Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 133 of 186
Found at i:43767527 original size:162 final size:163
Alignment explanation
Indices: 43767238--43767561 Score: 497
Period size: 162 Copynumber: 2.0 Consensus size: 163
43767228 TGAATGTGAA
*
43767238 AGTGTACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 AGTGTACATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTG-ATATATATGTGAT
* * * *
43767303 AAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTACATATGTGATAAGGCCGAATGGCCAATG
65 AAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTACATATGTGACAAGGCCGAATGGCCAACG
*
43767368 TGATGAATGTGAAAGTGTATATATGTGATAAGGC
130 TGATGAATGTGAAAGTGTATAAATGTGATAAGGC
* * *
43767402 AGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTG-TATATATGTGATA
1 AGTGTACATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTGATATATATGTGATA
* * * * *
43767466 AGGTCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
66 AGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTACATATGTGACAAGGCCGAATGGCCAACGT
*
43767531 GATGGATGTGAAAGTGTATAAATGTGATAAG
131 GATGAATGTGAAAGTGTATAAATGTGATAAG
43767562 TCCCGAAGGG
Statistics
Matches: 145, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
162 98 0.68
164 47 0.32
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (163 bp):
AGTGTACATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTGATATATATGTGATA
AGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTACATATGTGACAAGGCCGAATGGCCAACGT
GATGAATGTGAAAGTGTATAAATGTGATAAGGC
Found at i:43783043 original size:30 final size:30
Alignment explanation
Indices: 43782986--43783043 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
43782976 TTTTCGAGCA
**
43782986 TAGGGGCAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
43783016 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
43783044 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:43783455 original size:47 final size:45
Alignment explanation
Indices: 43783384--43783689 Score: 149
Period size: 47 Copynumber: 6.6 Consensus size: 45
43783374 GATTTATGCT
*
43783384 CCAGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAAAG
1 CCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACA-TATGAAAG
** *
43783430 CCAGTGTAAGACTATGTCTGGGACATGGCATT-GG-CATCCA-AACAATGG
1 CCAGTGTAAGAC-ATGTCTGGGACAT-GC-TTCGGCCA--CATATGAA-AG
* * * * *
43783478 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACA-TATGAAAG
* ** * * * **
43783524 CCAGTGTAAGACCATGTCTGGGGCATGGCAACGGTACAGAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCTTCGG-CCACATATGAAAG
* * * * *
43783572 CCAGTGTAAGACATGTCAGGGACATGCATCAGCCTCGACAGA-GATAG
1 CCAGTGTAAGACATGTCTGGGACATGCTTC-GGC-C-ACATATGAAAG
* * * * * * *
43783619 CCAGTATAAGACGTGTCTGGGACACGCGTCGGCTA-AGAGTTG--TG
1 CCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATA--TGAAAG
*
43783663 CTAGTGTAAGACATGTCTGGGACATGC
1 CCAGTGTAAGACATGTCTGGGACATGC
43783690 ATCAGCACAC
Statistics
Matches: 200, Mismatches: 41, Indels: 40
0.71 0.15 0.14
Matches are distributed among these distances:
43 3 0.01
44 25 0.12
45 2 0.01
46 33 0.17
47 89 0.44
48 41 0.20
49 7 0.04
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (45 bp):
CCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATATGAAAG
Found at i:43783578 original size:94 final size:94
Alignment explanation
Indices: 43783384--43783742 Score: 315
Period size: 94 Copynumber: 3.8 Consensus size: 94
43783374 GATTTATGCT
* * * * * * *
43783384 CCAGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAAAGCCAGTGTAAGACTATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCT
* * * *
43783449 GGGACATGGCATTGGCATCCA-A-ACAATGG
66 GGGACATGGCATCGGC-TACAGAGATAGT-G
*
43783478 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCT
* *
43783543 GGGGCATGGCAACGG-TACAGAGATGAGTG
66 GGGACATGGCATCGGCTACAGAGAT-AGTG
* * * *
43783572 CCAGTGTAAGACATGTCAGGGACATGCATCAGCC-TCGAC-AGAGATAGCCAGTATAAGA-CGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTA-TGATAGCCAGTGTAAGACCATG
* * *
43783634 TCTGGGACA-CGCGTCGGCTA-AGAG-TTGTG
63 TCTGGGACATGGCATCGGCTACAGAGATAGTG
* * * * *
43783663 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACACGTA-TATAAGAGCTAATGTAAGACCATG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGC-CA--TACTATGATAGCCAGTGTAAGACCATG
* *
43783727 TATGAGACATGGCATC
63 TCTGGGACATGGCATC
43783743 AGCACTATAT
Statistics
Matches: 214, Mismatches: 37, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
91 34 0.16
92 16 0.07
93 23 0.11
94 121 0.57
95 20 0.09
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (94 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGGCTACAGAGATAGTG
Found at i:43788562 original size:12 final size:11
Alignment explanation
Indices: 43788530--43788563 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
43788520 AGCCCACTAG
43788530 TATTAATTTTTA
1 TATT-ATTTTTA
*
43788542 TGTTATTTTTA
1 TATTATTTTTA
43788553 TATTATTTTTA
1 TATTATTTTTA
43788564 AATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:43788749 original size:12 final size:11
Alignment explanation
Indices: 43788726--43788756 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
43788716 CAAATTCCTT
43788726 TAAAATAATAA
1 TAAAATAATAA
43788737 TAAAATGAATAA
1 TAAAAT-AATAA
43788749 TAAAATAA
1 TAAAATAA
43788757 GTTTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:43800118 original size:22 final size:22
Alignment explanation
Indices: 43800092--43800137 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
43800082 ACACTTTATC
43800092 TTAA-TTAAAAACAAATATTCAA
1 TTAATTTAAAAACAAATA-TCAA
* *
43800114 TTAATTTATAAACATATATCAA
1 TTAATTTAAAAACAAATATCAA
43800136 TT
1 TT
43800138 CATAGAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAATTTAAAAACAAATATCAA
Found at i:43802175 original size:15 final size:16
Alignment explanation
Indices: 43802145--43802178 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
43802135 TTTGTCATCT
43802145 TTTACACTAATTACTA
1 TTTACACTAATTACTA
*
43802161 TTTAC-CTATTTACTA
1 TTTACACTAATTACTA
43802176 TTT
1 TTT
43802179 TAACCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTACACTAATTACTA
Found at i:43802572 original size:21 final size:21
Alignment explanation
Indices: 43802533--43802573 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
43802523 ATCGTGAAAC
* *
43802533 AGGGCCACACGCCCGTGTGGA
1 AGGGCAACACGCCCATGTGGA
*
43802554 AGGGCAACACGCTCATGTGG
1 AGGGCAACACGCCCATGTGG
43802574 CCGTTTTGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.29, G:0.37, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:43806045 original size:15 final size:16
Alignment explanation
Indices: 43806025--43806058 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
43806015 GTTAGTAATT
*
43806025 AATTAA-CTAGATGCA
1 AATTAACCTAAATGCA
43806040 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
43806056 AAT
1 AAT
43806059 GAGATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:43814508 original size:21 final size:21
Alignment explanation
Indices: 43814457--43814509 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
43814447 GTTTCCCTTA
43814457 GTGTTGTGACATAGGATTCCT
1 GTGTTGTGACATAGGATTCCT
* **
43814478 ATGTCATGACATAGGATTCCT
1 GTGTTGTGACATAGGATTCCT
43814499 GTGTTGTGACA
1 GTGTTGTGACA
43814510 CAGGCTCTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (21 bp):
GTGTTGTGACATAGGATTCCT
Found at i:43816486 original size:48 final size:48
Alignment explanation
Indices: 43816425--43816604 Score: 252
Period size: 48 Copynumber: 3.8 Consensus size: 48
43816415 ATATGAGAGT
*
43816425 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGTTACGTGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGC
* *
43816473 CAGTGTAAAACCATGTTTGGGACATGGCATCGGCATTGTTACGTGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGC
* * * * * * *
43816521 TACTGTAAGACCATGTCTGGTACATGGCATCGGTATCGTTATGTAAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGC
* *
43816569 CAGTGTAAGACCATGTTTGGGACATGGCATCAGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
43816605 GAGGTGTCGT
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 114 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGC
Found at i:43816592 original size:96 final size:96
Alignment explanation
Indices: 43816428--43816604 Score: 282
Period size: 96 Copynumber: 1.8 Consensus size: 96
43816418 TGAGAGTCAG
* * *
43816428 TGTAAGACCATGTCTGGGACATGGCATTGGCATTGTTACGTGAGCCAGTGTAAAACCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTACGTAAGCCAGTGTAAAACCATGTTTGG
*
43816493 GACATGGCATCGGCATTGTTACGTGAGCTAC
66 GACATGGCATCAGCATTGTTACGTGAGCTAC
* * * *
43816524 TGTAAGACCATGTCTGGTACATGGCATCGGTATCGTTATGTAAGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTACGTAAGCCAGTGTAAAACCATGTTTGG
43816589 GACATGGCATCAGCAT
66 GACATGGCATCAGCAT
43816605 GAGGTGTCGT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTACGTAAGCCAGTGTAAAACCATGTTTGG
GACATGGCATCAGCATTGTTACGTGAGCTAC
Found at i:43816683 original size:43 final size:42
Alignment explanation
Indices: 43816572--43816684 Score: 104
Period size: 43 Copynumber: 2.6 Consensus size: 42
43816562 TGTAAGCCAG
* **
43816572 TGTAAGACCATGTTTGGGACATGGCATCAGCATGAGGTGTCG
1 TGTAAGACCATGTATGGGACATGGCATCAGCATGAGGTGTAA
* * * * *
43816614 TGTAAGACCATAG-CTGGGCCATTGGCATC-GATATGAGATTTTAA
1 TGTAAGACCAT-GTATGGGACA-TGGCATCAG-CATGAG-GTGTAA
43816658 TGTAAGACCATGTATGGGACATGGCAT
1 TGTAAGACCATGTATGGGACATGGCAT
43816685 TGGTACAATA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
42 18 0.32
43 20 0.35
44 19 0.33
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATGTATGGGACATGGCATCAGCATGAGGTGTAA
Found at i:43823294 original size:48 final size:48
Alignment explanation
Indices: 43823032--43823400 Score: 399
Period size: 48 Copynumber: 7.8 Consensus size: 48
43823022 GGCGATATGA
* * * * *
43823032 GAGCCAGTGTAAGACCATGTCTGGGCCATGGCATCGGCCTAGATA--T
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTACGT
* * * * * *
43823078 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTACGT
* * ** * *
43823126 -A-TCAGTGTAAGACCATG-CTTGGGACATGGCATCGGCACCAGTATATGC
1 GAGCCAGTGTAAGACCATGTC-TGGGACATGGCATCGACA-TTGT-TACGT
*
43823174 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATTGTTA-GT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTACGT
*
43823221 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTACAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTACGT
* * * * *
43823269 GAGCCAGTGTAACAACATGTTTGGGACATGGCATTGGCATTGTTACGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTACGT
* * * * *
43823317 GAGCCAGTGTAAGACCATGTCTAGGACATGGTATCAACATCGTTATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTACGT
*
43823365 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
43823401 GCATGAGGCA
Statistics
Matches: 278, Mismatches: 36, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
45 1 0.00
46 74 0.27
47 46 0.17
48 122 0.44
49 3 0.01
50 31 0.11
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTACGT
Found at i:43823321 original size:143 final size:143
Alignment explanation
Indices: 43823032--43823400 Score: 449
Period size: 143 Copynumber: 2.6 Consensus size: 143
43823022 GGCGATATGA
* * * * * *
43823032 GAGCCAGTGTAAGACCATGTCTGGGCCATGGCATCGGCCTAGATA-TGTGTCAGTGTAAGACCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGTTAGTGAGCCAGTGTAAGACCAT
* * * * * *
43823096 GTCTGGGACATGGCATCGGCCTTGATATGTATCAGTGTAAGACCATGCTTGGGACATGGCATCGG
66 GTCTGGGACATGGCATCGACATTGACATGTACCAGTGTAACAACATGCTTGGGACATGGCATCGG
*
43823161 CACCAGTATATGC
131 CACCAGTATACGC
* *
43823174 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATTGTTAGTGAGCCAGTGTAAGACCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGTTAGTGAGCCAGTGTAAGACCAT
*
43823239 GTCTGGGACATGGCATCGACATTGTTACATG-AGCCAGTGTAACAACATGTTTGGGACATGGCAT
66 GTCTGGGACATGGCATCGACATTG--ACATGTA-CCAGTGTAACAACATGCTTGGGACATGGCAT
* ** *
43823303 TGGCA-TTGT-TACGT
128 CGGCACCAGTATACGC
* * * *
43823317 GAGCCAGTGTAAGACCATGTCTAGGACATGGTATCAACATCGTTATGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGTTA-GTGAGCCAGTGTAAGACCA
*
43823382 TGTCTAGGACATGGCATCG
65 TGTCTGGGACATGGCATCG
43823401 GCATGAGGCA
Statistics
Matches: 196, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
142 39 0.20
143 82 0.42
144 40 0.20
145 35 0.18
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (143 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGTTAGTGAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGACATTGACATGTACCAGTGTAACAACATGCTTGGGACATGGCATCGG
CACCAGTATACGC
Found at i:43832249 original size:25 final size:23
Alignment explanation
Indices: 43832221--43832277 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
43832211 TACCGATCAA
*
43832221 GATGCTCACAAGAACTATATAACAG
1 GATGCTCAAAAG-ACT-TATAACAG
* *
43832246 GATGCTCGAAAAGGCTTTTAACAG
1 GATGCTC-AAAAGACTTATAACAG
43832270 GATGCTCA
1 GATGCTCA
43832278 TCCGAGCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.04
24 14 0.50
25 9 0.32
26 4 0.14
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (23 bp):
GATGCTCAAAAGACTTATAACAG
Found at i:43847132 original size:31 final size:30
Alignment explanation
Indices: 43847095--43847155 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
43847085 ACTTAACAAG
43847095 CAAATG-CTTCTAAAATAATAATAAAAATTAA
1 CAAATGCCTT-TAAAATAATAA-AAAAATTAA
*
43847126 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
43847156 TAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 8 0.29
31 17 0.61
32 3 0.11
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:43854378 original size:18 final size:18
Alignment explanation
Indices: 43854345--43854379 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43854335 TGTTAATATA
*
43854345 GGAGTAAATCCCTGATTG
1 GGAGTAAATACCTGATTG
*
43854363 GGAGTAAATACTTGATT
1 GGAGTAAATACCTGATT
43854380 AGGATTTATC
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:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATACCTGATTG
Found at i:43859193 original size:18 final size:18
Alignment explanation
Indices: 43859166--43859200 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43859156 GATAAATCCT
43859166 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
43859184 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
43859201 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:43876330 original size:27 final size:27
Alignment explanation
Indices: 43876290--43876342 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
43876280 GAAAATTCTT
43876290 TCATCAAAACAGGGTCACACGCCCGTG
1 TCATCAAAACAGGGTCACACGCCCGTG
*
43876317 TCATCAAAATAGGGTCACACGCCCGT
1 TCATCAAAACAGGGTCACACGCCCGT
43876343 ATGGCTTGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (27 bp):
TCATCAAAACAGGGTCACACGCCCGTG
Found at i:43883748 original size:51 final size:51
Alignment explanation
Indices: 43883534--43883785 Score: 197
Period size: 50 Copynumber: 5.0 Consensus size: 51
43883524 ATTGTGAGAA
* * * * *
43883534 CACATGTGTAGTACTATGTGCAGGCAACTATGTGTTTAAA-ATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTG-TAAAAGATAGCTTT-GGT
* * ** *** *
43883586 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTGCCAGATAG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * *** * *
43883636 CACATGTGTAGTACTAAATGCAGGCTATTATGTG-ATCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
*
43883686 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * * * *
43883737 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTTG
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAA-AAGATAGCTTTG
43883786 ACTACAAGGG
Statistics
Matches: 162, Mismatches: 34, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
49 6 0.04
50 68 0.42
51 56 0.35
52 32 0.20
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
Found at i:43883793 original size:51 final size:51
Alignment explanation
Indices: 43883674--43883815 Score: 171
Period size: 51 Copynumber: 2.8 Consensus size: 51
43883664 TATGTGATCC
* * * *
43883674 GATAGCTTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAA
1 GATAGCTTTGCTCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAAAA
* * *
43883725 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAA
1 GATAGCTTTGCTCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAA-AA
* *
43883776 GGTAGCTTTGACT-ACAAGGGTGGTACTATGTGCAGGCCAC
1 GATAGCTTTG-CTCACAAGTGTGGTACTATGTGCAGGCCAC
43883816 CGGGCATCTG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 2 0.03
51 76 0.96
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (51 bp):
GATAGCTTTGCTCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAAAA
Found at i:43887498 original size:42 final size:42
Alignment explanation
Indices: 43887452--43887543 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
43887442 AGACACGGGT
* * * *
43887452 ATGTGTCTCAGCCGTGTGAAACACAAGGCCCAACAGATGGGC
1 ATGTGTCTCAACCATGTGAAACACAAGACCCAACACATGGGC
* *
43887494 ATGTGTCTCAATCATGTGAAACACACGACCCAACACATGGGC
1 ATGTGTCTCAACCATGTGAAACACAAGACCCAACACATGGGC
*
43887536 GTGTGTCT
1 ATGTGTCT
43887544 TGACCGTGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (42 bp):
ATGTGTCTCAACCATGTGAAACACAAGACCCAACACATGGGC
Found at i:43890140 original size:14 final size:13
Alignment explanation
Indices: 43890112--43890144 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
43890102 TAAGTTTGTG
43890112 ATGG-AATGAATT
1 ATGGTAATGAATT
43890124 ATGGTAATGAGATT
1 ATGGTAATGA-ATT
43890138 ATGGTAA
1 ATGGTAA
43890145 ATTACGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 5 0.26
14 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.33
Consensus pattern (13 bp):
ATGGTAATGAATT
Found at i:43890877 original size:33 final size:33
Alignment explanation
Indices: 43890835--43890899 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
43890825 TGAGGGTGGC
* *
43890835 AAATTGGCTTGGTAGATAGCCTTTATTTTTGTA
1 AAATTGGCTTGATAGATAGCCTTTACTTTTGTA
43890868 AAATTGGCTTGATAGATAGCCTTTACTTTTGT
1 AAATTGGCTTGATAGATAGCCTTTACTTTTGT
43890900 CCACACGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.45
Consensus pattern (33 bp):
AAATTGGCTTGATAGATAGCCTTTACTTTTGTA
Found at i:43901654 original size:27 final size:26
Alignment explanation
Indices: 43901623--43901714 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 26
43901613 AATTATCACG
*
43901623 TGTTTCATGTCTCGTCAAACTATCTT
1 TGTTTAATGTCTCGTCAAACTATCTT
43901649 ATGTTTAATGTCTCGTCAAACTATC-T
1 -TGTTTAATGTCTCGTCAAACTATCTT
* * *
43901675 TGTATTCAATATCTCATCAAAATATCTT
1 TGT-TT-AATGTCTCGTCAAACTATCTT
43901703 GTGTTTAATGTC
1 -TGTTTAATGTC
43901715 CCATAGGACT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
25 3 0.05
26 3 0.05
27 44 0.79
28 3 0.05
29 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (26 bp):
TGTTTAATGTCTCGTCAAACTATCTT
Found at i:43901893 original size:45 final size:45
Alignment explanation
Indices: 43901768--43901899 Score: 120
Period size: 45 Copynumber: 2.9 Consensus size: 45
43901758 CTTAGTCTTA
* * ** * * *
43901768 TTTACCATGATACCATAGTATTTTTTAGGTATGGCCTTACTCATT
1 TTTATCATGATGCCATAACATTTTTTAGATATGGTCTTACTCACT
* * * * *
43901813 TTTGTCATGATGCCATAACATCTTTCAAATGTGGTCTTACTCACT
1 TTTATCATGATGCCATAACATTTTTTAGATATGGTCTTACTCACT
** * *
43901858 TTTATTTTGATGCCATAACATTTTTTAGCTATGGTCATACTC
1 TTTATCATGATGCCATAACATTTTTTAGATATGGTCTTACTC
43901900 TTTTTTGGCG
Statistics
Matches: 66, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (45 bp):
TTTATCATGATGCCATAACATTTTTTAGATATGGTCTTACTCACT
Found at i:43907217 original size:26 final size:26
Alignment explanation
Indices: 43907147--43907246 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 26
43907137 ATAAAAAGAT
* * *
43907147 CGAAATACCCTCATCGGGTAGAGTGAT
1 CGAAATACCC-CATAGGGTAGAATGAC
*
43907174 CGAAATATCCCCATAGGGTAGAATGGC
1 CGAAATA-CCCCATAGGGTAGAATGAC
*
43907201 CGAAATTCCCCATAGGGTAGAATGAC
1 CGAAATACCCCATAGGGTAGAATGAC
*
43907227 CGAAATACCCCTGTAGGGTA
1 CGAAATACCCC-ATAGGGTA
43907247 AAATAACTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 28 0.44
27 32 0.51
28 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (26 bp):
CGAAATACCCCATAGGGTAGAATGAC
Found at i:43907302 original size:27 final size:27
Alignment explanation
Indices: 43907272--43907362 Score: 110
Period size: 27 Copynumber: 3.4 Consensus size: 27
43907262 CCCTATAAGA
*
43907272 TAAAATGACTATTTTTCTCTCATGAGG
1 TAAAATGACTATTTTGCTCTCATGAGG
*
43907299 TAAAATGACTATTTTGCTCTCATGAGA
1 TAAAATGACTATTTTGCTCTCATGAGG
* * * * * *
43907326 TGAAATGACTGTTTAGCCCTTATGTGG
1 TAAAATGACTATTTTGCTCTCATGAGG
43907353 TAAAATGACT
1 TAAAATGACT
43907363 GAAATGCCCC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (27 bp):
TAAAATGACTATTTTGCTCTCATGAGG
Found at i:43909531 original size:12 final size:11
Alignment explanation
Indices: 43909514--43909558 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
43909504 AGTTGGTCAT
43909514 GGAGGGATTGTA
1 GGAGGGATTG-A
43909526 GGAGGGAGTTGA
1 GGAGGGA-TTGA
*
43909538 GGAGAGATATGA
1 GGAGGGAT-TGA
43909550 GGAGGGATT
1 GGAGGGATT
43909559 TTAGGAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 24 0.83
13 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.51, T:0.20
Consensus pattern (11 bp):
GGAGGGATTGA
Found at i:43909564 original size:12 final size:12
Alignment explanation
Indices: 43909514--43909565 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
43909504 AGTTGGTCAT
43909514 GGAGGGA-TTGTA
1 GGAGGGATTTG-A
*
43909526 GGAGGGAGTTGA
1 GGAGGGATTTGA
* *
43909538 GGAGAGATATGA
1 GGAGGGATTTGA
*
43909550 GGAGGGATTTTA
1 GGAGGGATTTGA
43909562 GGAG
1 GGAG
43909566 AAAATCATGG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 30 0.91
13 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.50, T:0.21
Consensus pattern (12 bp):
GGAGGGATTTGA
Found at i:43920375 original size:40 final size:39
Alignment explanation
Indices: 43920279--43920459 Score: 150
Period size: 40 Copynumber: 4.6 Consensus size: 39
43920269 CTCGTTCAAG
* * ** * *
43920279 TGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAA
1 TGCCTTCGGGACTTAACCCGGATTTAACAATTCGCACAA
*
43920318 TGCCTTCGGGACATAACCCGGATTTAACAATTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC-AA
**
43920358 TGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC-AA
* * * * * *
43920398 GGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCACAA
* *
43920438 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
43920460 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
39 38 0.33
40 69 0.59
41 8 0.07
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAACCCGGATTTAACAATTCGCACAA
Found at i:43920378 original size:79 final size:80
Alignment explanation
Indices: 43920279--43920459 Score: 215
Period size: 80 Copynumber: 2.3 Consensus size: 80
43920269 CTCGTTCAAG
* * *
43920279 TGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-AATGCCTTCGGGA-CATAACCCGGATT
1 TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGGCCTTC-GGATCATAACCCGGATA
*
43920342 TA-ACAATTCGCACGAA
65 TATACAATTAGCAC-AA
* * * * *
43920358 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGATCTTAATCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGGCCTTCGGATCATAACCCGGATAT
* *
43920423 ATTCACTTAGCACAA
66 ATACAATTAGCACAA
*
43920438 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAGCCCGGA
43920460 CAGCATTCAA
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 36 0.42
80 42 0.49
81 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGGCCTTCGGATCATAACCCGGATAT
ATACAATTAGCACAA
Found at i:43928248 original size:40 final size:40
Alignment explanation
Indices: 43928150--43928319 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
43928140 TCCTCGTTCA
* * * *
43928150 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
43928189 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
43928229 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * * *
43928269 AATGCCTTCGAGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
43928309 AAGGCCTTCGG
1 AATGCCTTCGG
43928320 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 34 0.29
40 83 0.71
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:43928356 original size:80 final size:79
Alignment explanation
Indices: 43928148--43928372 Score: 211
Period size: 80 Copynumber: 2.8 Consensus size: 79
43928138 GCTCCTCGTT
* * * * * * *
43928148 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CACAATGCCTTCGGGACATAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAATAACT-AGCACAATGCCTTCGGGACTTAACCCGG
43928212 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* * * * *
43928227 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGAGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCAC-AATGCCTTCGGGACTTAACCCGG
** *
43928292 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
** * * * *
43928307 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCACAATGCCTTCGGGACTTAACCCG
43928371 GA
64 GA
43928373 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
79 37 0.31
80 78 0.65
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:43928381 original size:41 final size:41
Alignment explanation
Indices: 43928304--43928381 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43928294 TTAGTATCTC
* * *
43928304 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43928345 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43928382 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:43928782 original size:50 final size:50
Alignment explanation
Indices: 43928707--43928807 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
43928697 GCCCATATTT
43928707 ATACATTTGACATTAAAGTCTCAAACATGCAAAAATCATGCATCAACACA
1 ATACATTTGACATTAAAGTCTCAAACATGCAAAAATCATGCATCAACACA
43928757 ATACATTTGACATTAAAGTCTCAAACATGCAAAAATCATGCATCAACACA
1 ATACATTTGACATTAAAGTCTCAAACATGCAAAAATCATGCATCAACACA
43928807 A
1 A
43928808 CATATTAGCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.24
Consensus pattern (50 bp):
ATACATTTGACATTAAAGTCTCAAACATGCAAAAATCATGCATCAACACA
Found at i:43944501 original size:27 final size:27
Alignment explanation
Indices: 43944470--43944647 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43944460 TAAATTGTAC
43944470 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43944497 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43944523 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43944551 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43944579 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43944606 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43944633 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43944648 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43944584 original size:82 final size:81
Alignment explanation
Indices: 43944471--43944626 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43944461 AAATTGTACA
* *
43944471 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43944535 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43944552 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43944617 TGCGAGTTGA
65 TGCGAATTGA
43944627 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43944638 original size:82 final size:81
Alignment explanation
Indices: 43944467--43944647 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
43944457 GATTAAATTG
* *
43944467 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43944532 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43944548 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43944612 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43944630 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43944648 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43948593 original size:28 final size:28
Alignment explanation
Indices: 43948530--43948735 Score: 281
Period size: 28 Copynumber: 7.4 Consensus size: 28
43948520 ATAATAAGTC
* *
43948530 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43948557 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43948585 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43948613 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43948641 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
43948669 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
43948696 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
43948725 CGCACACTTAG
1 CGCACACTTAG
43948736 CGCCAATCTC
Statistics
Matches: 164, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
27 43 0.26
28 108 0.66
29 13 0.08
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:43966703 original size:93 final size:93
Alignment explanation
Indices: 43966590--43966758 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
43966580 CCCATAAGCA
**
43966590 AACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTTGGAATCAACTCAA
1 AACTCAGACTCAACTCAACGAG-TCAGGACGTTCGCATCCATAAGTGAACTCAGAATCAACTCAA
*
43966654 CGAGTTTGGATGCCTAGTTACATTTCATG
65 CGAGTTCGGATGCCTAGTTACATTTCATG
* ** *
43966683 AACTCGGACTCAACTCAACGAGTTTGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGTCAGGACGTTCGCATCCATAAGTGAACTCAGAATCAACTCAAC
43966748 GAGTTCGGATG
66 GAGTTCGGATG
43966759 TTCGCATCCA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 3 0.04
93 65 0.96
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGTCAGGACGTTCGCATCCATAAGTGAACTCAGAATCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCATG
Found at i:43966801 original size:46 final size:46
Alignment explanation
Indices: 43966581--43966804 Score: 238
Period size: 46 Copynumber: 4.8 Consensus size: 46
43966571 TGTAACCCGC
** * *
43966581 CCATAAGCAAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC-GGATGTTCGCAT
** * * * * *
43966627 CCATAAGTGAACTTGGAATCAACTCAACGAGTTTGGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * * *
43966673 ACATTTCA-TGAACTCGGACTCAACTCAACGAGTTTGGACGTTCGCAT
1 CCA--TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
43966720 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
43966766 CCATAAGTGAACTCAGACTCAACTCAACGAATTCGGATG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
43966805 CCCAAATATC
Statistics
Matches: 147, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
45 4 0.03
46 107 0.73
47 34 0.23
48 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:43974064 original size:43 final size:42
Alignment explanation
Indices: 43973967--43974086 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 42
43973957 AGGGTTACTA
* *
43973967 AGATTACATGTAAGACCATATATGAGATATGGCATCAATATG
1 AGATTACATGTAAGACCATACATGAGATATGGCATCAATACG
* * * * *
43974009 AGACTT-CGTGTAAGACCATACCTGGGCTATTGGCATCGATACG
1 AGA-TTACATGTAAGACCATACATGAGATA-TGGCATCAATACG
43974052 AGATTACATGTAAGACCATATC-TGAGATATGGCAT
1 AGATTACATGTAAGACCATA-CATGAGATATGGCAT
43974087 TGGTATGGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 29 0.45
43 34 0.53
44 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (42 bp):
AGATTACATGTAAGACCATACATGAGATATGGCATCAATACG
Found at i:43976124 original size:180 final size:180
Alignment explanation
Indices: 43975846--43976195 Score: 515
Period size: 180 Copynumber: 1.9 Consensus size: 180
43975836 TAGCTGGAGC
*** * *
43975846 TACGGAACTCCAAATTAAGATTTGTTAATTTTCCCAAAAACTAGACTAACATATATTCTTACCAT
1 TACGGAACTCCAAATTAAGAACAGCTAATTTTCCCAAAAACTAGACTAACAAATATTCTTACCAT
43975911 AAAATTTTCAGAATTTTTGGTTTAGCAAATTAGTACAGTTTATGCATTAAAGT-TACCCCTATTT
66 AAAATTTTCAGAATTTTTGGTTTAGCAAATTAGTACAGTTTATGCATTAAA-TATACCCCTATTT
43975975 CACTATC-GAACAGTTCCAACCTCTCTTCACTAAAAATTATTTGTCTCATTG
130 CACTATCTG-ACAGTTCCAACCTCTCTTCACTAAAAATTATTTGTCTCATTG
* * *
43976026 TACGGGACTCCAAATTAAGAACAGCTAATTTTCCCAAAAATTAGACTCACAAATATTCTTACCAT
1 TACGGAACTCCAAATTAAGAACAGCTAATTTTCCCAAAAACTAGACTAACAAATATTCTTACCAT
* * * *
43976091 AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAATATACCCCTGTTTC
66 AAAATTTTCAGAATTTTTGGTTTAGCAAATTAGTACAGTTTATGCATTAAATATACCCCTATTTC
* * * * *
43976156 ACTGTCTGATAGTTCCAATCTTTCTTTACTAAAAATTATT
131 ACTATCTGACAGTTCCAACCTCTCTTCACTAAAAATTATT
43976196 AATCTCATGG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
179 1 0.01
180 149 0.99
181 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (180 bp):
TACGGAACTCCAAATTAAGAACAGCTAATTTTCCCAAAAACTAGACTAACAAATATTCTTACCAT
AAAATTTTCAGAATTTTTGGTTTAGCAAATTAGTACAGTTTATGCATTAAATATACCCCTATTTC
ACTATCTGACAGTTCCAACCTCTCTTCACTAAAAATTATTTGTCTCATTG
Found at i:43976901 original size:52 final size:50
Alignment explanation
Indices: 43976776--43976909 Score: 160
Period size: 50 Copynumber: 2.6 Consensus size: 50
43976766 CTCTGGTACG
* * **
43976776 CATAGTAGCCTGCACTTAGTACTACAGATGCGACCTAAAAATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAAATCTGAAACA
* * * *
43976826 CGTAGTAGCCTGCACTTAATACTACACATGTGACCTAAAACGGTCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAA--ATCTGAAACA
**
43976878 CATAGTAGCCTGCACACAGTACTACACATGTG
1 CATAGTAGCCTGCACTTAGTACTACACATGTG
43976910 TTCTCACAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
50 36 0.51
52 34 0.49
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAAATCTGAAACA
Found at i:43978340 original size:27 final size:27
Alignment explanation
Indices: 43978310--43978559 Score: 153
Period size: 27 Copynumber: 9.3 Consensus size: 27
43978300 GGGGTAAAAT
* *
43978310 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCCATAAGGGTATTTC
*
43978337 GGTAATTCTA--CCTTACAGGAGTATTTC
1 GGTAATTCTACCCCATA-AGG-GTATTTC
* * *
43978364 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCCATAAGGGTATTTC
* * *
43978391 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCCATAAGGGTATTTC
** * * * *
43978418 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCCATAAGGGTATTTC
* * * *
43978445 AGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCCATAAGGGTATTTC
* * * * *
43978472 AGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCCATAAGGGTATTTC
* * * * * *
43978499 GATATTTCTACCCTACAAGGTTATTTT
1 GGTAATTCTACCCCATAAGGGTATTTC
* * * * *
43978526 AGCATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCCATAAGGGTATTTC
43978553 GGTAATT
1 GGTAATT
43978560 TTGTAAATTG
Statistics
Matches: 183, Mismatches: 36, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
25 4 0.02
26 3 0.02
27 171 0.93
28 2 0.01
29 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCCATAAGGGTATTTC
Found at i:43978376 original size:54 final size:54
Alignment explanation
Indices: 43978328--43978559 Score: 286
Period size: 54 Copynumber: 4.3 Consensus size: 54
43978318 TACCCCATAA
* * *
43978328 GGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTCAGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTCAGTAATTCTACCCTACAG
* *
43978382 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAG
** * * * *
43978436 GGGTATTTTAGTAATTCTATCCTATAGGGGTATTTCAGTATTTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAG
* * * * * * *
43978490 GGGTATTTCGATATTTCTACCCTACAAGGTTATTTTAGCATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAG
43978544 GGGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
43978560 TTGTAAATTG
Statistics
Matches: 151, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
54 148 0.98
55 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (54 bp):
GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAG
Found at i:43978435 original size:81 final size:80
Alignment explanation
Indices: 43978339--43978556 Score: 301
Period size: 81 Copynumber: 2.7 Consensus size: 80
43978329 GGTATCTCGG
* *
43978339 TAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGG-GTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCC
43978404 TACAAGGGTATTTCAA
65 TACAAGGGTATTTCAA
* *
43978420 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTATCCTATAGGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTACA-GGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCC
* *
43978485 TACAGGGGTATTTCGA
65 TACAAGGGTATTTCAA
* * * * * *
43978501 TATTTCTACCCTACAAGGTTATTTTAGCATTTCTACCCTACAAGGGTATTTCGGTA
1 TAATTCTACCCTAC-AGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTA
43978557 ATTTTGTAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
81 118 0.98
82 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.38
Consensus pattern (80 bp):
TAATTCTACCCTACAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCT
ACAAGGGTATTTCAA
Found at i:43979026 original size:27 final size:27
Alignment explanation
Indices: 43978581--43979019 Score: 455
Period size: 27 Copynumber: 16.3 Consensus size: 27
43978571 GGGTAAAACA
** * *
43978581 GTAATTTTGTAAATCAAGGGTACTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
** * *
43978608 GTAATTTTACAAGTCGAGGGTATTTTC
1 GTAATTTTACAAACCAAGGGTATTTTG
* *** * **
43978635 ATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAACCAAGGGTATTTTG
* * *
43978662 GTAATTTCACAAATCATGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* * *
43978689 GTAATTTTACAAGCTAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* * * *
43978716 ATAATTTTACAAACTAGGGGGATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* *
43978743 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* *
43978770 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* * **
43978797 GTAATTTTATAAACCATGGGTATTTCA
1 GTAATTTTACAAACCAAGGGTATTTTG
*
43978824 GTAATTTTACAAACTAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
**
43978851 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* *
43978878 GCAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
** *
43978905 GTAATTTTATGAACCAAGGGTATTTTA
1 GTAATTTTACAAACCAAGGGTATTTTG
*
43978932 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
** *
43978959 GTAATTTTGTAAACCAATGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* *
43978986 GTAATTTTATAAACCAAGGGTATTTTC
1 GTAATTTTACAAACCAAGGGTATTTTG
43979013 GTAATTT
1 GTAATTT
43979020 GGCAAACTAA
Statistics
Matches: 351, Mismatches: 61, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 351 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACCAAGGGTATTTTG
Found at i:43983978 original size:30 final size:32
Alignment explanation
Indices: 43983923--43983983 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
43983913 TACTATTTTT
43983923 AGGGATTGATTAGAATATCTTATGGGATATTA
1 AGGGATTGATTAGAATATCTTATGGGATATTA
43983955 AGGGATTGATTA-AGAT-T-TTATGGGATATT
1 AGGGATTGATTAGA-ATATCTTATGGGATATT
43983984 TTAAATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 12 0.43
31 2 0.07
32 14 0.50
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (32 bp):
AGGGATTGATTAGAATATCTTATGGGATATTA
Found at i:43990561 original size:19 final size:20
Alignment explanation
Indices: 43990523--43990562 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
43990513 TTTTAGGCTA
43990523 ATTTTTTACTTAAAAGAAGT
1 ATTTTTTACTTAAAAGAAGT
43990543 ATTTTTT-CTTTAAAA-AAGT
1 ATTTTTTAC-TTAAAAGAAGT
43990562 A
1 A
43990563 ACTTGTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
ATTTTTTACTTAAAAGAAGT
Found at i:43993441 original size:30 final size:30
Alignment explanation
Indices: 43993405--43993461 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43993395 GGCTGGCACA
*
43993405 TGGGCATGTGGC-CTGCCCGTGTGGATCACT
1 TGGGCATGT-GCTCAGCCCGTGTGGATCACT
*
43993435 TGGGCATGTGCTCAGTCCGTGTGGATC
1 TGGGCATGTGCTCAGCCCGTGTGGATC
43993462 CTGAAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.11, C:0.25, G:0.37, T:0.28
Consensus pattern (30 bp):
TGGGCATGTGCTCAGCCCGTGTGGATCACT
Found at i:43997703 original size:25 final size:25
Alignment explanation
Indices: 43997675--43997723 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
43997665 GAATTTTATA
*
43997675 TTTACATATTAAATACATAAATAAT
1 TTTACATATTAAATACAAAAATAAT
** *
43997700 TTTATTTATTAAATATAAAAATAA
1 TTTACATATTAAATACAAAAATAA
43997724 ACTAAAGCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTACATATTAAATACAAAAATAAT
Found at i:44000229 original size:37 final size:37
Alignment explanation
Indices: 44000188--44000286 Score: 162
Period size: 37 Copynumber: 2.6 Consensus size: 37
44000178 ACCTCAAGTG
**
44000188 GATGAGACACTAAGTGTCAATTTACTTCGGTTTAACC
1 GATGAGACACTGGGTGTCAATTTACTTCGGTTTAACC
*
44000225 GATGAGACAGTGGGTGTCAATTTACTTCGGTTTAACC
1 GATGAGACACTGGGTGTCAATTTACTTCGGTTTAACC
44000262 GATGAGACACTGGGTGTCAAATTTA
1 GATGAGACACTGGGTGTC-AATTTA
44000287 TATAGCGCTG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 51 0.89
38 6 0.11
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (37 bp):
GATGAGACACTGGGTGTCAATTTACTTCGGTTTAACC
Found at i:44010623 original size:32 final size:32
Alignment explanation
Indices: 44010570--44010632 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
44010560 ATTGTACAAT
* * *
44010570 CATTGATCCAATTTAATGAATTATACAATTAC
1 CATTGATCCAATTAAACGAATTATAAAATTAC
*
44010602 CATTGATCGAATTAAACGAATTATAAAATTA
1 CATTGATCCAATTAAACGAATTATAAAATTA
44010633 ATCAATCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (32 bp):
CATTGATCCAATTAAACGAATTATAAAATTAC
Found at i:44016164 original size:20 final size:20
Alignment explanation
Indices: 44016139--44016176 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44016129 CTGTTTAGTG
44016139 AAAATTTTTCT-AAGTTTTGT
1 AAAA-TTTTCTAAAGTTTTGT
44016159 AAAATTTTCTAAAGTTTT
1 AAAATTTTCTAAAGTTTT
44016177 CAATTTAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
AAAATTTTCTAAAGTTTTGT
Found at i:44016538 original size:41 final size:41
Alignment explanation
Indices: 44016435--44016549 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 41
44016425 ATAAATATTC
* *
44016435 TATTGTTAATAATATT-TTTAAGCTAAAATTTTGGATTTTTG
1 TATTGTTAATAACATTATTTAATCTAAAATTTT-GATTTTTG
*
44016476 TATTGTTAATAAC-TTATTTAATCTAAAATTTTGATTTTTT
1 TATTGTTAATAACATTATTTAATCTAAAATTTTGATTTTTG
*
44016516 TATTGTTAATAACATTATTTAAT-TAAACTTTTGA
1 TATTGTTAATAACATTATTTAATCTAAAATTTTGA
44016550 GGGATAAGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
40 32 0.47
41 36 0.53
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (41 bp):
TATTGTTAATAACATTATTTAATCTAAAATTTTGATTTTTG
Found at i:44018099 original size:23 final size:23
Alignment explanation
Indices: 44018068--44018139 Score: 60
Period size: 24 Copynumber: 3.1 Consensus size: 23
44018058 TTATAGGATT
44018068 AAATT-AAATTTTATAATTTTTA
1 AAATTAAAATTTTATAATTTTTA
*
44018090 AAATTAAAATATTAT--TTTATTA
1 AAATTAAAATTTTATAATTT-TTA
* * *
44018112 TTAATTTAAAATTTTATAAATTATA
1 --AAATTAAAATTTTATAATTTTTA
44018137 AAA
1 AAA
44018140 AATTTAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
21 3 0.08
22 8 0.21
23 10 0.26
24 13 0.34
25 2 0.05
26 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATTAAAATTTTATAATTTTTA
Found at i:44023337 original size:41 final size:42
Alignment explanation
Indices: 44023292--44023372 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
44023282 AACTTATATA
*
44023292 AGTTTCAG-TTAACCCTAATGGGTTTT-AGTTCAACTCTTACG
1 AGTTTCAGTTTAACCCTAATAGGTTTTCA-TTCAACTCTTACG
* *
44023333 AGTTTCAGTTTAACCCTACTAGGTTTTCATTCAGCTCTTA
1 AGTTTCAGTTTAACCCTAATAGGTTTTCATTCAACTCTTA
44023373 TGAGCTTCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 8 0.23
42 26 0.74
43 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (42 bp):
AGTTTCAGTTTAACCCTAATAGGTTTTCATTCAACTCTTACG
Found at i:44023358 original size:21 final size:21
Alignment explanation
Indices: 44023293--44023358 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
44023283 ACTTATATAA
* *
44023293 GTTTCAG-TTAACCCTAATGG
1 GTTTCAGTTTAACCCTACTAG
* * * *
44023313 GTTTTAGTTCAACTCTTACGA-
1 GTTTCAGTTTAAC-CCTACTAG
44023334 GTTTCAGTTTAACCCTACTAG
1 GTTTCAGTTTAACCCTACTAG
44023355 GTTT
1 GTTT
44023359 TCATTCAGCT
Statistics
Matches: 33, Mismatches: 10, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
20 11 0.33
21 19 0.58
22 3 0.09
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (21 bp):
GTTTCAGTTTAACCCTACTAG
Found at i:44037043 original size:70 final size:70
Alignment explanation
Indices: 44036930--44037604 Score: 496
Period size: 70 Copynumber: 9.6 Consensus size: 70
44036920 GACAGGGCAT
** * * * * ** **
44036930 TCTTAAGGCTCACAAGTTCAATATCACAGCCTCTAAAATAGTTAGCACGAGCCTAAACTCCCAAC
1 TCTTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAGCGTGAGCCTACGCTCCCAAC
44036995 TGTAA
66 TGTAA
* * * *
44037000 TCTTAAGGCTCGTAGGTTCAATACC-CAAACCTTCAAAACAGTTACCGCGAGCCTACGCTCCCAA
1 TCTTAAGGCTCGTAGGTTCAATACCAC-AACCTCCAAAATAGTTAGCGTGAGCCTACGCTCCCAA
*
44037064 CTATAA
65 CTGTAA
* * * * * * *
44037070 TCTTAAGGCTTGCAAGTTCAATACCACAACCTCTAAAATAGTTAGCGTGAGCCTACACTCCTAGC
1 TCTTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAGCGTGAGCCTACGCTCCCAAC
*
44037135 TCTAA
66 TGTAA
* * * * * ** * *
44037140 TATTAAGGCTCGCAAGTTCAATACCATAGCCTCCAAAATAGTTAATGTGAGCCTACGCTGCCATC
1 TCTTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAGCGTGAGCCTACGCTCCCAAC
44037205 TGTAA
66 TGTAA
* * * * * * * *
44037210 TCTTAAGGTTCGTAGGCTAAATACAACAACCTCCAAAGTAATTACCGTGAGCCTATGCTCCCAAC
1 TCTTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAGCGTGAGCCTACGCTCCCAAC
44037275 TAG-AA
66 T-GTAA
* **** * * * * *
44037280 TCTTAAGGCTCGTAGGTTTAATATTGTAACCTCTAAAATAGTTAGCGCGAGCTTATGCTCCCAAA
1 TCTTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAGCGTGAGCCTACGCTCCCAAC
*
44037345 TGGAA
66 TGTAA
* * * * * * * *
44037350 TCTTAAGGTTTGCAAGTTCAGTACCGCATCCTCCAAAAGAGTTAGCGTGAGCCTACGCTCCCAAC
1 TCTTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAGCGTGAGCCTACGCTCCCAAC
44037415 TAG-AA
66 T-GTAA
** * ** * * ** * *
44037420 TCTTTTGGCTCGTAGGTTCAATACCACAGCCTTTAAAACAATTAGCGCAAGCTTACGCTCCC-AG
1 TCTTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAGCGTGAGCCTACGCTCCCAAC
*
44037484 TTTGAA
66 TGT-AA
* * * * * * * * * * *
44037490 TCCTAAGTCTCGCAGGTTCAATAACGCAGCCTCCAAAATAGTTAACGCGAGCTTACGCTCTCAGC
1 TCTTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAGCGTGAGCCTACGCTCCCAAC
44037555 TAG-AA
66 T-GTAA
** * *
44037560 TCTTAAGGCTCGTAGGTTCAATACTGCAGCCTCCAAAACAGTTAG
1 TCTTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAG
44037605 GGCAAGCCTA
Statistics
Matches: 471, Mismatches: 125, Indels: 18
0.77 0.20 0.03
Matches are distributed among these distances:
69 4 0.01
70 463 0.98
71 4 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (70 bp):
TCTTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAGCGTGAGCCTACGCTCCCAAC
TGTAA
Found at i:44047352 original size:70 final size:70
Alignment explanation
Indices: 44047198--44047366 Score: 187
Period size: 70 Copynumber: 2.4 Consensus size: 70
44047188 CGTCTTATCA
* * * * *
44047198 CCTACGCTCCCAACTGGAATCTTAAGGCTCACAGGTTCAATACCACAACCTCCAAAATAGTTAGC
1 CCTACACTCCCAGCTGGAATCTTAAGGCTCACAAGTTCAATACCACAACCGCCAAAACAGTTAGC
*
44047263 ATGAG
66 ACGAG
* * * * *
44047268 CCTACGC-CCTCAGCTAGAATCTTAGGGCTCACAAGTTCAATACCACAGCCGCGAAAACAGTTAG
1 CCTACACTCC-CAGCTGGAATCTTAAGGCTCACAAGTTCAATACCACAACCGCCAAAACAGTTAG
*
44047332 CGCGAG
65 CACGAG
** *
44047338 TTTACACTCCCAGCTGGAATCTAAAGGCT
1 CCTACACTCCCAGCTGGAATCTTAAGGCT
44047367 TATTGGTTTA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
69 2 0.02
70 77 0.95
71 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (70 bp):
CCTACACTCCCAGCTGGAATCTTAAGGCTCACAAGTTCAATACCACAACCGCCAAAACAGTTAGC
ACGAG
Found at i:44048190 original size:131 final size:134
Alignment explanation
Indices: 44047988--44048258 Score: 440
Period size: 131 Copynumber: 2.0 Consensus size: 134
44047978 CAAAAGTTTA
*
44047988 AAACATCAACTATTATCAACACAAAAAAAAACTATTTTACCTAGACATGAGAATATTGAAAACCA
1 AAACATCAACTATTATCAACACAAAAAAAAACTATTTTACCTAGACATAAGAATATTGAAAACCA
* * *
44048053 GCCCACACTTTTGTGCTATACTTACACCAAAACAATAATTAATGTTAAAAATAACTTTTTAAAAC
66 ACCCACACTATTGTACTATACTTACACCAAAACAATAATTAATGTTAAAAATAACTTTTTAAAAC
44048118 AGTG
131 AGTG
* * * *
44048122 AAACATCAACTATTATCGACAC-AAATAAAA-TA-TTTAGCTAGACATAAGAATATTGAAAATCA
1 AAACATCAACTATTATCAACACAAAAAAAAACTATTTTACCTAGACATAAGAATATTGAAAACCA
*
44048184 ACCCACACTATTGTACTATACTTACACCAAAACAATAATTAATGTTAAAAATAACTTTTTAAAAT
66 ACCCACACTATTGTACTATACTTACACCAAAACAATAATTAATGTTAAAAATAACTTTTTAAAAC
44048249 AGTG
131 AGTG
44048253 AAACAT
1 AAACAT
44048259 ACAAAACAAC
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
131 98 0.77
132 2 0.02
133 7 0.05
134 21 0.16
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (134 bp):
AAACATCAACTATTATCAACACAAAAAAAAACTATTTTACCTAGACATAAGAATATTGAAAACCA
ACCCACACTATTGTACTATACTTACACCAAAACAATAATTAATGTTAAAAATAACTTTTTAAAAC
AGTG
Found at i:44052034 original size:21 final size:21
Alignment explanation
Indices: 44051996--44052039 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
44051986 TTTTCTGTTC
* *
44051996 TTTCTTTCTTTTTCTATTTTA
1 TTTCTTTATTTTTCTATTATA
44052017 TTTCTTTATTCTTT-TATTATA
1 TTTCTTTATT-TTTCTATTATA
44052038 TT
1 TT
44052040 ATTATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTCTTTATTTTTCTATTATA
Found at i:44052078 original size:17 final size:17
Alignment explanation
Indices: 44052028--44052083 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 17
44052018 TTCTTTATTC
44052028 TTTTATTATATTATTATA
1 TTTTATT-TATTATTATA
44052046 TTTTAGTAATTATTATTAT-
1 TTTTA-T--TTATTATTATA
*
44052065 TTTTATTTACTTATAATA
1 TTTTATTTA-TTATTATA
44052083 T
1 T
44052084 AAGTAAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 3 0.09
17 6 0.19
18 7 0.22
19 6 0.19
20 9 0.28
21 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTATTTATTATTATA
Found at i:44052158 original size:24 final size:22
Alignment explanation
Indices: 44052096--44052153 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
44052086 GTAAACATAT
* *
44052096 ATTTATACTACACATGTAATTA
1 ATTTTTACCACACATGTAATTA
44052118 ATTTTTACCACACATGTAATTA
1 ATTTTTACCACACATGTAATTA
44052140 ATTTTTACCACACA
1 ATTTTTACCACACA
44052154 CATGTCACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (22 bp):
ATTTTTACCACACATGTAATTA
Found at i:44052282 original size:19 final size:17
Alignment explanation
Indices: 44052258--44052300 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 17
44052248 CTAAATTAAC
44052258 CTTAATTAAGCAAAATTTA
1 CTTAATTAA--AAAATTTA
44052277 CTTAATT--AAAATTTA
1 CTTAATTAAAAAATTTA
44052292 CTTAATTAA
1 CTTAATTAA
44052301 TATTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 15 0.68
19 7 0.32
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (17 bp):
CTTAATTAAAAAATTTA
Found at i:44052287 original size:15 final size:15
Alignment explanation
Indices: 44052269--44052311 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
44052259 TTAATTAAGC
44052269 AAAATTTACTTAATT
1 AAAATTTACTTAATT
44052284 AAAATTTACTTAATT
1 AAAATTTACTTAATT
* *
44052299 AATATTTAATTAA
1 AAAATTTACTTAA
44052312 CCTTTCACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATTTACTTAATT
Found at i:44055086 original size:68 final size:66
Alignment explanation
Indices: 44055014--44055185 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
44055004 CATCATGTGT
* * * *
44055014 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
44055077 TGTAG
62 TGTAG
** * *
44055082 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
44055147 AG
65 AG
* * * *
44055149 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
44055186 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:44055119 original size:64 final size:64
Alignment explanation
Indices: 44055038--44055221 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
44055028 AGACATTATG
* * *
44055038 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
44055102 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
44055167 AA
63 AA
* * *
44055169 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
44055222 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:44058298 original size:16 final size:16
Alignment explanation
Indices: 44058277--44058312 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
44058267 AAACAAAGAC
44058277 TTAATTTAATTTAGTG
1 TTAATTTAATTTAGTG
*
44058293 TTAATTTAGTTTAGTG
1 TTAATTTAATTTAGTG
44058309 TTAA
1 TTAA
44058313 AACCTACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.56
Consensus pattern (16 bp):
TTAATTTAATTTAGTG
Found at i:44065182 original size:6 final size:6
Alignment explanation
Indices: 44065152--44065265 Score: 183
Period size: 6 Copynumber: 18.8 Consensus size: 6
44065142 TTGTTCTGTT
* * * *
44065152 TATCTG TTATTTG TATCTA TATTTG TATTTG TATCTG TATCTG TATCTG
1 TATCTG -TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG
44065201 TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG
1 TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG
44065249 TATCTG TATCTG TATCT
1 TATCTG TATCTG TATCT
44065266 ATAAAGGACT
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
6 96 0.95
7 5 0.05
ACGTcount: A:0.18, C:0.14, G:0.15, T:0.54
Consensus pattern (6 bp):
TATCTG
Found at i:44067471 original size:6 final size:6
Alignment explanation
Indices: 44067460--44067487 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
44067450 ATACAAGATG
44067460 TAATTT TAATTT TAATTT TAATTT TAAT
1 TAATTT TAATTT TAATTT TAATTT TAAT
44067488 AAAAATGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TAATTT
Found at i:44068612 original size:28 final size:29
Alignment explanation
Indices: 44068559--44068616 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
44068549 TTTATGTAAG
44068559 AATAAAAATATTTCAAATACCTTTTTTTA
1 AATAAAAATATTTCAAATACCTTTTTTTA
*
44068588 AATAAAAATATTTCAAATA-TTTTTTTTA
1 AATAAAAATATTTCAAATACCTTTTTTTA
44068616 A
1 A
44068617 TTGTTTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (29 bp):
AATAAAAATATTTCAAATACCTTTTTTTA
Found at i:44075539 original size:112 final size:111
Alignment explanation
Indices: 44075388--44075631 Score: 249
Period size: 114 Copynumber: 2.2 Consensus size: 111
44075378 TAAAGCTAAT
* *
44075388 AAAACACAACAACAAAAATAACATTTCAAGTAAATACGAAAAATTA-ATATAAGATACCACAAAA
1 AAAACACAAC-A-AAAAATAACATTTCAAGTAAATACGAAAAA-AAGATATAAGATACAACAAAA
* * * *
44075452 ATATTAATAAAACAAATTAATCATACCTTCAATACAAATATAAAAATAAA
63 ACATTAATAAAACAAACTAACCATACATTCAATACAAATATAAAAAT-AA
* *** *
44075502 AAAACACAACAAAAAATATCATTTCCCTTGAAA-ACGAAAAAAACGGATATAAGATACAACAATA
1 AAAACACAACAAAAAATAACATTTCAAGT-AAATACGAAAAAAA--GATATAAGATACAACAAAA
* * * **
44075566 ACATTAATAAAATAAACTAACCATACATTTAATACAAATTTAAATCTAA
63 ACATTAATAAAACAAACTAACCATACATTCAATACAAATATAAAAATAA
**
44075615 AAAACATTACAAAAAAT
1 AAAACACAACAAAAAAT
44075632 TATCTTTTAA
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
111 1 0.01
112 22 0.20
113 21 0.19
114 64 0.59
ACGTcount: A:0.60, C:0.15, G:0.03, T:0.22
Consensus pattern (111 bp):
AAAACACAACAAAAAATAACATTTCAAGTAAATACGAAAAAAAGATATAAGATACAACAAAAACA
TTAATAAAACAAACTAACCATACATTCAATACAAATATAAAAATAA
Found at i:44081905 original size:16 final size:16
Alignment explanation
Indices: 44081879--44081932 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
44081869 TTTGGTTTGT
*
44081879 TGTAATGGAATAGAAC
1 TGTAATAGAATAGAAC
* *
44081895 TGTAGTAGAATAGAAT
1 TGTAATAGAATAGAAC
* *
44081911 TGTAATGGAATAGAGC
1 TGTAATAGAATAGAAC
44081927 TGTAAT
1 TGTAAT
44081933 CAATAATTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.30
Consensus pattern (16 bp):
TGTAATAGAATAGAAC
Found at i:44085944 original size:46 final size:46
Alignment explanation
Indices: 44085844--44086013 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
44085834 GGGTAGGATA
* *
44085844 CCGATGTCATGTCCCAGACATGGTCTTACATTGGC-TCATCTCGTAG
1 CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTTCATCTC-AAG
*
44085890 CCGATG-CATGTCCCAGACAT-ATCTTACACTGGCTTACATCTCAAGG
1 CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTT-CATCTCAA-G
* * * *
44085936 TCGATG-CATGTCTCAGACAT-GTCTTACACTAGCTCTCGTCTCAATG
1 CCGATGTCATGTCCCAGACATGGTCTTACACTGGCT-TCATCTCAA-G
44085982 CCGATGTCATGTCCCAGACATGGTCTTACACT
1 CCGATGTCATGTCCCAGACATGGTCTTACACT
44086014 AGCTCGCAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
44 11 0.10
45 16 0.15
46 56 0.52
47 14 0.13
48 10 0.09
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTTCATCTCAAG
Found at i:44087607 original size:14 final size:15
Alignment explanation
Indices: 44087590--44087618 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44087580 GAGTATGGTA
44087590 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
44087604 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
44087619 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:44090903 original size:28 final size:27
Alignment explanation
Indices: 44090870--44090922 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
44090860 TTAGAATACT
*
44090870 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
44090898 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
44090923 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:44090909 original size:27 final size:27
Alignment explanation
Indices: 44090879--44090996 Score: 105
Period size: 27 Copynumber: 4.4 Consensus size: 27
44090869 TTTAGTTTAC
44090879 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
44090906 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
44090933 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
*** *
44090960 TAAAATTACC-AAAGTACCACCGATTTA
1 TAAAATTACCGAAA-TACCTTAGATTTG
44090987 TAAAATTACC
1 TAAAATTACC
44090997 ATTTTACCCC
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 6 0.08
27 71 0.92
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:44090961 original size:54 final size:54
Alignment explanation
Indices: 44090874--44090996 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 54
44090864 AATACTTTAG
* *
44090874 TTTACTAAAATTACCGAAATACGCTTAGTTTGTAAAAATACTGAAA-TACC-CTCGA
1 TTTA-TAAAATTACCGAAATACGCTTAGCTTGTAAAAATAC-CAAAGTACCAC-CGA
* * * *
44090929 TTTGTAAAATTACTGAAATAC-CTTCGACTTGTAAAATTACCAAAGTACCACCGA
1 TTTATAAAATTACCGAAATACGCTTAG-CTTGTAAAAATACCAAAGTACCACCGA
44090983 TTTATAAAATTACC
1 TTTATAAAATTACC
44090997 ATTTTACCCC
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
53 7 0.12
54 46 0.81
55 4 0.07
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
TTTATAAAATTACCGAAATACGCTTAGCTTGTAAAAATACCAAAGTACCACCGA
Found at i:44090997 original size:27 final size:27
Alignment explanation
Indices: 44090960--44091024 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
44090950 CTTCGACTTG
44090960 TAAAATTACCAAAGTACCACCGATTTA
1 TAAAATTACCAAAGTACCACCGATTTA
*** *
44090987 TAAAATTACCATTTTACCCCCGATTTA
1 TAAAATTACCAAAGTACCACCGATTTA
* *
44091014 CATAATTACCA
1 TAAAATTACCA
44091025 TTTTACCCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAGTACCACCGATTTA
Found at i:44091041 original size:27 final size:27
Alignment explanation
Indices: 44090974--44091038 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
44090964 ATTACCAAAG
* * *
44090974 TACCACCGATTTATAAAATTACCATTT
1 TACCCCCGATTTACATAATTACCATTT
44091001 TACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACATAATTACCATTT
44091028 TACCCCC-ATTT
1 TACCCCCGATTT
44091039 TACCCTCGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.31, C:0.29, G:0.03, T:0.37
Consensus pattern (27 bp):
TACCCCCGATTTACATAATTACCATTT
Found at i:44091079 original size:38 final size:38
Alignment explanation
Indices: 44090995--44091070 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
44090985 TATAAAATTA
* *
44090995 CCATTTTACCCCCGATTTACATAATTACCATTTTACCC
1 CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
* *
44091033 CCATTTTACCCTCGACTTACAGAATTACCGTTTTACCC
1 CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
44091071 TCGATTTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.36
Consensus pattern (38 bp):
CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
Found at i:44091169 original size:27 final size:27
Alignment explanation
Indices: 44091035--44091170 Score: 175
Period size: 27 Copynumber: 5.0 Consensus size: 27
44091025 TTTTACCCCC
* *
44091035 ATTTTACCCTCGACTTACAGAATTACC
1 ATTTTACCCTCGATTTACAGAATTACT
*
44091062 GTTTTACCCTCGATTTACAGAATTA-T
1 ATTTTACCCTCGATTTACAGAATTACT
* * *
44091088 CGTTTTACCGTCGATTTATAGAATTACT
1 -ATTTTACCCTCGATTTACAGAATTACT
* *
44091116 ATTTTACCCTTGATTTACAGGATTACT
1 ATTTTACCCTCGATTTACAGAATTACT
*
44091143 ATTTTACCCTCGATTTACAAAATTACT
1 ATTTTACCCTCGATTTACAGAATTACT
44091170 A
1 A
44091171 AAATACCATT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
27 93 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTCGATTTACAGAATTACT
Found at i:44091177 original size:27 final size:27
Alignment explanation
Indices: 44091093--44091205 Score: 64
Period size: 27 Copynumber: 4.2 Consensus size: 27
44091083 ATTATCGTTT
* * * ***
44091093 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* ** ***
44091120 TACCCTTGATTTACAGGATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
44091147 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * * ** *
44091174 TACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
44091201 TACCC
1 TACCC
44091206 CTAGTTTGTA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:44091212 original size:27 final size:27
Alignment explanation
Indices: 44091161--44091216 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
44091151 CTCGATTTAC
* * *
44091161 AAAATTACTAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCACTAGTTTGT
*
44091188 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCACTAGTTTGT
44091215 AA
1 AA
44091217 TGACTAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCACTAGTTTGT
Found at i:44091284 original size:25 final size:26
Alignment explanation
Indices: 44091235--44091295 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 26
44091225 ATGCCCCTAT
44091235 TAGGGTAAAGTGACCGTAAAGCCCCTG
1 TAGGGTAAAG-GACCGTAAAGCCCCTG
44091262 TAGGGTAAA-GACCGTAATA-CCCCTG
1 TAGGGTAAAGGACCGTAA-AGCCCCTG
*
44091287 TATGGTAAA
1 TAGGGTAAA
44091296 ATGATGAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 22 0.69
26 1 0.03
27 9 0.28
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (26 bp):
TAGGGTAAAGGACCGTAAAGCCCCTG
Found at i:44093953 original size:91 final size:91
Alignment explanation
Indices: 44093835--44094001 Score: 275
Period size: 91 Copynumber: 1.8 Consensus size: 91
44093825 CTTGAAAGGT
*
44093835 TTTAGTTACTAGAAAACAACTCACAAGCAAAGCTCTTAT-GTTCAAACTTGGATCATAAATACTC
1 TTTAGTTACTAGAAAACAACTCACAAGCAAAGCTCTTATCG-TCAAACTTGGACCATAAATACTC
44093899 ATTCCACTAGTTCATTAGGGTTTAGGG
65 ATTCCACTAGTTCATTAGGGTTTAGGG
* *
44093926 TTTAGTTACTAGAGAAA-AACTCACAAGCAAAGCTCTTATCGTGAAACTTGGACCCTAAATACTC
1 TTTAGTTACTAGA-AAACAACTCACAAGCAAAGCTCTTATCGTCAAACTTGGACCATAAATACTC
44093990 ATTCCACTAGTT
65 ATTCCACTAGTT
44094002 TCCTGCAGCC
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
91 67 0.94
92 4 0.06
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (91 bp):
TTTAGTTACTAGAAAACAACTCACAAGCAAAGCTCTTATCGTCAAACTTGGACCATAAATACTCA
TTCCACTAGTTCATTAGGGTTTAGGG
Found at i:44094617 original size:37 final size:37
Alignment explanation
Indices: 44094576--44094651 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
44094566 AAGAAAAAAA
*
44094576 GAAAGCGTAGAGATGGAAATGAAAGGAAGTTACCAGT
1 GAAAGCGTAGAGATGGAAAGGAAAGGAAGTTACCAGT
44094613 GAAAGCGTAGAGATGGAAAGGAAAGGAAGTTACCAGT
1 GAAAGCGTAGAGATGGAAAGGAAAGGAAGTTACCAGT
44094650 GA
1 GA
44094652 GACCGAAGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.43, C:0.08, G:0.34, T:0.14
Consensus pattern (37 bp):
GAAAGCGTAGAGATGGAAAGGAAAGGAAGTTACCAGT
Found at i:44095101 original size:18 final size:18
Alignment explanation
Indices: 44095069--44095113 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
44095059 GTACATAGGT
44095069 ATGCGAACTCTTATATGCA
1 ATGCGAACTCTTATATG-A
44095088 ATGCGAAC-CTTATATGA
1 ATGCGAACTCTTATATGA
*
44095105 ATACGAACT
1 ATGCGAACT
44095114 GAATGCGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (18 bp):
ATGCGAACTCTTATATGA
Found at i:44096878 original size:13 final size:13
Alignment explanation
Indices: 44096854--44096889 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
44096844 TGGAAATTAG
*
44096854 AAATATTGAAATT
1 AAATATTAAAATT
*
44096867 AAATTTTAAAATT
1 AAATATTAAAATT
44096880 AAATATTAAA
1 AAATATTAAA
44096890 TTTCGTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
AAATATTAAAATT
Found at i:44098203 original size:19 final size:19
Alignment explanation
Indices: 44098167--44098219 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
44098157 ATTTTTCTCA
*
44098167 AAAAAATAGGAAAAATTATC
1 AAAAAATA-TAAAAATTATC
* *
44098187 AAAAAATATAAATATTATT
1 AAAAAATATAAAAATTATC
*
44098206 AAAAATTATAAAAA
1 AAAAAATATAAAAA
44098220 AATTATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAAAATATAAAAATTATC
Found at i:44098219 original size:9 final size:9
Alignment explanation
Indices: 44098177--44098276 Score: 60
Period size: 10 Copynumber: 10.4 Consensus size: 9
44098167 AAAAAATAGG
44098177 AAAAATTAT
1 AAAAATTAT
*
44098186 CAAAAAATAT
1 -AAAAATTAT
*
44098196 AAATATTATT
1 AAAAATTA-T
44098206 AAAAATTAT
1 AAAAATTAT
44098215 AAAAAAATTAT
1 --AAAAATTAT
*
44098226 AAAAATAAT
1 AAAAATTAT
*
44098235 ATTAAATCTA-
1 A-AAAAT-TAT
*
44098245 ATAAATTATT
1 AAAAATTA-T
*
44098255 AAAAATAAT
1 AAAAATTAT
44098264 -AAAATTAAT
1 AAAAATT-AT
44098273 AAAA
1 AAAA
44098277 CATGTTTTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
8 7 0.10
9 24 0.34
10 30 0.42
11 10 0.14
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:44098267 original size:8 final size:9
Alignment explanation
Indices: 44098218--44098276 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
44098208 AAATTATAAA
44098218 AAAATT-AT
1 AAAATTAAT
*
44098226 AAAAATAAT
1 AAAATTAAT
44098235 ATTAAATCTAAT
1 A--AAAT-TAAT
*
44098247 -AAATTATT
1 AAAATTAAT
*
44098255 AAAAATAAT
1 AAAATTAAT
44098264 AAAATTAAT
1 AAAATTAAT
44098273 AAAA
1 AAAA
44098277 CATGTTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 8 0.20
9 25 0.62
11 3 0.08
12 4 0.10
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAATTAAT
Found at i:44098272 original size:26 final size:27
Alignment explanation
Indices: 44098219--44098275 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 27
44098209 AATTATAAAA
44098219 AAATTATAAAAATAATATTAAATCTAAT
1 AAATTATAAAAATAATA-TAAATCTAAT
44098247 AAATTATTAAAAATAATA-AAAT-TAAT
1 AAATTA-TAAAAATAATATAAATCTAAT
44098273 AAA
1 AAA
44098276 ACATGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.25
27 4 0.14
28 6 0.21
29 11 0.39
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATTATAAAAATAATATAAATCTAAT
Found at i:44098775 original size:12 final size:12
Alignment explanation
Indices: 44098758--44098782 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44098748 GTTCAAGTTT
44098758 TTATAATTTTTA
1 TTATAATTTTTA
44098770 TTATAATTTTTA
1 TTATAATTTTTA
44098782 T
1 T
44098783 AAGTTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATAATTTTTA
Found at i:44098956 original size:29 final size:29
Alignment explanation
Indices: 44098905--44098961 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
44098895 TTATTATTTT
* *
44098905 TTATAACTTTGTTATAATATTTATAAGTC
1 TTATAAATTTGTTATAATATTTACAAGTC
*
44098934 TTATAAATTTTTTATAAGT-TTTACAAGT
1 TTATAAATTTGTTATAA-TATTTACAAGT
44098962 TCATATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (29 bp):
TTATAAATTTGTTATAATATTTACAAGTC
Found at i:44101828 original size:21 final size:23
Alignment explanation
Indices: 44101779--44101844 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 23
44101769 AGGAAATAAC
*
44101779 ATGTGAACACTGTAGGAATTGTA
1 ATGTGAACACTGTAGGAATTATA
44101802 ATGTGAACAC-GTA-GAAGTTAT-
1 ATGTGAACACTGTAGGAA-TTATA
*
44101823 ATGTGAAC-CTATAGGAATTATA
1 ATGTGAACACTGTAGGAATTATA
44101845 TGCGGACCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 1 0.03
21 17 0.46
22 9 0.24
23 10 0.27
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (23 bp):
ATGTGAACACTGTAGGAATTATA
Found at i:44101845 original size:21 final size:22
Alignment explanation
Indices: 44101765--44101846 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 22
44101755 TTATGCAAAC
* *
44101765 CTATAGGAAATAACATGTGAACA
1 CTATAGG-AATTATATGTGAACA
* *
44101788 CTGTAGGAATTGTAATGTGAACA
1 CTATAGGAATTAT-ATGTGAACA
*
44101811 C-GTA-GAAGTTATATGTGAAC-
1 CTATAGGAA-TTATATGTGAACA
44101831 CTATAGGAATTATATG
1 CTATAGGAATTATATG
44101847 CGGACCTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 1 0.02
21 20 0.41
22 12 0.24
23 16 0.33
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (22 bp):
CTATAGGAATTATATGTGAACA
Found at i:44106773 original size:917 final size:916
Alignment explanation
Indices: 44104999--44106829 Score: 3653
Period size: 917 Copynumber: 2.0 Consensus size: 916
44104989 AGTACTACTA
44104999 ATTTTGGGCTGAATAGTGATGGGGTTTTGTGTTTTCGGGGTCGAGTCTGTATACCTAATGACTCT
1 ATTTTGGGCTGAATAGTGATGGGGTTTTGTGTTTTCGGGGTCGAGTCTGTATACCTAATGACTCT
44105064 GATTTAAGGTAGTCTATTCTATGAGAAGCGTATAGTAGCCCTTATGCTATGCATCTAGGAGAAAA
66 GATTTAAGGTAGTCTATTCTATGAGAAGCGTATAGTAGCCCTTATGCTATGCATCTAGGAGAAAA
44105129 TAAGATGTATCGTGATCTGTGTGAGTTGTACTGGTGGCTGAGTTTGAAACTGGAGGTAACAAATT
131 TAAGATGTATCGTGATCTGTGTGAGTTGTACTGGTGGCTGAGTTTGAAACTGGAGGTAACAAATT
44105194 TTGTTTCTCATTGTCTGATGTGCCAGCAAGTTAAGGCTAAGCACCAACTACCTTCGAGTTTACTT
196 TTGTTTCTCATTGTCTGATGTGCCAGCAAGTTAAGGCTAAGCACCAACTACCTTCGAGTTTACTT
44105259 TAACCTATTAAATTTCCCCTATGGAAGTAAGAAATTGTGACTATGGAATTTGTTAGTGGGTTTCC
261 TAACCTATTAAATTTCCCCTATGGAAGTAAGAAATTGTGACTATGGAATTTGTTAGTGGGTTTCC
44105324 CTTAACACCCACTATGAAGGATACTGTGAGGGTCATCGTGGATCGTTTGACCAAGTTTGCCCATT
326 CTTAACACCCACTATGAAGGATACTGTGAGGGTCATCGTGGATCGTTTGACCAAGTTTGCCCATT
44105389 TTATTCTGGTAAGGATAGACTATTTCTTTCAAAAATTGGCCAAGTTATATGTGTCAAAACCATTT
391 TTATTCTGGTAAGGATAGACTATTTCTTTCAAAAATTGGCCAAGTTATATGTGTCAAAACCATTT
44105454 TTTAAAGGGAGGTTTGAAAAATGGGGTTCGACTTTTTGAAAAATGAAAATAAGAGTCGCCACCAA
456 TTTAAAGGGAGGTTTGAAAAATGGGGTTCGACTTTTTGAAAAATGAAAATAAGAGTCGCCACCAA
44105519 CCTTTTTAGGTGTGATTGGATCACCTTATAAAACGTTTTGGTTTACGAAAATTAAGAAAATAGGT
521 CCTTTTTAGGTGTGATTGGATCACCTTATAAAACGTTTTGGTTTACGAAAATTAAGAAAATAGGT
44105584 TCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACCCTCGCAACGCCCAAAATTGGTACCAAATT
586 TCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACCCTCGCAACGCCCAAAATTGGTACCAAATT
44105649 GAATAGATTTCTGTCTTAATGTCAAAAATTTGAAAGGATTTAAAAAATAAGATCCCTTTTTTAAA
651 GAATAGATTTCTGTCTTAATGTCAAAAATTTGAAAGGATTTAAAAAATAAGATCCCTTTTTTAAA
44105714 ATCAGAATTATTTACGTTAAAAAAATCGAAATTCCTTAGCTCCGAAAGAATACAAACATCACATC
716 ATCAGAATTATTTACGTTAAAAAAATCGAAATTCCTTAGCTCCGAAAGAATACAAACATCACATC
44105779 CAACATGATAGGACACGATATTCTTAAACCCTCGTAACTGAAATCATGTCGTGATTTACAAAATC
781 CAACATGATAGGACACGATATTCTTAAACCCTCGTAACTGAAATCATGTCGTGATTTACAAAATC
44105844 TATTTAGAAGGATACTTTAGGCATTTAGACAAACGGGAAATCGCAACCCAGCATGTTAGGGCACT
846 TATTTAGAAGGATACTTTAGGCATTTAGACAAACGGGAAATCGCAACCCAGCATGTTAGGGCACT
44105909 ATTTCT
911 ATTTCT
44105915 NATTTTGGGCTGAATAGTGATGGGGTTTTGTGTTTTCGGGGTCGAGTCTGTATACCTAATGACTC
1 -ATTTTGGGCTGAATAGTGATGGGGTTTTGTGTTTTCGGGGTCGAGTCTGTATACCTAATGACTC
44105980 TGATTTAAGGTAGTCTATTCTATGAGAAGCGTATAGTAGCCCTTATGCTATGCATCTAGGAGAAA
65 TGATTTAAGGTAGTCTATTCTATGAGAAGCGTATAGTAGCCCTTATGCTATGCATCTAGGAGAAA
44106045 ATAAGATGTATCGTGATCTGTGTGAGTTGTACTGGTGGCTGAGTTTGAAACTGGAGGTAACAAAT
130 ATAAGATGTATCGTGATCTGTGTGAGTTGTACTGGTGGCTGAGTTTGAAACTGGAGGTAACAAAT
44106110 TTTGTTTCTCATTGTCTGATGTGCCAGCAAGTTAAGGCTAAGCACCAACTACCTTCGAGTTTACT
195 TTTGTTTCTCATTGTCTGATGTGCCAGCAAGTTAAGGCTAAGCACCAACTACCTTCGAGTTTACT
44106175 TTAACCTATTAAATTTCCCCTATGGAAGTAAGAAATTGTGACTATGGAATTTGTTAGTGGGTTTC
260 TTAACCTATTAAATTTCCCCTATGGAAGTAAGAAATTGTGACTATGGAATTTGTTAGTGGGTTTC
44106240 CCTTAACACCCACTATGAAGGATACTGTGAGGGTCATCGTGGATCGTTTGACCAAGTTTGCCCAT
325 CCTTAACACCCACTATGAAGGATACTGTGAGGGTCATCGTGGATCGTTTGACCAAGTTTGCCCAT
44106305 TTTATTCTGGTAAGGATAGACTATTTCTTTCAAAAATTGGCCAAGTTATATGTGTCAAAACCATT
390 TTTATTCTGGTAAGGATAGACTATTTCTTTCAAAAATTGGCCAAGTTATATGTGTCAAAACCATT
44106370 TTTTAAAGGGAGGTTTGAAAAATGGGGTTCGACTTTTTGAAAAATGAAAATAAGAGTCGCCACCA
455 TTTTAAAGGGAGGTTTGAAAAATGGGGTTCGACTTTTTGAAAAATGAAAATAAGAGTCGCCACCA
44106435 ACCTTTTTAGGTGTGATTGGATCACCTTATAAAACGTTTTGGTTTACGAAAATTAAGAAAATAGG
520 ACCTTTTTAGGTGTGATTGGATCACCTTATAAAACGTTTTGGTTTACGAAAATTAAGAAAATAGG
44106500 TTCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACCCTCGCAACGCCCAAAATTGGTACCAAAT
585 TTCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACCCTCGCAACGCCCAAAATTGGTACCAAAT
44106565 TGAATAGATTTCTGTCTTAATGTCAAAAATTTGAAAGGATTTAAAAAATAAGATCCCTTTTTTAA
650 TGAATAGATTTCTGTCTTAATGTCAAAAATTTGAAAGGATTTAAAAAATAAGATCCCTTTTTTAA
44106630 AATCAGAATTATTTACGTTAAAAAAATCGAAATTCCTTAGCTCCGAAAGAATACAAACATCACAT
715 AATCAGAATTATTTACGTTAAAAAAATCGAAATTCCTTAGCTCCGAAAGAATACAAACATCACAT
44106695 CCAACATGATAGGACACGATATTCTTAAACCCTCGTAACTGAAATCATGTCGTGATTTACAAAAT
780 CCAACATGATAGGACACGATATTCTTAAACCCTCGTAACTGAAATCATGTCGTGATTTACAAAAT
44106760 CTATTTAGAAGGATACTTTAGGCATTTAGACAAACGGGAAATCGCAACCCAGCATGTTAGGGCAC
845 CTATTTAGAAGGATACTTTAGGCATTTAGACAAACGGGAAATCGCAACCCAGCATGTTAGGGCAC
44106825 TATTT
910 TATTT
44106830 TTTGAAGTTT
Statistics
Matches: 914, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
917 914 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (916 bp):
ATTTTGGGCTGAATAGTGATGGGGTTTTGTGTTTTCGGGGTCGAGTCTGTATACCTAATGACTCT
GATTTAAGGTAGTCTATTCTATGAGAAGCGTATAGTAGCCCTTATGCTATGCATCTAGGAGAAAA
TAAGATGTATCGTGATCTGTGTGAGTTGTACTGGTGGCTGAGTTTGAAACTGGAGGTAACAAATT
TTGTTTCTCATTGTCTGATGTGCCAGCAAGTTAAGGCTAAGCACCAACTACCTTCGAGTTTACTT
TAACCTATTAAATTTCCCCTATGGAAGTAAGAAATTGTGACTATGGAATTTGTTAGTGGGTTTCC
CTTAACACCCACTATGAAGGATACTGTGAGGGTCATCGTGGATCGTTTGACCAAGTTTGCCCATT
TTATTCTGGTAAGGATAGACTATTTCTTTCAAAAATTGGCCAAGTTATATGTGTCAAAACCATTT
TTTAAAGGGAGGTTTGAAAAATGGGGTTCGACTTTTTGAAAAATGAAAATAAGAGTCGCCACCAA
CCTTTTTAGGTGTGATTGGATCACCTTATAAAACGTTTTGGTTTACGAAAATTAAGAAAATAGGT
TCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACCCTCGCAACGCCCAAAATTGGTACCAAATT
GAATAGATTTCTGTCTTAATGTCAAAAATTTGAAAGGATTTAAAAAATAAGATCCCTTTTTTAAA
ATCAGAATTATTTACGTTAAAAAAATCGAAATTCCTTAGCTCCGAAAGAATACAAACATCACATC
CAACATGATAGGACACGATATTCTTAAACCCTCGTAACTGAAATCATGTCGTGATTTACAAAATC
TATTTAGAAGGATACTTTAGGCATTTAGACAAACGGGAAATCGCAACCCAGCATGTTAGGGCACT
ATTTCT
Found at i:44107773 original size:19 final size:19
Alignment explanation
Indices: 44107703--44107792 Score: 152
Period size: 18 Copynumber: 4.9 Consensus size: 19
44107693 AATCATATCT
44107703 TCTAAGATTGCATAT-ATA
1 TCTAAGATTGCATATCATA
44107721 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
44107739 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
44107756 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
44107775 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
44107793 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
17 18 0.26
18 25 0.37
19 25 0.37
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:44107800 original size:17 final size:19
Alignment explanation
Indices: 44107706--44107800 Score: 112
Period size: 19 Copynumber: 5.3 Consensus size: 19
44107696 CATATCTTCT
*
44107706 AAGATTGCATAT-ATATCT
1 AAGATTGCATATCATATCG
*
44107724 AAGATTGCA-ATCATATCT
1 AAGATTGCATATCATATCG
*
44107742 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCG
*
44107759 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
44107778 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
44107795 AAGATT
1 AAGATT
44107801 ATATTTCCAT
Statistics
Matches: 72, Mismatches: 1, Indels: 9
0.88 0.01 0.11
Matches are distributed among these distances:
17 24 0.33
18 23 0.32
19 25 0.35
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:44108199 original size:45 final size:45
Alignment explanation
Indices: 44108144--44108416 Score: 284
Period size: 45 Copynumber: 6.1 Consensus size: 45
44108134 GGAAGGCGAT
* * *
44108144 ATCTGCTATCTTTGATCTGTTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
44108189 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* ** * *
44108234 ATCTGCT-TCTTCAATCTACTCCTCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
44108278 ATCTGTTATCTCTGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
44108323 ATCTGTCATCTTGGATCTGCT--TCGATGTAACACATGA-AGGTCAG
1 ATCTGTTATCTTTGATCTGCTCCCCG-TCTAATACA-GAGATGCCAA
* * *
44108367 ATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
44108414 ATC
1 ATC
44108417 ATCTTGGATC
Statistics
Matches: 183, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
43 2 0.01
44 54 0.30
45 98 0.54
46 14 0.08
47 14 0.08
48 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (45 bp):
ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:44108371 original size:89 final size:79
Alignment explanation
Indices: 44108278--44108605 Score: 345
Period size: 78 Copynumber: 4.1 Consensus size: 79
44108268 GAGATGCCAA
*
44108278 ATCTGTTATCTCTGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGC
1 ATCTGTTATCTCTGATCTGCTCCCCGTCTAATACAGAGATGCCAAA----TCATCTTGGATCTGC
44108343 TTCGATGTAACACATGAAGGTCAG
62 TTC--T-T--CA-ATGAAGGTCAG
* * *
44108367 ATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTG---
1 ATCTGTTATCTC-T-GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
*
44108429 CTTCAATAAAGGTCCA-
64 CTTCAATGAAGGT-CAG
* *
44108445 ATCTATTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG---
1 ATCTGTTA--TCTCTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
44108507 CTTCAATGAAGGTCAG
64 CTTCAATGAAGGTCAG
*
44108523 ATCTGCTGTGTCT-TCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG--
1 ATCTG-T-TATCTCT-GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
44108585 -CTTCAATGAAGGTCAG
63 TCTTCAATGAAGGTCAG
44108601 ATCTG
1 ATCTG
44108606 CTATGTCTTC
Statistics
Matches: 217, Mismatches: 13, Indels: 29
0.84 0.05 0.11
Matches are distributed among these distances:
77 3 0.01
78 146 0.67
79 6 0.03
80 3 0.01
81 1 0.00
82 1 0.00
84 1 0.00
87 14 0.06
89 10 0.05
90 1 0.00
91 31 0.14
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (79 bp):
ATCTGTTATCTCTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCT
TCAATGAAGGTCAG
Found at i:44108650 original size:78 final size:78
Alignment explanation
Indices: 44108356--44108624 Score: 459
Period size: 78 Copynumber: 3.4 Consensus size: 78
44108346 GATGTAACAC
*
44108356 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
44108421 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* ** *
44108434 ATAAAGGTCCA-ATCTATTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
44108498 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
44108512 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
44108577 TGGATCTGCTTCA
66 TGGATCTGCTTCA
*
44108590 ATGAAGGTCAGATCTGCTATGTCTTCTATCTGCTC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC
44108625 TCTGTCGAAT
Statistics
Matches: 177, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
77 2 0.01
78 173 0.98
79 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:44109128 original size:41 final size:41
Alignment explanation
Indices: 44109080--44109303 Score: 104
Period size: 41 Copynumber: 5.2 Consensus size: 41
44109070 ATACAGAGAC
44109080 GCCAAATCATCTTAGATTTGCTTCAACGTAACCACGTGAAA
1 GCCAAATCATCTTAGATTTGCTTCAACGTAACCACGTGAAA
* * * * * * *
44109121 GCCAAATCAGCTATGTCTTCGATCTGC-TC-CCTGCCAA-TAC-AGAGAC
1 GCCAAAT---C-A--TCTTAGATTTGCTTCAAC-G-TAACCACGTGA-AA
44109167 GCCAAATCATCTTAGATTTGCTTCAACGTAACCACGTGAAA
1 GCCAAATCATCTTAGATTTGCTTCAACGTAACCACGTGAAA
* * * * * * *
44109208 GCCAAATCAGCTATGTCTTCGATCTGC-TC-CCTGCCAA-TAC-AGAGAC
1 GCCAAAT---C-A--TCTTAGATTTGCTTCAAC-G-TAACCACGTGA-AA
44109254 GCCAAATCATCTTAGATTTGCTTCAACGTAACCACGTGAAA
1 GCCAAATCATCTTAGATTTGCTTCAACGTAACCACGTGAAA
44109295 GCCAAATCA
1 GCCAAATCA
44109304 GCTATGTCTT
Statistics
Matches: 129, Mismatches: 28, Indels: 52
0.62 0.13 0.25
Matches are distributed among these distances:
40 24 0.19
41 35 0.27
42 8 0.06
43 2 0.02
44 2 0.02
45 8 0.06
46 26 0.20
47 24 0.19
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (41 bp):
GCCAAATCATCTTAGATTTGCTTCAACGTAACCACGTGAAA
Found at i:44109195 original size:87 final size:87
Alignment explanation
Indices: 44109049--44109437 Score: 688
Period size: 87 Copynumber: 4.5 Consensus size: 87
44109039 AAATCTGTTA
* * *
44109049 TCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAACCA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAACCA
44109114 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
44109136 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAACCA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAACCA
44109201 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
44109223 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAACCA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAACCA
44109288 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
*
44109310 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAACCA
* *
44109375 CATGAAAGCCAAATCAGTTATG
66 CGTGAAAGCCAAATCAGCTATG
* * *
44109397 TCTTCGATCTGCTCTCTGCCGAACACAGAGATGCCAAATCA
1 TCTTCGATCTGCTCCCTGCC-AATACAGAGACGCCAAATCA
44109438 GTCATCTTCG
Statistics
Matches: 292, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
87 274 0.94
88 18 0.06
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAACCA
CGTGAAAGCCAAATCAGCTATG
Found at i:44109490 original size:44 final size:44
Alignment explanation
Indices: 44109121--44109525 Score: 207
Period size: 44 Copynumber: 9.2 Consensus size: 44
44109111 CCACGTGAAA
*
44109121 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGCCAATACAGAGAC
1 GCCAAATCAG-T-TGTCTTCGATCTGCTCTCTGCCAATACAGAGAC
* * ** * * * *
44109167 GCCAAATCA----TCTTAGATTTGCT-TCAACGTAA-CCACGTGAAA
1 GCCAAATCAGTTGTCTTCGATCTGCTCTCTGC-CAATACA-GAG-AC
*
44109208 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGCCAATACAGAGAC
1 GCCAAATCAG-T-TGTCTTCGATCTGCTCTCTGCCAATACAGAGAC
* * ** * * * *
44109254 GCCAAATCA----TCTTAGATTTGCT-TCAACGTAA-CCACGTGAAA
1 GCCAAATCAGTTGTCTTCGATCTGCTCTCTGC-CAATACA-GAG-AC
*
44109295 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGCCAATACAGAGAC
1 GCCAAATCAG-T-TGTCTTCGATCTGCTCTCTGCCAATACAGAGAC
* * ** * * *
44109341 GCCAAATCA----TCTTAGATTTGCT-TCAACGTAA-ACACATGAAA
1 GCCAAATCAGTTGTCTTCGATCTGCTCTCTGC-CAATACAGA-G-AC
* *
44109382 GCCAAATCAGTTATGTCTTCGATCTGCTCTCTGCCGAACACAGAGAT
1 GCCAAATCAG-T-TGTCTTCGATCTGCTCTCTGCC-AATACAGAGAC
** *
44109429 GCCAAATCAGTCATCTTCGATCTGTTCTCTGCCAATACAGAGAC
1 GCCAAATCAGTTGTCTTCGATCTGCTCTCTGCCAATACAGAGAC
* * * *
44109473 GCCAAATCTGTTGTCTTCGATCTGCTCTCTGCCAATACAAATAT
1 GCCAAATCAGTTGTCTTCGATCTGCTCTCTGCCAATACAGAGAC
44109517 GCCAAATCA
1 GCCAAATCA
44109526 TCTTGGATCT
Statistics
Matches: 261, Mismatches: 64, Indels: 70
0.66 0.16 0.18
Matches are distributed among these distances:
39 14 0.05
40 44 0.17
41 30 0.11
44 54 0.21
45 19 0.07
46 30 0.11
47 52 0.20
48 14 0.05
49 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (44 bp):
GCCAAATCAGTTGTCTTCGATCTGCTCTCTGCCAATACAGAGAC
Found at i:44110544 original size:13 final size:13
Alignment explanation
Indices: 44110526--44110576 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
44110516 TGGCCTCTCC
44110526 ATTTTTTCTTTTT
1 ATTTTTTCTTTTT
*
44110539 ATTTTTTATTTTT
1 ATTTTTTCTTTTT
*
44110552 CTTTTTTCTTTTT
1 ATTTTTTCTTTTT
44110565 -TTATTTTCTTTT
1 ATT-TTTTCTTTT
44110577 CCCCCCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
12 2 0.06
13 32 0.94
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTTCTTTTT
Found at i:44110549 original size:20 final size:20
Alignment explanation
Indices: 44110526--44110576 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
44110516 TGGCCTCTCC
44110526 ATTTTTTCTTTTTAT-TTTTT
1 ATTTTTTCTTTTT-TCTTTTT
44110546 A-TTTTTCTTTTTTCTTTTT
1 ATTTTTTCTTTTTTCTTTTT
44110565 -TTATTTTCTTTT
1 ATT-TTTTCTTTT
44110577 CCCCCCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 17 0.61
20 10 0.36
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (20 bp):
ATTTTTTCTTTTTTCTTTTT
Found at i:44118785 original size:31 final size:32
Alignment explanation
Indices: 44118724--44118795 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
44118714 ATAGAAAACA
* *
44118724 AAAAAGAAGTAGTAAATATTTTACTAAAAGTTTT
1 AAAAA-AA-TAGTAAATATATTACTAAAAGTTGT
* *
44118758 TAAAAAATAGTAAA-ATATTATTAAAAGTTGT
1 AAAAAAATAGTAAATATATTACTAAAAGTTGT
44118789 AAAAAAA
1 AAAAAAA
44118796 ATTATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 20 0.61
32 7 0.21
33 2 0.06
34 4 0.12
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.32
Consensus pattern (32 bp):
AAAAAAATAGTAAATATATTACTAAAAGTTGT
Found at i:44118796 original size:32 final size:32
Alignment explanation
Indices: 44118723--44118805 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 32
44118713 AATAGAAAAC
*
44118723 AAAAAAGAAGTAGTAAATATTTTACTAAAAGTTT
1 AAAAAA-AAGTAGTAAA-ATATTACTAAAAGTTT
** *
44118757 TTAAAAAA-TAGTAAAATATTATTAAAAGTTGT
1 AAAAAAAAGTAGTAAAATATTACTAAAAGTT-T
*
44118789 AAAAAAAATTA-TAAAAT
1 AAAAAAAAGTAGTAAAAT
44118806 TGAAAATTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
31 13 0.32
32 20 0.49
33 4 0.10
34 4 0.10
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (32 bp):
AAAAAAAAGTAGTAAAATATTACTAAAAGTTT
Found at i:44118799 original size:22 final size:19
Alignment explanation
Indices: 44118769--44118811 Score: 50
Period size: 22 Copynumber: 2.1 Consensus size: 19
44118759 AAAAAATAGT
*
44118769 AAAATATTATTAAAAGTTGTAA
1 AAAAAATTA-TAAAA-TTG-AA
44118791 AAAAAATTATAAAATTGAA
1 AAAAAATTATAAAATTGAA
44118810 AA
1 AA
44118812 TTACAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 5 0.25
22 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAAAATTATAAAATTGAA
Found at i:44118850 original size:17 final size:18
Alignment explanation
Indices: 44118837--44118871 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44118827 ATAAAATTTT
44118837 TAAAAATATTAAATATTA
1 TAAAAATATTAAATATTA
*
44118855 TAAAAA-ATTAAAAATTA
1 TAAAAATATTAAATATTA
44118872 CTACTCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAAATATTAAATATTA
Found at i:44123319 original size:41 final size:42
Alignment explanation
Indices: 44123210--44123369 Score: 191
Period size: 42 Copynumber: 3.8 Consensus size: 42
44123200 ACCATACCAT
* * **
44123210 TGCCATATCCCAGATATGGTCTTATATGTAA-TCTTGTATCGA
1 TGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCGA
*
44123252 TGCCAATAGCCCA-ACTATGGTCTTACACGAAGTCTCATATCGA
1 TGCC-ATATCCCAGA-TATGGTCTTACACGAAGTCTCATATCGA
*
44123295 T-CCATATCCCAGATATGGTCTTACACGAAGTCTCATATTGA
1 TGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCGA
* * *
44123336 TGCCATACCCCAAATATGGTCTTACACGTAGTCT
1 TGCCATATCCCAGATATGGTCTTACACGAAGTCT
44123370 TAGTAACCCT
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
41 35 0.34
42 39 0.38
43 29 0.28
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
TGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCGA
Found at i:44132316 original size:153 final size:152
Alignment explanation
Indices: 44132039--44132347 Score: 501
Period size: 153 Copynumber: 2.0 Consensus size: 152
44132029 ATACTTGCTC
* * * *
44132039 TGAAATGTAGTATTAAAGAATTCCCAATGAACATTCTGAATTAGGGCCTAGTTAGAATAGTTGTT
1 TGAAATGTAGTATTAAAGAATTCCCAATGAACATCCCGAATTAGGGCCTAGTCAGAATAGTGGTT
* * *
44132104 TCGGGGCCACAAATCTGACGTTAAAATAATTATTTAATGATCATTATGAAGTCTAGGATATAGGA
66 TCAGGACCACAAATCTGACATTAAAATAATTATTTAATGATCATTATGAAGTCTAGGATATAGGA
44132169 ATAAGCATGTGTTAAAGTTTCA
131 ATAAGCATGTGTTAAAGTTTCA
*
44132191 TGAAATGTAGTATTAAAGAATTCCCAATGTAACATCCCGAATTTGGGCCTAGTCAGAATAGTGGT
1 TGAAATGTAGTATTAAAGAATTCCCAATG-AACATCCCGAATTAGGGCCTAGTCAGAATAGTGGT
* *
44132256 TTCAGGACCACAAATCTGACATTAAAATAATTATTTTATGATCATTATGAAGTCTAGGATATGGG
65 TTCAGGACCACAAATCTGACATTAAAATAATTATTTAATGATCATTATGAAGTCTAGGATATAGG
* *
44132321 AATAATCATGTGTTAAAGTTTTA
130 AATAAGCATGTGTTAAAGTTTCA
44132344 TGAA
1 TGAA
44132348 GAAATTCTAT
Statistics
Matches: 144, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
152 29 0.20
153 115 0.80
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (152 bp):
TGAAATGTAGTATTAAAGAATTCCCAATGAACATCCCGAATTAGGGCCTAGTCAGAATAGTGGTT
TCAGGACCACAAATCTGACATTAAAATAATTATTTAATGATCATTATGAAGTCTAGGATATAGGA
ATAAGCATGTGTTAAAGTTTCA
Found at i:44138140 original size:55 final size:55
Alignment explanation
Indices: 44138064--44138169 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
44138054 TGACTTTTAA
*
44138064 ACATGGTCATGGCACACGCCCGTATGGACTACCCGTGTTCAATACTAACTTTGGG
1 ACATGGTCATGGCACACGCCCGTATGGACTACCCGTGTCCAATACTAACTTTGGG
* * * *
44138119 ACATGG-CTATGGGACACGCCCGTGTGGCCTACCCGTGTCCTATACTAACTT
1 ACATGGTC-ATGGCACACGCCCGTATGGACTACCCGTGTCCAATACTAACTT
44138170 ATAAATTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (55 bp):
ACATGGTCATGGCACACGCCCGTATGGACTACCCGTGTCCAATACTAACTTTGGG
Done.