Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 141 of 276
Found at i:45969619 original size:42 final size:42
Alignment explanation
Indices: 45969571--45969666 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
45969561 TAAGAGTACA
*
45969571 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTTG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCG
* * *
45969613 TGTAAGACCAAATTTGGGATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCG
*
45969655 CGTAAGACCATA
1 TGTAAGACCATA
45969667 GCTATAACAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCG
Found at i:45971520 original size:20 final size:20
Alignment explanation
Indices: 45971497--45971539 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
45971487 AATCTAAAGA
45971497 TAATTCATCCAAAAATATGC
1 TAATTCATCCAAAAATATGC
45971517 TAATTCATCCAAAAATATGC
1 TAATTCATCCAAAAATATGC
45971537 TAA
1 TAA
45971540 GCATGGGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (20 bp):
TAATTCATCCAAAAATATGC
Found at i:45972937 original size:15 final size:15
Alignment explanation
Indices: 45972918--45972957 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
45972908 ATGAGTCTTC
*
45972918 AAAAATAAATAGAAAT
1 AAAAATAAAGA-AAAT
*
45972934 AAAAGTAAAGAAAAT
1 AAAAATAAAGAAAAT
45972949 AAAAATAAA
1 AAAAATAAA
45972958 ATGAGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (15 bp):
AAAAATAAAGAAAAT
Found at i:45975623 original size:16 final size:16
Alignment explanation
Indices: 45975602--45975634 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45975592 TTGTAACGCC
45975602 CCAAAAATCCCAAAAT
1 CCAAAAATCCCAAAAT
*
45975618 CCAAAAATCCCGAAAT
1 CCAAAAATCCCAAAAT
45975634 C
1 C
45975635 ATGAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.33, G:0.03, T:0.12
Consensus pattern (16 bp):
CCAAAAATCCCAAAAT
Found at i:45976871 original size:8 final size:8
Alignment explanation
Indices: 45976858--45976900 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
45976848 GTAGATCGGT
45976858 AAAAGCCG
1 AAAAGCCG
45976866 AAAAGCCG
1 AAAAGCCG
*
45976874 AAATGCCG
1 AAAAGCCG
45976882 AAAAGCCG
1 AAAAGCCG
*
45976890 AAAAGCTG
1 AAAAGCCG
45976898 AAA
1 AAA
45976901 GTTTAGCTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.51, C:0.21, G:0.23, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:45977177 original size:29 final size:29
Alignment explanation
Indices: 45977133--45977243 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 29
45977123 TTTGGGTCGG
*
45977133 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTGATGGGCCATATGAATGTGAA
* *
45977162 TTGGGCCTGATAGGCCATACGAATGTGAA
1 TTGGGCCTGATGGGCCATATGAATGTGAA
* * * *
45977191 TTGGGTCGGATGGGCCATATAAATGAG-A
1 TTGGGCCTGATGGGCCATATGAATGTGAA
*
45977219 -TGGGCCT-AGTGGGCCATATGCATGT
1 TTGGGCCTGA-TGGGCCATATGAATGT
45977244 ATGTGGGGGT
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 18 0.27
28 1 0.01
29 47 0.70
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATGAATGTGAA
Found at i:45979890 original size:16 final size:16
Alignment explanation
Indices: 45979869--45979899 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45979859 GTAACGCCCT
45979869 AAAAATCTCGAAATCC
1 AAAAATCTCGAAATCC
*
45979885 AAAAATTTCGAAATC
1 AAAAATCTCGAAATC
45979900 TTGAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAAATCTCGAAATCC
Found at i:45981436 original size:29 final size:29
Alignment explanation
Indices: 45981360--45981499 Score: 162
Period size: 29 Copynumber: 4.9 Consensus size: 29
45981350 CTTGAACGTT
* **
45981360 ATGTGATTTGGGCCTGTTGGGCCATATAA
1 ATGTGAATTGGGCCTAATGGGCCATATAA
* *
45981389 ATGAG-ATTGGGCCTAATGGGCCATATGA
1 ATGTGAATTGGGCCTAATGGGCCATATAA
* *
45981417 ATGTGAATTGGGCCTGATGGGCCATATGA
1 ATGTGAATTGGGCCTAATGGGCCATATAA
*
45981446 ATGTGAATCGGGCCTAATGGGCCATATAA
1 ATGTGAATTGGGCCTAATGGGCCATATAA
*
45981475 ATGAG-A-TGGGCC-AAGTGGGCCATAT
1 ATGTGAATTGGGCCTAA-TGGGCCATAT
45981500 GCATGTATGT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
26 2 0.02
27 15 0.15
28 24 0.25
29 56 0.58
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
ATGTGAATTGGGCCTAATGGGCCATATAA
Found at i:45990120 original size:40 final size:40
Alignment explanation
Indices: 45990076--45990169 Score: 125
Period size: 40 Copynumber: 2.4 Consensus size: 40
45990066 CGGTTATTTG
*
45990076 TGGCACTTAGTGTGCGATTCGACATAACTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAACTTCAGCTATATA
* * * *
45990116 TGGCACTTAGTGTGCGATTTGAGATAGCTTCAGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAACTTCAGCTATATA
* *
45990156 CGACACTTAGTGTG
1 TGGCACTTAGTGTG
45990170 TGAGATATCG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAACTTCAGCTATATA
Found at i:45991519 original size:20 final size:21
Alignment explanation
Indices: 45991484--45991522 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
45991474 TAGCAGATAT
*
45991484 AAATTAAAATAATAAAAACCC
1 AAATTAAAAGAATAAAAACCC
45991505 AAATT-AAAGAATAAAAAC
1 AAATTAAAAGAATAAAAAC
45991523 TTAAAGAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (21 bp):
AAATTAAAAGAATAAAAACCC
Found at i:45996105 original size:28 final size:28
Alignment explanation
Indices: 45996071--45996274 Score: 255
Period size: 28 Copynumber: 7.3 Consensus size: 28
45996061 TGGGAAGTAG
*
45996071 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
45996099 TCGGGCCTGATGGGCCATAAGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
45996127 TCGAGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
** * *
45996155 TAAGGCTTGATGAGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
45996183 TTGGGCCTAATGGGCCATATGAATATGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
45996211 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
45996239 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
45996267 TTGGGCCT
1 TTGGGCCT
45996275 AAAGAGGCCA
Statistics
Matches: 155, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 155 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:45996620 original size:27 final size:27
Alignment explanation
Indices: 45996590--45996770 Score: 229
Period size: 27 Copynumber: 6.7 Consensus size: 27
45996580 ATAATAAAGA
** *
45996590 AAAATTACTAAAATACCCCT-GGTTTGT
1 AAAATTACCGAAATA-CCCTCGATTTGT
* *
45996617 AAAATTACTGAAATACCCTCGGTTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* *
45996644 AAAATTACTGAAACACCCTCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* *
45996671 AAAATTACCGAAATACCTTCAATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* *
45996698 AAAATTACCGAAATACTCTTGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
*
45996725 AAAATTACCGAAACACCCTCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
*
45996752 AAAATTATCGAAATACCCT
1 AAAATTACCGAAATACCCT
45996771 TGTAGTGTAA
Statistics
Matches: 137, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
26 4 0.03
27 133 0.97
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGATTTGT
Found at i:45996725 original size:81 final size:81
Alignment explanation
Indices: 45996612--45996768 Score: 260
Period size: 81 Copynumber: 1.9 Consensus size: 81
45996602 ATACCCCTGG
* * *
45996612 TTTGTAAAATTACTGAAATACCCTCGGTTTGTAAAATTACTGAAACACCCTCGATTTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATT
45996677 ACCGAAATACCTTCAA
66 ACCGAAATACCTTCAA
* *
45996693 TTTGTAAAATTACCGAAATACTCTTGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATT
*
45996758 ATCGAAATACC
66 ACCGAAATACC
45996769 CTTGTAGTGT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (81 bp):
TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATT
ACCGAAATACCTTCAA
Found at i:45996808 original size:81 final size:81
Alignment explanation
Indices: 45996642--45996810 Score: 198
Period size: 81 Copynumber: 2.1 Consensus size: 81
45996632 CCCTCGGTTT
* * *
45996642 GTAAAATTACTGAAACACCCTCGATTTGTAAAATTACCGAAATACCTTCAATTTGTAAAATTACC
1 GTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAATACCTTCAATGTGTAAAATGACC
* * **
45996707 GAAATACTCTTGATTT
66 GAAATACCCCTGATCG
* ** *
45996723 GTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTGTA-GTGTAAAATGGC
1 GTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAATA-CCTTCAATGTGTAAAATGAC
*
45996787 CGACATACCCCTG-TACG
65 CGAAATACCCCTGAT-CG
45996804 GTAAAAT
1 GTAAAAT
45996811 GATTGTTTCG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 68 0.92
82 5 0.07
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (81 bp):
GTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAATACCTTCAATGTGTAAAATGACC
GAAATACCCCTGATCG
Found at i:45999722 original size:458 final size:458
Alignment explanation
Indices: 45998865--45999784 Score: 1813
Period size: 458 Copynumber: 2.0 Consensus size: 458
45998855 TGGCCCTGAG
*
45998865 AAGTGTTGAAGAAACCTTGATTCAAACCTGGGTTTTAGCAAAAATTTTGGTAATCAGTGAATAAA
1 AAGTGTTGAAGAAACCTTGATTCAAACCTGGGTTTTAGCAAAAATTTTGATAATCAGTGAATAAA
45998930 ACCCTGGGTGCTTGGATGAAGGCCTTTTAAATTATTGTGGTAAATAAATGACACAAGGAAGCATG
66 ACCCTGGGTGCTTGGATGAAGGCCTTTTAAATTATTGTGGTAAATAAATGACACAAGGAAGCATG
*
45998995 TGGTCTAGTGGTTGTGGCGTCATTAAGGTTGTAAAGGAGCCTGGGTTCAAGTCTTGGCTCTTGCA
131 TGGTCTAGTGGTTGTGGCGGCATTAAGGTTGTAAAGGAGCCTGGGTTCAAGTCTTGGCTCTTGCA
45999060 ATTTATTTTGTTTTTTCTTTTAAAAGAACCTAGACTTTGGCCTATAGATTTTATATTTAATTGAG
196 ATTTATTTTGTTTTTTCTTTTAAAAGAACCTAGACTTTGGCCTATAGATTTTATATTTAATTGAG
45999125 GATAAAATATGACACAGAAAGAGCCTGTGGTGGAGTGGCAAGGTGGTGTGTTGTGTAACTGTGAG
261 GATAAAATATGACACAGAAAGAGCCTGTGGTGGAGTGGCAAGGTGGTGTGTTGTGTAACTGTGAG
45999190 GTCTAAGGTTTAAGTCTTGGGATGCGCAATAGAGTATTTATTTTTCTGTTTGAGCTGTGTAAGAG
326 GTCTAAGGTTTAAGTCTTGGGATGCGCAATAGAGTATTTATTTTTCTGTTTGAGCTGTGTAAGAG
45999255 GTGGAGTTGGACTGGAACTCTAGGGTTGAGGTGATCATAAGAAAATAAGAAATTTTCCTAATGGT
391 GTGGAGTTGGACTGGAACTCTAGGGTTGAGGTGATCATAAGAAAATAAGAAATTTTCCTAATGGT
45999320 TCA
456 TCA
45999323 AAGTGTTGAAGAAACCTTGATTCAAACCTGGGTTTTAGCAAAAATTTTGATAATCAGTGAATAAA
1 AAGTGTTGAAGAAACCTTGATTCAAACCTGGGTTTTAGCAAAAATTTTGATAATCAGTGAATAAA
45999388 ACCCTGGGTGCTTGGATGAAGGCCTTTTAAATTATTGTGGTAAATAAATGACACAAGGAAGCATG
66 ACCCTGGGTGCTTGGATGAAGGCCTTTTAAATTATTGTGGTAAATAAATGACACAAGGAAGCATG
45999453 TGGTCTAGTGGTTGTGGCGGCATTAAGGTTGTAAAGGAGCCTGGGTTCAAGTCTTGGCTCTTGCA
131 TGGTCTAGTGGTTGTGGCGGCATTAAGGTTGTAAAGGAGCCTGGGTTCAAGTCTTGGCTCTTGCA
45999518 ATTTATTTTGTTTTTTCTTTTAAAAGAACCTAGACTTTGGCCTATAGATTTTATATTTAATTGAG
196 ATTTATTTTGTTTTTTCTTTTAAAAGAACCTAGACTTTGGCCTATAGATTTTATATTTAATTGAG
45999583 GATAAAATATGACACAGAAAGAGCCTGTGGTGGAGTGGCAAGGTGGTGTGTTGTGTAACTGTGAG
261 GATAAAATATGACACAGAAAGAGCCTGTGGTGGAGTGGCAAGGTGGTGTGTTGTGTAACTGTGAG
*
45999648 GTCTAAGGTTTAAGTCTTGGGATGCGCAATAGAGTATTTATTTTTCTGTTTGAGCTGTGTAGGAG
326 GTCTAAGGTTTAAGTCTTGGGATGCGCAATAGAGTATTTATTTTTCTGTTTGAGCTGTGTAAGAG
45999713 GTGGAGTTGGACTGGAACTCTAGGGTTGAGGTGATCATAAGAAAATAAGAAATTTTCCTAATGGT
391 GTGGAGTTGGACTGGAACTCTAGGGTTGAGGTGATCATAAGAAAATAAGAAATTTTCCTAATGGT
45999778 TCA
456 TCA
45999781 AAGT
1 AAGT
45999785 AATCCCACAT
Statistics
Matches: 459, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
458 459 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.34
Consensus pattern (458 bp):
AAGTGTTGAAGAAACCTTGATTCAAACCTGGGTTTTAGCAAAAATTTTGATAATCAGTGAATAAA
ACCCTGGGTGCTTGGATGAAGGCCTTTTAAATTATTGTGGTAAATAAATGACACAAGGAAGCATG
TGGTCTAGTGGTTGTGGCGGCATTAAGGTTGTAAAGGAGCCTGGGTTCAAGTCTTGGCTCTTGCA
ATTTATTTTGTTTTTTCTTTTAAAAGAACCTAGACTTTGGCCTATAGATTTTATATTTAATTGAG
GATAAAATATGACACAGAAAGAGCCTGTGGTGGAGTGGCAAGGTGGTGTGTTGTGTAACTGTGAG
GTCTAAGGTTTAAGTCTTGGGATGCGCAATAGAGTATTTATTTTTCTGTTTGAGCTGTGTAAGAG
GTGGAGTTGGACTGGAACTCTAGGGTTGAGGTGATCATAAGAAAATAAGAAATTTTCCTAATGGT
TCA
Found at i:46000145 original size:55 final size:56
Alignment explanation
Indices: 46000080--46000211 Score: 185
Period size: 55 Copynumber: 2.4 Consensus size: 56
46000070 TGGGAAAGTT
* *
46000080 GGGCCTGATGGGCTATATGAATCTGATCAGGCCTAATGAGCTATATGAATGTGATC
1 GGGCCTGATGGGCCATATGAATCTGATCAGGCCTAATGAGCGATATGAATGTGATC
* * * * *
46000136 GGG-CTGATGGGCCATATGAATGTGATCGGGCCTGATGGGCGATATGAATGTGATT
1 GGGCCTGATGGGCCATATGAATCTGATCAGGCCTAATGAGCGATATGAATGTGATC
*
46000191 GGGCCTGATGGGCCATGTGAA
1 GGGCCTGATGGGCCATATGAA
46000212 CGAGATTGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 48 0.72
56 19 0.28
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (56 bp):
GGGCCTGATGGGCCATATGAATCTGATCAGGCCTAATGAGCGATATGAATGTGATC
Found at i:46000211 original size:28 final size:28
Alignment explanation
Indices: 46000080--46000211 Score: 176
Period size: 28 Copynumber: 4.8 Consensus size: 28
46000070 TGGGAAAGTT
* *
46000080 GGGCCTGATGGGCTATATGAATCTGATC
1 GGGCCTGATGGGCCATATGAATGTGATC
* * * *
46000108 AGGCCTAATGAGCTATATGAATGTGATC
1 GGGCCTGATGGGCCATATGAATGTGATC
46000136 GGG-CTGATGGGCCATATGAATGTGATC
1 GGGCCTGATGGGCCATATGAATGTGATC
* *
46000163 GGGCCTGATGGGCGATATGAATGTGATT
1 GGGCCTGATGGGCCATATGAATGTGATC
*
46000191 GGGCCTGATGGGCCATGTGAA
1 GGGCCTGATGGGCCATATGAA
46000212 CGAGATTGGG
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 24 0.26
28 67 0.74
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (28 bp):
GGGCCTGATGGGCCATATGAATGTGATC
Found at i:46000218 original size:28 final size:28
Alignment explanation
Indices: 46000078--46000224 Score: 170
Period size: 28 Copynumber: 5.3 Consensus size: 28
46000068 GGTGGGAAAG
* *
46000078 TTGGGCCTGATGGGCTATATGAATCTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
** * * *
46000106 TCAGGCCTAATGAGCTATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
46000134 TCGGG-CTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
46000161 TCGGGCCTGATGGGCGATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
46000189 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
46000217 TTGGGCCT
1 TTGGGCCT
46000225 AAAGGGGCCA
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 24 0.23
28 79 0.77
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:46000572 original size:27 final size:27
Alignment explanation
Indices: 46000541--46000760 Score: 235
Period size: 27 Copynumber: 8.1 Consensus size: 27
46000531 TAATAAAGAG
46000541 AAATTACCGAAATAACCC-CAATTTGTA
1 AAATTACCGAAAT-ACCCTCAATTTGTA
* *
46000568 AAATTATCGAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
*
46000595 AAATTACCGAAATACCCTCATTTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
* * ** *
46000622 AAATTACTGAAATACCATCGGTTTGCA
1 AAATTACCGAAATACCCTCAATTTGTA
* * *
46000649 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
* ** * *
46000676 AATTTACTAAAATACCTTCAATTTATA
1 AAATTACCGAAATACCCTCAATTTGTA
** *
46000703 AAATTACCGAAATATTCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
* *
46000730 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
46000757 AAAT
1 AAAT
46000761 AAACACCCTT
Statistics
Matches: 161, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 4 0.02
27 157 0.98
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCAATTTGTA
Found at i:46000767 original size:22 final size:22
Alignment explanation
Indices: 46000739--46000782 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
46000729 AAAATTACCG
*
46000739 AAACACCCTCGATTTGTAAAAT
1 AAACACCCTCAATTTGTAAAAT
*
46000761 AAACACCCTTAATTTGTAAAAT
1 AAACACCCTCAATTTGTAAAAT
46000783 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACACCCTCAATTTGTAAAAT
Found at i:46001417 original size:27 final size:27
Alignment explanation
Indices: 46001350--46001417 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
46001340 TGAGGCGAAG
* * *
46001350 ATGGG-TTAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
46001376 ATGGGCTATGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
46001403 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
46001418 CATATGTTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 5 0.15
27 27 0.82
28 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:46002684 original size:25 final size:25
Alignment explanation
Indices: 46002656--46002707 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
46002646 TTTGACTTGA
**
46002656 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
46002681 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
46002706 CA
1 CA
46002708 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:46007081 original size:72 final size:72
Alignment explanation
Indices: 46006984--46007141 Score: 284
Period size: 72 Copynumber: 2.2 Consensus size: 72
46006974 TTATGGGTGG
*
46006984 TGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
46007049 GAGGGGT
66 GAGGGGT
46007056 TGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCC
1 TGCTAAGTGCG-TGATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCC
46007120 CGAGGGGT
65 CGAGGGGT
46007128 TGCTAAGTGC-TGAT
1 TGCTAAGTGCGTGAT
46007142 TCCCCGGTTC
Statistics
Matches: 83, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
70 1 0.01
71 2 0.02
72 79 0.95
73 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:46007240 original size:176 final size:176
Alignment explanation
Indices: 46006946--46007313 Score: 666
Period size: 176 Copynumber: 2.1 Consensus size: 176
46006936 TGTATATAAA
** * *
46006946 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
46007011 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCGATATCCACC
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCGATATCCACC
46007076 ATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
131 ATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
46007122 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
46007186 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCGATATCCAC
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCGATATCCAC
46007251 CATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
130 CATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
46007298 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
46007314 GATATCCATT
Statistics
Matches: 185, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
176 184 0.99
177 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (176 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCGATATCCACC
ATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:46007254 original size:72 final size:72
Alignment explanation
Indices: 46007160--46007383 Score: 387
Period size: 72 Copynumber: 3.1 Consensus size: 72
46007150 TCATTGGTGG
46007160 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
46007225 GAGGGGT
66 GAGGGGT
46007232 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
46007297 GAGGGGT
66 GAGGGGT
*** * * *
46007304 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTTCCCC
1 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
46007368 GAGGGGT
66 GAGGGGT
46007375 TGCTAAGTG
1 TGCTAAGTG
46007384 ATGATTCCCC
Statistics
Matches: 146, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 44 0.30
72 102 0.70
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:46007388 original size:27 final size:26
Alignment explanation
Indices: 46007343--46007395 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
46007333 AAATGAAAAG
* *
46007343 GGGGTTGCTATGTGCTGATTTCCCCGA
1 GGGGTTGCTAAGTGATGA-TTCCCCGA
46007370 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
46007396 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:46008889 original size:22 final size:24
Alignment explanation
Indices: 46008852--46008896 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
46008842 TGAGAATGTC
*
46008852 TAGAAATTAAATAATT-AAGAGAG
1 TAGAAATTAAACAATTAAAGAGAG
46008875 TAGAAA-TAAACAATTAAAGAGA
1 TAGAAATTAAACAATTAAAGAGA
46008897 TCAAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.60, C:0.02, G:0.16, T:0.22
Consensus pattern (24 bp):
TAGAAATTAAACAATTAAAGAGAG
Found at i:46013559 original size:168 final size:168
Alignment explanation
Indices: 46013281--46013613 Score: 549
Period size: 168 Copynumber: 2.0 Consensus size: 168
46013271 GAAATCACCA
*
46013281 AATCTTTATTCTGAGTAGACAGCAACGCCTCAGCAATGAGTAATATGATCTACTATCGAACCAAG
1 AATCTTTATTCTGAGTAGACAGCAACGCCTCAGCAACGAGTAATATGATCTACTATCGAACCAAG
* * ** *
46013346 CTGCAATCTATCATGATTCTTGCCTCTACGTAATCCACCCAGTTGACAATGAATGGAAGGAATCC
66 CCGCAATCTATCATGACTCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGGAATCC
*
46013411 CCAAAACTATTTTTGGAAAAGACTTTGCTTTGACGATG
131 CCAAAACTATTTTTGGAAAAAACTTTGCTTTGACGATG
* * *
46013449 AATCTTTATTCTGAGTAGGCAGCAACGCCTTAGCAACGAGTAATCTGATCTACTATCGAACCAAG
1 AATCTTTATTCTGAGTAGACAGCAACGCCTCAGCAACGAGTAATATGATCTACTATCGAACCAAG
* *
46013514 CCGCAATCTCTCGTGACTCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGGAATCC
66 CCGCAATCTATCATGACTCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGGAATCC
*
46013579 CCAAAACTTTTTTTGGAAAAAACTTTGCTTTGACG
131 CCAAAACTATTTTTGGAAAAAACTTTGCTTTGACG
46013614 GCTGCTAGAC
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
168 152 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (168 bp):
AATCTTTATTCTGAGTAGACAGCAACGCCTCAGCAACGAGTAATATGATCTACTATCGAACCAAG
CCGCAATCTATCATGACTCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGGAATCC
CCAAAACTATTTTTGGAAAAAACTTTGCTTTGACGATG
Found at i:46017963 original size:17 final size:18
Alignment explanation
Indices: 46017937--46017970 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
46017927 ATAAAGTGTA
46017937 TATAATAAAATTAAAATG
1 TATAATAAAATTAAAATG
46017955 TATAA-AAAATTAAAAT
1 TATAATAAAATTAAAAT
46017971 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
TATAATAAAATTAAAATG
Found at i:46023626 original size:21 final size:21
Alignment explanation
Indices: 46023602--46023641 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46023592 CTTAATGATT
* *
46023602 TAATTGCAATAAATTAAATAA
1 TAATTGAAAGAAATTAAATAA
*
46023623 TAATTTAAAGAAATTAAAT
1 TAATTGAAAGAAATTAAAT
46023642 TTATTTCTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (21 bp):
TAATTGAAAGAAATTAAATAA
Found at i:46027799 original size:30 final size:29
Alignment explanation
Indices: 46027761--46027888 Score: 103
Period size: 29 Copynumber: 4.3 Consensus size: 29
46027751 ACAAAATTAG
* *
46027761 CCACAAAGGCTCACATATAATAGATAACAT
1 CCACAAAGGCTCACATATAACAGAT-ACAA
* * *
46027791 CTACAAAGGCTTCCACATATAACAGATTCAG
1 CCACAAAGGC-T-CACATATAACAGATACAA
* * * * * *
46027822 TCATAAAGCCTCGCATATAATAGATTCAA
1 CCACAAAGGCTCACATATAACAGATACAA
* *
46027851 CCACAAAGGCTCATATATAACAGAGAACAA
1 CCACAAAGGCTCACATATAACAGA-TACAA
46027881 CCACAAAG
1 CCACAAAG
46027889 ACATCACTTT
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
29 33 0.43
30 21 0.28
31 9 0.12
32 13 0.17
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.20
Consensus pattern (29 bp):
CCACAAAGGCTCACATATAACAGATACAA
Found at i:46028081 original size:54 final size:54
Alignment explanation
Indices: 46028015--46028158 Score: 189
Period size: 54 Copynumber: 2.7 Consensus size: 54
46028005 ATGACGCCAA
* * * *
46028015 AGTCCCAGACTAGGTCTTGCACTACGTGGTCTTCACATCCTTATATAACACCAT
1 AGTCCCAGACTAGGTTTTACACTATGTGGTCTTCACATCCTCATATAACACCAT
* * * * *
46028069 AGTCCCAAACTAGGTTTTACACTATGTGATTTTCACATCCTCATATGACGCCAT
1 AGTCCCAGACTAGGTTTTACACTATGTGGTCTTCACATCCTCATATAACACCAT
* *
46028123 AGTCCTAGACTAGGTTTTACACTATATGGTCTTCAC
1 AGTCCCAGACTAGGTTTTACACTATGTGGTCTTCAC
46028159 TTGTCATGGC
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (54 bp):
AGTCCCAGACTAGGTTTTACACTATGTGGTCTTCACATCCTCATATAACACCAT
Found at i:46032249 original size:62 final size:59
Alignment explanation
Indices: 46032144--46032441 Score: 226
Period size: 62 Copynumber: 4.9 Consensus size: 59
46032134 CAAAGGCTTC
** * * * * *
46032144 CACATATAACAGATTCAGCC-ACAAAGATTCACATATAATAGATTTAGCCACAAATGCT
1 CACATATAACAGAAACAACCAAAAAAGCTTCACATATAACAGATTCAGCCACAAATGCT
*
46032202 CACATATAACAGAGAACAACCAAAAAAAGCTTCCACATATAACAGATTCAGCCACAAA-GATT
1 CACATATAACAGA-AACAACC-AAAAAAGCTT-CACATATAACAGATTCAGCCACAAATG-CT
* *** * * * ** * * *
46032264 CACATATAATAGATTTAGCCACAAATGC-TCACATATAACAGAGAACAACCAAAAAAAGCTT
1 CACATATAACAGAAACAACCAAAAAAGCTTCACATATAACAGA-TTCAGCC-ACAAATGC-T
** * * * * *
46032325 CCACATATAACAGATTCAGCC-ACAAAGATTCACATATAATAGATTTAGCCACAAATGCT
1 -CACATATAACAGAAACAACCAAAAAAGCTTCACATATAACAGATTCAGCCACAAATGCT
46032384 CACATATAACAGAGAACAACCAAAAAAAGCTTCCACATATAACAGATTCAGCCACAAA
1 CACATATAACAGA-AACAACC-AAAAAAGCTT-CACATATAACAGATTCAGCCACAAA
46032442 GGTGTACATA
Statistics
Matches: 185, Mismatches: 40, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
58 39 0.21
59 14 0.08
60 16 0.09
61 26 0.14
62 90 0.49
ACGTcount: A:0.47, C:0.23, G:0.10, T:0.19
Consensus pattern (59 bp):
CACATATAACAGAAACAACCAAAAAAGCTTCACATATAACAGATTCAGCCACAAATGCT
Found at i:46032255 original size:91 final size:91
Alignment explanation
Indices: 46032100--46032458 Score: 632
Period size: 91 Copynumber: 3.9 Consensus size: 91
46032090 AAGAGAAAAA
* * * * *
46032100 CCACAAAAAGCTCACATATAATAGAGAACAATC-ACAAAGGCTTCCACATATAACAGATTCAGCC
1 CCAC-AAATGCTCACATATAACAGAGAACAACCAAAAAAAGCTTCCACATATAACAGATTCAGCC
46032164 ACAAAGATTCACATATAATAGATTTAG
65 ACAAAGATTCACATATAATAGATTTAG
46032191 CCACAAATGCTCACATATAACAGAGAACAACCAAAAAAAGCTTCCACATATAACAGATTCAGCCA
1 CCACAAATGCTCACATATAACAGAGAACAACCAAAAAAAGCTTCCACATATAACAGATTCAGCCA
46032256 CAAAGATTCACATATAATAGATTTAG
66 CAAAGATTCACATATAATAGATTTAG
46032282 CCACAAATGCTCACATATAACAGAGAACAACCAAAAAAAGCTTCCACATATAACAGATTCAGCCA
1 CCACAAATGCTCACATATAACAGAGAACAACCAAAAAAAGCTTCCACATATAACAGATTCAGCCA
46032347 CAAAGATTCACATATAATAGATTTAG
66 CAAAGATTCACATATAATAGATTTAG
46032373 CCACAAATGCTCACATATAACAGAGAACAACCAAAAAAAGCTTCCACATATAACAGATTCAGCCA
1 CCACAAATGCTCACATATAACAGAGAACAACCAAAAAAAGCTTCCACATATAACAGATTCAGCCA
*
46032438 CAAAGGTGT-ACATATAATAGA
66 CAAAGAT-TCACATATAATAGA
46032459 GAATAATCAC
Statistics
Matches: 260, Mismatches: 6, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
90 25 0.10
91 234 0.90
92 1 0.00
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (91 bp):
CCACAAATGCTCACATATAACAGAGAACAACCAAAAAAAGCTTCCACATATAACAGATTCAGCCA
CAAAGATTCACATATAATAGATTTAG
Found at i:46032452 original size:29 final size:28
Alignment explanation
Indices: 46032144--46032442 Score: 220
Period size: 29 Copynumber: 9.9 Consensus size: 28
46032134 CAAAGGCTTC
46032144 CACATATAACAGATTCAGCCACAAAGATT
1 CACATATAACAGATTCAGCCACAAAG-TT
* * *
46032173 CACATATAATAGATTTAGCCACAAATGCT
1 CACATATAACAGATTCAGCCACAAA-GTT
** * *
46032202 CACATATAACAGAGAACAACCAAAAAAAGCTT
1 CACATATAACAGA-TTCAGCC--ACAAAG-TT
46032234 CCACATATAACAGATTCAGCCACAAAGATT
1 -CACATATAACAGATTCAGCCACAAAG-TT
* * *
46032264 CACATATAATAGATTTAGCCACAAATGCT
1 CACATATAACAGATTCAGCCACAAA-GTT
** * *
46032293 CACATATAACAGAGAACAACCAAAAAAAGCTT
1 CACATATAACAGA-TTCAGCC--ACAAAG-TT
46032325 CCACATATAACAGATTCAGCCACAAAGATT
1 -CACATATAACAGATTCAGCCACAAAG-TT
* * *
46032355 CACATATAATAGATTTAGCCACAAATGCT
1 CACATATAACAGATTCAGCCACAAA-GTT
** * *
46032384 CACATATAACAGAGAACAACCAAAAAAAGCTT
1 CACATATAACAGA-TTCAGCC--ACAAAG-TT
46032416 CCACATATAACAGATTCAGCCACAAAG
1 -CACATATAACAGATTCAGCCACAAAG
46032443 GTGTACATAT
Statistics
Matches: 208, Mismatches: 44, Indels: 35
0.72 0.15 0.12
Matches are distributed among these distances:
29 108 0.52
30 31 0.15
31 3 0.01
32 27 0.13
33 39 0.19
ACGTcount: A:0.47, C:0.23, G:0.10, T:0.19
Consensus pattern (28 bp):
CACATATAACAGATTCAGCCACAAAGTT
Found at i:46036947 original size:19 final size:19
Alignment explanation
Indices: 46036923--46036960 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
46036913 AATTCCCCTC
46036923 TTTTAT-TTTTATAATTATT
1 TTTTATATTTT-TAATTATT
46036942 TTTTATATTTTTAATTATT
1 TTTTATATTTTTAATTATT
46036961 AAAAATCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATATTTTTAATTATT
Found at i:46045536 original size:49 final size:48
Alignment explanation
Indices: 46045457--46045553 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 48
46045447 CTAATTCTCA
*
46045457 GACATAGGGTAAGACATAAAAAATAAGATCTCTCTAACAGATTAAACT
1 GACATAGGGAAAGACATAAAAAATAAGATCTCTCTAACAGATTAAACT
** *
46045505 NGACATAGGGAAAGACATAAAATTTATGATCTCTCTAACAGATTAAACT
1 -GACATAGGGAAAGACATAAAAAATAAGATCTCTCTAACAGATTAAACT
46045554 TACTTCTTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.25
Consensus pattern (48 bp):
GACATAGGGAAAGACATAAAAAATAAGATCTCTCTAACAGATTAAACT
Found at i:46046627 original size:18 final size:18
Alignment explanation
Indices: 46046604--46046638 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46046594 ATTAGATGGC
*
46046604 GATGATGATGATGACAAT
1 GATGATAATGATGACAAT
*
46046622 GATGATAATGTTGACAA
1 GATGATAATGATGACAA
46046639 CAATTCACCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.29
Consensus pattern (18 bp):
GATGATAATGATGACAAT
Found at i:46049057 original size:18 final size:18
Alignment explanation
Indices: 46049034--46049078 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
46049024 CTGTTTTTGT
* *
46049034 TATGATTTTCTGTTGGGA
1 TATGATTTTCTATTGAGA
*
46049052 TATGATTTCCTATTGAGA
1 TATGATTTTCTATTGAGA
46049070 TATGATTTT
1 TATGATTTT
46049079 ATATAAAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (18 bp):
TATGATTTTCTATTGAGA
Found at i:46049996 original size:18 final size:18
Alignment explanation
Indices: 46049975--46050031 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
46049965 AGGCCATATA
*
46049975 CAGAAGAGGTTATCGTGG
1 CAGAGGAGGTTATCGTGG
*
46049993 CAGAGGTGGTTATCGTGG
1 CAGAGGAGGTTATCGTGG
*
46050011 TAGAGGAGG---TCGTGG
1 CAGAGGAGGTTATCGTGG
46050026 CAGAGG
1 CAGAGG
46050032 TAGAAGTGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 11 0.32
18 23 0.68
ACGTcount: A:0.23, C:0.11, G:0.46, T:0.21
Consensus pattern (18 bp):
CAGAGGAGGTTATCGTGG
Found at i:46051510 original size:26 final size:26
Alignment explanation
Indices: 46051481--46051530 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
46051471 GTAGGAATGT
*
46051481 TGTTTTTGATGAAAATACAAGCTGAG
1 TGTTTTTGACGAAAATACAAGCTGAG
*
46051507 TGTTTTTGACGAAAATGCAAGCTG
1 TGTTTTTGACGAAAATACAAGCTG
46051531 GGATTGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (26 bp):
TGTTTTTGACGAAAATACAAGCTGAG
Found at i:46053426 original size:18 final size:18
Alignment explanation
Indices: 46053405--46053459 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
46053395 CTGTTTTTGT
* *
46053405 TATGATTTTCTGTTGGGA
1 TATGATTTTCTATTGAGA
*
46053423 TATGATTTCCTATTGAGA
1 TATGATTTTCTATTGAGA
* *
46053441 TATGATTTTATATTAAGA
1 TATGATTTTCTATTGAGA
46053459 T
1 T
46053460 TTGTTGCTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.49
Consensus pattern (18 bp):
TATGATTTTCTATTGAGA
Found at i:46062859 original size:20 final size:20
Alignment explanation
Indices: 46062831--46062870 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46062821 TTGAGAAGGA
46062831 AAGAATGAAGGAAGAGTTAC
1 AAGAATGAAGGAAGAGTTAC
* *
46062851 AAGAGTGAAGGAGGAGTTAC
1 AAGAATGAAGGAAGAGTTAC
46062871 CGAGACAGTT
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:0.45, C:0.05, G:0.35, T:0.15
Consensus pattern (20 bp):
AAGAATGAAGGAAGAGTTAC
Found at i:46070502 original size:45 final size:45
Alignment explanation
Indices: 46070435--46070552 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 45
46070425 GTACTGGCGT
* * * * * *
46070435 GAAGTAGATCATAGATACCAGATCTTGTC-TCCCTGTACAGGTGGT
1 GAAGCAGATCAAAGAAAGCAGATCTTGTCTTCCC-ATACAGGTGGC
* * * * *
46070480 GGAGTAGATCGAAGAAAGCAGATCTTGCCTTCCCATACTGGTGGC
1 GAAGCAGATCAAAGAAAGCAGATCTTGTCTTCCCATACAGGTGGC
46070525 GAAGCAGATCAAAGAAAGCAGATCTTGT
1 GAAGCAGATCAAAGAAAGCAGATCTTGT
46070553 TTTCATGTGC
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
45 55 0.93
46 4 0.07
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (45 bp):
GAAGCAGATCAAAGAAAGCAGATCTTGTCTTCCCATACAGGTGGC
Found at i:46073326 original size:52 final size:52
Alignment explanation
Indices: 46073247--46074289 Score: 1876
Period size: 52 Copynumber: 20.2 Consensus size: 52
46073237 TACTTCTGAT
* **
46073247 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* * *
46073300 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073352 C------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073398 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073450 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073502 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073554 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073606 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073658 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073710 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073762 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073814 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073866 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073918 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46073970 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46074022 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46074074 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
46074126 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
46074178 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
** *
46074230 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
46074276 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
46074290 GCTACACTTA
Statistics
Matches: 963, Mismatches: 14, Indels: 26
0.96 0.01 0.03
Matches are distributed among these distances:
46 87 0.09
52 865 0.90
53 11 0.01
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:46074279 original size:46 final size:46
Alignment explanation
Indices: 46074185--46074289 Score: 183
Period size: 46 Copynumber: 2.3 Consensus size: 46
46074175 TGACAAGTGA
* *
46074185 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
*
46074231 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
46074277 AAAGTGATAAGTG
1 AAAGTGATAAGTG
46074290 GCTACACTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
Found at i:46074297 original size:37 final size:37
Alignment explanation
Indices: 46074253--46074358 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
46074243 GATAGCTTTA
46074253 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
46074290 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
46074327 GCTACACTTATCTGATC-AGGGAC-AAGTGATAA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAA
46074359 TTGATCATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 8 0.12
36 4 0.06
37 52 0.81
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:46075329 original size:34 final size:34
Alignment explanation
Indices: 46075286--46075352 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
46075276 CCACACCTCC
*
46075286 AGCAACCTCTCCAAACGTCGCACGACTCGGGGCT
1 AGCAACCTCTCCAAACGCCGCACGACTCGGGGCT
46075320 AGCAACCTCTCCAAACGCCGCACGACTCGGGGC
1 AGCAACCTCTCCAAACGCCGCACGACTCGGGGC
46075353 CGACTCTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.24, C:0.40, G:0.24, T:0.12
Consensus pattern (34 bp):
AGCAACCTCTCCAAACGCCGCACGACTCGGGGCT
Found at i:46079492 original size:34 final size:34
Alignment explanation
Indices: 46079447--46079513 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
46079437 GCCAAGTAAC
* *
46079447 CTTCAAGAACCTGCTTCAAAAGTCGTATAGAAAG
1 CTTCAACAACCTGATTCAAAAGTCGTATAGAAAG
46079481 CTTCAACAACCTGATTCAAAAGTCGTATAGAAA
1 CTTCAACAACCTGATTCAAAAGTCGTATAGAAA
46079514 ACCAAATGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (34 bp):
CTTCAACAACCTGATTCAAAAGTCGTATAGAAAG
Found at i:46089425 original size:43 final size:42
Alignment explanation
Indices: 46089279--46089440 Score: 128
Period size: 43 Copynumber: 3.8 Consensus size: 42
46089269 CATTACCGAG
* * * *
46089279 ATGTGATAACATGTAAGACCATGTCTGGGACATTGTCATTGT
1 ATGTGATAACATATAAGACCATGTCTGGGATATTGGCATCGT
* * * *
46089321 ACTGGGATTACGTATAAGACCATATCTGGGACT-TTGGCATCGTT
1 A-TGTGATAACATATAAGACCATGTCTGGGA-TATTGGCATCG-T
* ** * * *
46089365 ATATGATTTCGTATAAGACCCTGTCTGGGATAGTGGCATCGAT
1 ATGTGATAACATATAAGACCATGTCTGGGATATTGGCATCG-T
* * *
46089408 ATGTGATAACATGTAAGACCATATTTGGGATAT
1 ATGTGATAACATATAAGACCATGTCTGGGATAT
46089441 GACATTGTAC
Statistics
Matches: 92, Mismatches: 24, Indels: 7
0.75 0.20 0.06
Matches are distributed among these distances:
42 2 0.02
43 88 0.96
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (42 bp):
ATGTGATAACATATAAGACCATGTCTGGGATATTGGCATCGT
Found at i:46097322 original size:9 final size:9
Alignment explanation
Indices: 46097310--46097374 Score: 69
Period size: 9 Copynumber: 7.2 Consensus size: 9
46097300 TTTTGTTAAA
*
46097310 AATTACCCG
1 AATTAACCG
*
46097319 AATTAAACG
1 AATTAACCG
46097328 AATTAACCG
1 AATTAACCG
46097337 AATT-ACCTG
1 AATTAACC-G
*
46097346 AATTAACTG
1 AATTAACCG
* *
46097355 AATTATCCA
1 AATTAACCG
46097364 AATTAACCG
1 AATTAACCG
46097373 AA
1 AA
46097375 ATTGAATAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
8 3 0.07
9 40 0.89
10 2 0.04
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:46097340 original size:27 final size:27
Alignment explanation
Indices: 46097309--46097374 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
46097299 TTTTTGTTAA
46097309 AAATTACCCGAATTAAAC-GAATTAACC
1 AAATTACCCGAATT-AACTGAATTAACC
* * *
46097336 GAATTACCTGAATTAACTGAATTATCC
1 AAATTACCCGAATTAACTGAATTAACC
*
46097363 AAATTAACCGAA
1 AAATTACCCGAA
46097375 ATTGAATAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (27 bp):
AAATTACCCGAATTAACTGAATTAACC
Found at i:46097546 original size:18 final size:18
Alignment explanation
Indices: 46097523--46097566 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
46097513 AATTTTTATG
*
46097523 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
46097541 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
46097559 CTTGGGTT
1 ATTGGGTT
46097567 TGGATTGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.02, G:0.45, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:46098053 original size:14 final size:15
Alignment explanation
Indices: 46098028--46098058 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
46098018 TAATATTTAG
46098028 ATTTTTGATTATTAA
1 ATTTTTGATTATTAA
46098043 ATTTTTG-TTATTAA
1 ATTTTTGATTATTAA
46098057 AT
1 AT
46098059 ATTCTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTTTTGATTATTAA
Found at i:46101073 original size:96 final size:96
Alignment explanation
Indices: 46100957--46101151 Score: 354
Period size: 96 Copynumber: 2.0 Consensus size: 96
46100947 CTATCGCTAA
*
46100957 ATTGGGGTTCCGGAGTATTACGTTTACATTTTAAACATTTAACATTACTAACTTACAAATATTCA
1 ATTGGGGTTCCGGAGTATTACGTTTACATTTTAAACATTTAACATTACTAACTCACAAATATTCA
46101022 ACTATAATTACAAATAATCAAATCACATTCC
66 ACTATAATTACAAATAATCAAATCACATTCC
* *
46101053 ATTGGGTTTCTGGAGTATTACGTTTACATTTTAAACATTTAACATTACTAACTCACAAATATTCA
1 ATTGGGGTTCCGGAGTATTACGTTTACATTTTAAACATTTAACATTACTAACTCACAAATATTCA
*
46101118 ACTATAATTACACATAATCAAATCACATTCC
66 ACTATAATTACAAATAATCAAATCACATTCC
46101149 ATT
1 ATT
46101152 TATAATAAAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (96 bp):
ATTGGGGTTCCGGAGTATTACGTTTACATTTTAAACATTTAACATTACTAACTCACAAATATTCA
ACTATAATTACAAATAATCAAATCACATTCC
Found at i:46102346 original size:76 final size:75
Alignment explanation
Indices: 46102147--46102423 Score: 250
Period size: 76 Copynumber: 3.7 Consensus size: 75
46102137 CGCCCGGAGT
* * * * *
46102147 TAGTCGGATAAATCGACAAAGATTTGCACCCAATGCTAGTCA-GATTAACTGACGATATTAATTT
1 TAGTCGAATAAATCGACAAAGATTTGCACCCAGTGCTAGT-AGGATAAAC-GAAGATATTAATTG
* *
46102211 TATGCCCTGCAC
64 TGTGCCCAGCAC
** * * ** * * * *
46102223 TAGTTTAATAAATCGATAAGGATTTGTGCCTAGTGCTCGTCGAATAAATCGAAGATATTAATTGT
1 TAGTCGAATAAATCGACAAAGATTTGCACCCAGTGCTAGTAGGATAAA-CGAAGATATTAATTGT
46102288 GTGCCCAGCAC
65 GTGCCCAGCAC
* * ** * *
46102299 TGGGCGAATAAATCGACAAAGATTTGTGCCCAGTGCTAGTAGGATAAACTAACGATATTAACTGT
1 TAGTCGAATAAATCGACAAAGATTTGCACCCAGTGCTAGTAGGATAAACGAA-GATATTAATTGT
* *
46102364 GTACCCATCAC
65 GTGCCCAGCAC
* * * *
46102375 TAGTCGAATAAACCGACAAAGATTTACATCCAGCGCTAGTAGGATAAAC
1 TAGTCGAATAAATCGACAAAGATTTGCACCCAGTGCTAGTAGGATAAAC
46102424 TGATAATCAC
Statistics
Matches: 159, Mismatches: 39, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
75 3 0.02
76 155 0.97
77 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (75 bp):
TAGTCGAATAAATCGACAAAGATTTGCACCCAGTGCTAGTAGGATAAACGAAGATATTAATTGTG
TGCCCAGCAC
Found at i:46103428 original size:21 final size:22
Alignment explanation
Indices: 46103394--46103437 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
46103384 TTTATTTATA
*
46103394 ATAGTTTAATATAACATATATT
1 ATAGTTTAACATAACATATATT
*
46103416 ATAG-TTAACATAATATATATT
1 ATAGTTTAACATAACATATATT
46103437 A
1 A
46103438 CATACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (22 bp):
ATAGTTTAACATAACATATATT
Found at i:46106585 original size:15 final size:16
Alignment explanation
Indices: 46106554--46106586 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46106544 ATATCCTTTT
*
46106554 AAATTTCAAACACATA
1 AAATTTCAAACAAATA
46106570 AAATTTCAAA-AAATA
1 AAATTTCAAACAAATA
46106585 AA
1 AA
46106587 GGCAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAACAAATA
Found at i:46108347 original size:62 final size:62
Alignment explanation
Indices: 46108279--46108457 Score: 322
Period size: 62 Copynumber: 2.9 Consensus size: 62
46108269 CACGTATCTT
*
46108279 TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCTTAAAATCCAAAAATATGCA
1 TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCTTAAAATCCAAAAATACGCA
* * *
46108341 TTCATGCATCAACATTACGTTTCATTGCATGCAATAAATTTCTTAAAATCTAAAAATACGCA
1 TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCTTAAAATCCAAAAATACGCA
46108403 TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCTTAAAATCCAAAA
1 TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCTTAAAATCCAAAA
46108458 GTACATCGAG
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 110 1.00
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.34
Consensus pattern (62 bp):
TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCTTAAAATCCAAAAATACGCA
Found at i:46109758 original size:7 final size:7
Alignment explanation
Indices: 46109724--46109787 Score: 65
Period size: 7 Copynumber: 8.9 Consensus size: 7
46109714 TGGAGGCAAA
46109724 AAAAAAC
1 AAAAAAC
*
46109731 CAAAAAC
1 AAAAAAC
*
46109738 CAAAAAC
1 AAAAAAC
46109745 ACAAAAAC
1 A-AAAAAC
*
46109753 AAAAAAG
1 AAAAAAC
*
46109760 AAAGAAC
1 AAAAAAC
*
46109767 AAAACAAA
1 AAAA-AAC
46109775 AAAAAAC
1 AAAAAAC
46109782 AAAAAA
1 AAAAAA
46109788 ACTCTACTGG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
7 34 0.72
8 13 0.28
ACGTcount: A:0.81, C:0.16, G:0.03, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:46110246 original size:20 final size:18
Alignment explanation
Indices: 46110223--46110280 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 18
46110213 AAAAAAAGAC
46110223 GAAAATAAAATAGAAAAAA
1 GAAAA-AAAATAGAAAAAA
*
46110242 TGAAAAAAGAAAAGAAAAAA
1 -GAAAAAA-AATAGAAAAAA
46110262 GAAAAACAAAATAGAAAAA
1 G-AAAA-AAAATAGAAAAA
46110281 GGAGAGGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 3 0.09
20 28 0.85
21 2 0.06
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (18 bp):
GAAAAAAAATAGAAAAAA
Found at i:46110247 original size:7 final size:7
Alignment explanation
Indices: 46110214--46110280 Score: 50
Period size: 7 Copynumber: 9.7 Consensus size: 7
46110204 CTTCACTTGA
46110214 AAAAAAG
1 AAAAAAG
* *
46110221 ACGAAAAT
1 A-AAAAAG
*
46110229 AAAATAG
1 AAAAAAG
46110236 AAAAAATG
1 AAAAAA-G
46110244 AAAAAAG
1 AAAAAAG
46110251 --AAAAG
1 AAAAAAG
46110256 AAAAAAG
1 AAAAAAG
*
46110263 -AAAAAC
1 AAAAAAG
*
46110269 AAAATAG
1 AAAAAAG
46110276 AAAAA
1 AAAAA
46110281 GGAGAGGCCA
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
5 5 0.11
6 5 0.11
7 23 0.51
8 12 0.27
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (7 bp):
AAAAAAG
Found at i:46110247 original size:15 final size:14
Alignment explanation
Indices: 46110214--46110280 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 14
46110204 CTTCACTTGA
*
46110214 AAAAAAGACGAAAAT
1 AAAAAAGA-AAAAAT
*
46110229 AAAATAGAAAAAAT
1 AAAAAAGAAAAAAT
*
46110243 GAAAAAAG--AAAAG
1 -AAAAAAGAAAAAAT
*
46110256 AAAAAAG-AAAAAC
1 AAAAAAGAAAAAAT
*
46110269 AAAATAGAAAAA
1 AAAAAAGAAAAA
46110281 GGAGAGGCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
12 7 0.16
13 14 0.33
14 9 0.21
15 13 0.30
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (14 bp):
AAAAAAGAAAAAAT
Found at i:46110258 original size:12 final size:12
Alignment explanation
Indices: 46110238--46110279 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
46110228 TAAAATAGAA
46110238 AAAATGAAAAAAG
1 AAAA-GAAAAAAG
46110251 AAAAGAAAAAAG
1 AAAAGAAAAAAG
46110263 AAAA-ACAAAATAG
1 AAAAGA-AAAA-AG
46110276 AAAA
1 AAAA
46110280 AGGAGAGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.04
12 16 0.59
13 10 0.37
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:46110810 original size:108 final size:108
Alignment explanation
Indices: 46110621--46110816 Score: 313
Period size: 108 Copynumber: 1.8 Consensus size: 108
46110611 TTTGCATTCT
*
46110621 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
46110686 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
* * **
46110729 AGCAAATTTTGCTATCTTGATTGATTTATTTGTTTAGAGCTTTGCTCTCAACAAAATTT-CATCT
1 AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTTTGCTCTCAAC-AAATTTCCATCT
* *
46110793 TGTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
46110817 AGCATTTTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 74 0.93
109 6 0.08
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:46111369 original size:44 final size:44
Alignment explanation
Indices: 46111294--46111552 Score: 224
Period size: 44 Copynumber: 6.0 Consensus size: 44
46111284 AGTCACCAAG
* * *
46111294 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATA
* * * * *
46111338 GCCGGTCTTGTCTTCCTACATTGGTAGGAAGTGGATCGAAGA-C
1 GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATA
* * * *
46111381 GCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATA
* * * * *
46111426 GTAGATCTTGTCTTCATGTATTGG-CGTGAAGTGGATCGAAGATA
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATA
* * *
46111470 GCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-
1 GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATA
* * * * *
46111513 GTAGATATTGTCTTCCCACACTGGT--GAAGTAGATCGAAGA
1 GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGA
46111553 AAATAGATCA
Statistics
Matches: 173, Mismatches: 38, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
41 14 0.08
43 39 0.23
44 99 0.57
45 21 0.12
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (44 bp):
GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATA
Found at i:46111536 original size:132 final size:129
Alignment explanation
Indices: 46111296--46111561 Score: 424
Period size: 132 Copynumber: 2.0 Consensus size: 129
46111286 TCACCAAGGC
* *
46111296 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCCGGTCTTGTCTTCCTACATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACATTG
* *
46111361 GTAGGAAGTGGATCGAAGACGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAA
66 GTAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCACAC---TGGTGAAGTAGATCGAAGAAA
*
46111426 GT
128 AT
* *
46111428 AGATCTTGTCTTCATGTATTGGCGTGAAGTGGATCGAAGATAGCAGGTCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACATTG
* *
46111493 GTAGGAAGTGGATCGAAGATGTAGATATTGTCTTCCCACACTGGTGAAGTAGATCGAAGAAAAT
66 GTAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCACACTGGTGAAGTAGATCGAAGAAAAT
46111557 AGATC
1 AGATC
46111562 AATGAAGTTA
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
129 27 0.22
132 98 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (129 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACATTG
GTAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCACACTGGTGAAGTAGATCGAAGAAAAT
Found at i:46111713 original size:50 final size:49
Alignment explanation
Indices: 46111573--46111829 Score: 165
Period size: 50 Copynumber: 5.2 Consensus size: 49
46111563 ATGAAGTTAC
*
46111573 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTT
1 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTA
* * * * * ** * **
46111622 GTTCCCCGACATTGCAATTAAAG-AGATTAAAGCCATAACGGCGAATCTCA
1 CTTCCCTGGCAGTGC-AGTGGAGCAGATTAAAGCTACGACGGCGAATCT-A
* * *
46111672 CTTCTCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTG
1 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATC-TA
** * * ** ** * ** * **
46111722 CTTCCCTGATATTGCAATTAAAAAGATTGAAGCCGCAACGATGAATCTTA
1 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATC-TA
* ** * *
46111772 CTTCCATGGTGGTGCAGTGGAGCAGATTAAAGCTACGACGGCGATTCTTG
1 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATC-TA
46111822 CTTCCCTG
1 CTTCCCTG
46111830 ACATTGCAAT
Statistics
Matches: 145, Mismatches: 59, Indels: 7
0.69 0.28 0.03
Matches are distributed among these distances:
49 37 0.26
50 107 0.74
51 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (49 bp):
CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTA
Found at i:46111790 original size:100 final size:100
Alignment explanation
Indices: 46111573--46111853 Score: 395
Period size: 100 Copynumber: 2.8 Consensus size: 100
46111563 ATGAAGTTAC
* *
46111573 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTG-TTCCCCGACATTGC
1 CTTCTCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGC
* * * *
46111637 AATTAAAGAGATTAAAGCCATAACGGCGAATCTCA
66 AATTAAAAAGATTGAAGCCACAACGACGAATCTCA
* *
46111672 CTTCTCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGATATTGC
1 CTTCTCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGC
* * *
46111737 AATTAAAAAGATTGAAGCCGCAACGATGAATCTTA
66 AATTAAAAAGATTGAAGCCACAACGACGAATCTCA
** *
46111772 CTTC-CATGGTGGTGCAGTGGAGCAGATTAAAGCTACGACGGCGATTCTTGCTTCCCTGACATTG
1 CTTCTC-TGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTG
* *
46111836 CAATTTAAAAGATCGAAG
65 CAATTAAAAAGATTGAAG
46111854 ATGGCGGATT
Statistics
Matches: 162, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
99 49 0.30
100 113 0.70
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (100 bp):
CTTCTCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGC
AATTAAAAAGATTGAAGCCACAACGACGAATCTCA
Found at i:46111973 original size:44 final size:44
Alignment explanation
Indices: 46111933--46112292 Score: 136
Period size: 44 Copynumber: 8.2 Consensus size: 44
46111923 ACAGTGGAAT
* *
46111933 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
1 AGATTGAAGATTCCAGATCTTATCTCCCTAAGCAATAGTGGAGC
* * ** * * * *
46111977 AGATCGAATATGGCAGATTTTACCTCCCTGAG-ATTACAGTGGAGC
1 AGATTGAAGATTCCAGATCTTATCTCCCTAAGCA--ATAGTGGAGC
* ** * ** * **
46112022 ACATTGAAG---CCAGAAATTCTACTTCCCTGGGCAACAGTGGAAT
1 AGATTGAAGATTCCAGATCTTAT-C-TCCCTAAGCAATAGTGGAGC
* *
46112065 AGATTGAAGATTTCAG-TCTTATCTCCCTAAGCAGTAGTGGAGC
1 AGATTGAAGATTCCAGATCTTATCTCCCTAAGCAATAGTGGAGC
* ** *
46112108 AGA-CGAAAGAAACCATATCTTATCTCCCTAAGCAATAGTGGAGC
1 AGATTG-AAGATTCCAGATCTTATCTCCCTAAGCAATAGTGGAGC
* * ** * * * * *
46112152 AGGTCGAAGATGGCAGATTTTACCTCCC--CG-ATTACGGTGGAGT
1 AGATTGAAGATTCCAGATCTTATCTCCCTAAGCAATA--GTGGAGC
* * * **
46112195 ACATTGAAG---CCAGTAGT-TCTATCTCCCT-GGACAACAGTGGAAT
1 AGATTGAAGATTCCAG-A-TCT-TATCTCCCTAAG-CAATAGTGGAGC
* *
46112238 AGAGTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGC
1 AGATTGAAGATTCCAGATCTTATCTCCCTAAGCAATAGTGGAGC
* *
46112282 AGGTCGAAGAT
1 AGATTGAAGAT
46112293 GGCGGATTTT
Statistics
Matches: 226, Mismatches: 66, Indels: 48
0.66 0.19 0.14
Matches are distributed among these distances:
40 3 0.01
41 5 0.02
42 16 0.07
43 67 0.30
44 104 0.46
45 25 0.11
46 6 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
AGATTGAAGATTCCAGATCTTATCTCCCTAAGCAATAGTGGAGC
Found at i:46112235 original size:130 final size:130
Alignment explanation
Indices: 46112124--46112550 Score: 383
Period size: 130 Copynumber: 3.2 Consensus size: 130
46112114 AAGAAACCAT
* *
46112124 ATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCCGATTACGG
1 ATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCCGACTACAG
* * * *
46112189 TGGAGTACATTGAAGCC-AGTAGTTCTATCTCCCTGGACAACAGTGGAATAGAGTGAAGATTACA
66 TGGAGTACATTGAAGCCGA-TAATTCTATCTCCCTGGACAACAGTGGAACAGAGTAAAGATAACA
46112253 G
130 G
* **
46112254 ATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCTTGACTACAG
1 ATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCCGACTACAG
* *** * * * **
46112319 TGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGC
66 TGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGA--CAACAGTGGAACAGAGTAAAGATAAC
46112384 AG
129 AG
** * * * * * * * * **
46112386 ATCTTGCCTTCCT--GTATTTGGCAGCGAAGCAGATCAAAGATGGTAGATTTTACCTCCCTAACT
1 ATCTTATCTCCCTAAGCA-AT---AGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCCGACT
* * *** * * *
46112449 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGA
62 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGA--CAACAGTGGAACAGAGTAAAGA
*
46112514 AAACCAG
125 TAA-CAG
*
46112521 ATCTTATCTCCCTAAGCAGTAGTGGAGCAG
1 ATCTTATCTCCCTAAGCAATAGTGGAGCAG
46112551 ATCACATCAA
Statistics
Matches: 249, Mismatches: 38, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
130 95 0.38
131 2 0.01
132 33 0.13
133 8 0.03
134 95 0.38
135 13 0.05
136 1 0.00
137 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (130 bp):
ATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCCGACTACAG
TGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGACAACAGTGGAACAGAGTAAAGATAACAG
Found at i:46112323 original size:173 final size:174
Alignment explanation
Indices: 46111946--46112283 Score: 482
Period size: 173 Copynumber: 1.9 Consensus size: 174
46111936 TTGAAGATTT
* ** *
46111946 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATATGGCAGATTTTACCTCCCTGAGAT
1 CAGATCTTACCTCCCTAAGCAACAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCC-GAGAT
* *
46112011 TACAGTGGAGCACATTGAAGCCAGAAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
65 TACAGTGGAGCACATTGAAGCCAGAAATTCTACTTCCCTGGACAACAGTGGAATAGAGTGAAGAT
* *
46112076 TTCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
130 TACAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACGAAAGAAAC
* * * * *
46112121 CATATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCC-CGATT
1 CAGATCTTACCTCCCTAAGCAACAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCGAGATT
* * * *
46112185 ACGGTGGAGTACATTGAAGCCAGTAGTTCTA-TCTCCCTGGACAACAGTGGAATAGAGTGAAGAT
66 ACAGTGGAGCACATTGAAGCCAGAAATTCTACT-TCCCTGGACAACAGTGGAATAGAGTGAAGAT
46112249 TACAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
130 TACAG-TCTTATCTCCCTAAGCAATAGTGGAGCAG
46112284 GTCGAAGATG
Statistics
Matches: 148, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
172 1 0.01
173 64 0.43
174 28 0.19
175 55 0.37
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (174 bp):
CAGATCTTACCTCCCTAAGCAACAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCGAGATT
ACAGTGGAGCACATTGAAGCCAGAAATTCTACTTCCCTGGACAACAGTGGAATAGAGTGAAGATT
ACAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACGAAAGAAAC
Found at i:46112628 original size:44 final size:41
Alignment explanation
Indices: 46112513--46112634 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 41
46112503 TAGAGTGAAG
46112513 AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
46112554 ACATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-C
1 AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
46112593 GAAAGAAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
1 ---A-AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
46112635 GTCGAAGATG
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
39 1 0.01
40 30 0.43
41 5 0.07
42 1 0.01
43 4 0.06
44 28 0.41
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (41 bp):
AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:46112703 original size:130 final size:130
Alignment explanation
Indices: 46112602--46113024 Score: 657
Period size: 130 Copynumber: 3.3 Consensus size: 130
46112592 CGAAAGAAAC
* * *
46112602 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGACAGATTTTACCTCCCCGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTA
* * *
46112667 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAATGGAATAGAGTGAAGATTA
66 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTAGGCAACAGTGGAATAGAGTGAAGATAA
* * * * *
46112732 CAGATCTTATCTCTCTAGGCAATAGTGGAGCAGGTCAAAGATGGCGGATTTTACCTCACTAATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTA
* *
46112797 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTAGGCAACAGTGGAATAGGGTGAAGATTA
66 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTAGGCAACAGTGGAATAGAGTGAAGATAA
46112862 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTA
* ** * **
46112927 CGGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGAGCA
66 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTAGGCAACAGTGGAATAGAGTGAAGATAA
* *
46112992 CAGATCTTATCTCCCTAAGCAGTAGTGAAGCAG
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
46113025 ATCACATCCA
Statistics
Matches: 268, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 268 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (130 bp):
CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTA
CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTAGGCAACAGTGGAATAGAGTGAAGATAA
Found at i:46115026 original size:15 final size:16
Alignment explanation
Indices: 46114995--46115027 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46114985 ATATCCTTTT
*
46114995 AAATTTCAAACACATA
1 AAATTTCAAACAAATA
46115011 AAATTTCAAA-AAATA
1 AAATTTCAAACAAATA
46115026 AA
1 AA
46115028 GGCAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAACAAATA
Found at i:46117255 original size:144 final size:143
Alignment explanation
Indices: 46117057--46117498 Score: 559
Period size: 144 Copynumber: 3.1 Consensus size: 143
46117047 GGGAGTGGGC
* * * * * * *
46117057 CCAA-AAGCATATTAAAGGATAGATCCAGTGTAACCAAATTCGTTAGCCTACCAATTTCTTGTGG
1 CCAACAAGCATATTAAAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAATTTCTTGTGG
* *
46117121 AATAGATCCATTAAGTTGGTTATGC-TGAAGGAACAACGACCCCAGATTGGTTACATTGTTGACA
66 AATGGATCCATTAAGTTGGTT-TGCATGAAGGAACAACGACCCAAGATTGGTTA-ATTGTTGACA
46117185 GAAGATGGGATTGGA
129 GAAGATGGGATTGGA
46117200 CCAACAAGCATATTAAAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAATTTCTTGTGG
1 CCAACAAGCATATTAAAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAATTTCTTGTGG
* * **
46117265 AATGGATCCATTAAGTTGGTTTCCAT-AAAGAACCAACGATGCAAGATTGGTTAAGTTGTTGACA
66 AATGGATCCATTAAGTTGGTTTGCATGAAGGAA-CAACGACCCAAGATTGGTTAA-TTGTTGACA
*
46117329 GAAGATGGGATTGGG
129 GAAGATGGGATTGGA
** *
46117344 CCAACAAGCATATTAAAAGATAGATTGAATGTAATCAAATTTGTCAGTCTCCCAATTTCTCGTGG
1 CCAACAAGCATATTAAAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAATTTCTTGTGG
* * *** * * * * *
46117409 AATGGATCCATTAAGTTGG-TTGCCTTGAAGGAGCAACGACTGTAGATTAGTCAGGTTGGTGATA
66 AATGGATCCATTAAGTTGGTTTG-CATGAAGGAACAACGACCCAAGATTGGTTA-ATTGTTGACA
46117473 GAAGATGGGATTGGA
129 GAAGATGGGATTGGA
46117488 CCAACAAGCAT
1 CCAACAAGCAT
46117499 GTTGCTTGAG
Statistics
Matches: 261, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
143 14 0.05
144 243 0.93
145 4 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (143 bp):
CCAACAAGCATATTAAAAGATAGATCCAATGTAATCAAATTTGTCAGTCTCCCAATTTCTTGTGG
AATGGATCCATTAAGTTGGTTTGCATGAAGGAACAACGACCCAAGATTGGTTAATTGTTGACAGA
AGATGGGATTGGA
Found at i:46146113 original size:72 final size:72
Alignment explanation
Indices: 46146016--46146834 Score: 1638
Period size: 72 Copynumber: 11.4 Consensus size: 72
46146006 AGTTGTTGAC
46146016 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
1 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
46146081 TGGTAAT
66 TGGTAAT
46146088 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
1 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
46146153 TGGTAAT
66 TGGTAAT
46146160 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
1 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
46146225 TGGTAAT
66 TGGTAAT
46146232 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
1 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
46146297 TGGTAAT
66 TGGTAAT
46146304 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
1 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
46146369 TGGTAAT
66 TGGTAAT
46146376 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
1 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
46146441 TGGTAAT
66 TGGTAAT
46146448 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
1 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
46146513 TGGTAAT
66 TGGTAAT
46146520 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
1 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
46146585 TGGTAAT
66 TGGTAAT
46146592 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
1 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
46146657 TGGTAAT
66 TGGTAAT
46146664 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
1 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
46146729 TGGTAAT
66 TGGTAAT
46146736 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
1 AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
46146801 TGGTAAT
66 TGGTAAT
46146808 AGAAGATGGGATTGGACCAACAAGCAT
1 AGAAGATGGGATTGGACCAACAAGCAT
46146835 GTTTCTTGAG
Statistics
Matches: 747, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 747 1.00
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (72 bp):
AGAAGATGGGATTGGACCAACAAGCATATTAGAAGATAGATCCAACAACTGTAGATTAGTTAGGT
TGGTAAT
Found at i:46163155 original size:18 final size:19
Alignment explanation
Indices: 46163113--46163157 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
46163103 GCACGACCGG
*
46163113 CGAACTCCCTAAATTTGGT
1 CGAACTCTCTAAATTTGGT
*
46163132 -GTACTCTCTAAATTT-GT
1 CGAACTCTCTAAATTTGGT
46163149 CGAACTCTC
1 CGAACTCTC
46163158 CAGGAATGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (19 bp):
CGAACTCTCTAAATTTGGT
Found at i:46166719 original size:20 final size:18
Alignment explanation
Indices: 46166690--46166736 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
46166680 TCTAAAATTT
46166690 ATTA-AAAATTAGAAACAAA
1 ATTATAAAATT-GAAA-AAA
*
46166709 ATTATAAAATTGTAAAAA
1 ATTATAAAATTGAAAAAA
46166727 ATATATAAAA
1 AT-TATAAAA
46166737 AATAAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 14 0.56
20 6 0.24
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
ATTATAAAATTGAAAAAA
Found at i:46166737 original size:20 final size:21
Alignment explanation
Indices: 46166683--46166737 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 21
46166673 AGAAACATCT
46166683 AAAATTTATTAAAAATTAGAAAC
1 AAAA-TTA-TAAAAATTAGAAAC
*
46166706 AAAATTAT-AAAATT-GTAA-
1 AAAATTATAAAAATTAGAAAC
46166724 AAAATATATAAAAA
1 AAAAT-TATAAAAA
46166738 ATAAAAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 5 0.17
19 6 0.21
20 10 0.34
21 1 0.03
22 3 0.10
23 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATTATAAAAATTAGAAAC
Found at i:46166838 original size:31 final size:29
Alignment explanation
Indices: 46166798--46166873 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 29
46166788 TTTTGATGCA
*
46166798 TTTTATAATTTTTAAGAAATTTTACAATTAT
1 TTTTATAATTTTTAAGAAAATTTA-AA-TAT
* *
46166829 TTTTCTAATTTTTAATAAAATTTAAATAT
1 TTTTATAATTTTTAAGAAAATTTAAATAT
*
46166858 TTTTTTATATTTTTAA
1 TTTTATA-ATTTTTAA
46166874 ATAGGGTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 9 0.22
30 10 0.25
31 21 0.52
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTTATAATTTTTAAGAAAATTTAAATAT
Found at i:46170956 original size:17 final size:17
Alignment explanation
Indices: 46170934--46170975 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
46170924 CCAAAAATGT
46170934 AAGCCAAAGTGACGAAC
1 AAGCCAAAGTGACGAAC
*
46170951 AAGCCAAAGTGGCGAAC
1 AAGCCAAAGTGACGAAC
*
46170968 AAACCAAA
1 AAGCCAAA
46170976 AGTGTAAGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.50, C:0.24, G:0.21, T:0.05
Consensus pattern (17 bp):
AAGCCAAAGTGACGAAC
Found at i:46174178 original size:72 final size:72
Alignment explanation
Indices: 46174091--46174390 Score: 381
Period size: 72 Copynumber: 4.2 Consensus size: 72
46174081 TTGCCTAAGG
* *
46174091 TAGGAGGGATGGGACCACGAATTTGGTTACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTC
1 TAGG-GGGATAGGACCACGAATTTGGTTACCGGATAGGTCCAACTGTTTCAAACTCTTCATTTTC
46174156 CCCCAGTC
65 CCCCAGTC
** * * * * *
46174164 TAGGGGGATAGGACCACGAATTTGGTTATTGGAGAAGTCCAACTG-TTCTAAATTGGTT-AATTT
1 TAGGGGGATAGGACCACGAATTTGGTTACCGGATAGGTCCAACTGTTTC-AAACT-CTTCATTTT
* ** *
46174227 GCCTAAG-G
64 CCCCCAGTC
* *
46174235 TAGGAGGGATGGGACCACGAATTTGGTTACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTC
1 TAGG-GGGATAGGACCACGAATTTGGTTACCGGATAGGTCCAACTGTTTCAAACTCTTCATTTTC
46174300 CCCCAGTC
65 CCCCAGTC
** *
46174308 TAGGGGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCC
1 TAGGGGGATAGGACCACGAATTTGGTTACCGGATAGGTCCAACTGTTTCAAACTCTTCATTTTCC
46174373 CCCAGTC
66 CCCAGTC
46174380 TAGGGGGATAG
1 TAGGGGGATAG
46174391 AACCGTAAAT
Statistics
Matches: 190, Mismatches: 31, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
71 9 0.05
72 168 0.88
73 13 0.07
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (72 bp):
TAGGGGGATAGGACCACGAATTTGGTTACCGGATAGGTCCAACTGTTTCAAACTCTTCATTTTCC
CCCAGTC
Found at i:46174242 original size:144 final size:144
Alignment explanation
Indices: 46174054--46174354 Score: 584
Period size: 144 Copynumber: 2.1 Consensus size: 144
46174044 ATTAAAGGAT
46174054 AAGTCCAACTGTTCTAAATTGGTTAATTTGCCTAAGGTAGGAGGGATGGGACCACGAATTTGGTT
1 AAGTCCAACTGTTCTAAATTGGTTAATTTGCCTAAGGTAGGAGGGATGGGACCACGAATTTGGTT
46174119 ACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTCCCCCAGTCTAGGGGGATAGGACCACGAA
66 ACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTCCCCCAGTCTAGGGGGATAGGACCACGAA
46174184 TTTGGTTATTGGAG
131 TTTGGTTATTGGAG
46174198 AAGTCCAACTGTTCTAAATTGGTTAATTTGCCTAAGGTAGGAGGGATGGGACCACGAATTTGGTT
1 AAGTCCAACTGTTCTAAATTGGTTAATTTGCCTAAGGTAGGAGGGATGGGACCACGAATTTGGTT
46174263 ACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTCCCCCAGTCTAGGGGGATAGGACCACGAA
66 ACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTCCCCCAGTCTAGGGGGATAGGACCACGAA
*
46174328 TTTGGTTATTGGAT
131 TTTGGTTATTGGAG
*
46174342 AGGTCCAACTGTT
1 AAGTCCAACTGTT
46174355 TCAAACTCTT
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 155 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (144 bp):
AAGTCCAACTGTTCTAAATTGGTTAATTTGCCTAAGGTAGGAGGGATGGGACCACGAATTTGGTT
ACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTCCCCCAGTCTAGGGGGATAGGACCACGAA
TTTGGTTATTGGAG
Found at i:46174388 original size:144 final size:144
Alignment explanation
Indices: 46174054--46174388 Score: 496
Period size: 144 Copynumber: 2.3 Consensus size: 144
46174044 ATTAAAGGAT
* * * * *
46174054 AAGTCCAACTGTTCTAAATTGGTTAATTTGCCTAAGGTAGGAGGGATGGGACCACGAATTTGGTT
1 AAGTCCAACTGTTCTAAACTGCTTAATTTCCCCAAGCTAGGAGGGATGGGACCACGAATTTGGTT
46174119 ACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTCCCCCAGTCTAGGGGGATAGGACCACGAA
66 ACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTCCCCCAGTCTAGGGGGATAGGACCACGAA
46174184 TTTGGTTATTGGAG
131 TTTGGTTATTGGAG
* * * * *
46174198 AAGTCCAACTGTTCTAAATTGGTTAATTTGCCTAAGGTAGGAGGGATGGGACCACGAATTTGGTT
1 AAGTCCAACTGTTCTAAACTGCTTAATTTCCCCAAGCTAGGAGGGATGGGACCACGAATTTGGTT
46174263 ACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTCCCCCAGTCTAGGGGGATAGGACCACGAA
66 ACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTCCCCCAGTCTAGGGGGATAGGACCACGAA
*
46174328 TTTGGTTATTGGAT
131 TTTGGTTATTGGAG
* * *
46174342 AGGTCCAACTGTT-TCAAACT-CTTCATGTTCCCCCAGTCTAGG-GGGAT
1 AAGTCCAACTGTTCT-AAACTGCTTAAT-TTCCCCAAG-CTAGGAGGGAT
46174389 AGAACCGTAA
Statistics
Matches: 179, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
143 5 0.03
144 170 0.95
145 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (144 bp):
AAGTCCAACTGTTCTAAACTGCTTAATTTCCCCAAGCTAGGAGGGATGGGACCACGAATTTGGTT
ACCGGATAGGTTCAACTGTTTCAAACTCTTCATTTTCCCCCAGTCTAGGGGGATAGGACCACGAA
TTTGGTTATTGGAG
Found at i:46175197 original size:16 final size:15
Alignment explanation
Indices: 46175166--46175195 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46175156 GAGTTTTCAT
*
46175166 TTTTTTATTAAAAAA
1 TTTTCTATTAAAAAA
46175181 TTTTCTATTAAAAAA
1 TTTTCTATTAAAAAA
46175196 ATAAAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTCTATTAAAAAA
Found at i:46176179 original size:150 final size:150
Alignment explanation
Indices: 46176015--46176314 Score: 591
Period size: 150 Copynumber: 2.0 Consensus size: 150
46176005 TAAAAAACAG
46176015 TCAATTTTTTTTTTGCTTTCATACTTGGGCCGGGAGAAAAAAACTTACCTAAGGCTCGGCCCGTT
1 TCAATTTTTTTTTTGCTTTCATACTTGGGCCGGGAGAAAAAAACTTACCTAAGGCTCGGCCCGTT
46176080 TAGAAGACGGACTTTATTCTTTGCCCAAGCTCATTTTTCAGGCCTATATACTTACCTAAACCCTC
66 TAGAAGACGGACTTTATTCTTTGCCCAAGCTCATTTTTCAGGCCTATATACTTACCTAAACCCTC
46176145 CCATTTTTTGGACAAGCCTT
131 CCATTTTTTGGACAAGCCTT
46176165 TCAATTTTTTTTTTGCTTTCATACTTGGGCCGGGAGAAAAAAACTTACCTAAGGCTCGGCCCGTT
1 TCAATTTTTTTTTTGCTTTCATACTTGGGCCGGGAGAAAAAAACTTACCTAAGGCTCGGCCCGTT
*
46176230 TAGAAGACGGACTTTATTCTTTGCCCAAGCTCATTTTTCAGGCCTATATATTTACCTAAACCCTC
66 TAGAAGACGGACTTTATTCTTTGCCCAAGCTCATTTTTCAGGCCTATATACTTACCTAAACCCTC
46176295 CCATTTTTTGGACAAGCCTT
131 CCATTTTTTGGACAAGCCTT
46176315 CGACCTGGTC
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (150 bp):
TCAATTTTTTTTTTGCTTTCATACTTGGGCCGGGAGAAAAAAACTTACCTAAGGCTCGGCCCGTT
TAGAAGACGGACTTTATTCTTTGCCCAAGCTCATTTTTCAGGCCTATATACTTACCTAAACCCTC
CCATTTTTTGGACAAGCCTT
Found at i:46176858 original size:22 final size:21
Alignment explanation
Indices: 46176814--46176856 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
46176804 CAAGGTAAAA
46176814 ATTAATTTACAATTAAATTTT
1 ATTAATTTACAATTAAATTTT
46176835 ATTAATTATACAAATTAAATTT
1 ATTAATT-TAC-AATTAAATTT
46176857 ATGATAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAATTTACAATTAAATTTT
Found at i:46183362 original size:32 final size:32
Alignment explanation
Indices: 46183321--46183384 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
46183311 GGAGGACTCG
46183321 AGAGATTTATCAACTATTTCACTGTCAGAGTT
1 AGAGATTTATCAACTATTTCACTGTCAGAGTT
46183353 AGAGATTTATCAACTATTTCACTGTCAGAGTT
1 AGAGATTTATCAACTATTTCACTGTCAGAGTT
46183385 GATAAATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (32 bp):
AGAGATTTATCAACTATTTCACTGTCAGAGTT
Found at i:46183395 original size:32 final size:32
Alignment explanation
Indices: 46183327--46183395 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
46183317 CTCGAGAGAT
* *
46183327 TTATCAACTATTTCACTGTCAGAGTTAGAGAT
1 TTATCAACTATTTCACTGTCAGAGTTAGAAAA
46183359 TTATCAACTATTTCACTGTCAGAGTT-GATAAA
1 TTATCAACTATTTCACTGTCAGAGTTAGA-AAA
46183391 TTATC
1 TTATC
46183396 TTTATGCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 2 0.06
32 32 0.94
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (32 bp):
TTATCAACTATTTCACTGTCAGAGTTAGAAAA
Found at i:46186496 original size:80 final size:80
Alignment explanation
Indices: 46186406--46186564 Score: 300
Period size: 80 Copynumber: 2.0 Consensus size: 80
46186396 GATTTAAATG
* *
46186406 AGAGCCAAAAAGAAGCTATTGAAATTAATGTTAACAATCATCCAACTATTTCCATAGCAAAAAAC
1 AGAGCAAAAAAGAAGCTATTAAAATTAATGTTAACAATCATCCAACTATTTCCATAGCAAAAAAC
46186471 CTTGTGTTTCATGGT
66 CTTGTGTTTCATGGT
46186486 AGAGCAAAAAAGAAGCTATTAAAATTAATGTTAACAATCATCCAACTATTTCCATAGCAAAAAAC
1 AGAGCAAAAAAGAAGCTATTAAAATTAATGTTAACAATCATCCAACTATTTCCATAGCAAAAAAC
46186551 CTTGTGTTTCATGG
66 CTTGTGTTTCATGG
46186565 CAAAACAAAG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (80 bp):
AGAGCAAAAAAGAAGCTATTAAAATTAATGTTAACAATCATCCAACTATTTCCATAGCAAAAAAC
CTTGTGTTTCATGGT
Found at i:46192553 original size:23 final size:23
Alignment explanation
Indices: 46192498--46192610 Score: 156
Period size: 23 Copynumber: 5.0 Consensus size: 23
46192488 AAGTTAGAAG
*
46192498 AGTGAAGAGACTTGAGTATGAA-
1 AGTGAAGAGACTTGAATATGAAT
*
46192520 GGTGAAGAGACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAT
*
46192543 AGTGAAAAGACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAT
* *
46192566 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAT
* *
46192589 AGTTAAGAGGCTTGAATATGAA
1 AGTGAAGAGACTTGAATATGAA
46192611 AGGATACACA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
22 20 0.25
23 60 0.75
ACGTcount: A:0.43, C:0.04, G:0.28, T:0.24
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAT
Found at i:46196936 original size:23 final size:23
Alignment explanation
Indices: 46196910--46197000 Score: 137
Period size: 23 Copynumber: 4.0 Consensus size: 23
46196900 AAGTTAGAAG
46196910 AGTGAAGAGACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAT
*
46196933 AGTGAAAAGACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAT
* *
46196956 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAT
* *
46196979 AGTTAAGAGGCTTGAATATGAA
1 AGTGAAGAGACTTGAATATGAA
46197001 AGGATACACA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.45, C:0.04, G:0.26, T:0.24
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAT
Found at i:46205975 original size:18 final size:19
Alignment explanation
Indices: 46205933--46205977 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
46205923 GCACGACCGG
*
46205933 CGAACTCCCTAAATTTGGT
1 CGAACTCTCTAAATTTGGT
*
46205952 -GTACTCTCTAAATTT-GT
1 CGAACTCTCTAAATTTGGT
46205969 CGAACTCTC
1 CGAACTCTC
46205978 CAGGAATGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (19 bp):
CGAACTCTCTAAATTTGGT
Found at i:46218159 original size:18 final size:19
Alignment explanation
Indices: 46218117--46218161 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
46218107 GCACGACCGG
*
46218117 CGAACTCCCTAAATTTGGT
1 CGAACTCTCTAAATTTGGT
*
46218136 -GTACTCTCTAAATTT-GT
1 CGAACTCTCTAAATTTGGT
46218153 CGAACTCTC
1 CGAACTCTC
46218162 CAGGAATGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (19 bp):
CGAACTCTCTAAATTTGGT
Found at i:46221781 original size:20 final size:18
Alignment explanation
Indices: 46221752--46221798 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
46221742 TCTAAAATTT
46221752 ATTA-AAAATTAGAAACAAA
1 ATTATAAAATT-GAAA-AAA
*
46221771 ATTATAAAATTGTAAAAA
1 ATTATAAAATTGAAAAAA
46221789 ATATATAAAA
1 AT-TATAAAA
46221799 AATAAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 14 0.56
20 6 0.24
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
ATTATAAAATTGAAAAAA
Found at i:46221799 original size:20 final size:21
Alignment explanation
Indices: 46221745--46221799 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 21
46221735 AGAAACATCT
46221745 AAAATTTATTAAAAATTAGAAAC
1 AAAA-TTA-TAAAAATTAGAAAC
*
46221768 AAAATTAT-AAAATT-GTAA-
1 AAAATTATAAAAATTAGAAAC
46221786 AAAATATATAAAAA
1 AAAAT-TATAAAAA
46221800 ATAAAAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 5 0.17
19 6 0.21
20 10 0.34
21 1 0.03
22 3 0.10
23 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATTATAAAAATTAGAAAC
Found at i:46221901 original size:32 final size:32
Alignment explanation
Indices: 46221860--46221937 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
46221850 TTTTGATGCA
46221860 TTTTATAATTTTTAAAAAAATTTACAA-ATTTT
1 TTTTATAATTTTTAAAAAAATTTA-AATATTTT
* * *
46221892 TTTTCTAATTTTTAATAAATTTTAAATA-TTT
1 TTTTATAATTTTTAAAAAAATTTAAATATTTT
46221923 TTTTAT-ATTTTTAAA
1 TTTTATAATTTTTAAA
46221938 TAATGTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 8 0.20
31 10 0.25
32 22 0.55
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTTATAATTTTTAAAAAAATTTAAATATTTT
Found at i:46221940 original size:31 final size:32
Alignment explanation
Indices: 46221860--46221940 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 32
46221850 TTTTGATGCA
*
46221860 TTTTATAATTTTTAAAAAAATTTACAAATTTT
1 TTTTATAATTTTTAAATAAATTTACAAATTTT
* *
46221892 TTTTCTAATTTTT-AATAAATTT-TAAATATTT
1 TTTTATAATTTTTAAATAAATTTACAAAT-TTT
46221923 TTTTAT-ATTTTTAAATAA
1 TTTTATAATTTTTAAATAA
46221941 TGTTATTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 10 0.23
31 21 0.49
32 12 0.28
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (32 bp):
TTTTATAATTTTTAAATAAATTTACAAATTTT
Found at i:46226054 original size:17 final size:17
Alignment explanation
Indices: 46226032--46226073 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
46226022 CCAAAAATGT
46226032 AAGCCAAAGTGACGAAC
1 AAGCCAAAGTGACGAAC
*
46226049 AAGCCAAAGTGGCGAAC
1 AAGCCAAAGTGACGAAC
*
46226066 AAACCAAA
1 AAGCCAAA
46226074 AGTGTAAGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.50, C:0.24, G:0.21, T:0.05
Consensus pattern (17 bp):
AAGCCAAAGTGACGAAC
Found at i:46229277 original size:72 final size:73
Alignment explanation
Indices: 46229192--46229563 Score: 465
Period size: 72 Copynumber: 5.2 Consensus size: 73
46229182 TTGCCTAAGG
* *
46229192 TAGGAGGGATAGGACCACGAATTAGGTTATTGGATATGTCCAACTGTTTCAAACTCTTCATGTTC
1 TAGGAGGGATAGGACCACGAATTTGGTTATTGGATAAGTCCAACTGTTTCAAACTCTTCATGTTC
46229257 CCCCAGTC
66 CCCCAGTC
* * * *
46229265 TAGG-GGGATAGGACCACGAATTTGGTTATTGGAGAAGTCCAACTG-TTCTAAATTGGTT-AAGT
1 TAGGAGGGATAGGACCACGAATTTGGTTATTGGATAAGTCCAACTGTTTC-AAACT-CTTCATGT
* ** *
46229327 TGCCTAAG-G
64 TCCCCCAGTC
*
46229336 TAGGAGGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTC
1 TAGGAGGGATAGGACCACGAATTTGGTTATTGGATAAGTCCAACTGTTTCAAACTCTTCATGTTC
46229401 CCCCAGTC
66 CCCCAGTC
* * * *
46229409 TAGG-GGGATAGGACCACGAATTTGGTTATTGGAGAAGTCCAACTG-TTCTAAATTGGTT-AAGT
1 TAGGAGGGATAGGACCACGAATTTGGTTATTGGATAAGTCCAACTGTTTC-AAACT-CTTCATGT
* ** *
46229471 TGCCTAAG-G
64 TCCCCCAGTC
*
46229480 TAGGAGGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTC
1 TAGGAGGGATAGGACCACGAATTTGGTTATTGGATAAGTCCAACTGTTTCAAACTCTTCATGTTC
46229545 CCCCAGTC
66 CCCCAGTC
46229553 TAGG-GGGATAG
1 TAGGAGGGATAG
46229564 AACCGTAAAT
Statistics
Matches: 250, Mismatches: 37, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
71 18 0.07
72 210 0.84
73 22 0.09
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (73 bp):
TAGGAGGGATAGGACCACGAATTTGGTTATTGGATAAGTCCAACTGTTTCAAACTCTTCATGTTC
CCCCAGTC
Found at i:46229630 original size:144 final size:144
Alignment explanation
Indices: 46229155--46229563 Score: 800
Period size: 144 Copynumber: 2.8 Consensus size: 144
46229145 ATTAAAGGAT
*
46229155 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTAGGTT
1 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
*
46229220 ATTGGATATGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAGGACCACGAA
66 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAGGACCACGAA
46229285 TTTGGTTATTGGAG
131 TTTGGTTATTGGAG
46229299 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
1 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
46229364 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAGGACCACGAA
66 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAGGACCACGAA
46229429 TTTGGTTATTGGAG
131 TTTGGTTATTGGAG
46229443 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
1 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
46229508 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAG
66 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAG
46229564 AACCGTAAAT
Statistics
Matches: 263, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 263 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (144 bp):
AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAGGACCACGAA
TTTGGTTATTGGAG
Found at i:46230370 original size:16 final size:15
Alignment explanation
Indices: 46230339--46230368 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46230329 GAGTTTTCAT
*
46230339 TTTTTTATTAAAAAA
1 TTTTCTATTAAAAAA
46230354 TTTTCTATTAAAAAA
1 TTTTCTATTAAAAAA
46230369 ATAAAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTCTATTAAAAAA
Found at i:46230493 original size:16 final size:15
Alignment explanation
Indices: 46230462--46230491 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46230452 TGTTTTTCAT
*
46230462 TTTTTTATTAAAAAA
1 TTTTCTATTAAAAAA
46230477 TTTTCTATTAAAAAA
1 TTTTCTATTAAAAAA
46230492 ATAAAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTCTATTAAAAAA
Found at i:46230548 original size:122 final size:123
Alignment explanation
Indices: 46230332--46230575 Score: 472
Period size: 122 Copynumber: 2.0 Consensus size: 123
46230322 AAAATTTGAG
*
46230332 TTTTCATTTTTTTATTAAAAAATTTTCTATTAAAAAAATAAAAAAATGACATAAAATCATAATTT
1 TTTTCATTTTTTTATTAAAAAATTTTCTATTAAAAAAATAAAAAAATGACATAAAATCACAATTT
46230397 CATAAAATTATTTCTCTTTGATTACTCACAACCCGAGTATAATCCGAATAGATTGTGT
66 CATAAAATTATTTCTCTTTGATTACTCACAACCCGAGTATAATCCGAATAGATTGTGT
46230455 TTTTCATTTTTTTATTAAAAAATTTTCTATTAAAAAAAT-AAAAAATGACATAAAATCACAATTT
1 TTTTCATTTTTTTATTAAAAAATTTTCTATTAAAAAAATAAAAAAATGACATAAAATCACAATTT
46230519 CATAAAATTATTTCTCTTTGATTACTCACAACCCGAGTATAATCCGAATAGATTGTG
66 CATAAAATTATTTCTCTTTGATTACTCACAACCCGAGTATAATCCGAATAGATTGTG
46230576 AGTGTTACAC
Statistics
Matches: 120, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
122 81 0.68
123 39 0.32
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (123 bp):
TTTTCATTTTTTTATTAAAAAATTTTCTATTAAAAAAATAAAAAAATGACATAAAATCACAATTT
CATAAAATTATTTCTCTTTGATTACTCACAACCCGAGTATAATCCGAATAGATTGTGT
Found at i:46232003 original size:22 final size:21
Alignment explanation
Indices: 46231959--46232001 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
46231949 CAAGGTAAAA
46231959 ATTAATTTACAATTAAATTTT
1 ATTAATTTACAATTAAATTTT
46231980 ATTAATTATACAAATTAAATTT
1 ATTAATT-TAC-AATTAAATTT
46232002 ATGATAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAATTTACAATTAAATTTT
Found at i:46247560 original size:23 final size:23
Alignment explanation
Indices: 46247530--46247617 Score: 106
Period size: 23 Copynumber: 3.8 Consensus size: 23
46247520 TGAAAAGTTA
46247530 GAAGAGTGAAGAGACTTGAGTAT
1 GAAGAGTGAAGAGACTTGAGTAT
* *
46247553 GAAGAGTGAAAAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAGTAT
*
46247576 GAATAGTGAAGAGACTTGAAG-AT
1 GAAGAGTGAAGAGACTTG-AGTAT
* * *
46247599 GAAAAGTTAAGAGGCTTGA
1 GAAGAGTGAAGAGACTTGA
46247618 ATGTGAAAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
22 1 0.02
23 54 0.96
24 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.31, T:0.22
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAGTAT
Found at i:46247601 original size:46 final size:46
Alignment explanation
Indices: 46247534--46247624 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
46247524 AAGTTAGAAG
*
46247534 AGTGAAGAGACTTGAGTATGAAGAGTGAAAAGACTTGAATATGAAT
1 AGTGAAGAGACTTGAGTATGAAAAGTGAAAAGACTTGAATATGAAT
* * * *
46247580 AGTGAAGAGACTTGAAG-ATGAAAAGTTAAGAGGCTTGAATGTGAA
1 AGTGAAGAGACTTG-AGTATGAAAAGTGAAAAGACTTGAATATGAA
46247625 AGGATACACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 37 0.95
47 2 0.05
ACGTcount: A:0.43, C:0.04, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGAAGAGACTTGAGTATGAAAAGTGAAAAGACTTGAATATGAAT
Found at i:46251950 original size:23 final size:23
Alignment explanation
Indices: 46251924--46252014 Score: 137
Period size: 23 Copynumber: 4.0 Consensus size: 23
46251914 AAGTTAGAAG
46251924 AGTGAAGAGACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAT
*
46251947 AGTGAAAAGACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAT
* *
46251970 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAT
* *
46251993 AGTTAAGAGGCTTGAATATGAA
1 AGTGAAGAGACTTGAATATGAA
46252015 AGGATACACA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.45, C:0.04, G:0.26, T:0.24
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAT
Found at i:46260989 original size:18 final size:19
Alignment explanation
Indices: 46260947--46260991 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
46260937 GCACGACCGG
*
46260947 CGAACTCCCTAAATTTGGT
1 CGAACTCTCTAAATTTGGT
*
46260966 -GTACTCTCTAAATTT-GT
1 CGAACTCTCTAAATTTGGT
46260983 CGAACTCTC
1 CGAACTCTC
46260992 CAGGAATGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (19 bp):
CGAACTCTCTAAATTTGGT
Found at i:46267157 original size:21 final size:22
Alignment explanation
Indices: 46267128--46267174 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
46267118 CAGAAGGAGT
*
46267128 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
46267150 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
46267171 GAGT
1 GAGT
46267175 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:46271798 original size:10 final size:10
Alignment explanation
Indices: 46271785--46271818 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
46271775 CTTTTTATAT
46271785 ATTTTTTAGA
1 ATTTTTTAGA
46271795 A-TTTTTAGA
1 ATTTTTTAGA
*
46271804 ATTTTTTAAA
1 ATTTTTTAGA
46271814 ATTTT
1 ATTTT
46271819 AAAATTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (10 bp):
ATTTTTTAGA
Found at i:46271818 original size:9 final size:9
Alignment explanation
Indices: 46271755--46271876 Score: 74
Period size: 9 Copynumber: 13.4 Consensus size: 9
46271745 ATTATTTTAG
*
46271755 AAAAATTTT
1 AAAATTTTT
46271764 AAAA-TTTT
1 AAAATTTTT
**
46271772 AACCTTTTT
1 AAAATTTTT
*
46271781 ATATATTTTTT
1 A-A-AATTTTT
*
46271792 AGAATTTTT
1 AAAATTTTT
*
46271801 AGAATTTTTT
1 A-AAATTTTT
46271811 AAAA-TTTT
1 AAAATTTTT
46271819 AAAA--TTT
1 AAAATTTTT
*
46271826 GAAATTTTT
1 AAAATTTTT
46271835 ATAAATATTTT
1 A-AAAT-TTTT
*
46271846 -AAATTTTA
1 AAAATTTTT
46271854 AAAATTATTT
1 AAAATT-TTT
*
46271864 TAAATTTTT
1 AAAATTTTT
46271873 AAAA
1 AAAA
46271877 ATTATTTTGA
Statistics
Matches: 88, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
7 6 0.07
8 17 0.19
9 36 0.41
10 19 0.22
11 10 0.11
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (9 bp):
AAAATTTTT
Found at i:46271839 original size:18 final size:19
Alignment explanation
Indices: 46271763--46271884 Score: 85
Period size: 19 Copynumber: 6.5 Consensus size: 19
46271753 AGAAAAATTT
*
46271763 TAAA-ATTTTAACCTTTTTA
1 TAAATATTTTAA-ATTTTTA
* *
46271782 TATATTTTTTAGAATTTTTA
1 TAAATATTTTA-AATTTTTA
* * *
46271802 -GAATTTTTTAAA-ATTT-
1 TAAATATTTTAAATTTTTA
*
46271818 TAAA-ATTTGAAATTTTTA
1 TAAATATTTTAAATTTTTA
46271836 TAAATATTTTAAA-TTTTA
1 TAAATATTTTAAATTTTTA
*
46271854 AAAATTATTTTAAATTTTTA
1 TAAA-TATTTTAAATTTTTA
*
46271874 AAAATTATTTT
1 TAAA-TATTTT
46271885 GATTTTTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
16 6 0.07
17 8 0.10
18 14 0.17
19 27 0.33
20 27 0.33
21 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TAAATATTTTAAATTTTTA
Found at i:46271876 original size:19 final size:19
Alignment explanation
Indices: 46271788--46271884 Score: 96
Period size: 19 Copynumber: 5.2 Consensus size: 19
46271778 TTTATATATT
*
46271788 TTTTAGAATTTTTAGAATT-
1 TTTTA-AATTTTTAAAATTA
*
46271807 TTTTAAAATTTT-AAA--A
1 TTTTAAATTTTTAAAATTA
*
46271823 TTTGAAATTTTTATAAA-TA
1 TTTTAAATTTTTA-AAATTA
*
46271842 TTTTAAATTTTAAAAATTA
1 TTTTAAATTTTTAAAATTA
46271861 TTTTAAATTTTTAAAAATTA
1 TTTTAAATTTTT-AAAATTA
46271881 TTTT
1 TTTT
46271885 GATTTTTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
16 10 0.15
17 2 0.03
18 12 0.18
19 30 0.46
20 11 0.17
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTTAAATTTTTAAAATTA
Found at i:46271889 original size:19 final size:19
Alignment explanation
Indices: 46271828--46271891 Score: 85
Period size: 20 Copynumber: 3.4 Consensus size: 19
46271818 TAAAATTTGA
*
46271828 AATTTTTATAAA-TATTTT
1 AATTTTTAAAAATTATTTT
*
46271846 AAATTTTAAAAATTATTTT
1 AATTTTTAAAAATTATTTT
46271865 AAATTTTTAAAAATTATTTT
1 -AATTTTTAAAAATTATTTT
*
46271885 GATTTTT
1 AATTTTT
46271892 TTTGTAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
18 10 0.25
19 12 0.30
20 18 0.45
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTTTTAAAAATTATTTT
Found at i:46272226 original size:13 final size:13
Alignment explanation
Indices: 46272208--46272284 Score: 82
Period size: 13 Copynumber: 5.9 Consensus size: 13
46272198 AGTTCTTCAT
46272208 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
46272221 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
46272234 TACTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
46272247 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
46272260 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
46272273 TGCTTTGGAAAA
1 TGCTTTTGAAAA
46272285 ATTTAAGTGT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:46272273 original size:26 final size:26
Alignment explanation
Indices: 46272210--46272284 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
46272200 TTCTTCATTG
46272210 CTTTTGAAAAGTGCTTTTGAAAAGTA
1 CTTTTGAAAAGTGCTTTTGAAAAGTA
* * * *
46272236 CTGTGGAAAAGTGTTTTTGAGAAGTA
1 CTTTTGAAAAGTGCTTTTGAAAAGTA
* *
46272262 CTTTTGAGAAGTGCTTTGGAAAA
1 CTTTTGAAAAGTGCTTTTGAAAA
46272285 ATTTAAGTGT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
CTTTTGAAAAGTGCTTTTGAAAAGTA
Found at i:46273194 original size:20 final size:19
Alignment explanation
Indices: 46273169--46273212 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
46273159 CTCTTTAAAA
*
46273169 TAAAAA-ATCAAAAAATATTT
1 TAAAAATAT-AAAAAA-AATT
46273189 TAAAAATATAAAAAAAATT
1 TAAAAATATAAAAAAAATT
46273208 TAAAA
1 TAAAA
46273213 TTCAATGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAAATATAAAAAAAATT
Found at i:46273195 original size:19 final size:19
Alignment explanation
Indices: 46273171--46273217 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
46273161 CTTTAAAATA
* *
46273171 AAAAATCAAAAAATATTTT
1 AAAAATCAAAAAAAAATTT
46273190 AAAAAT-ATAAAAAAAATTT
1 AAAAATCA-AAAAAAAATTT
*
46273209 AAAATTCAA
1 AAAAATCAA
46273218 TGTTATCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 21 0.91
20 1 0.04
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAATCAAAAAAAAATTT
Done.