCAAACC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 4 0.14
13 8 0.29
14 16 0.57
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.23
Consensus pattern (14 bp):
GCCCAATTACAAAG
Found at i:43443372 original size:30 final size:30
Alignment explanation
Indices: 43443331--43443685 Score: 534
Period size: 30 Copynumber: 11.8 Consensus size: 30
43443321 AATTGTCTAG
43443331 AAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
43443361 AAATTATATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
43443391 AAATTACATTTTGACCCCAAAAACTTTTCCA
1 AAATTACATTTTGACCCC-AAAACTTTTCCA
* * *
43443422 AAATTACGTTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
43443452 AAATTACATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
** *
43443482 AAATTATGTTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
**
43443512 AAATTATGTTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
43443542 AAATTACATTTTAACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
43443572 AAATTACATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
43443602 AAATTACATTTTGACCCCGAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
43443632 AAATTACATTTTGACCCAAAAAC-TTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
43443661 AAATTATCATTTT-ACCCCCAAACTT
1 AAATTA-CATTTTGACCCCAAAACTT
43443686 CCCTAAAACC
Statistics
Matches: 300, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
29 19 0.06
30 254 0.85
31 27 0.09
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCCA
Found at i:43443734 original size:30 final size:28
Alignment explanation
Indices: 43443700--43443849 Score: 92
Period size: 29 Copynumber: 5.1 Consensus size: 28
43443690 AAAACCCATT
43443700 TTTTAACCCCAATTTCACCAAAATTTGCCA
1 TTTTAACCCCAATTTCACCAAAA-TT-CCA
**
43443730 TTTT-ACCCCTGAATCTT--TTAAAATTCCA
1 TTTTAACCCC--AAT-TTCACCAAAATTCCA
* *
43443758 TTTTAACCCCGATTTCATCAAAAATTACCA
1 TTTTAACCCCAATTTCA-CCAAAATT-CCA
* * * *
43443788 TTTTATCCCTGAATTT-TCTAAAATTCCA
1 TTTTAACCC-CAATTTCACCAAAATTCCA
* *
43443816 TTTTTAACCTCGATTTCACCAAAATTACCA
1 -TTTTAACCCCAATTTCACCAAAATT-CCA
43443846 TTTT
1 TTTT
43443850 GCCCTCGGGT
Statistics
Matches: 92, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
26 2 0.02
27 2 0.02
28 14 0.15
29 43 0.47
30 22 0.24
31 7 0.08
32 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTTAACCCCAATTTCACCAAAATTCCA
Found at i:43443789 original size:58 final size:58
Alignment explanation
Indices: 43443658--43443849 Score: 210
Period size: 58 Copynumber: 3.3 Consensus size: 58
43443648 CAAAAACTTT
* ** ** * *
43443658 CAAAAATTATCATTTTACCCCCAAACTTCCCTAAAA-CCCATTTTTTAACCCCAATTTCA
1 CAAAAATTACCATTTTACCCCTGAA-TTTTCTAAAATTCCA-TTTTTAACCCCGATTTCA
* *
43443717 CCAAAATTTGCCATTTTACCCCTGAATCTTT-TAAAATTCCA-TTTTAACCCCGATTTCA
1 -CAAAAATTACCATTTTACCCCTGAAT-TTTCTAAAATTCCATTTTTAACCCCGATTTCA
* *
43443775 TCAAAAATTACCATTTTATCCCTGAATTTTCTAAAATTCCATTTTTAACCTCGATTTCA
1 -CAAAAATTACCATTTTACCCCTGAATTTTCTAAAATTCCATTTTTAACCCCGATTTCA
*
43443834 CCAAAATTACCATTTT
1 CAAAAATTACCATTTT
43443850 GCCCTCGGGT
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
57 3 0.03
58 64 0.57
59 22 0.19
60 24 0.21
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.38
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCTGAATTTTCTAAAATTCCATTTTTAACCCCGATTTCA
Found at i:43443820 original size:29 final size:28
Alignment explanation
Indices: 43443727--43443824 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 28
43443717 CCAAAATTTG
*
43443727 CCATTTTACCCCTGAATCTTT-TAAAATT
1 CCATTTTAACCCTGAAT-TTTCTAAAATT
* *
43443755 CCATTTTAACCCCG-ATTTCATCAAAAATT
1 CCATTTTAACCCTGAATTT--TCTAAAATT
*
43443784 ACCATTTTATCCCTGAATTTTCTAAAATT
1 -CCATTTTAACCCTGAATTTTCTAAAATT
43443813 CCATTTTTAACC
1 CCA-TTTTAACC
43443825 TCGATTTCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 16 0.28
29 21 0.37
30 12 0.21
31 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.41
Consensus pattern (28 bp):
CCATTTTAACCCTGAATTTTCTAAAATT
Found at i:43443856 original size:29 final size:29
Alignment explanation
Indices: 43443749--43443849 Score: 93
Period size: 29 Copynumber: 3.4 Consensus size: 29
43443739 TGAATCTTTT
43443749 AAAATTCCATTTTAACCC-CGATTTCATCA
1 AAAATTCCATTTTAACCCTCGATTTCA-CA
* * *
43443778 AAAATTACCATTTTATCCCT-GAATTT-TCT
1 AAAATT-CCATTTTAACCCTCG-ATTTCACA
*
43443807 AAAATTCCATTTTTAA-CCTCGATTTCACC
1 AAAATTCCA-TTTTAACCCTCGATTTCACA
43443836 AAAATTACCATTTT
1 AAAATT-CCATTTT
43443850 GCCCTCGGGT
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
28 10 0.17
29 30 0.51
30 15 0.25
31 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.40
Consensus pattern (29 bp):
AAAATTCCATTTTAACCCTCGATTTCACA
Found at i:43448845 original size:29 final size:30
Alignment explanation
Indices: 43448782--43449105 Score: 221
Period size: 29 Copynumber: 11.1 Consensus size: 30
43448772 AAAAATTGTA
* * * *
43448782 TTTTGACCCCTAAACTTCTCTAAAATAACAT
1 TTTTGACCTCAAAACTTCT-AAAAATTACAT
*
43448813 TTTTGACCTTAAAACTTCTAAAAATTACAT
1 TTTTGACCTCAAAACTTCTAAAAATTACAT
** * *
43448843 TTTT-A-CTCCCGAACTTCCAAAAATT-CAA
1 TTTTGACCT-CAAAACTTCTAAAAATTACAT
*
43448871 TTTTGACCCCAAAA-TTCTAAAAATTACAT
1 TTTTGACCTCAAAACTTCTAAAAATTACAT
* * *
43448900 TTTT-ACCCCCAAACTTCCT----A-TCCAT
1 TTTTGACCTCAAAACTT-CTAAAAATTACAT
*
43448925 TTTTAACCTCAAAACTT-TCAAAAATTACAT
1 TTTTGACCTCAAAACTTCT-AAAAATTACAT
* * * *
43448955 TTTT-ACCCCTAAACTTCCAAAAATTCCAT
1 TTTTGACCTCAAAACTTCTAAAAATTACAT
*
43448984 TTTTGACCTCAAAACTTCAAAAAAATTACAT
1 TTTTGACCTCAAAACTTC-TAAAAATTACAT
* **
43449015 TTTT-ACACTC-GAACTTCTAAAAATCCCAT
1 TTTTGAC-CTCAAAACTTCTAAAAATTACAT
* * *
43449044 TTTTGACC-CCAAACTTCCAAAAATTCCAT
1 TTTTGACCTCAAAACTTCTAAAAATTACAT
* * *
43449073 TTTTGACCCCGAAACTT-TCAAAATTACCAT
1 TTTTGACCTCAAAACTTCTAAAAATTA-CAT
43449103 TTT
1 TTT
43449106 ACCCCTAGAG
Statistics
Matches: 233, Mismatches: 39, Indels: 43
0.74 0.12 0.14
Matches are distributed among these distances:
24 1 0.00
25 8 0.03
26 11 0.05
28 27 0.12
29 95 0.41
30 58 0.25
31 33 0.14
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (30 bp):
TTTTGACCTCAAAACTTCTAAAAATTACAT
Found at i:43449010 original size:172 final size:174
Alignment explanation
Indices: 43448771--43449089 Score: 455
Period size: 172 Copynumber: 1.8 Consensus size: 174
43448761 CTAAACTATC
** * * *
43448771 CAAAAATTGTATTTTGACCCCTAAACTTCTCTAAAATAACATTTTTGACCTTAAAACTTCTAAAA
1 CAAAAATTACATTTTGACCCCTAAACTTCTCAAAAATAACATTTTTGACCTCAAAACTTCAAAAA
* * *
43448836 ATTACATTTTTACTCCCGAACTTCCAAAAAT-TCAATTTTGACCCCAAAATTCTAAAAATTACAT
66 ATTACATTTTTACACCCGAACTTCCAAAAATCCCAATTTTGACCCCAAAATTCCAAAAATTACAT
43448900 TTTT-ACCCCCAAACTTCCTATCCATTTTTAACCTCAAAACTTT
131 TTTTGACCCCCAAACTTCCTATCCATTTTTAACCTCAAAACTTT
* **
43448943 CAAAAATTACATTTTTACCCCTAAACTTC-CAAAAATTCCATTTTTGACCTCAAAACTTCAAAAA
1 CAAAAATTACATTTTGACCCCTAAACTTCTCAAAAATAACATTTTTGACCTCAAAACTTC-AAAA
* * * * *
43449007 AATTACATTTTTACACTCGAACTTCTAAAAATCCCATTTTTGACCCCAAACTTCCAAAAATTCCA
65 AATTACATTTTTACACCCGAACTTCCAAAAATCCCAATTTTGACCCCAAAATTCCAAAAATTACA
*
43449072 TTTTTGACCCCGAAACTT
130 TTTTTGACCCCCAAACTT
43449090 TCAAAATTAC
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
171 26 0.20
172 58 0.46
173 32 0.25
174 11 0.09
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.34
Consensus pattern (174 bp):
CAAAAATTACATTTTGACCCCTAAACTTCTCAAAAATAACATTTTTGACCTCAAAACTTCAAAAA
ATTACATTTTTACACCCGAACTTCCAAAAATCCCAATTTTGACCCCAAAATTCCAAAAATTACAT
TTTTGACCCCCAAACTTCCTATCCATTTTTAACCTCAAAACTTT
Found at i:43449103 original size:59 final size:58
Alignment explanation
Indices: 43448763--43449105 Score: 281
Period size: 60 Copynumber: 5.9 Consensus size: 58
43448753 AGAGGTCCCT
** * * * ** **
43448763 AAACTATCCAAAAATTGTATTTTGACCCCTAAACTTCTCTAAAATAACATTTTTGACCTTA
1 AAACT-TCCAAAAATTACATTTTTACCCCGAAACTT-TCAAAAATTCCATTTTTGACC-CC
* * *
43448824 AAACTTCTAAAAATTACATTTTTACTCCCG-AACTTCCAAAAATT-CAATTTTGACCCC
1 AAACTTCCAAAAATTACATTTTTAC-CCCGAAACTTTCAAAAATTCCATTTTTGACCCC
* * * ** * *
43448881 AAAATTCTAAAAATTACATTTTTACCCCCAAAC-TTC--CTA-TCCATTTTTAACCTCA
1 AAACTTCCAAAAATTACATTTTTACCCCGAAACTTTCAAAAATTCCATTTTTGACC-CC
* * * *
43448936 AAACTTTCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTCA
1 AAACTTCCAAAAATTACATTTTTACCCCGAAACTTTCAAAAATTCCATTTTTGACC-CC
* * *
43448995 AAACTTCAAAAAAATTACATTTTTACACTCG-AAC-TTCTAAAAATCCCATTTTTGACCCC
1 AAACTTC-CAAAAATTACATTTTTAC-CCCGAAACTTTC-AAAAATTCCATTTTTGACCCC
*
43449054 AAACTTCCAAAAATTCCATTTTTGACCCCGAAACTTTC-AAAATTACCATTTT
1 AAACTTCCAAAAATTACATTTTT-ACCCCGAAACTTTCAAAAATT-CCATTTT
43449106 ACCCCTAGAG
Statistics
Matches: 229, Mismatches: 38, Indels: 32
0.77 0.13 0.11
Matches are distributed among these distances:
53 1 0.00
54 10 0.04
55 30 0.13
56 7 0.03
57 27 0.12
58 33 0.14
59 49 0.21
60 62 0.27
61 10 0.04
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (58 bp):
AAACTTCCAAAAATTACATTTTTACCCCGAAACTTTCAAAAATTCCATTTTTGACCCC
Found at i:43449179 original size:59 final size:58
Alignment explanation
Indices: 43449059--43449193 Score: 164
Period size: 59 Copynumber: 2.3 Consensus size: 58
43449049 ACCCCAAACT
* *
43449059 TCCAAAAATTCCATTTTTGACCCCGAAACTTTCAAAATTACCATTTTACCCCTAGAGG
1 TCCAAAAATTCCATTTTTGACCCCGAAACTTTCAAAATTACCATTTTACCCCGAGACG
* * * ** *
43449117 TCCAAAAACTCCATTTTTTACCTCGTGACTTTCAAAAATTATCATTTTACCCTCGA-ACG
1 TCCAAAAATTCCATTTTTGACCCCGAAACTTTC-AAAATTACCATTTTACCC-CGAGACG
*
43449176 TCCAAAAATTCCGTTTTT
1 TCCAAAAATTCCATTTTT
43449194 AATCCCGATT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 28 0.43
59 35 0.54
60 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (58 bp):
TCCAAAAATTCCATTTTTGACCCCGAAACTTTCAAAATTACCATTTTACCCCGAGACG
Found at i:43450471 original size:25 final size:25
Alignment explanation
Indices: 43450442--43450496 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
43450432 CCATGGCAGT
* *
43450442 GGTGGTGGCAGAGTAGGTTGAAGCG
1 GGTGGTGGCAGAGCAAGTTGAAGCG
* *
43450467 GGTGGTGGCAGTGCAAGTTGAAGCT
1 GGTGGTGGCAGAGCAAGTTGAAGCG
43450492 GGTGG
1 GGTGG
43450497 CACTGTTGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.18, C:0.09, G:0.51, T:0.22
Consensus pattern (25 bp):
GGTGGTGGCAGAGCAAGTTGAAGCG
Found at i:43450762 original size:17 final size:17
Alignment explanation
Indices: 43450728--43450820 Score: 107
Period size: 17 Copynumber: 5.5 Consensus size: 17
43450718 GACTTTTATT
* *
43450728 TTTAAATTTATAAT-AA
1 TTTAAAATTAAAATAAA
43450744 TTTAAAATTAAAATAAA
1 TTTAAAATTAAAATAAA
*
43450761 TTTAAACTTAAAATAAA
1 TTTAAAATTAAAATAAA
* *
43450778 TTTAAATTTTAAAACAAA
1 TTTAAA-ATTAAAATAAA
**
43450796 TTTAATCTTAAAATAAA
1 TTTAAAATTAAAATAAA
43450813 TTTAAAAT
1 TTTAAAAT
43450821 GGGTTTGGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
16 12 0.18
17 39 0.60
18 14 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAAATTAAAATAAA
Found at i:43450797 original size:35 final size:34
Alignment explanation
Indices: 43450728--43450820 Score: 125
Period size: 35 Copynumber: 2.7 Consensus size: 34
43450718 GACTTTTATT
* * *
43450728 TTTAAATTTATAAT-AATTTAAAATTAAAATAAA
1 TTTAAACTTAAAATAAATTTAAAATTAAAACAAA
*
43450761 TTTAAACTTAAAATAAATTTAAATTTTAAAACAAA
1 TTTAAACTTAAAATAAATTTAAA-ATTAAAACAAA
*
43450796 TTTAATCTTAAAATAAATTTAAAAT
1 TTTAAACTTAAAATAAATTTAAAAT
43450821 GGGTTTGGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
33 12 0.23
34 9 0.17
35 31 0.60
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (34 bp):
TTTAAACTTAAAATAAATTTAAAATTAAAACAAA
Found at i:43455322 original size:17 final size:17
Alignment explanation
Indices: 43455287--43455319 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
43455277 GGACATCGAG
43455287 GGTAAAATGGTAATTTT
1 GGTAAAATGGTAATTTT
43455304 GGTAAAAT-GTAATTTT
1 GGTAAAATGGTAATTTT
43455320 TGGGGGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.42
Consensus pattern (17 bp):
GGTAAAATGGTAATTTT
Found at i:43455328 original size:21 final size:22
Alignment explanation
Indices: 43455286--43455344 Score: 76
Period size: 17 Copynumber: 3.0 Consensus size: 22
43455276 GGGACATCGA
43455286 GGGTAAAATGGTAA-TTTT---
1 GGGTAAAATGGTAATTTTTGGG
43455304 -GGTAAAAT-GTAATTTTTGGG
1 GGGTAAAATGGTAATTTTTGGG
43455324 GGGTAAAATGGTAATTTTTGG
1 GGGTAAAATGGTAATTTTTGG
43455345 ACATCTGGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.11
17 12 0.34
21 8 0.23
22 11 0.31
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.39
Consensus pattern (22 bp):
GGGTAAAATGGTAATTTTTGGG
Found at i:43455358 original size:29 final size:29
Alignment explanation
Indices: 43455323--43455400 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
43455313 TAATTTTTGG
* *
43455323 GGGGTAAAATGGTAATTTTTGGACA-TCT
1 GGGGTAAAATGGTAATTTTTGAAAAGTCT
*
43455351 GGGAGTAAAATGGTAATTTTTGAAAAGTTT
1 GGG-GTAAAATGGTAATTTTTGAAAAGTCT
43455381 GGGGTCAAAATGGTAATTTT
1 GGGGT-AAAATGGTAATTTT
43455401 GGTCACGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 3 0.07
29 22 0.50
30 19 0.43
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTTGAAAAGTCT
Found at i:43456097 original size:23 final size:25
Alignment explanation
Indices: 43456050--43456098 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
43456040 GGTGGCAACT
43456050 CCCAGTTTTTTCGATCATTTAAAATA
1 CCCAGTTTTTTCGAT-ATTTAAAATA
*
43456076 CCCA-TTTTTTCGAT-TTTCAAATA
1 CCCAGTTTTTTCGATATTTAAAATA
43456099 TTGTTCGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
25 10 0.45
26 4 0.18
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (25 bp):
CCCAGTTTTTTCGATATTTAAAATA
Done.