Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 2 of 297
Found at i:443125 original size:31 final size:31
Alignment explanation
Indices: 443067--443126 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
443057 TACCAGAGAC
* * * **
443067 TTATCATAGAGAGCTCGCATAGGGAGCTTAT
1 TTATCACAAAGAGCTCACATAAAGAGCTTAT
443098 TTATCACAAAGAGCTCACATAAAGAGCTT
1 TTATCACAAAGAGCTCACATAAAGAGCTT
443127 GCTTGAAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (31 bp):
TTATCACAAAGAGCTCACATAAAGAGCTTAT
Found at i:443269 original size:25 final size:26
Alignment explanation
Indices: 443234--443288 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
443224 GAGCTTGCAT
* *
443234 AAAACATATTTTTAAAACAGA-CTTA
1 AAAACACATTTTGAAAACAGAGCTTA
443259 AAAACACATTTTGAAAACAGAGTCTTA
1 AAAACACATTTTGAAAACAGAG-CTTA
443286 AAA
1 AAA
443289 CTTAAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 19 0.73
27 7 0.27
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (26 bp):
AAAACACATTTTGAAAACAGAGCTTA
Found at i:456189 original size:65 final size:65
Alignment explanation
Indices: 456067--456189 Score: 146
Period size: 65 Copynumber: 1.9 Consensus size: 65
456057 CTAAATTTCA
* *
456067 CCCACGGCCAATAAACACGCCCGTGTGCTAAGGCCGTGTGATATTTAGCTAGCTACTGACTTTAG
1 CCCACGGCCAATAAACACGCCCGTGTGCTAAGGCCGTGTGATATTTAGATAGATACTGACTTTAG
* *
456132 CCCACGGCC-ATATGACTCGCCCGTGTG-TCAAGGCCGTGTGAT-TCTTA-ATAGAATACTG
1 CCCACGGCCAATA-AACACGCCCGTGTGCT-AAGGCCGTGTGATAT-TTAGATAG-ATACTG
456190 TTTTTCTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
64 8 0.16
65 42 0.84
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (65 bp):
CCCACGGCCAATAAACACGCCCGTGTGCTAAGGCCGTGTGATATTTAGATAGATACTGACTTTAG
Found at i:457075 original size:30 final size:29
Alignment explanation
Indices: 457028--457091 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
457018 CAAATAACCG
457028 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
* *
457057 AAGCTAGTTTATATCGCACACTTAGTGCTA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
457087 AAGCT
1 AAGCT
457092 TCCGACTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:465747 original size:46 final size:48
Alignment explanation
Indices: 465608--465780 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 48
465598 GGGGTCAAGT
** * *
465608 GCCGATGCCATGTCCCAAACATGGTCTTACACAAGTTCTAGCATATCTGT-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-TA-CATCTC-GTA
* *
465658 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGTA
*
465704 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTCG-A
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGTA
*
465749 GGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACT
465781 AGCACTCGTT
Statistics
Matches: 109, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
44 12 0.11
45 16 0.15
46 49 0.45
47 1 0.01
50 31 0.28
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGTA
Found at i:465801 original size:46 final size:47
Alignment explanation
Indices: 465658--465877 Score: 190
Period size: 46 Copynumber: 4.7 Consensus size: 47
465648 GCATATCTGT
* * *
465658 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC-GTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAATA
* * * * *
465704 GCCGATGCATGTCCCAAACATGTCTTACACTGGC-TTACGTCTCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAATA
*
465750 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTTTCAATA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATA
* *
465797 -CCGATCACATATCCCAGACATGGTCTTACACTAG--CTC-TCAT-AATA
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTAGCACTCGTC-TCAATA
*
465842 TGGCCGATGCATGTCTCAGACATGTCTTACACTAGC
1 --GCCGATGCATGTCCCAGACATGTCTTACACTAGC
465878 TCACACAAGT
Statistics
Matches: 143, Mismatches: 18, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
44 10 0.07
45 19 0.13
46 71 0.50
47 26 0.18
48 17 0.12
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATA
Found at i:465824 original size:94 final size:92
Alignment explanation
Indices: 465658--465882 Score: 228
Period size: 94 Copynumber: 2.4 Consensus size: 92
465648 GCATATCTGT
* * *
465658 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGATGCATGTCCCAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATACATATCCCAA
* *
465721 ACATGTCTTACACTGGCTTACGTC-T-CGA-G
64 ACATGTCTTACACTAGC-T-C-TCATAAGATG
* * * *
465750 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTTTCAATA-CCGATCACATATCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTC-ATAGCCGAT-ACATATCCCAA
*
465814 ACATGGTCTTACACTAGCTCTCATAATATG
64 ACAT-GTCTTACACTAGCTCTCATAAGATG
* *
465844 GCCGATGCATGTCTCAGACATGTCTTACACTAGCTCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACA
465883 CAAGTGACCT
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
90 10 0.09
91 17 0.15
92 20 0.18
93 16 0.14
94 48 0.43
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCATAGCCGATACATATCCCAAAC
ATGTCTTACACTAGCTCTCATAAGATG
Found at i:471129 original size:50 final size:50
Alignment explanation
Indices: 471054--471153 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
471044 ACCTAACATT
471054 CAACTTTCCTGAAAAAATAGATGGTTTGGGATCAGCCCGAGGCAGGGAAA
1 CAACTTTCCTGAAAAAATAGATGGTTTGGGATCAGCCCGAGGCAGGGAAA
* *
471104 CAACTTTCCTG-AAAAATGAGATGGTTTTGGATCAGCCCGAGGCGGGGAAA
1 CAACTTTCCTGAAAAAAT-AGATGGTTTGGGATCAGCCCGAGGCAGGGAAA
471154 GAGCTTGCTG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 6 0.13
50 41 0.87
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (50 bp):
CAACTTTCCTGAAAAAATAGATGGTTTGGGATCAGCCCGAGGCAGGGAAA
Found at i:478945 original size:20 final size:20
Alignment explanation
Indices: 478917--478958 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
478907 CTTACCATTT
*
478917 TAAGGTAATCTAACAACTTA
1 TAAGATAATCTAACAACTTA
478937 TAAGATAATCTAACAACTTA
1 TAAGATAATCTAACAACTTA
478957 TA
1 TA
478959 GAACATGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (20 bp):
TAAGATAATCTAACAACTTA
Found at i:480462 original size:40 final size:40
Alignment explanation
Indices: 480418--480535 Score: 146
Period size: 40 Copynumber: 3.0 Consensus size: 40
480408 GCAATCATGA
* *
480418 GTACCAAAGTACAAACAGGGGCACGTATATGCATTCAGGG
1 GTACCAAAGTACAAACAGGGGCACATATGTGCATTCAGGG
* * **
480458 GTACCAAAGTAAAAATAGGAACACATATGTGCATTCAGGG
1 GTACCAAAGTACAAACAGGGGCACATATGTGCATTCAGGG
* * * *
480498 GTATCGAAGTACAAACAGAGGCACATATGTGCAATCAG
1 GTACCAAAGTACAAACAGGGGCACATATGTGCATTCAG
480536 TGTAACACCC
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (40 bp):
GTACCAAAGTACAAACAGGGGCACATATGTGCATTCAGGG
Found at i:481966 original size:40 final size:40
Alignment explanation
Indices: 481914--482222 Score: 381
Period size: 40 Copynumber: 7.7 Consensus size: 40
481904 ATTACCACAA
* *
481914 GCACAATTGCCTTCGGGTCTTAGCCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAGCAACTC
* * * *
481954 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAGCAACTC
* * * *
481994 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGT-ATAGCAACTC
* *
482034 GCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAGCAACTC
* * * *
482074 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGT-ATAGCAACTC
* *
482114 GCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAGCAACTC
* * *
482154 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAGCAACTC
482194 GCACAAATG-CTTGCGGGTCTTAGCCCGGG
1 GCACAAATGCCTT-CGGGTCTTAGCCCGGG
482223 CATATATATA
Statistics
Matches: 230, Mismatches: 34, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
39 8 0.03
40 215 0.93
41 7 0.03
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAGCAACTC
Found at i:482045 original size:80 final size:80
Alignment explanation
Indices: 481914--482222 Score: 421
Period size: 80 Copynumber: 3.9 Consensus size: 80
481904 ATTACCACAA
* ** *
481914 GCACAATTGCCTTCGGGTCTTAGCCCGGGCATAGCA--ACTCGCACGAA-TGCCTTCGGGTCTTA
1 GCACAAATGCCTTCGGGTCTTAGCCC-GG-ATAAAATCACTAGCAC-AATTGCCTTCGGGTCTTA
* * *
481976 GCCCGGATATATCAACTT
63 GCCCGGGTATAGCAACTC
*
481994 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
482059 CGGGTATAGCAACTC
66 CGGGTATAGCAACTC
*
482074 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
482139 CGGGTATAGCAACTC
66 CGGGTATAGCAACTC
* * * *
482154 GCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATG-CTTGCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTT-CGGGTCTTAG
482217 CCCGGG
64 CCCGGG
482223 CATATATATA
Statistics
Matches: 211, Mismatches: 13, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
78 4 0.02
79 11 0.05
80 196 0.93
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
CGGGTATAGCAACTC
Found at i:482118 original size:120 final size:120
Alignment explanation
Indices: 481913--482221 Score: 435
Period size: 120 Copynumber: 2.6 Consensus size: 120
481903 TATTACCACA
* *
481913 AGCACAATTGCCTTCGGGTCTTAGCCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
* * *
481978 CCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
66 CCGGATAAATCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AAAGCAACT
*
482033 AGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
482098 CCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACT
66 CCGGAT-AAATCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAGCAACT
* * * * *
482153 CGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATG-CTTGCGGGTCTTAG
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGGTATAGCAACTCGCACAAATGCCTT-CGGGTCTTAG
482217 CCCGG
65 CCCGG
482222 GCATATATAT
Statistics
Matches: 170, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
119 6 0.04
120 160 0.94
121 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (120 bp):
AGCACAATTGCCTTCGGGTCTTAGCCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATAAATCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAGCAACT
Found at i:484275 original size:40 final size:39
Alignment explanation
Indices: 484231--484382 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
484221 TCAGGGTTGC
** *
484231 CGAAGTACAAATAAAAGCACGTATGTGCAATCAAGGGTA
1 CGAAGTACAAATAGGAGCACATATGTGCAATCAAGGGTA
** * * *
484270 TCGAAGTACAACCAGGGGCACATATGTGCAATCATGGATA
1 -CGAAGTACAAATAGGAGCACATATGTGCAATCAAGGGTA
* *
484310 CCGAAGTACAAATAGGGGCACATATGTGCAATCAGGGGTA
1 -CGAAGTACAAATAGGAGCACATATGTGCAATCAAGGGTA
* * * * *
484350 CAAAGTATAAAGAGGAGCACGTATGTGAAATCA
1 CGAAGTACAAATAGGAGCACATATGTGCAATCA
484383 TTAAATAATT
Statistics
Matches: 93, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 27 0.29
40 66 0.71
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.18
Consensus pattern (39 bp):
CGAAGTACAAATAGGAGCACATATGTGCAATCAAGGGTA
Found at i:486174 original size:28 final size:28
Alignment explanation
Indices: 486140--486223 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
486130 AGAATTATTC
* *
486140 AATTTGCTCACACAAGCTGTAATATTTG
1 AATTTGCTCACACAAGCTATGATATTTG
*
486168 AATTTGCTCACACATGCTATGATATTTG
1 AATTTGCTCACACAAGCTATGATATTTG
*
486196 AATTTGATCACACAAGCTATGATATTTG
1 AATTTGCTCACACAAGCTATGATATTTG
486224 GGCTGCTCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (28 bp):
AATTTGCTCACACAAGCTATGATATTTG
Found at i:490219 original size:47 final size:45
Alignment explanation
Indices: 490159--490375 Score: 183
Period size: 47 Copynumber: 4.6 Consensus size: 45
490149 TGAGAGCTAA
*
490159 TGTAAGACAATGTCTGGGACATGGCATCGGCATAGAGATGAGTGTCAG
1 TGTAAGAC-ATGTCTGGGACAT-GCATCGGCATAGAGA-GAGTGCCAG
* * * *
490207 AGTAAGACATGTCTGGGACATGCATCGGCTTCGACAGAGATAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATAGAGAGAG-T-GCCAG
* * *
490254 TGTAAGACGTGTCTGGGACACGCATCGGC-TA-AGA-ATTGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATAGAGAGA--GTGCCAG
* *
490298 TGTAAGACATATCTGGGACATGCATCAGCACGCATATATGAGA--GCCAG
1 TGTAAGACATGTCTGGGACATGCATC-G---GCATAGA-GAGAGTGCCAG
490346 TGTAAGACCATGTCTGGGACATGGCATCGG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGG
490376 TAATTTATCC
Statistics
Matches: 139, Mismatches: 16, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
44 28 0.20
45 7 0.05
46 16 0.12
47 43 0.31
48 20 0.14
49 16 0.12
50 6 0.04
51 2 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATAGAGAGAGTGCCAG
Found at i:502075 original size:79 final size:82
Alignment explanation
Indices: 501964--502148 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
501954 GCTACTCGTT
* *
501964 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
502027 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
502044 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
502107 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
502124 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
502149 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:502148 original size:40 final size:40
Alignment explanation
Indices: 501945--502148 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
501935 CGGAATTTAA
** *
501945 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
501985 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
502025 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
502064 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
502104 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
502144 CCGGA
1 CCGGA
502149 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:509696 original size:33 final size:33
Alignment explanation
Indices: 509654--509722 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
509644 AGTTAATCGG
509654 TGGGTTGTTGACTGATTGACGTTGTGGTAATTA
1 TGGGTTGTTGACTGATTGACGTTGTGGTAATTA
509687 TGGGTTGTTGACTGATTGACGTTGTGGTAATTA
1 TGGGTTGTTGACTGATTGACGTTGTGGTAATTA
509720 TGG
1 TGG
509723 CTCCTTTCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.17, C:0.06, G:0.35, T:0.42
Consensus pattern (33 bp):
TGGGTTGTTGACTGATTGACGTTGTGGTAATTA
Found at i:511963 original size:15 final size:15
Alignment explanation
Indices: 511943--511972 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
511933 AGGGTCGAAT
511943 GCTCAAAGTTAAAAG
1 GCTCAAAGTTAAAAG
511958 GCTCAAAGTTAAAAG
1 GCTCAAAGTTAAAAG
511973 AACTCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
GCTCAAAGTTAAAAG
Found at i:511980 original size:16 final size:15
Alignment explanation
Indices: 511944--511980 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
511934 GGGTCGAATG
*
511944 CTCAAAGTTAAAAGG
1 CTCAAAGTTAAAAGA
511959 CTCAAAGTTAAAAGAA
1 CTCAAAGTTAAAAG-A
511975 CTCAAA
1 CTCAAA
511981 TTTTTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (15 bp):
CTCAAAGTTAAAAGA
Found at i:518128 original size:329 final size:329
Alignment explanation
Indices: 517530--518186 Score: 1269
Period size: 329 Copynumber: 2.0 Consensus size: 329
517520 TAGAACTGAT
517530 ATGTTTCTAATCGCCCTGGAATTTGTAAACAGCTGGCCAATGAATTATAGAGATTGTAAACTTTA
1 ATGTTTCTAATCGCCCTGGAATTTGTAAACAGCTGGCCAATGAATTATAGAGATTGTAAACTTTA
517595 CAGGCATATGTCGAAATGGAATATGAACAGTCCATATGTTATGAAACGTATATCTAATGAATTGT
66 CAGGCATATGTCGAAATGGAATATGAACAGTCCATATGTTATGAAACGTATATCTAATGAATTGT
517660 ATTGGTTTGGAATCTCTTTAAGCTATTATTCCCTTTAGCTGGGTTTTCTCACATCAATTTCCTTA
131 ATTGGTTTGGAATCTCTTTAAGCTATTATTCCCTTTAGCTGGGTTTTCTCACATCAATTTCCTTA
*
517725 TATGGTCACATATTTGTTCATCTCCATTTCATTTGTCCTTCTGAAGCGAGTATAGTGCTTTCCTA
196 TATGGTCACATATTTGTTCATCTCCATTTCATTTGTCCTTCTGAAGCGAGTATAGTGCCTTCCTA
517790 CTTGCCTGTCATCATCTTTTGCTAGCAATCTTTTGTTATTCTACTCAAATCACTTTTGGTTGGCG
261 CTTGCCTGTCATCATCTTTTGCTAGCAATCTTTTGTTATTCTACTCAAATCACTTTTGGTTGGCG
517855 ATAC
326 ATAC
*
517859 ATGTTTCTAATCGCCCTGGAATTTTTAAACAGCTGGCCAATGAATTATAGAGATTGTAAACTTTA
1 ATGTTTCTAATCGCCCTGGAATTTGTAAACAGCTGGCCAATGAATTATAGAGATTGTAAACTTTA
517924 CAGGCATATGTCGAAATGGAATATGAACAGTCCATATGTTATGAAACGTATATCTAATGAATTGT
66 CAGGCATATGTCGAAATGGAATATGAACAGTCCATATGTTATGAAACGTATATCTAATGAATTGT
517989 ATTGGTTTGGAATCTCTTTAAGCTATTATTCCCTTTAGCTGGGTTTTCTCACATCAATTTCCTTA
131 ATTGGTTTGGAATCTCTTTAAGCTATTATTCCCTTTAGCTGGGTTTTCTCACATCAATTTCCTTA
* *
518054 TCTGGTCACATATTTGTTCATCTCCATTTCATTTTTCCTTCTGAAGCGAGTATAGTGCCTTCCTA
196 TATGGTCACATATTTGTTCATCTCCATTTCATTTGTCCTTCTGAAGCGAGTATAGTGCCTTCCTA
*
518119 CTTGCCTGTCATCATCTTTTGCTAGCAATTTTTTGTTATTCTACTCAAATCACTTTTGGTTGGCG
261 CTTGCCTGTCATCATCTTTTGCTAGCAATCTTTTGTTATTCTACTCAAATCACTTTTGGTTGGCG
518184 ATA
326 ATA
518187 TGAGTAAATA
Statistics
Matches: 323, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
329 323 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (329 bp):
ATGTTTCTAATCGCCCTGGAATTTGTAAACAGCTGGCCAATGAATTATAGAGATTGTAAACTTTA
CAGGCATATGTCGAAATGGAATATGAACAGTCCATATGTTATGAAACGTATATCTAATGAATTGT
ATTGGTTTGGAATCTCTTTAAGCTATTATTCCCTTTAGCTGGGTTTTCTCACATCAATTTCCTTA
TATGGTCACATATTTGTTCATCTCCATTTCATTTGTCCTTCTGAAGCGAGTATAGTGCCTTCCTA
CTTGCCTGTCATCATCTTTTGCTAGCAATCTTTTGTTATTCTACTCAAATCACTTTTGGTTGGCG
ATAC
Found at i:527845 original size:30 final size:30
Alignment explanation
Indices: 527790--527851 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
527780 CACTAAGCAA
527790 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
527819 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
527850 GT
1 GT
527852 ATGTAACAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:531505 original size:25 final size:26
Alignment explanation
Indices: 531425--531505 Score: 89
Period size: 25 Copynumber: 3.2 Consensus size: 26
531415 ATGCTTATAA
* *
531425 GAGCT-ATGAATCGGTATGCTTTCAC
1 GAGCTGATGAATCGGTAAGCTCTCAC
* *
531450 GAGCT-ATAAATCGGTAAGCTCAT-AT
1 GAGCTGATGAATCGGTAAGCTC-TCAC
531475 GAGCTGA-GAATCGGTAAGCTCTCAC
1 GAGCTGATGAATCGGTAAGCTCTCAC
531500 GAGCTG
1 GAGCTG
531506 CAATTCGTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.02
25 44 0.94
26 2 0.04
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (26 bp):
GAGCTGATGAATCGGTAAGCTCTCAC
Found at i:535916 original size:39 final size:40
Alignment explanation
Indices: 535816--536000 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
535806 TTGAATGATG
* * * *
535816 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
535856 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
535896 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
535935 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
535976 -CCGGGCTATGTTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
536001 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:535981 original size:79 final size:81
Alignment explanation
Indices: 535817--535998 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 81
535807 TGAATGATGT
* *
535817 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
535881 GTGCGAGATACTAATT
66 GTGCGAGATACTAATA
* * * * **
535897 TCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
535959 TGTGCGAGTTACT-ATAA
65 TGTGCGAGATACTAAT-A
* *
535976 CCGGGCTATGTTCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
535999 TGAACGAGGA
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.04
79 56 0.66
80 26 0.31
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATA
Found at i:536022 original size:79 final size:79
Alignment explanation
Indices: 535869--536033 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
535859 GGACTAAGAT
** ** *
535869 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
*
535934 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
535948 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTTCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-C
* *
536011 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
536027 CCGAAGG
1 CCGAAGG
536034 TACGTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:536863 original size:44 final size:44
Alignment explanation
Indices: 536796--536882 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
536786 TAAAAATAGT
* *
536796 AGGAAGGGAATTAAATAGTGAATAAATTATGTAAACGAACCTTC
1 AGGAAGGGAATTAAATAGCGAATAAATTATGTAAACCAACCTTC
* *
536840 AGGAATGGAATTAAATAGCGAATAAATTATGTGAACCAACCTT
1 AGGAAGGGAATTAAATAGCGAATAAATTATGTAAACCAACCTT
536883 GATGAATCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (44 bp):
AGGAAGGGAATTAAATAGCGAATAAATTATGTAAACCAACCTTC
Found at i:539482 original size:128 final size:128
Alignment explanation
Indices: 539254--539508 Score: 474
Period size: 128 Copynumber: 2.0 Consensus size: 128
539244 ATCAGCAATG
*
539254 TTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTTGCGTATGTACTTGATGACAAAGA
1 TTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTTGCGTATGTACTGGATGACAAAGA
539319 ATTAGAAAAGAAACCCGAATCTATGCCGGTGGTTTGTGAATACCCGGATGCTTTTCCTGAAGA
66 ATTAGAAAAGAAACCCGAATCTATGCCGGTGGTTTGTGAATACCCGGATGCTTTTCCTGAAGA
539382 TTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTTGCGTATGTACTGGATGACAAAGA
1 TTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTTGCGTATGTACTGGATGACAAAGA
* * *
539447 ATTAGACAAGAAACCCGAATCTGTGCCGGTGGTTTGTGAATACCCGGATGTTTTTCCTGAAG
66 ATTAGAAAAGAAACCCGAATCTATGCCGGTGGTTTGTGAATACCCGGATGCTTTTCCTGAAG
539509 GATTACCGGG
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 123 1.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (128 bp):
TTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTTGCGTATGTACTGGATGACAAAGA
ATTAGAAAAGAAACCCGAATCTATGCCGGTGGTTTGTGAATACCCGGATGCTTTTCCTGAAGA
Found at i:553322 original size:20 final size:21
Alignment explanation
Indices: 553294--553342 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
553284 TATCGATCTA
* *
553294 GTATCGATAAT-TTTCTTAAG
1 GTATTGATAATATTTCCTAAG
553314 GTATTGAT-ATATTTCCTAAG
1 GTATTGATAATATTTCCTAAG
553334 GTATTGATA
1 GTATTGATA
553343 TTCCTGCTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (21 bp):
GTATTGATAATATTTCCTAAG
Found at i:553343 original size:20 final size:20
Alignment explanation
Indices: 553305--553343 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
553295 TATCGATAAT
*
553305 TTTCTTAAGGTATTGATATA
1 TTTCCTAAGGTATTGATATA
553325 TTTCCTAAGGTATTGATAT
1 TTTCCTAAGGTATTGATAT
553344 TCCTGCTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (20 bp):
TTTCCTAAGGTATTGATATA
Found at i:557569 original size:20 final size:20
Alignment explanation
Indices: 557544--557585 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
557534 TGGGCCCTGA
557544 GTTAGTAGCATATACTGAGG
1 GTTAGTAGCATATACTGAGG
557564 GTTAGTAGCATATACTGAGG
1 GTTAGTAGCATATACTGAGG
557584 GT
1 GT
557586 AAGGTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.31
Consensus pattern (20 bp):
GTTAGTAGCATATACTGAGG
Found at i:559672 original size:28 final size:28
Alignment explanation
Indices: 559639--559700 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
559629 ATTGCATGAC
* * *
559639 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAAAGAGATTGGGCCTAAAGGGCCA
*
559667 TATGAATGAGATTGGGCCTAAAGGGCCA
1 TATGAAAGAGATTGGGCCTAAAGGGCCA
*
559695 AATGAA
1 TATGAA
559701 TAAGTATGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.23
Consensus pattern (28 bp):
TATGAAAGAGATTGGGCCTAAAGGGCCA
Found at i:559701 original size:28 final size:28
Alignment explanation
Indices: 559648--559701 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
559638 CTATGAAAGT
* * *
559648 GATTGGGCCTGATGGGCCATATGAATGA
1 GATTGGGCCTAAAGGGCCAAATGAATGA
559676 GATTGGGCCTAAAGGGCCAAATGAAT
1 GATTGGGCCTAAAGGGCCAAATGAAT
559702 AAGTATGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (28 bp):
GATTGGGCCTAAAGGGCCAAATGAATGA
Found at i:560469 original size:15 final size:15
Alignment explanation
Indices: 560437--560465 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
560427 ATATTTTGTG
560437 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
560452 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
560466 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:564464 original size:17 final size:18
Alignment explanation
Indices: 564431--564464 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
564421 TTCAAAGAAG
564431 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
564449 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
564465 CTTCACTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:570859 original size:43 final size:44
Alignment explanation
Indices: 570810--570963 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 44
570800 TCCCAGATGT
* *
570810 GGTCTTACATGTAATCAAATATCGATG-CAACTGTCCTAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCAACTGTCCTAGACAG
* * * * *
570853 GGTCTTACATGAAATCAAATA-CGATGTCGA-TGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAACTGTCCTAGACAG
*
570895 GGTCTTACACGTAAATCTAAA-ATCGATGCCAAC-ATCCTAGAC-G
1 GGTCTTACACG-AAATC-AAATATCGATGCCAACTGTCCTAGACAG
*
570938 TGGTCTTGCACGAAATCAAATATCGA
1 -GGTCTTACACGAAATCAAATATCGA
570964 AATCCTATGT
Statistics
Matches: 93, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
42 28 0.30
43 38 0.41
44 27 0.29
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (44 bp):
GGTCTTACACGAAATCAAATATCGATGCCAACTGTCCTAGACAG
Found at i:570943 original size:86 final size:85
Alignment explanation
Indices: 570797--570959 Score: 215
Period size: 86 Copynumber: 1.9 Consensus size: 85
570787 TACAATGCCA
** * *
570797 ATGTCCCAGATGTGGTCTTACATGTAATCAAATATCGATGCAACTGTCCTAGACAGGGTCTTACA
1 ATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCAACTATCCTAGACAGGGTCTTACA
*
570862 TGAAATCAAATACGATGTCG
66 CGAAATCAAATACGATGTCG
570882 ATGTCCCAGACATGGTCTTACACGTAAATCTAAA-ATCGATGCCAAC-ATCCTAGAC-GTGGTCT
1 ATGTCCCAGACATGGTCTTACACGT-AATC-AAATATCGATG-CAACTATCCTAGACAG-GGTCT
*
570944 TGCACGAAATCAAATA
62 TACACGAAATCAAATA
570960 TCGAAATCCT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 23 0.34
86 38 0.56
87 7 0.10
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (85 bp):
ATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCAACTATCCTAGACAGGGTCTTACA
CGAAATCAAATACGATGTCG
Found at i:574728 original size:141 final size:141
Alignment explanation
Indices: 574474--574754 Score: 499
Period size: 141 Copynumber: 2.0 Consensus size: 141
574464 TTGTTGTTGT
*
574474 TATGATGAACATGTCTACGAATATTTGTGATGTTGATATGTTTAATTTAATTAATATGGCTTAAA
1 TATGATGAACATGTCTACGAATATTTGTGATGTTGATATGTTTAATTTAATTAATATGGATTAAA
* *
574539 TTTAATTTATTTTAGGTTGATCGCATTTTGTCTACTTAATTTATTAAAATTGTGTTTGTGTTGTT
66 TTTAATTTATTTTAGGTTGATCGCATTTCGTCTACTTAATTTACTAAAATTGTGTTTGTGTTGTT
574604 ATAGGCCTTGG
131 ATAGGCCTTGG
*
574615 TATGATGAACATGTCTATGAATATTTGTGATGTTGATATGTTTAATTTAATTAATATGGATTAAA
1 TATGATGAACATGTCTACGAATATTTGTGATGTTGATATGTTTAATTTAATTAATATGGATTAAA
* * *
574680 TTTAATTTGTTTTGGGTTGATTGCATTTCGTCTACTTAATTTACTAAAATTGTGTTTGTGTTGTT
66 TTTAATTTATTTTAGGTTGATCGCATTTCGTCTACTTAATTTACTAAAATTGTGTTTGTGTTGTT
574745 ATAGGCCTTG
131 ATAGGCCTTG
574755 AAAAGATGTT
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
141 133 1.00
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (141 bp):
TATGATGAACATGTCTACGAATATTTGTGATGTTGATATGTTTAATTTAATTAATATGGATTAAA
TTTAATTTATTTTAGGTTGATCGCATTTCGTCTACTTAATTTACTAAAATTGTGTTTGTGTTGTT
ATAGGCCTTGG
Found at i:580109 original size:476 final size:478
Alignment explanation
Indices: 579208--580160 Score: 1829
Period size: 476 Copynumber: 2.0 Consensus size: 478
579198 AATTACCCAA
*
579208 AATTTGAGCTAGTGGTTGGCCATGCTATGGGTGGAAACATGTTGGGAACATGTTGGCCTAGTGAG
1 AATTTGAGCTAGTGGTTGGCCATGCTATGGGTGGAAACATGTTGGGAACATGTTGGACTAGTGAG
*
579273 GTATGTAGGAAAAAAATAAAATAAGGGGCATGGGCATAAAATAATGAAAATGAGTATGATGAATA
66 GTATGTAGGAAAAAAATAAAATAAGGGGCATGGGCATAAAATAATGAAAAGGAGTATGATGAATA
579338 CAAAAAAAAAATGTGTGTAGTTGTTTTCCCCCCCCATTGCCGTGAGCTAAAGAAAAGAAAGGAGA
131 CAAAAAAAAAATGTGTGTAGTTGTTTTCCCCCCCCATTGCCGTGAGCTAAAGAAAAGAAAGGAGA
579403 AAATTTTTGTTCATCCTTTCTCATCTTCATTTAGCCGAAACTAGAAAGAAAAAAACAAAGAAAAA
196 AAATTTTTGTTCATCCTTTCTCATCTTCATTTAGCCGAAACTAGAAAGAAAAAAACAAAGAAAAA
579468 AAAATGCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAGGAAGAAGAAAGGTTG
261 AAAATGCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAGGAAGAAGAAAGGTTG
579533 AAGAGGTTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGATGATGTTCCATGAGATGCATGC
326 AAGAGGTTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGATGATGTTCCATGAGATGCATGC
* *
579598 ATGTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTCTAAATCTTGCTATGTGATGGAAAT
391 ATGTTTTAGTTGTTAGCTTGAGTTCTACATAGCCCATGGTCTAAATCTTGCTAAGTGATGGAAAT
*
579663 GACACTCGGCCATGGATGCATCG
456 GACACTCGCCCATGGATGCATCG
579686 AATTTGAGCTAGTGGTTGGCCATGCTATGGGTGGAAACATGTTGGGAACATGTTGGACTAGTGAG
1 AATTTGAGCTAGTGGTTGGCCATGCTATGGGTGGAAACATGTTGGGAACATGTTGGACTAGTGAG
579751 GTATGTAGGAAAAAAATAAAATAAGGGGCATGGGCATAAAATAATGAAAAGGAGTATGATGAATA
66 GTATGTAGGAAAAAAATAAAATAAGGGGCATGGGCATAAAATAATGAAAAGGAGTATGATGAATA
*
579816 C-AAAAAAAAATGTGTGTAGTTG-TTTCCCCCCCCATTGCCGTGAGCTGAAGAAAAGAAAGGAGA
131 CAAAAAAAAAATGTGTGTAGTTGTTTTCCCCCCCCATTGCCGTGAGCTAAAGAAAAGAAAGGAGA
579879 AAATTTTTGTTCATCCTTTCTCATCTTCATTTAGCCGAAACTAGAAAGAAAAAAACAAAGAAAAA
196 AAATTTTTGTTCATCCTTTCTCATCTTCATTTAGCCGAAACTAGAAAGAAAAAAACAAAGAAAAA
579944 AAAATGCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAGGAAGAAGAAAGGTTG
261 AAAATGCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAGGAAGAAGAAAGGTTG
580009 AAGAGGTTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGATGATGTTCCATGAGATGCATGC
326 AAGAGGTTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGATGATGTTCCATGAGATGCATGC
580074 ATGTTTTAGTTGTTAGCTTGAGTTCTACATAGCCCATGGTCTAAATCTTGCTAAGTGATGGAAAT
391 ATGTTTTAGTTGTTAGCTTGAGTTCTACATAGCCCATGGTCTAAATCTTGCTAAGTGATGGAAAT
*
580139 GACACTTGCCCATGGATGCATC
456 GACACTCGCCCATGGATGCATC
580161 ATTCTTGGTT
Statistics
Matches: 468, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
476 318 0.68
477 21 0.04
478 129 0.28
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (478 bp):
AATTTGAGCTAGTGGTTGGCCATGCTATGGGTGGAAACATGTTGGGAACATGTTGGACTAGTGAG
GTATGTAGGAAAAAAATAAAATAAGGGGCATGGGCATAAAATAATGAAAAGGAGTATGATGAATA
CAAAAAAAAAATGTGTGTAGTTGTTTTCCCCCCCCATTGCCGTGAGCTAAAGAAAAGAAAGGAGA
AAATTTTTGTTCATCCTTTCTCATCTTCATTTAGCCGAAACTAGAAAGAAAAAAACAAAGAAAAA
AAAATGCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAGGAAGAAGAAAGGTTG
AAGAGGTTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGATGATGTTCCATGAGATGCATGC
ATGTTTTAGTTGTTAGCTTGAGTTCTACATAGCCCATGGTCTAAATCTTGCTAAGTGATGGAAAT
GACACTCGCCCATGGATGCATCG
Found at i:581126 original size:39 final size:39
Alignment explanation
Indices: 581029--581290 Score: 302
Period size: 39 Copynumber: 6.6 Consensus size: 39
581019 TTGAATGATG
*
581029 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
581067 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
581108 TCCGGGCTAAGCCTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
581147 TCCGGGCTAAGCCCCAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
581186 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
581225 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
581264 AACCGGGCTATGTCCCGAAGGAATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
581291 AACGAGGAGC
Statistics
Matches: 197, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
39 128 0.65
40 57 0.29
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:581312 original size:79 final size:79
Alignment explanation
Indices: 581081--581323 Score: 246
Period size: 78 Copynumber: 3.1 Consensus size: 79
581071 GGACTAAGAT
* * * **
581081 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGAT-ACTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGAATTTGAACGAG-TGACTA
* *
581145 ATTCCGGGCTAAG-C
65 AATCCGGGTTAAGTC
* * * ** *
581159 CCCAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGAATTTGAACGAGTGACTAA
581224 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
*
581238 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGAATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGAATTTGAACGAGTGA-
* * *
581300 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAGTC
581317 CCGAAGG
1 CCGAAGG
581324 TACGTGATTT
Statistics
Matches: 145, Mismatches: 14, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
77 1 0.01
78 74 0.51
79 46 0.32
80 24 0.17
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGAATTTGAACGAGTGACTAA
ATCCGGGTTAAGTC
Found at i:589152 original size:39 final size:40
Alignment explanation
Indices: 589057--589279 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
589047 TTGAATGATG
*
589057 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
589095 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
589136 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
589175 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
589214 TCCGGGTTAAGTCCCGAAGACATTTGTGC-AAATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
589253 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
589280 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 94 0.58
40 55 0.34
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:589251 original size:79 final size:82
Alignment explanation
Indices: 589057--589279 Score: 266
Period size: 79 Copynumber: 2.8 Consensus size: 82
589047 TTGAATGATG
* * * * *
589057 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
589119 TTGTGCGAGATACTAAT
66 TTGTGCGAGATACTAAA
*
589136 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
589197 TTGTGCGAGTTACTAAA
66 TTGTGCGAGATACTAAA
* * * * *
589214 TCCGGGTTAAGTCCCGAAGACATTTGTGC-AAATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATTACTAATATCCGGGCTAAGACCCGAAGGCAT
589277 TTG
66 TTG
589280 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
78 48 0.39
79 52 0.42
80 24 0.19
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATTACTAATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGATACTAAA
Found at i:589301 original size:79 final size:79
Alignment explanation
Indices: 589057--589311 Score: 195
Period size: 79 Copynumber: 3.2 Consensus size: 79
589047 TTGAATGATG
* * * * * *
589057 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGACATTTGTGCGAAAT-ACTAATA-CCGGGCTAAG-CCCGAAGGCAT
** *
589119 TTGTGCGAGAT-ACTAAT
63 TTGAACGAG-TGACTAAA
* * * *
589136 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGACATTTGTGCGAAATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
589200 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
589214 TCCGGGTTAAGTCCCGAAGACATTTGTGC-AAATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGACATTTGTGCGAAA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
589277 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
589294 TCC-GGTTAAATTCCGAAG
1 TCCGGGTTAAGTCCCGAAG
589312 GTACGTGATT
Statistics
Matches: 149, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
77 1 0.01
78 47 0.32
79 65 0.44
80 36 0.24
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGACATTTGTGCGAAATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:602408 original size:47 final size:49
Alignment explanation
Indices: 602335--602563 Score: 237
Period size: 47 Copynumber: 4.9 Consensus size: 49
602325 TGGGTAAGGT
* *
602335 GCCGATGCCATGTCCCAGACATGGTCTGACACTGGCTCAT-ATCTC-AA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCATCTCGAA
* * * *
602382 GTCAATGCCATGTCCTAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCATCTCGAA
* * *
602430 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTAT-GTCTCGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCATCTCGAA
* * * *
602476 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TGATCTC-AA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCATCTCGAA
* *
602521 TGCTGATGCCATGTCCTAGACATGGTCTTACACTAGCTC-TCAT
1 -GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCAT
602564 AATATGGCCA
Statistics
Matches: 153, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
45 2 0.01
46 62 0.41
47 66 0.43
48 23 0.15
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCATCTCGAA
Found at i:602595 original size:140 final size:141
Alignment explanation
Indices: 602335--602596 Score: 347
Period size: 140 Copynumber: 1.9 Consensus size: 141
602325 TGGGTAAGGT
* *
602335 GCCGATGCCATGTCCCAGACATGGTCTGACACTGGCTCATATCTCAAGTCAATGCCATGTCCTAG
1 GCCGATGCCATGTCCCAGACATGGTCTGACACTAGCACATATCTCAAGTCAATGCCATGTCCTAG
* * * *
602400 ACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCT
66 ACATGGTCTTACACTGACTATCATATCATAGCCAATGCATGTCCCAGACATGTCTTACACTGGCT
602465 TATGTCTCGAG
131 TATGTCTCGAG
* *
602476 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TGATCTCAA-TGCTGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTGACACTAGCACAT-ATCTCAAGT-C-AATGCCATGTCC
* *
602537 TAGACATGGTCTTACACT-AGCTCTCATAAT-ATGGCCAATGCATGTCCCAGACATGTCTTA
63 TAGACATGGTCTTACACTGA-CTATCAT-ATCATAGCCAATGCATGTCCCAGACATGTCTTA
602597 TACTAGCCAA
Statistics
Matches: 106, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
138 2 0.02
139 21 0.20
140 75 0.71
141 8 0.08
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTGACACTAGCACATATCTCAAGTCAATGCCATGTCCTAG
ACATGGTCTTACACTGACTATCATATCATAGCCAATGCATGTCCCAGACATGTCTTACACTGGCT
TATGTCTCGAG
Found at i:603005 original size:29 final size:29
Alignment explanation
Indices: 602944--603022 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
602934 TCACATCTTC
* * *
602944 GGCAAAATGACCATTTTGCCCTTAAAGTTT
1 GGCAAAATAACCATTTT-ACCTTAAACTTT
* *
602974 GGCAAAATAATCATTTTACCTTAGACTTT
1 GGCAAAATAACCATTTTACCTTAAACTTT
603003 GGCAAAATAACCATTTTACC
1 GGCAAAATAACCATTTTACC
603023 CCTATGCTCG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 28 0.65
30 15 0.35
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (29 bp):
GGCAAAATAACCATTTTACCTTAAACTTT
Found at i:609946 original size:28 final size:27
Alignment explanation
Indices: 609889--610040 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
609879 TAAATTGTGC
* *
609889 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
609916 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
609944 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
609971 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
609999 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
610026 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
610041 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:609954 original size:55 final size:55
Alignment explanation
Indices: 609889--610040 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
609879 TAAATTGTGC
* *
609889 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
609944 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
609999 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
610041 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:614309 original size:21 final size:21
Alignment explanation
Indices: 614283--614322 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
614273 CACTTGACAT
*
614283 AGGGGCACACGCTCATGTGAA
1 AGGGGCACACGCCCATGTGAA
614304 AGGGGCACACGCCCATGTG
1 AGGGGCACACGCCCATGTG
614323 GCCAATTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGAA
Found at i:615595 original size:46 final size:46
Alignment explanation
Indices: 615520--615680 Score: 154
Period size: 46 Copynumber: 3.5 Consensus size: 46
615510 GCCATGTTCG
* *
615520 AGACATGGTCTTACACT-GACTAGCATCTCGTA-GTCGACGCATGTCCC
1 AGACATGGTCTTACACTAG-CTA-CGTCTCG-AGGTCGATGCATGTCCC
*
615567 AGACAT-GTCTTACACTAGCTTACGTCTCGAGGGT-GATGCATGTCCT
1 AGACATGGTCTTACACTAGC-TACGTCTCGA-GGTCGATGCATGTCCC
* *
615613 AGACAT-GTCTTACACTAGC-ACTTGTCTCAATGTCGATGCCATGTCCC
1 AGACATGGTCTTACACTAGCTAC--GTCTCGAGGTCGATG-CATGTCCC
*
615660 AAACATGGTCTTACACTAGCT
1 AGACATGGTCTTACACTAGCT
615681 CTCACAAATG
Statistics
Matches: 97, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
44 2 0.02
45 3 0.03
46 56 0.58
47 23 0.24
48 13 0.13
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (46 bp):
AGACATGGTCTTACACTAGCTACGTCTCGAGGTCGATGCATGTCCC
Found at i:631699 original size:73 final size:73
Alignment explanation
Indices: 631617--631761 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
631607 TAGAAGGGAA
*
631617 AAGTGATCATCATGTCATAAAACATAAGAATAAGGGATGAAGTTTAATTCCCGATCCTAGGGGCA
1 AAGTGATCATCATGTCATAAAACATAAGAATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCA
631682 AAAGTGTT
66 AAAGTGTT
631690 AAGTGATCATCATGTCATAAAACATAAGAATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCA
1 AAGTGATCATCATGTCATAAAACATAAGAATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCA
631755 AAAGTGT
66 AAAGTGT
631762 AAATATGCAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (73 bp):
AAGTGATCATCATGTCATAAAACATAAGAATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCA
AAAGTGTT
Found at i:640722 original size:15 final size:16
Alignment explanation
Indices: 640702--640736 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
640692 ACTCTAGAAG
640702 AGGAGAAAAGGGGG-A
1 AGGAGAAAAGGGGGTA
*
640717 AGGAGAAGAGGGGGTA
1 AGGAGAAAAGGGGGTA
640733 AGGA
1 AGGA
640737 ATTACTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.54, T:0.03
Consensus pattern (16 bp):
AGGAGAAAAGGGGGTA
Found at i:654321 original size:46 final size:47
Alignment explanation
Indices: 654246--654357 Score: 140
Period size: 46 Copynumber: 2.4 Consensus size: 47
654236 TAAGGTGTCG
*
654246 ATGCCATGTCCCAGACATGTCTAAAACTAGCTTA-T-GTCTCAAGGCCA
1 ATGCCATGTCCCAGACATGTATAAAACTAGC--ACTCGTCTCAAGGCCA
* * * *
654293 ATG-CATGTCCAAGACATGTATTACACTAGCACTCGTCTCAATGCCA
1 ATGCCATGTCCCAGACATGTATAAAACTAGCACTCGTCTCAAGGCCA
654339 ATGCCATGTCCCAGACATG
1 ATGCCATGTCCCAGACATG
654358 GTCTTCCACT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
44 1 0.02
45 1 0.02
46 37 0.66
47 17 0.30
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGTATAAAACTAGCACTCGTCTCAAGGCCA
Found at i:660643 original size:21 final size:21
Alignment explanation
Indices: 660617--660656 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
660607 CGCTTGACAT
*
660617 AGGGGCACACGCCCATGTGGA
1 AGGGGCACACACCCATGTGGA
*
660638 AGGGGCATACACCCATGTG
1 AGGGGCACACACCCATGTG
660657 ACCAATTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AGGGGCACACACCCATGTGGA
Found at i:669105 original size:27 final size:27
Alignment explanation
Indices: 669075--669252 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
669065 ATATTGAGCC
* *
669075 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
669102 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
669129 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
669157 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
669184 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
669211 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
669238 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
669253 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:669214 original size:82 final size:81
Alignment explanation
Indices: 669096--669251 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
669086 TGCTATATAA
* *
669096 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
669161 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
669178 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
669242 CACTTAGTGC
65 CACTTAGTGC
669252 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:675995 original size:43 final size:43
Alignment explanation
Indices: 675946--676028 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
675936 TGATATATCT
* * *
675946 AGCATCCGAA-CTCGTTGAGTGGTCCGAGTTCATTATGGATGCG
1 AGCATCC-AAGCTCGTGGAATGGTCCGAGTTCATAATGGATGCG
*
675989 AGCATCCAAGCTCGTGGAATGGTCTGAGTTCATAATGGAT
1 AGCATCCAAGCTCGTGGAATGGTCCGAGTTCATAATGGAT
676029 AGATACATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.06
43 33 0.94
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
AGCATCCAAGCTCGTGGAATGGTCCGAGTTCATAATGGATGCG
Found at i:688034 original size:51 final size:51
Alignment explanation
Indices: 687952--688051 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
687942 CGTTGAATAC
* * *
687952 GGGTAAGGGGTGTTACAATAATATTCTTACATGTAATATTAATTATTCTAT
1 GGGTAAGGGGTGTTACAATAACACTCCTACATGTAATATTAATTATTCTAT
688003 GGGTAAGGGGTGTTACAATAACACTCCTACATGTAATATTAATTATTCT
1 GGGTAAGGGGTGTTACAATAACACTCCTACATGTAATATTAATTATTCT
688052 TTCAACTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (51 bp):
GGGTAAGGGGTGTTACAATAACACTCCTACATGTAATATTAATTATTCTAT
Found at i:696002 original size:634 final size:634
Alignment explanation
Indices: 694794--696061 Score: 2536
Period size: 634 Copynumber: 2.0 Consensus size: 634
694784 TTGTAGCTCT
694794 TATCTACAAATATGTTGTGCACTCACAACCACCTGTAAACGTATTAACCTGTAACTTTTTTGGTT
1 TATCTACAAATATGTTGTGCACTCACAACCACCTGTAAACGTATTAACCTGTAACTTTTTTGGTT
694859 TATTCACAACCTAGTGTGTAGGGATGGACGAGTTCTGTGAAACTATTACTATGGTCTATAGTAGT
66 TATTCACAACCTAGTGTGTAGGGATGGACGAGTTCTGTGAAACTATTACTATGGTCTATAGTAGT
694924 GGGGTAGGATATTTTCTATTAAATCTGACATTGTGTAACATTACAGTATATAGTAGGGGAATAAC
131 GGGGTAGGATATTTTCTATTAAATCTGACATTGTGTAACATTACAGTATATAGTAGGGGAATAAC
694989 TTTCAAATGTAGGAAAAGTATAGGGACTTAGAGTGAACACCCCATACATGGCCTAATCGCCAAAT
196 TTTCAAATGTAGGAAAAGTATAGGGACTTAGAGTGAACACCCCATACATGGCCTAATCGCCAAAT
695054 CCAAGTTACGAGATGCTTCGACTGCTGATGGAGCAATTACAGACCTTTATGCAACATCCTATCAT
261 CCAAGTTACGAGATGCTTCGACTGCTGATGGAGCAATTACAGACCTTTATGCAACATCCTATCAT
695119 TTAAACATGTAAATAAACAACATTCACATACATAATATGCTACACGATCATTGTTGGATCTCACG
326 TTAAACATGTAAATAAACAACATTCACATACATAATATGCTACACGATCATTGTTGGATCTCACG
695184 TGTAACAACTCATTTTCAGTGAAATCGGAACAGTGGTTTTGGGATCACAAATTCGACATCAAAAT
391 TGTAACAACTCATTTTCAGTGAAATCGGAACAGTGGTTTTGGGATCACAAATTCGACATCAAAAT
695249 ATTTATTTTATTATTATTTTAATGTCTATAGCATGTTAGTATCACCGTATAAAAATTTGTTAATA
456 ATTTATTTTATTATTATTTTAATGTCTATAGCATGTTAGTATCACCGTATAAAAATTTGTTAATA
695314 AATTTTATTATTTGCATACTTAATTCGATAAAAAGGACTAAAGTGTAAAAAGTGCAAAATTAGAG
521 AATTTTATTATTTGCATACTTAATTCGATAAAAAGGACTAAAGTGTAAAAAGTGCAAAATTAGAG
695379 TTCTATAGGCTAAAAGAACTAAATAGCTATGGAACTTAAATTTTTGAGC
586 TTCTATAGGCTAAAAGAACTAAATAGCTATGGAACTTAAATTTTTGAGC
695428 TATCTACAAATATGTTGTGCACTCACAACCACCTGTAAACGTATTAACCTGTAACTTTTTTGGTT
1 TATCTACAAATATGTTGTGCACTCACAACCACCTGTAAACGTATTAACCTGTAACTTTTTTGGTT
695493 TATTCACAACCTAGTGTGTAGGGATGGACGAGTTCTGTGAAACTATTACTATGGTCTATAGTAGT
66 TATTCACAACCTAGTGTGTAGGGATGGACGAGTTCTGTGAAACTATTACTATGGTCTATAGTAGT
695558 GGGGTAGGATATTTTCTATTAAATCTGACATTGTGTAACATTACAGTATATAGTAGGGGAATAAC
131 GGGGTAGGATATTTTCTATTAAATCTGACATTGTGTAACATTACAGTATATAGTAGGGGAATAAC
695623 TTTCAAATGTAGGAAAAGTATAGGGACTTAGAGTGAACACCCCATACATGGCCTAATCGCCAAAT
196 TTTCAAATGTAGGAAAAGTATAGGGACTTAGAGTGAACACCCCATACATGGCCTAATCGCCAAAT
695688 CCAAGTTACGAGATGCTTCGACTGCTGATGGAGCAATTACAGACCTTTATGCAACATCCTATCAT
261 CCAAGTTACGAGATGCTTCGACTGCTGATGGAGCAATTACAGACCTTTATGCAACATCCTATCAT
695753 TTAAACATGTAAATAAACAACATTCACATACATAATATGCTACACGATCATTGTTGGATCTCACG
326 TTAAACATGTAAATAAACAACATTCACATACATAATATGCTACACGATCATTGTTGGATCTCACG
695818 TGTAACAACTCATTTTCAGTGAAATCGGAACAGTGGTTTTGGGATCACAAATTCGACATCAAAAT
391 TGTAACAACTCATTTTCAGTGAAATCGGAACAGTGGTTTTGGGATCACAAATTCGACATCAAAAT
695883 ATTTATTTTATTATTATTTTAATGTCTATAGCATGTTAGTATCACCGTATAAAAATTTGTTAATA
456 ATTTATTTTATTATTATTTTAATGTCTATAGCATGTTAGTATCACCGTATAAAAATTTGTTAATA
695948 AATTTTATTATTTGCATACTTAATTCGATAAAAAGGACTAAAGTGTAAAAAGTGCAAAATTAGAG
521 AATTTTATTATTTGCATACTTAATTCGATAAAAAGGACTAAAGTGTAAAAAGTGCAAAATTAGAG
696013 TTCTATAGGCTAAAAGAACTAAATAGCTATGGAACTTAAATTTTTGAGC
586 TTCTATAGGCTAAAAGAACTAAATAGCTATGGAACTTAAATTTTTGAGC
696062 ACTTGGATAG
Statistics
Matches: 634, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
634 634 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (634 bp):
TATCTACAAATATGTTGTGCACTCACAACCACCTGTAAACGTATTAACCTGTAACTTTTTTGGTT
TATTCACAACCTAGTGTGTAGGGATGGACGAGTTCTGTGAAACTATTACTATGGTCTATAGTAGT
GGGGTAGGATATTTTCTATTAAATCTGACATTGTGTAACATTACAGTATATAGTAGGGGAATAAC
TTTCAAATGTAGGAAAAGTATAGGGACTTAGAGTGAACACCCCATACATGGCCTAATCGCCAAAT
CCAAGTTACGAGATGCTTCGACTGCTGATGGAGCAATTACAGACCTTTATGCAACATCCTATCAT
TTAAACATGTAAATAAACAACATTCACATACATAATATGCTACACGATCATTGTTGGATCTCACG
TGTAACAACTCATTTTCAGTGAAATCGGAACAGTGGTTTTGGGATCACAAATTCGACATCAAAAT
ATTTATTTTATTATTATTTTAATGTCTATAGCATGTTAGTATCACCGTATAAAAATTTGTTAATA
AATTTTATTATTTGCATACTTAATTCGATAAAAAGGACTAAAGTGTAAAAAGTGCAAAATTAGAG
TTCTATAGGCTAAAAGAACTAAATAGCTATGGAACTTAAATTTTTGAGC
Found at i:707841 original size:42 final size:42
Alignment explanation
Indices: 707742--707901 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
707732 AGCTCGTACA
* * * * * *
707742 ATGCCAACGTCCCAAACATGGTCTCACATGTAATCAAATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAGTA-TG
707785 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAGTATG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAGTATG
*
707827 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAAACATAAGT-TG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATC--AAGTATG
* *
707871 ATGCTAATGTCCCAGACGTGGTCTTACACGA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA
707902 TAACACATAG
Statistics
Matches: 101, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 37 0.37
44 30 0.30
45 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAGTATG
Found at i:707885 original size:44 final size:44
Alignment explanation
Indices: 707782--707910 Score: 158
Period size: 44 Copynumber: 3.0 Consensus size: 44
707772 TAATCAAATA
* *
707782 TTGATGCCACTGTCCCAGACAG-GGTCTTACACG-AAATC--AAG
1 TTGATGCCAATGTCCCAGAC-GTGGTCTTACACGTAAAACATAAG
*
707823 TATGATGCCAACGTCCCAGACGTGGTCTTACACGTAAAACATAAG
1 T-TGATGCCAATGTCCCAGACGTGGTCTTACACGTAAAACATAAG
* *
707868 TTGATGCTAATGTCCCAGACGTGGTCTTACACGATAACACATA
1 TTGATGCCAATGTCCCAGACGTGGTCTTACACG-TAAAACATA
707911 GCGGATCCTA
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
41 2 0.03
42 28 0.37
43 4 0.05
44 30 0.39
45 12 0.16
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (44 bp):
TTGATGCCAATGTCCCAGACGTGGTCTTACACGTAAAACATAAG
Found at i:707894 original size:86 final size:84
Alignment explanation
Indices: 707742--707901 Score: 207
Period size: 85 Copynumber: 1.9 Consensus size: 84
707732 AGCTCGTACA
* *
707742 ATGCCAACGTCCCAAACATGGTCTCACATGTAATCAAATATTGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAAACATGGTCTCACACGTAA-CAAATATTGATGCCAATGTCCCAGACAGGGT
707807 CTTACACGAAATCAAGTATG
65 CTTACACGAAATCAAGTATG
* * * *
707827 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-AACATAAGTTGATGCTAATGTCCCAGAC-GT
1 ATGCCAACGTCCCAAACATGGTCTCACACGTAACAA-AT-A-TTGATGCCAATGTCCCAGACAG-
707890 GGTCTTACACGA
62 GGTCTTACACGA
707902 TAACACATAG
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
83 2 0.03
84 2 0.03
85 31 0.48
86 30 0.46
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAAACATGGTCTCACACGTAACAAATATTGATGCCAATGTCCCAGACAGGGTC
TTACACGAAATCAAGTATG
Found at i:708785 original size:39 final size:39
Alignment explanation
Indices: 708702--708795 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 39
708692 TGAAACCAAT
*
708702 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
* * * *
708740 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAA
* *
708779 TTCCAGCACGTAGCCTG
1 TACCAGCACGAAGCCTG
708796 TGGACCTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 14 0.30
39 32 0.70
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
Found at i:708812 original size:39 final size:39
Alignment explanation
Indices: 708769--708894 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
708759 GGACTTTAGC
* * * * *
708769 CCGGACATATTTCCAGCACGTAGCCTGTGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
708808 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
708847 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
708886 CCGGATATA
1 CCGGATATA
708895 CATCACTGAA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:708824 original size:78 final size:78
Alignment explanation
Indices: 708731--708894 Score: 199
Period size: 78 Copynumber: 2.1 Consensus size: 78
708721 GAATTTAAAC
* * * * *
708731 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGC
* *
708793 CTGTGGACCTTAAGT
64 CTGCGGACCCTAAGT
* * *
708808 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
708873 GCGGACCCTAAGT
66 GCGGACCCTAAGT
708886 CCGGATATA
1 CCGGATATA
708895 CATCACTGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
77 8 0.11
78 66 0.89
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:722009 original size:30 final size:30
Alignment explanation
Indices: 721973--722044 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
721963 TCATCGACTA
* * **
721973 ATGAAAATGGATAGCTTCAGGTATCAAATT
1 ATGAAAAGGGATAGCCTCAACTATCAAATT
722003 ATGAAAAGGGATAGCCTCAACTATCAAATT
1 ATGAAAAGGGATAGCCTCAACTATCAAATT
722033 ATGAAAAGGGAT
1 ATGAAAAGGGAT
722045 TGTGACGACC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (30 bp):
ATGAAAAGGGATAGCCTCAACTATCAAATT
Found at i:722059 original size:30 final size:30
Alignment explanation
Indices: 721995--722195 Score: 113
Period size: 30 Copynumber: 6.7 Consensus size: 30
721985 AGCTTCAGGT
*** * *
721995 ATCAAATTATGAAAAGGGATAGCCTCAACT
1 ATCAAATTATGAAAAGGGATAGTGACGACC
*
722025 ATCAAATTATGAAAAGGGATTGTGACGACC
1 ATCAAATTATGAAAAGGGATAGTGACGACC
* * *
722055 ATC-AATAATGAAAAAGGATGGTGACGACC
1 ATCAAATTATGAAAAGGGATAGTGACGACC
* ** ** * * * *
722084 ATCGAACAATTCAAAGGGGTAGCT-TCGGCT
1 ATCAAATTATGAAAAGGGATAG-TGACGACC
* * *
722114 ATCGAATTATGAAAAGGGATAGCT-TC-AGCT
1 ATCAAATTATGAAAAGGGATAG-TGACGA-CC
* * * *
722144 ATCAATTTATGAAAATGAATGGTGACGACC
1 ATCAAATTATGAAAAGGGATAGTGACGACC
*
722174 ATCAAATAATGAAAAGGGATAG
1 ATCAAATTATGAAAAGGGATAG
722196 CTTCGACTAT
Statistics
Matches: 130, Mismatches: 36, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
29 27 0.21
30 101 0.78
31 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATAGTGACGACC
Found at i:722100 original size:29 final size:29
Alignment explanation
Indices: 722033--722093 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
722023 CTATCAAATT
* * *
722033 ATGAAAAGGGATTGTGACGACCATCAATA
1 ATGAAAAAGGATGGTGACGACCATCAACA
722062 ATGAAAAAGGATGGTGACGACCATCGAACA
1 ATGAAAAAGGATGGTGACGACCATC-AACA
722092 AT
1 AT
722094 TCAAAGGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.18
Consensus pattern (29 bp):
ATGAAAAAGGATGGTGACGACCATCAACA
Found at i:731100 original size:37 final size:37
Alignment explanation
Indices: 731025--731108 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 37
731015 NNNNNNNNNN
* *
731025 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACAAAATCACCACACATAGTC
* * * *
731062 ATCGGGTCTTACCCGGACATAGTCACCACATATGGTC
1 ATCGGGTCTTACCCGGACAAAATCACCACACATAGTC
*
731099 ATCTGGTCTT
1 ATCGGGTCTT
731109 TAATCCCAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (37 bp):
ATCGGGTCTTACCCGGACAAAATCACCACACATAGTC
Found at i:731314 original size:46 final size:46
Alignment explanation
Indices: 731261--731397 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
731251 TATATATACA
* * * *
731261 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
731307 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
731353 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
731398 ATACATGTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:731432 original size:47 final size:47
Alignment explanation
Indices: 731371--731602 Score: 374
Period size: 47 Copynumber: 4.9 Consensus size: 47
731361 ACACATTTCG
* * * ** *
731371 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCA
* *
731418 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCAACA
1 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCA
*
731465 CATTGGCCATTCAGCCTTATCACACATACGCGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCA
*
731512 CATTGGCCATTCGCCCTTATCACACATACGCGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCA
731559 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCA
1 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCA
731603 AAAGATAGCC
Statistics
Matches: 173, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 173 1.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCA
Found at i:731511 original size:25 final size:24
Alignment explanation
Indices: 731436--731560 Score: 64
Period size: 23 Copynumber: 5.2 Consensus size: 24
731426 ATTCGGCCTT
731436 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGC-TGTTCACATTC
** ** *
731461 A--ACACATTGGCCATTCAGCCTT-
1 ATCACACATACGCTGTTCA-CATTC
731483 ATCACACATACGCGTGTTCACATTC
1 ATCACACATACGC-TGTTCACATTC
** ** * *
731508 AT--CACATTGGCCATTCGCCCTT-
1 ATCACACATACGCTGTTC-ACATTC
731530 ATCACACATACGCGTGTTCACATTC
1 ATCACACATACGC-TGTTCACATTC
731555 ATCACA
1 ATCACA
731561 TTGGCCATTC
Statistics
Matches: 68, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 10 0.15
23 21 0.31
24 21 0.31
25 16 0.24
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (24 bp):
ATCACACATACGCTGTTCACATTC
Found at i:732369 original size:37 final size:37
Alignment explanation
Indices: 732319--732397 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
732309 TTATTACGAA
* * *
732319 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
732356 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
732393 GTCTT
1 GTCTT
732398 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:732603 original size:47 final size:47
Alignment explanation
Indices: 732516--732848 Score: 576
Period size: 47 Copynumber: 7.1 Consensus size: 47
732506 CCCTTCGGGA
* * * * * * * * *
732516 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
732563 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
732610 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
732657 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
732704 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
732751 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
732798 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
732845 CTTA
1 CTTA
732849 CTATCATTTC
Statistics
Matches: 275, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 275 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:733092 original size:47 final size:47
Alignment explanation
Indices: 733031--733411 Score: 519
Period size: 47 Copynumber: 8.1 Consensus size: 47
733021 ACACATTTCG
* *
733031 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * * *
733078 TATTGGCCATTCGGCCTTATCTCATATATGCGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* ** * *
733125 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACAGTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * * ** *
733172 CATTGGCCATTCGCCCTTATAACACATACGCGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
733219 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
733266 CATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACAT--GTTCACATTCATCA
*
733315 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
733362 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
733409 CAT
1 CAT
733412 AAATTCCTAA
Statistics
Matches: 303, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
47 259 0.85
49 44 0.15
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:733339 original size:22 final size:22
Alignment explanation
Indices: 733311--733382 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
733301 TTTCACATTC
733311 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
733333 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
733357 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
733380 ATC
1 ATC
733383 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:736970 original size:48 final size:48
Alignment explanation
Indices: 736844--736971 Score: 220
Period size: 48 Copynumber: 2.7 Consensus size: 48
736834 TATCGGTGCT
* * *
736844 GATGCCATGTCCCACACATGGTCTTACACTAGCACACATATCATTGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGCA
*
736892 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGCA
736940 GATGCCATGTCCCAGACATGGTCTTACACTGG
1 GATGCCATGTCCCAGACATGGTCTTACACTGG
736972 ATCTCATTAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGCA
Found at i:751094 original size:43 final size:43
Alignment explanation
Indices: 751013--751096 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
751003 ATATCGTACA
* **
751013 ATGCCAACGTCCCAGACATGGTCTTACATGTAGCCACATATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACATGTAAACACATATCG
*
751056 ATGCC-ACTGTCCTAGACAGGGTCTTAC-TCGTAAACACATAT
1 ATGCCAAC-GTCCCAGACAGGGTCTTACAT-GTAAACACATAT
751097 TGAAATCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 3 0.09
43 32 0.91
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACATGTAAACACATATCG
Found at i:756255 original size:40 final size:40
Alignment explanation
Indices: 756183--756329 Score: 181
Period size: 40 Copynumber: 3.7 Consensus size: 40
756173 ATACCAGCTC
* * * * *
756183 ATAGCCTGCGGGTCTCT-AGCCCGGATAGCATTCTAGCACG
1 ATAGCATGCGGGTCTTTAAGCCCGGATAACATTCCAGCA-T
* *
756223 A-AGCTTGCGGGTCTTTAAGCCCAGATAACATTCCAGCAT
1 ATAGCATGCGGGTCTTTAAGCCCGGATAACATTCCAGCAT
* *
756262 ATAGCATACAGGTCTTTAAGCCCGGATAACATTCCAGCAT
1 ATAGCATGCGGGTCTTTAAGCCCGGATAACATTCCAGCAT
*
756302 ATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ATAGCATGCGGGTCTTTAAGCCCGGATA
756330 CAATTCCTCA
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 14 0.15
40 78 0.85
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ATAGCATGCGGGTCTTTAAGCCCGGATAACATTCCAGCAT
Found at i:756336 original size:40 final size:39
Alignment explanation
Indices: 756146--756336 Score: 174
Period size: 40 Copynumber: 4.8 Consensus size: 39
756136 TTCTAGCATC
** * *
756146 AGCCTGCGGGAATTTAAACCCGG-TATAATACCAGC-TCAT
1 AGCCTGCGGGTCTTTAAGCCCGGATA-AATTCCAGCAT-AT
* * * *
756185 AGCCTGCGGGTCTCT-AGCCCGGATAGCATTCTAGCACGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATA-AATTCCAGCA-TAT
* *
756224 AGCTTGCGGGTCTTTAAGCCCAGATAACATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATAA-ATTCCAGCATAT
* * *
756264 AGCATACAGGTCTTTAAGCCCGGATAACATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATAA-ATTCCAGCATAT
756304 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCC
1 AGCCTGCGGGTCTTTAAGCCCGGATA-AATTCC
756337 TCAAGTATCA
Statistics
Matches: 123, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
38 6 0.05
39 34 0.28
40 82 0.67
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGGTCTTTAAGCCCGGATAAATTCCAGCATAT
Found at i:760710 original size:40 final size:39
Alignment explanation
Indices: 760612--760874 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
760602 TCCTCGTTCA
* * * *
760612 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
760651 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
760690 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
760730 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
760770 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
760810 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
760851 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
760875 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:760834 original size:120 final size:119
Alignment explanation
Indices: 760612--760874 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
760602 TCCTCGTTCA
* * *
760612 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
760677 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
760730 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
760795 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
760851 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
760875 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:760883 original size:41 final size:41
Alignment explanation
Indices: 760806--760883 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
760796 TTTGTATCTC
* * *
760806 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
760847 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
760884 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:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:768654 original size:40 final size:39
Alignment explanation
Indices: 768563--768825 Score: 287
Period size: 40 Copynumber: 6.6 Consensus size: 39
768553 TCCTCGTTCA
* * * *
768563 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
768602 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
768641 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
768681 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
768721 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
768761 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
768802 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
768826 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 39 0.20
40 146 0.74
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:768771 original size:120 final size:119
Alignment explanation
Indices: 768563--768825 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 119
768553 TCCTCGTTCA
* * *
768563 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATT
* * *
768628 TAATAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* * * *
768681 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACTTAACCCGG-
* * ** * *
768746 ATTT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
768802 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
768826 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 37 0.30
120 76 0.62
121 9 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:768834 original size:41 final size:41
Alignment explanation
Indices: 768757--768834 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
768747 TTTGTATCTC
* * *
768757 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
768798 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
768835 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:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:770686 original size:27 final size:27
Alignment explanation
Indices: 770656--770834 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
770646 CACCCTAGGC
770656 GTAAAATGGTAATTTTATAAATCGAGG
1 GTAAAATGGTAATTTTATAAATCGAGG
* *
770683 GTAAAACGGTAATTCTATAAATCGAGG
1 GTAAAATGGTAATTTTATAAATCGAGG
* * *
770710 GTAAAATAGTAATGTTGTAAATCGAGG
1 GTAAAATGGTAATTTTATAAATCGAGG
** *
770737 GTAAAACAGTAATTTTGTAAATCGAGG
1 GTAAAATGGTAATTTTATAAATCGAGG
** * *
770764 GTAAAATAATAATTTTGTCAATCGAGG
1 GTAAAATGGTAATTTTATAAATCGAGG
* ** *
770791 AT-ATTTGGGTAATTTTATAAACCGAGG
1 GTAAAAT-GGTAATTTTATAAATCGAGG
***
770818 GTACTTTGGTAATTTTA
1 GTAAAATGGTAATTTTA
770835 CAACTGGGGG
Statistics
Matches: 128, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 123 0.96
28 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.34
Consensus pattern (27 bp):
GTAAAATGGTAATTTTATAAATCGAGG
Found at i:770738 original size:54 final size:54
Alignment explanation
Indices: 770656--770790 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 54
770646 CACCCTAGGC
* * *
770656 GTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGG
* * *
770710 GTAAAATAGTAATGTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGG
* *
770764 GTAAAATAATAATTTTGTCAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
770791 ATATTTGGGT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (54 bp):
GTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGG
Found at i:772212 original size:27 final size:27
Alignment explanation
Indices: 772081--772201 Score: 188
Period size: 27 Copynumber: 4.5 Consensus size: 27
772071 ATTACCAAAG
**
772081 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTATTT
* **
772108 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTATTT
772135 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTATTT
*
772162 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTATTT
772189 TACCCTCGATTTA
1 TACCCTCGATTTA
772202 CCAAATTACT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTATTT
Found at i:772225 original size:81 final size:81
Alignment explanation
Indices: 772036--772246 Score: 201
Period size: 81 Copynumber: 2.6 Consensus size: 81
772026 AATACTTTAG
* * *
772036 TTTACCAAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATT
1 TTTACCAAATTACTGAAATACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTTATAGAATT
* *
772101 ACCGTTTTACCCTTGA
66 ACCATTTTACCCTCGA
* * *** * * *** *
772117 TTTA-TAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTATAGAAT
1 TTTACCA-AATTACTGAAATACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTTATAGAAT
*
772181 TACTATTTTACCCTCGA
65 TACCATTTTACCCTCGA
* * * *
772198 TTTACCAAATTACTAAAATACCATCGA-TCAGTAAAATTACCAAAATACC
1 TTTACCAAATTACTGAAATACCCTCGATTTA-TAAAATTACCAAAGTACC
772247 ACTGGTTTGT
Statistics
Matches: 97, Mismatches: 30, Indels: 6
0.73 0.23 0.05
Matches are distributed among these distances:
80 3 0.03
81 93 0.96
82 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (81 bp):
TTTACCAAATTACTGAAATACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTTATAGAATT
ACCATTTTACCCTCGA
Found at i:772290 original size:81 final size:81
Alignment explanation
Indices: 772204--772354 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
772194 TCGATTTACC
* ** *
772204 AAATTA-CTAAAATACCATCGATCAGTAAAATTACCAAAATACCACTGGTTTGTAAAATTACCA-
1 AAATTATC-AAAATACCATCAATCAGTAAAATTACCAAAATACCACTAATTTGCAAAATTA-CAT
772267 AAATACCACTGGTTTGTG
64 AAATACCACTGGTTTGTG
* * ** *
772285 AAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTGCAAAATTACATAA
1 AAATTATCAAAATACCATCAATCAGTAAAATTACCAAAATACCACTAATTTGCAAAATTACATAA
772350 ATACC
66 ATACC
772355 CTTGACTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
80 2 0.03
81 56 0.95
82 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (81 bp):
AAATTATCAAAATACCATCAATCAGTAAAATTACCAAAATACCACTAATTTGCAAAATTACATAA
ATACCACTGGTTTGTG
Found at i:772328 original size:27 final size:27
Alignment explanation
Indices: 772042--772356 Score: 152
Period size: 27 Copynumber: 11.7 Consensus size: 27
772032 TTAGTTTACC
** * *
772042 AAATTACTGAAATACCCTCAAATTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
772069 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** * *
772096 GAATTACCGTTTTACCCTTGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** *
772123 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *** * *
772150 GAATTACTATTTTACCCTTGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *** ***
772177 GAATTACTATTTTACCCTCGATTTACC
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
772204 AAATTACTAAAATACCATCGATCAGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
772231 AAATTACCAAAATACCACT-GGTTTGTA
1 AAATTACCAAAATACC-CTCGATTTGTA
* *
772258 AAATTACCAAAATACCACT-GGTTTGTG
1 AAATTACCAAAATACC-CTCGATTTGTA
* * *
772285 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
772312 AAATTACCAAAATACCC-CTAATTTGCA
1 AAATTACCAAAATACCCTC-GATTTGTA
772339 AAATTA-CATAAATACCCT
1 AAATTACCA-AAATACCCT
772357 TGACTTTCTA
Statistics
Matches: 240, Mismatches: 43, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.02
27 234 0.98
28 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:772536 original size:27 final size:27
Alignment explanation
Indices: 772459--772536 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
772449 AAATTACTAA
* *
772459 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
772486 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
772513 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
772537 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:773723 original size:25 final size:25
Alignment explanation
Indices: 773694--773741 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
773684 TTATAATATG
* * *
773694 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
773719 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
773742 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:773803 original size:20 final size:20
Alignment explanation
Indices: 773778--773848 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
773768 ATTTTGATAA
773778 ACATGAAATGTATGATATGC
1 ACATGAAATGTATGATATGC
*
773798 ACATGACATGTATGATATGC
1 ACATGAAATGTATGATATGC
*
773818 ACATGATATGTATGATATGC
1 ACATGAAATGTATGATATGC
*
773838 ACATGAGATGT
1 ACATGAAATGT
773849 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGAAATGTATGATATGC
Found at i:773825 original size:11 final size:11
Alignment explanation
Indices: 773789--773843 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
773779 CATGAAATGT
773789 ATGATATGCAC
1 ATGATATGCAC
* *
773800 ATGACATG--T
1 ATGATATGCAC
773809 ATGATATGCAC
1 ATGATATGCAC
*
773820 ATGATATG--T
1 ATGATATGCAC
773829 ATGATATGCAC
1 ATGATATGCAC
773840 ATGA
1 ATGA
773844 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:773925 original size:23 final size:23
Alignment explanation
Indices: 773895--774012 Score: 200
Period size: 23 Copynumber: 5.1 Consensus size: 23
773885 AGGAAGTGCG
773895 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
773918 AAAGGGCTTATGCCCTAGTCATT
1 AAAGGGCTTATGCCCCAGTTATT
*
773941 AAAGGGCTTATGCCCCAGTCATT
1 AAAGGGCTTATGCCCCAGTTATT
773964 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
773987 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
774010 AAA
1 AAA
774013 ATAGGCTAGG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 90 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:774290 original size:31 final size:31
Alignment explanation
Indices: 774227--774290 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
774217 CGTTTACAGT
* * * *
774227 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTCCGGCCCAATAATATAAAATATGA
**
774258 AAAGGCTCCGGCCCAATGTTATAAAATATGA
1 AAAGGCTCCGGCCCAATAATATAAAATATGA
774289 AA
1 AA
774291 TATGAAATGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (31 bp):
AAAGGCTCCGGCCCAATAATATAAAATATGA
Found at i:783096 original size:3 final size:3
Alignment explanation
Indices: 783088--783121 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
783078 CTATCTGTTA
783088 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
783122 GTTTGCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:783800 original size:17 final size:16
Alignment explanation
Indices: 783778--783812 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
783768 ACATTGAAAG
*
783778 TATTTTTATAGTTTTTT
1 TATTTTTA-AATTTTTT
783795 TATTTTTAAATTTTTT
1 TATTTTTAAATTTTTT
783811 TA
1 TA
783813 AATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TATTTTTAAATTTTTT
Found at i:783810 original size:10 final size:10
Alignment explanation
Indices: 783797--783826 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
783787 AGTTTTTTTA
783797 TTTTTAAATT
1 TTTTTAAATT
783807 TTTTTAAATT
1 TTTTTAAATT
*
783817 TTTTAAAATT
1 TTTTTAAATT
783827 AAAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:786170 original size:61 final size:61
Alignment explanation
Indices: 786095--786218 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
786085 TACAAACCAG
786095 TAATCTAAGTTAATTCTCCCAATTTCATTCTTTTATAAATTATATTTCCTTCAATCATTTA
1 TAATCTAAGTTAATTCTCCCAATTTCATTCTTTTATAAATTATATTTCCTTCAATCATTTA
786156 TAATCTAAGTTAATTCTCCCAATTTCATTCTTTTATAAATTATATTTCCTTCAATCATTTA
1 TAATCTAAGTTAATTCTCCCAATTTCATTCTTTTATAAATTATATTTCCTTCAATCATTTA
786217 TA
1 TA
786219 TTATTTTCTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.31, C:0.18, G:0.02, T:0.49
Consensus pattern (61 bp):
TAATCTAAGTTAATTCTCCCAATTTCATTCTTTTATAAATTATATTTCCTTCAATCATTTA
Found at i:786184 original size:31 final size:31
Alignment explanation
Indices: 786095--786187 Score: 88
Period size: 31 Copynumber: 3.0 Consensus size: 31
786085 TACAAACCAG
786095 TAATCTAAGTTAATTCTCCCAATTTCATTCT
1 TAATCTAAGTTAATTCTCCCAATTTCATTCT
* * *
786126 T-TTATAAATTATATT-TCCTTCAA--TCATT-T
1 TAATCTAAGTTA-ATTCTCC--CAATTTCATTCT
786155 ATAATCTAAGTTAATTCTCCCAATTTCATTCT
1 -TAATCTAAGTTAATTCTCCCAATTTCATTCT
786187 T
1 T
786188 TTATAAATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 18
0.66 0.08 0.25
Matches are distributed among these distances:
29 4 0.09
30 19 0.40
31 20 0.43
32 4 0.09
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.48
Consensus pattern (31 bp):
TAATCTAAGTTAATTCTCCCAATTTCATTCT
Found at i:786214 original size:30 final size:30
Alignment explanation
Indices: 786119--786214 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
786109 TCTCCCAATT
786119 TCATTCTTTTATAAATTATATTTCCTTCAA
1 TCATTCTTTTATAAATTATATTTCCTTCAA
* * *
786149 TCATT-TATAATCTAAGTTA-ATTCTCC--CAA
1 TCATTCT-T-TTATAAATTATATT-TCCTTCAA
786178 TTTCATTCTTTTATAAATTATATTTCCTTCAA
1 --TCATTCTTTTATAAATTATATTTCCTTCAA
786210 TCATT
1 TCATT
786215 TATATTATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
29 4 0.08
30 24 0.47
31 19 0.37
32 4 0.08
ACGTcount: A:0.30, C:0.18, G:0.01, T:0.51
Consensus pattern (30 bp):
TCATTCTTTTATAAATTATATTTCCTTCAA
Found at i:788662 original size:16 final size:17
Alignment explanation
Indices: 788630--788662 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
788620 TTTGGGCAAC
*
788630 TATTGTTATGTCTATAT
1 TATTGTTATGCCTATAT
788647 TATTGTT-TGCCTATAT
1 TATTGTTATGCCTATAT
788663 ATCAATTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.58
Consensus pattern (17 bp):
TATTGTTATGCCTATAT
Found at i:796530 original size:26 final size:26
Alignment explanation
Indices: 796491--796542 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
796481 CTAATCAGCC
796491 TTTAATCACATGTTAACTAGGGAAAG
1 TTTAATCACATGTTAACTAGGGAAAG
*
796517 TTTAATCACTTGTTAACTAGGGAAAG
1 TTTAATCACATGTTAACTAGGGAAAG
796543 ACGTTCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (26 bp):
TTTAATCACATGTTAACTAGGGAAAG
Found at i:798721 original size:15 final size:15
Alignment explanation
Indices: 798682--798721 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
798672 TACGCGTGCC
*
798682 ACACGGGCGCGATAG
1 ACACGGGCGTGATAG
798697 ACACGGGCGTGATAG
1 ACACGGGCGTGATAG
798712 ACACGGGCGT
1 ACACGGGCGT
798722 TTGATGGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.40, T:0.10
Consensus pattern (15 bp):
ACACGGGCGTGATAG
Found at i:804184 original size:22 final size:24
Alignment explanation
Indices: 804130--804184 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
804120 TATATAACTG
804130 ATAATAT-TA-AAATATATACATA
1 ATAATATATATAAATATATACATA
* *
804152 ATATTATATATAAAT-TATTCAT-
1 ATAATATATATAAATATATACATA
804174 ATAATATATAT
1 ATAATATATAT
804185 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 8 0.29
24 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATATATATAAATATATACATA
Found at i:804483 original size:3 final size:3
Alignment explanation
Indices: 804475--804524 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
804465 ACTAATGTAC
*
804475 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
804521 AAT A
1 AAT A
804525 TGAAAATAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:806161 original size:76 final size:74
Alignment explanation
Indices: 806030--806500 Score: 458
Period size: 74 Copynumber: 6.3 Consensus size: 74
806020 TCACTCAACG
* *
806030 TGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTGAAACATACAAAAAATTGACA
1 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAC-AAAAATTGA-A
806095 ATACCTCAGCA
64 ATACCTCAGCA
* *
806106 TGTGTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAACATACAAAAAATTGACA
1 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAC-AAAAATTGA-A
*
806171 ATACCTCAGTA
64 ATACCTCAGCA
* * *** *
806182 TGTCTTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTCACA-ACACAAATTGAAA
1 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAACATACAAAAATTGAAA
806246 TTACCTCAGCA
65 -TACCTCAGCA
* *
806257 TGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-AT--AGAAATTGA
1 TGT---CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATACAAAAATTG-
* *
806318 AAATACCTCAACG
62 AAATACCTCAGCA
** *
806331 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTG-AA-A-ACAGAAATTGAA
1 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAACATACAAAAATTGAA
806393 ATTACCTCAGCA
64 A-TACCTCAGCA
*** * * * * * *
806405 TGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAA-A-ATAGAAATTAAAA
1 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAACATACAAAAATTGAAA
*
806468 TTACCTCAGCG
65 -TACCTCAGCA
** *
806479 TGTCCCGAGGCTCAATTCACCT
1 TGTCTTGAGGCTCAACTCACCT
806501 GTCCCGAGGC
Statistics
Matches: 342, Mismatches: 39, Indels: 30
0.83 0.09 0.07
Matches are distributed among these distances:
71 1 0.00
72 31 0.09
73 12 0.04
74 120 0.35
75 24 0.07
76 114 0.33
77 39 0.11
78 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (74 bp):
TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATACAAAAATTGAAAT
ACCTCAGCA
Found at i:806473 original size:148 final size:147
Alignment explanation
Indices: 806023--806500 Score: 534
Period size: 148 Copynumber: 3.2 Consensus size: 147
806013 GCTCAACTCA
*
806023 CTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGA--TTTTTGAAACATACAAA
1 CTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AA-A-AC-AA
*** *
806086 AAATTGACAA-TACCTCAGCATGTGTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
62 AAATTGA-AATTACCTCAGCATGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
806150 GAAACATACAAAAAATTGACAATAC
126 TAAA-A-A-TAGAAATTGAAAATAC
*** * * * * * *
806175 CTCAGTATGTCTTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTCACAACACAAA
1 CTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAAAAA
*
806240 TTGAAATTACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
65 TTGAAATTACCTCAGCATGT--ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTA
806304 AAAATAGAAATTGAAAATAC
128 AAAATAGAAATTGAAAATAC
* ** *
806324 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAAT
1 CTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAAT
* * * *
806389 TGAAATTACCTCAGCATGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAA
66 TGAAATTACCTCAGCATGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTAAA
806454 AATAGAAATT-AAAATTAC
130 AATAGAAATTGAAAA-TAC
* * *
806472 CTCAGCGTGTCCCGAGGCTCAATTCACCT
1 CTCAACGTGTCCTGAGGCTCAACTCACCT
806501 GTCCCGAGGC
Statistics
Matches: 277, Mismatches: 40, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
146 32 0.12
147 4 0.01
148 78 0.28
149 52 0.19
150 3 0.01
151 22 0.08
152 47 0.17
153 33 0.12
154 1 0.00
155 5 0.02
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (147 bp):
CTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAAT
TGAAATTACCTCAGCATGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAA
ATAGAAATTGAAAATAC
Found at i:806505 original size:21 final size:21
Alignment explanation
Indices: 806479--806518 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
806469 TACCTCAGCG
806479 TGTCCCGAGGCTCAATTCACC
1 TGTCCCGAGGCTCAATTCACC
806500 TGTCCCGAGGCTCAATTCA
1 TGTCCCGAGGCTCAATTCA
806519 TCTTTCGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.25
Consensus pattern (21 bp):
TGTCCCGAGGCTCAATTCACC
Found at i:806585 original size:97 final size:95
Alignment explanation
Indices: 806405--806594 Score: 344
Period size: 97 Copynumber: 2.0 Consensus size: 95
806395 TACCTCAGCA
806405 TGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAGAAATTAAAATT
1 TGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAGAAATTAAAATT
806470 ACCTCAGCGTGTCCCGAGGCTCAATTCACC
66 ACCTCAGCGTGTCCCGAGGCTCAATTCACC
* *
806500 TGTCCCGAGGCTCAATTCATCTTTCGCAATATGAGTTGATTTTTTTTAAAAAATAGAAATTAAAA
1 TGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGA-TTTTTTT-AAAAATAGAAATTAAAA
806565 TTACCTCAGCGTGTCCCGAGGCTCAATTCA
64 TTACCTCAGCGTGTCCCGAGGCTCAATTCA
806595 TCTCTCGCAA
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
95 37 0.41
96 7 0.08
97 47 0.52
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (95 bp):
TGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAGAAATTAAAATT
ACCTCAGCGTGTCCCGAGGCTCAATTCACC
Found at i:806620 original size:171 final size:170
Alignment explanation
Indices: 806337--806670 Score: 537
Period size: 171 Copynumber: 2.0 Consensus size: 170
806327 AACGTGTCTT
* *
806337 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTAAAATTACCTCA
806402 GCATGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGA-TTTTTTTAAAAATAGAAATTAA
66 GCATGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTAAAAATAGAAATTAA
806466 AATTACCTCAGCGTGTCCCGAGGCTCAATTCACCTGTCCC
131 AATTACCTCAGCGTGTCCCGAGGCTCAATTCACCTGTCCC
* *
806506 GAGGCTCAATTCATCTT-TCGCAATATGAGTTGATTTTTTTTAAAAAATAGAAATTAAAATTACC
1 GAGGCTCAACTCAT-TTCTCGCAATATGAGTTGA-TTTTTTT-AAAAACAGAAATTAAAATTACC
* * * *
806570 TCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAATAGAAC
63 TCAGCATGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGA-TTTTTTTTAAAAATAGAAA
*
806635 TTAAAATTACCTCAGCGTGTCTCGAGGCTCAATTCA
127 TTAAAATTACCTCAGCGTGTCCCGAGGCTCAATTCA
806671 TCTCTTGCAA
Statistics
Matches: 151, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
169 29 0.19
170 9 0.06
171 62 0.41
173 51 0.34
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (170 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTAAAATTACCTCA
GCATGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTAAAAATAGAAATTAA
AATTACCTCAGCGTGTCCCGAGGCTCAATTCACCTGTCCC
Found at i:806693 original size:247 final size:241
Alignment explanation
Indices: 806263--806964 Score: 843
Period size: 224 Copynumber: 3.0 Consensus size: 241
806253 AGCATGTGAA
*
806263 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAAATTGAAAATACCTCA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAATAGAAATTGAAAATACCTCA
** * *
806328 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAA
66 ACGTGTCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAA
806393 ATTACCTCAGCATGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATA
131 ATTACCTCAGCATGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATA
* *
806458 GAAATTAAAATTACCTCAGCGTGTCCCGAGGCTCAATTCACCTGTC
196 GAAATTAAAATTACCTCAGCATGTCCCAAGGCTCAATTCACCTGTC
* * *
806504 CCGAGGCTCAATTCATCTTTCGCAATATGAGTTGATTTTTTTTAAAAAATAGAAATT-AAAATTA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTT-AAAAATAGAAATTGAAAA-TA
* * * *
806568 CCTCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAATAGA
61 CCTCAACGTGTCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTTTTTTGAAAACAGA
* * * * *
806633 ACTTAAAATTACCTCAGCGTGTCTCGAGGCTCAATTCATCTCTTGCAATATGAGTTGATTTTTTT
124 AATTAAAATTACCTCAGCATGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTT
* *
806698 GAAAATAGAAATTAAAATTACCTCAGCATGTCCCAAGGCTCAATTCA--TCTC
189 AAAAATAGAAATTAAAATTACCTCAGCATGTCCCAAGGCTCAATTCACCTGTC
* *
806749 TC---G--CAA-T-A----T-G-AGT-TGA-TT--TTTTTAAAAATAGAAATT-AAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAATAGAAATTGAAAA-TACCTC
* * * * *
806796 AGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAATAGAACTT
65 AACGTGTCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTTTTTTGAAAACAGAAATT
* * * * *
806861 AAAATTACCTCAGCGTGTCTCGAGGCTCAATTCATCTCTTGCAATATGAGTTGATTTTTTTGAAA
128 AAAATTACCTCAGCATGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAA
* * *
806926 ATAGAAATTAAAATTACCTTAGCGTGTCCCGAGGCTCAA
193 ATAGAAATTAAAATTACCTCAGCATGTCCCAAGGCTCAA
806965 CCCATTTCTC
Statistics
Matches: 428, Mismatches: 26, Indels: 31
0.88 0.05 0.06
Matches are distributed among these distances:
224 190 0.44
225 5 0.01
230 2 0.00
231 3 0.01
232 2 0.00
233 1 0.00
234 1 0.00
238 1 0.00
239 1 0.00
240 3 0.01
241 32 0.07
242 1 0.00
244 9 0.02
245 60 0.14
247 117 0.27
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (241 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAATAGAAATTGAAAATACCTCA
ACGTGTCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAA
ATTACCTCAGCATGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATA
GAAATTAAAATTACCTCAGCATGTCCCAAGGCTCAATTCACCTGTC
Found at i:806738 original size:74 final size:74
Alignment explanation
Indices: 806500--806993 Score: 763
Period size: 74 Copynumber: 6.6 Consensus size: 74
806490 TCAATTCACC
*
806500 TGTCCCGAGGCTCAATTCATCTTTCGCAATATGAGTTGATTTTTTTTAAAAAATAGAAATTAAAA
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGA-TTTTTTT-AAAAATAGAAATTAAAA
806565 TTACCTCAGCG
64 TTACCTCAGCG
* *
806576 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAATAGAACTTAAAA
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGA--TTTTTTTAAAAATAGAAATTAAAA
806641 TTACCTCAGCG
64 TTACCTCAGCG
* * *
806652 TGTCTCGAGGCTCAATTCATCTCTTGCAATATGAGTTGATTTTTTTGAAAATAGAAATTAAAATT
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAGAAATTAAAATT
*
806717 ACCTCAGCA
66 ACCTCAGCG
*
806726 TGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAGAAATTAAAATT
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAGAAATTAAAATT
806791 ACCTCAGCG
66 ACCTCAGCG
* *
806800 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAATAGAACTTAAAA
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGA--TTTTTTTAAAAATAGAAATTAAAA
806865 TTACCTCAGCG
64 TTACCTCAGCG
* * *
806876 TGTCTCGAGGCTCAATTCATCTCTTGCAATATGAGTTGATTTTTTTGAAAATAGAAATTAAAATT
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAGAAATTAAAATT
*
806941 ACCTTAGCG
66 ACCTCAGCG
** * * *
806950 TGTCCCGAGGCTCAACCCATTTCTCGCAATATAAGTTGAATTTT
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTT
806994 GAAAACGGAA
Statistics
Matches: 387, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
74 208 0.54
76 171 0.44
77 8 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (74 bp):
TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAGAAATTAAAATT
ACCTCAGCG
Found at i:806845 original size:150 final size:150
Alignment explanation
Indices: 806500--806993 Score: 776
Period size: 150 Copynumber: 3.3 Consensus size: 150
806490 TCAATTCACC
* *
806500 TGTCCCGAGGCTCAATTCATCTTTCGCAATATGAGTTGATTTTTTTTAAAAAATAGAAATTAAAA
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTAAAAATAGAAATTAAAA
*
806565 TTACCTCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAT
66 TTACCTCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGA--TTTTTTTAAAAAT
*
806630 AGAACTTAAAATTACCTCAGCG
129 AGAAATTAAAATTACCTCAGCG
* * *
806652 TGTCTCGAGGCTCAATTCATCTCTTGCAATATGAGTTGA--TTTTTTTGAAAATAGAAATTAAAA
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTAAAAATAGAAATTAAAA
* *
806715 TTACCTCAGCATGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAG
66 TTACCTCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAG
806780 AAATTAAAATTACCTCAGCG
131 AAATTAAAATTACCTCAGCG
* *
806800 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAATAGAACTTAAAA
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTAAAAATAGAAATTAAAA
* * *
806865 TTACCTCAGCGTGTCTCGAGGCTCAATTCATCTCTTGCAATATGAGTTGATTTTTTTGAAAATAG
66 TTACCTCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAG
*
806930 AAATTAAAATTACCTTAGCG
131 AAATTAAAATTACCTCAGCG
** * * *
806950 TGTCCCGAGGCTCAACCCATTTCTCGCAATATAAGTTGAATTTT
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTT
806994 GAAAACGGAA
Statistics
Matches: 316, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
148 70 0.22
150 210 0.66
152 36 0.11
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (150 bp):
TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTAAAAATAGAAATTAAAA
TTACCTCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAG
AAATTAAAATTACCTCAGCG
Found at i:806899 original size:224 final size:225
Alignment explanation
Indices: 806500--806993 Score: 891
Period size: 224 Copynumber: 2.2 Consensus size: 225
806490 TCAATTCACC
*
806500 TGTCCCGAGGCTCAATTCATCTTTCGCAATATGAGTTGATTTTTTTTAAAAAATAGAAATTAAAA
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGA-TTTTTTTAAAAAATAGAAATTAAAA
806565 TTACCTCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAT
65 TTACCTCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAT
806630 AGAACTTAAAATTACCTCAGCGTGTCTCGAGGCTCAATTCATCTCTTGCAATATGAGTTGATTTT
130 AGAACTTAAAATTACCTCAGCGTGTCTCGAGGCTCAATTCATCTCTTGCAATATGAGTTGATTTT
806695 TTTGAAAATAGAAATTAAAATTACCTCAGCA
195 TTTGAAAATAGAAATTAAAATTACCTCAGCA
*
806726 TGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTT-AAAAATAGAAATTAAAAT
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAAATAGAAATTAAAAT
806790 TACCTCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAATA
66 TACCTCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAATA
806855 GAACTTAAAATTACCTCAGCGTGTCTCGAGGCTCAATTCATCTCTTGCAATATGAGTTGATTTTT
131 GAACTTAAAATTACCTCAGCGTGTCTCGAGGCTCAATTCATCTCTTGCAATATGAGTTGATTTTT
* *
806920 TTGAAAATAGAAATTAAAATTACCTTAGCG
196 TTGAAAATAGAAATTAAAATTACCTCAGCA
** * * *
806950 TGTCCCGAGGCTCAACCCATTTCTCGCAATATAAGTTGAATTTT
1 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTT
806994 GAAAACGGAA
Statistics
Matches: 258, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
224 214 0.83
225 7 0.03
226 37 0.14
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (225 bp):
TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAAATAGAAATTAAAAT
TACCTCAGCGTGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTTTAAAATA
GAACTTAAAATTACCTCAGCGTGTCTCGAGGCTCAATTCATCTCTTGCAATATGAGTTGATTTTT
TTGAAAATAGAAATTAAAATTACCTCAGCA
Done.