Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 152 of 276
Found at i:49505080 original size:31 final size:31
Alignment explanation
Indices: 49505034--49505169 Score: 159
Period size: 31 Copynumber: 4.4 Consensus size: 31
49505024 TTGCATTCAA
*
49505034 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
*
49505066 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * *
49505097 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
49505128 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
49505158 TTTCTTATTCTG
1 ATTCTGATTCTG
49505170 TAATGGGTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
30 16 0.18
31 66 0.73
32 9 0.10
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:49507473 original size:53 final size:52
Alignment explanation
Indices: 49507410--49507636 Score: 186
Period size: 53 Copynumber: 4.2 Consensus size: 52
49507400 ATATTAAGGA
* * * * *
49507410 TACACTGGTATCTTTCCTTTTTAAACTTACCATTGCCATGTCTTGGCATGGTCT
1 TACA-TGGTATCTTGCC-TTGTAAACTTACCAATGCCATGCCTTGACATGGTCT
* * * * * *
49507464 TACGTGGTATCCTTGCCTTATGAACTCACCATTGCCATGCCTTGGCATGGTCT
1 TACATGGTAT-CTTGCCTTGTAAACTTACCAATGCCATGCCTTGACATGGTCT
* * ** * *
49507517 TACATGGGATCTTTACCTTATCGT-AGTTTATCAATGCCATGTCTTGACATGGTCT
1 TACATGGTATC-TTGCC-T-T-GTAAACTTACCAATGCCATGCCTTGACATGGTCT
* *
49507572 TACATGATTTCCTTGCCTTGTAGAACTTACCAATGCCATGCCTTGACATGGTCT
1 TACATGGTAT-CTTGCCTTGTA-AACTTACCAATGCCATGCCTTGACATGGTCT
*
49507626 TACTTGGTATC
1 TACATGGTATC
49507637 CTTAAACCTT
Statistics
Matches: 137, Mismatches: 28, Indels: 17
0.75 0.15 0.09
Matches are distributed among these distances:
52 3 0.02
53 52 0.38
54 44 0.32
55 36 0.26
56 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (52 bp):
TACATGGTATCTTGCCTTGTAAACTTACCAATGCCATGCCTTGACATGGTCT
Found at i:49526280 original size:38 final size:39
Alignment explanation
Indices: 49526238--49526323 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 39
49526228 GACCAGCCCA
* *
49526238 ACACACCA-TGTGGGGATAGAATCGACCCA-CCAAACCCT
1 ACACACCAGTATGGGGATAGAATCAACCCATCC-AACCCT
*
49526276 ACACACCAAGTATGGGGATATAATCAACCCATCCAACCCT
1 ACACACC-AGTATGGGGATAGAATCAACCCATCCAACCCT
49526316 ACACACCA
1 ACACACCA
49526324 CAAGGTACCG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 7 0.17
39 2 0.05
40 31 0.74
41 2 0.05
ACGTcount: A:0.37, C:0.35, G:0.14, T:0.14
Consensus pattern (39 bp):
ACACACCAGTATGGGGATAGAATCAACCCATCCAACCCT
Found at i:49526295 original size:40 final size:40
Alignment explanation
Indices: 49526248--49526323 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
49526238 ACACACCATG
*
49526248 TGGGGATAGAATCGACCCA-CCAAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCATCC-AACCCTACACACCAAGTA
*
49526288 TGGGGATATAATCAACCCATCCAACCCTACACACCA
1 TGGGGATAGAATCAACCCATCCAACCCTACACACCA
49526324 CAAGGTACCG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.37, C:0.34, G:0.14, T:0.14
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCATCCAACCCTACACACCAAGTA
Found at i:49527080 original size:41 final size:41
Alignment explanation
Indices: 49527023--49527105 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
49527013 TAGTGTGGTG
*
49527023 TTATCTTCGGCCCTTCCAACTCAAGCTATTGTACAGACCTA
1 TTATCTCCGGCCCTTCCAACTCAAGCTATTGTACAGACCTA
* *
49527064 TTATCTCCGGCCCTTCCAACTCGAGCTATTGTATAGACCTA
1 TTATCTCCGGCCCTTCCAACTCAAGCTATTGTACAGACCTA
49527105 T
1 T
49527106 AAGAAATGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (41 bp):
TTATCTCCGGCCCTTCCAACTCAAGCTATTGTACAGACCTA
Found at i:49530281 original size:14 final size:15
Alignment explanation
Indices: 49530252--49530281 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49530242 AAAAATTAAG
49530252 ACATGATACTTTCAC
1 ACATGATACTTTCAC
49530267 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
49530281 A
1 A
49530282 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:49532640 original size:24 final size:23
Alignment explanation
Indices: 49532613--49532689 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 23
49532603 ATTCACCCTA
*
49532613 AAACCCTAAACTAAAGTTACTTAC
1 AAACCCTAAA-TAAAGTTAATTAC
* *
49532637 AAACCCTAATATGAAGTTAATTGC
1 AAACCCTAA-ATAAAGTTAATTAC
49532661 AAACCC----TAAAGTTAATTAC
1 AAACCCTAAATAAAGTTAATTAC
49532680 AAACCCTAAA
1 AAACCCTAAA
49532690 GTGAGTTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
19 17 0.40
24 25 0.58
25 1 0.02
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (23 bp):
AAACCCTAAATAAAGTTAATTAC
Found at i:49532674 original size:19 final size:19
Alignment explanation
Indices: 49532650--49532691 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
49532640 CCCTAATATG
*
49532650 AAGTTAATTGCAAACCCTA
1 AAGTTAATTACAAACCCTA
49532669 AAGTTAATTACAAACCCTA
1 AAGTTAATTACAAACCCTA
49532688 AAGT
1 AAGT
49532692 GAGTTAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (19 bp):
AAGTTAATTACAAACCCTA
Found at i:49533787 original size:34 final size:34
Alignment explanation
Indices: 49533749--49533830 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
49533739 GTATTAGTTA
* * *
49533749 GGCCTTAGCCTATTTCAATAACAGTAGCAGTTTG
1 GGCCTAAGCCCATTTCAATAACAGTAGCAGTCTG
* *
49533783 GGCCTGAGCCCATTTCAGTAACAGTAGCAGTCTG
1 GGCCTAAGCCCATTTCAATAACAGTAGCAGTCTG
49533817 GGCCTAAGCCCATT
1 GGCCTAAGCCCATT
49533831 AACATATCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (34 bp):
GGCCTAAGCCCATTTCAATAACAGTAGCAGTCTG
Found at i:49544144 original size:46 final size:48
Alignment explanation
Indices: 49544077--49544175 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 48
49544067 TGTAAACAAA
49544077 TTAATTTTAACTATAAATTAAT-AA-ATATGTGTGACCCAAATTCTTG
1 TTAATTTTAACTATAAATTAATAAATATATGTGTGACCCAAATTCTTG
* *
49544123 TTAATTTTAATTATAAATTAATAAAATATATGTGTGACTCAAATTCTTG
1 TTAATTTTAACTATAAATTAAT-AAATATATGTGTGACCCAAATTCTTG
49544172 TTAA
1 TTAA
49544176 ATAATATAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
46 21 0.44
48 2 0.04
49 25 0.52
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.43
Consensus pattern (48 bp):
TTAATTTTAACTATAAATTAATAAATATATGTGTGACCCAAATTCTTG
Found at i:49548377 original size:16 final size:16
Alignment explanation
Indices: 49548356--49548386 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49548346 TATATTTTTC
*
49548356 ATTTGCATCATATATG
1 ATTTGCAACATATATG
49548372 ATTTGCAACATATAT
1 ATTTGCAACATATAT
49548387 CAAATAACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (16 bp):
ATTTGCAACATATATG
Found at i:49548692 original size:43 final size:44
Alignment explanation
Indices: 49548540--49548694 Score: 121
Period size: 43 Copynumber: 3.7 Consensus size: 44
49548530 ATATCGTACA
* * *
49548540 ATGCCAACGTCCTAGACA-TGGTCTTACACGCT-ATCACATATCG
1 ATGCCAACATCCCAGACAGTGGTCTTACAC-ATAATCACATATCG
* * *
49548583 ATGCC-ACTGTCCTAGACAG-GGTCTT--ACATGAATCAAATA-CG
1 ATGCCAAC-ATCCCAGACAGTGGTCTTACACAT-AATCACATATCG
* * * * *
49548624 ATGACGATATCCCAAACA-TGATCTTACACATAATCACATATCG
1 ATGCCAACATCCCAGACAGTGGTCTTACACATAATCACATATCG
49548667 ATGCCAACATCCCAGA-AGTGGTCTTACA
1 ATGCCAACATCCCAGACAGTGGTCTTACA
49548695 TGGGAACACA
Statistics
Matches: 88, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
40 1 0.01
41 20 0.23
42 19 0.22
43 48 0.55
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (44 bp):
ATGCCAACATCCCAGACAGTGGTCTTACACATAATCACATATCG
Found at i:49551476 original size:28 final size:28
Alignment explanation
Indices: 49551436--49551494 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
49551426 ATTACCGAAC
* *
49551436 CATCATCATACATATCCATATGCGCATT
1 CATCATCAGACATATCCATATGCACATT
*
49551464 CATCATCAGACATATTCATATGCACATT
1 CATCATCAGACATATCCATATGCACATT
49551492 CAT
1 CAT
49551495 TGCACGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (28 bp):
CATCATCAGACATATCCATATGCACATT
Found at i:49558961 original size:16 final size:16
Alignment explanation
Indices: 49558940--49558976 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
49558930 AGTGCTACAT
49558940 ATGTAGCCAAGCTACC
1 ATGTAGCCAAGCTACC
49558956 ATGTAGCCAAGCTACC
1 ATGTAGCCAAGCTACC
49558972 ATGTA
1 ATGTA
49558977 ACCCGCCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (16 bp):
ATGTAGCCAAGCTACC
Found at i:49559050 original size:46 final size:46
Alignment explanation
Indices: 49558983--49559248 Score: 217
Period size: 46 Copynumber: 5.7 Consensus size: 46
49558973 TGTAACCCGC
* * * *
49558983 CCATAAGCGAACTCGGGCTCAACTCAACGAGCTCAGGCATTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCACAT
*
49559029 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--A-GAC-A-TTCACAT
* * *
49559079 CTCAT-A---AACTCGGACTCAACTCAATGAGTTCAGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCACAT
* *
49559122 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--A-GAC-A-TTCACAT
* * * * * *
49559172 --TTCA-TGAACTCGGATTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCACAT
*
49559215 CCATAAGTGAACTCGGACTCAACTCAATGAGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC
49559249 GATGCTCAAA
Statistics
Matches: 178, Mismatches: 22, Indels: 40
0.74 0.09 0.17
Matches are distributed among these distances:
42 7 0.04
43 9 0.05
44 4 0.02
45 4 0.02
46 80 0.45
47 49 0.28
48 4 0.02
49 4 0.02
50 10 0.06
51 7 0.04
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCACAT
Found at i:49559101 original size:47 final size:46
Alignment explanation
Indices: 49559038--49559202 Score: 169
Period size: 47 Copynumber: 3.5 Consensus size: 46
49559028 TCCATAAGTG
*
49559038 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCATA
1 AACTCGGACTCAACTCAACGAGTTCGGA-GCCTAGTTACATCTCATA
* * *
49559085 AACTCGGACTCAACTCAATGAGTTC--AGAC-A-TTCGCATC-CATAA
1 AACTCGGACTCAACTCAACGAGTTCGGAGCCTAGTT-ACATCTCAT-A
* *
49559128 GTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTTACATTTCATG
1 ---AACTCGGACTCAACTCAACGAGTTCGGA-GCCTAGTTACATCTCATA
*
49559178 AACTCGGATTCAACTCAACGAGTTC
1 AACTCGGACTCAACTCAACGAGTTC
49559203 AGACGTTCGC
Statistics
Matches: 97, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
42 5 0.05
43 6 0.06
44 2 0.02
45 1 0.01
46 24 0.25
47 47 0.48
48 1 0.01
49 2 0.02
50 4 0.04
51 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGAGCCTAGTTACATCTCATA
Found at i:49559151 original size:93 final size:93
Alignment explanation
Indices: 49558992--49559253 Score: 409
Period size: 93 Copynumber: 2.8 Consensus size: 93
49558982 CCCATAAGCG
* * * *
49558992 AACTCGGGCTCAACTCAACGAGCTCAGGCATTCTCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
49559057 GAGCTCGGATGCCTAGTTACATCTCATA
66 GAGCTCGGATGCCTAGTTACATCTCATA
*
49559085 AACTCGGACTCAACTCAATGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
* * * *
49559150 GAGTTCGGACGCCTAGTTACATTTCATG
66 GAGCTCGGATGCCTAGTTACATCTCATA
* * *
49559178 AACTCGGATTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
49559243 GAGCTC-GATGC
66 GAGCTCGGATGC
49559254 TCAAATATAC
Statistics
Matches: 154, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
92 4 0.03
93 150 0.97
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCATA
Found at i:49561336 original size:27 final size:27
Alignment explanation
Indices: 49561274--49561336 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
49561264 GTAGGCTAAT
*
49561274 ATTACTGAAACACCCCTGTAGGGTAGA
1 ATTACTGAAACACCCCTATAGGGTAGA
* * **
49561301 ACTATTGAAATGCCCCTATAGGGTAGA
1 ATTACTGAAACACCCCTATAGGGTAGA
49561328 ATTACTGAA
1 ATTACTGAA
49561337 TACCCTTGGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
ATTACTGAAACACCCCTATAGGGTAGA
Found at i:49561367 original size:27 final size:27
Alignment explanation
Indices: 49561335--49561639 Score: 208
Period size: 27 Copynumber: 11.3 Consensus size: 27
49561325 AGAATTACTG
* *
49561335 AATACCCTTGGTTTACAAAATTACCAA
1 AATACCCTTGATTTATAAAATTACCAA
* *
49561362 AATACCCTCGA-TTAGAAAAATTACCAA
1 AATACCCTTGATTTA-TAAAATTACCAA
* *
49561389 AATACTCCTAG-TTTGTAAAATTACCAA
1 AATAC-CCTTGATTTATAAAATTACCAA
* * ***
49561416 AATACCCTTGATTTGTGAAATTATGGA
1 AATACCCTTGATTTATAAAATTACCAA
* ** *
49561443 AATACCTTTGACCTATAAAATTACCGA
1 AATACCCTTGATTTATAAAATTACCAA
* * * *
49561470 AATACTC-TCACTTGTAAAATTACCAA
1 AATACCCTTGATTTATAAAATTACCAA
* *
49561496 AATACCCTTCATTTGTAAAATTACCAA
1 AATACCCTTGATTTATAAAATTACCAA
* * **
49561523 AATACCCCTAATTTGGAAAATTATCC-A
1 AATACCCTTGATTTATAAAATTA-CCAA
*
49561550 AATACCCTTGATTTAGAAAATTA-CAGA
1 AATACCCTTGATTTATAAAATTACCA-A
* ** **
49561577 AATACCATTGGCTTGCAAAATTACCAA
1 AATACCCTTGATTTATAAAATTACCAA
* * *
49561604 AA-ATCCCTTGGTTTATAGATTTACCAA
1 AATA-CCCTTGATTTATAAAATTACCAA
*
49561631 AACACCCTT
1 AATACCCTT
49561640 ATAGGGTGAA
Statistics
Matches: 224, Mismatches: 43, Indels: 22
0.78 0.15 0.08
Matches are distributed among these distances:
25 1 0.00
26 29 0.13
27 183 0.82
28 11 0.05
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AATACCCTTGATTTATAAAATTACCAA
Found at i:49561526 original size:80 final size:81
Alignment explanation
Indices: 49561351--49561529 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 81
49561341 CTTGGTTTAC
* *
49561351 AAAATTACCAAAATACCCTCGATTAGAAAAATTACCAAAATACTCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTCGACTAGAAAAATTACCAAAATACTCCTAGCTTGTAAAATTACCAA
*
49561416 AATACCCTTGATTTGT
66 AATACCCTTCATTTGT
* *** * * * *
49561432 GAAATTATGGAAATACCTTTGACCTA-TAAAATTACCGAAATACT-CTCA-CTTGTAAAATTACC
1 AAAATTACCAAAATACCCTCGA-CTAGAAAAATTACCAAAATACTCCT-AGCTTGTAAAATTACC
49561494 AAAATACCCTTCATTTGT
64 AAAATACCCTTCATTTGT
49561512 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
49561530 CTAATTTGGA
Statistics
Matches: 80, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
80 45 0.56
81 33 0.41
82 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGACTAGAAAAATTACCAAAATACTCCTAGCTTGTAAAATTACCAA
AATACCCTTCATTTGT
Found at i:49561543 original size:80 final size:80
Alignment explanation
Indices: 49561351--49561554 Score: 209
Period size: 80 Copynumber: 2.5 Consensus size: 80
49561341 CTTGGTTTAC
* *
49561351 AAAATTACCAAAATA-CCCTCGATTAGAAAAATTACCAAAATACTCCTAGTTTGTAAAATTACCA
1 AAAATTACCAAAATACCCCT-GATTTGAAAAATTACC-AAATACTCCTAGCTTGTAAAATTACCA
*
49561415 AAATACCCTTGATTTGT
64 AAATACCCTTCATTTGT
* *** ** **
49561432 GAAATTATGGAAATACCTTTGACCT-ATAAAATTACCGAAATACT-CTCA-CTTGTAAAATTACC
1 AAAATTACCAAAATACCCCTGATTTGA-AAAATTACC-AAATACTCCT-AGCTTGTAAAATTACC
49561494 AAAATACCCTTCATTTGT
63 AAAATACCCTTCATTTGT
* *
49561512 AAAATTACCAAAATACCCCTAATTTGGAAAATTATCCAAATAC
1 AAAATTACCAAAATACCCCTGATTTGAAAAATTA-CCAAATAC
49561555 CCTTGATTTA
Statistics
Matches: 96, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
80 62 0.65
81 32 0.33
82 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTGATTTGAAAAATTACCAAATACTCCTAGCTTGTAAAATTACCAAA
ATACCCTTCATTTGT
Found at i:49561597 original size:134 final size:134
Alignment explanation
Indices: 49561351--49561601 Score: 337
Period size: 134 Copynumber: 1.9 Consensus size: 134
49561341 CTTGGTTTAC
* * *
49561351 AAAATTACCAAAATACCCTCGATTAGAAAAATTACCAAAATACTCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTCGATTAGAAAAATTACCAAAATACCCCTAATTTGGAAAATTACCAA
* ** * *
49561416 AATACCCTTGATTTGTGAAATTATGGAAATACCTTTGACCTATAAAATTACCGAAATACTCTCAC
66 AATACCCTTGATTTGTAAAATTACAGAAATACCATTGACCTACAAAATTACCGAAATACTCTCAC
49561481 TTGT
131 TTGT
* *
49561485 AAAATTACCAAAATACCCTTC-ATTTGTAAAATTACCAAAATACCCCTAATTTGGAAAATTATCC
1 AAAATTACCAAAATACCC-TCGATTAGAAAAATTACCAAAATACCCCTAATTTGGAAAATTA-CC
* * *
49561549 -AAATACCCTTGATTTAG-AAAATTACAGAAATACCATTGGCTTGCAAAATTACC
64 AAAATACCCTTGATTT-GTAAAATTACAGAAATACCATTGACCTACAAAATTACC
49561602 AAAAATCCCT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
134 96 0.95
135 5 0.05
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (134 bp):
AAAATTACCAAAATACCCTCGATTAGAAAAATTACCAAAATACCCCTAATTTGGAAAATTACCAA
AATACCCTTGATTTGTAAAATTACAGAAATACCATTGACCTACAAAATTACCGAAATACTCTCAC
TTGT
Found at i:49561921 original size:41 final size:41
Alignment explanation
Indices: 49561883--49561998 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 41
49561873 AGAAATTGCA
* *
49561883 GATCGCATGGTTGCTTGACGATCGTGGATCCACTAATTGAG
1 GATCGCATGGTTGCTTGACGACCGTGGATCCACCAATTGAG
** * *
49561924 GA-CTGCATGGTTGCTTGACGACCGTGGATCTGCCGATTAAG
1 GATC-GCATGGTTGCTTGACGACCGTGGATCCACCAATTGAG
*
49561965 GATCGCATGGTTGCTTGACGACCGCGGATCCACC
1 GATCGCATGGTTGCTTGACGACCGTGGATCCACC
49561999 GGTGGCTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.02
41 62 0.97
42 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (41 bp):
GATCGCATGGTTGCTTGACGACCGTGGATCCACCAATTGAG
Found at i:49562200 original size:22 final size:22
Alignment explanation
Indices: 49562140--49562204 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
49562130 ACCAATTATT
* *
49562140 CTGATTATGGTTTTGCGCCAAC
1 CTGATTATGGTTCTGTGCCAAC
* * *
49562162 CT-ACATATAGCTCTGTGCCAAC
1 CTGA-TTATGGTTCTGTGCCAAC
*
49562184 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGTTCTGTGCCAA
49562205 ACGTATTTGC
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGTTCTGTGCCAAC
Found at i:49562439 original size:22 final size:22
Alignment explanation
Indices: 49562409--49562451 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49562399 TACTGTGATG
*
49562409 TTTACGGCTATGTGTTGTCCTA
1 TTTACGGCTATGTATTGTCCTA
*
49562431 TTTATGGCTATGTATTGTCCT
1 TTTACGGCTATGTATTGTCCT
49562452 GTCTCCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.16, G:0.21, T:0.49
Consensus pattern (22 bp):
TTTACGGCTATGTATTGTCCTA
Found at i:49564451 original size:19 final size:19
Alignment explanation
Indices: 49564427--49564464 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
49564417 AGTAAATTTT
49564427 GATATTATTTAGATTGAGA
1 GATATTATTTAGATTGAGA
49564446 GATATTATTTAGATTGAGA
1 GATATTATTTAGATTGAGA
49564465 TAATCAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (19 bp):
GATATTATTTAGATTGAGA
Found at i:49564811 original size:28 final size:28
Alignment explanation
Indices: 49564741--49564817 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
49564731 TATACATATG
* * *
49564741 TGACACTTAGTGTGCGAAATATTGAGAA
1 TGACACTTAGTGTGTGAGATATTAAGAA
*
49564769 TGACACTTGGTGTGTGAGATATTAAGTAA
1 TGACACTTAGTGTGTGAGATATTAAG-AA
*
49564798 -GGCACTTAGTGTGTGAGATA
1 TGACACTTAGTGTGTGAGATA
49564818 GCGAAGATGC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 40 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (28 bp):
TGACACTTAGTGTGTGAGATATTAAGAA
Found at i:49565338 original size:13 final size:13
Alignment explanation
Indices: 49565320--49565352 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
49565310 TTGTACAATA
49565320 ATAATTTTGGGTT
1 ATAATTTTGGGTT
*
49565333 ATAATTTTGTGTT
1 ATAATTTTGGGTT
49565346 ATAATTT
1 ATAATTT
49565353 ATATGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (13 bp):
ATAATTTTGGGTT
Found at i:49568762 original size:41 final size:43
Alignment explanation
Indices: 49568653--49568806 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
49568643 ATATCATACA
* *
49568653 ATGCCAAC-GTCCCTGACATGGTCTTACATGCTATCACATATGG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGCAATCACATATGG
* *
49568696 ATGCCACTGTCCTAGACA-GGGCTTACATG-AATCGA-ATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACATGCAATC-ACATATGG
* * **
49568736 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAATCACATATCT
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGCAATCACATATGG
49568779 ATGCCAACAT-T-CCAGACATGGTCTTACA
1 ATGCC-AC-TGTCCCAGACATGGTCTTACA
49568807 CGAGAACACA
Statistics
Matches: 93, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
40 16 0.17
41 18 0.19
42 21 0.23
43 36 0.39
44 1 0.01
45 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGCAATCACATATGG
Found at i:49569419 original size:15 final size:15
Alignment explanation
Indices: 49569401--49569430 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49569391 TAAAAAATCC
*
49569401 TAATGCAAAACATAT
1 TAATCCAAAACATAT
49569416 TAATCCAAAACATAT
1 TAATCCAAAACATAT
49569431 CTTTCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.27
Consensus pattern (15 bp):
TAATCCAAAACATAT
Found at i:49571732 original size:15 final size:15
Alignment explanation
Indices: 49571712--49571763 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
49571702 ACTACAAAAA
49571712 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
49571727 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
49571746 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
49571761 ATT
1 ATT
49571764 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:49571749 original size:19 final size:19
Alignment explanation
Indices: 49571725--49571761 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49571715 TATTATTAAT
*
49571725 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
49571744 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
49571762 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:49571821 original size:15 final size:16
Alignment explanation
Indices: 49571801--49571831 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49571791 AATAATATCA
49571801 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
49571816 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
49571832 AAATGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:49573999 original size:25 final size:26
Alignment explanation
Indices: 49573963--49574013 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
49573953 TTACATTCGT
* *
49573963 AATATGTATTTATGATACGTTCATAA
1 AATATGTATTTATGACACATTCATAA
49573989 AATAT-TATTTATGACACATTCATAA
1 AATATGTATTTATGACACATTCATAA
49574014 TGCTTAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (26 bp):
AATATGTATTTATGACACATTCATAA
Found at i:49575073 original size:16 final size:16
Alignment explanation
Indices: 49575052--49575083 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49575042 TTTCCATAAA
49575052 GCCATGTTCTATCAAC
1 GCCATGTTCTATCAAC
49575068 GCCATGTTCTATCAAC
1 GCCATGTTCTATCAAC
49575084 CTGCACTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.31
Consensus pattern (16 bp):
GCCATGTTCTATCAAC
Found at i:49576381 original size:38 final size:38
Alignment explanation
Indices: 49576330--49576405 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
49576320 AGTTATTTTC
49576330 GCACTGATCTTCCTTTTCCTTTATTCCAGCTTCACATT
1 GCACTGATCTTCCTTTTCCTTTATTCCAGCTTCACATT
49576368 GCACTGATCTTCCTTTTCCTTTATTCCAGCTTCACATT
1 GCACTGATCTTCCTTTTCCTTTATTCCAGCTTCACATT
49576406 TTTTTTGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.16, C:0.32, G:0.08, T:0.45
Consensus pattern (38 bp):
GCACTGATCTTCCTTTTCCTTTATTCCAGCTTCACATT
Found at i:49577889 original size:46 final size:46
Alignment explanation
Indices: 49577724--49577899 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
49577714 TGTAACCCGC
* * * * *
49577724 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * *
49577770 CCATGAGTGAACTCAGAATCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
49577820 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
49577863 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49577900 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.57
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:49577891 original size:93 final size:93
Alignment explanation
Indices: 49577732--49577903 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
49577722 GCCCATAAGT
* * * *
49577732 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCAGAATCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGAATCAACTCAA
49577797 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
49577825 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGAATCAACTCAA
49577890 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
49577904 CAAATATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGAATCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:49577918 original size:46 final size:46
Alignment explanation
Indices: 49577775--49577918 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 46
49577765 CGCATCCATG
* * * * *
49577775 AGTGAACTCAGAATCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * *
49577823 A-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
49577868 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
49577914 AGTGA
1 AGTGA
49577919 CATGTCACTC
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 34 0.45
47 27 0.36
48 5 0.07
50 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:49579436 original size:27 final size:27
Alignment explanation
Indices: 49579401--49579527 Score: 120
Period size: 27 Copynumber: 4.8 Consensus size: 27
49579391 TTTGAGATGG
* *
49579401 AAGCATTTGTGGAAATCTATGAAATGG
1 AAGCCTTTGTGGAAATCTATGAAATGA
**
49579428 AAGCCTTTGTGGTTTATCTA--AAATGA
1 AAGCCTTTGTGG-AAATCTATGAAATGA
* **
49579454 AATCCTTTGTGGTGTATC--TGAAAT-A
1 AAGCCTTTGTGG-AAATCTATGAAATGA
49579479 TAAGCCTTTGTGGAAATCTATGAAATGA
1 -AAGCCTTTGTGGAAATCTATGAAATGA
*
49579507 AAGCCTTTGTGGCAATCTATG
1 AAGCCTTTGTGGAAATCTATG
49579528 GAAAGGCATG
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
25 4 0.05
26 36 0.43
27 37 0.45
28 6 0.07
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (27 bp):
AAGCCTTTGTGGAAATCTATGAAATGA
Found at i:49579460 original size:26 final size:26
Alignment explanation
Indices: 49579422--49579518 Score: 99
Period size: 26 Copynumber: 3.7 Consensus size: 26
49579412 GAAATCTATG
* *
49579422 AAATGGAAGCCTTTGTGGTTTATCTA
1 AAATGAAAGCCTTTGTGGTATATCTA
* * *
49579448 AAATGAAATCCTTTGTGGTGTATCTG
1 AAATGAAAGCCTTTGTGGTATATCTA
*
49579474 AAAT-ATAAGCCTTTGTGG-AAATCTA
1 AAATGA-AAGCCTTTGTGGTATATCTA
49579499 TGAAATGAAAGCCTTTGTGG
1 --AAATGAAAGCCTTTGTGG
49579519 CAATCTATGG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
25 5 0.08
26 37 0.63
27 16 0.27
28 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (26 bp):
AAATGAAAGCCTTTGTGGTATATCTA
Found at i:49579697 original size:27 final size:27
Alignment explanation
Indices: 49579657--49579732 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
49579647 ATGATTTGTG
*
49579657 TGGTTAACTCTGAAGGAATAGTACATA
1 TGGTAAACTCTGAAGGAATAGTACATA
*
49579684 TGGTAAACTTTGAAGGAATAGTACATA
1 TGGTAAACTCTGAAGGAATAGTACATA
* *
49579711 TCCG--AACTCTAAAGGAATAGTA
1 T-GGTAAACTCTGAAGGAATAGTA
49579733 TGTATGGCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 16 0.37
27 26 0.60
28 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (27 bp):
TGGTAAACTCTGAAGGAATAGTACATA
Found at i:49584898 original size:28 final size:27
Alignment explanation
Indices: 49584866--49584996 Score: 69
Period size: 27 Copynumber: 4.9 Consensus size: 27
49584856 CGAACCGCTA
*
49584866 TTGTGAACACTCTA-GAAAATGAAAGCCT
1 TTGTG-ACAATCTATGAAAATG-AAGCCT
* *
49584894 TTGTGGCAATCTATGAAATTGAAGCCT
1 TTGTGACAATCTATGAAAATGAAGCCT
* * * *
49584921 TTGTG---GTGTATCTAAAATAGAAGCTT
1 TTGTGACAATCTAT-GAAAAT-GAAGCCT
49584947 TTGTGGA-AATCTATG-AAATGGAAGCCT
1 TTGT-GACAATCTATGAAAAT-GAAGCCT
* *
49584974 TTGAGGCAATCTAT-AGAAATGAA
1 TTGTGACAATCTATGA-AAATGAA
49584997 TGTCTTTATG
Statistics
Matches: 79, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
24 4 0.05
25 4 0.05
26 11 0.14
27 41 0.52
28 15 0.19
29 4 0.05
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (27 bp):
TTGTGACAATCTATGAAAATGAAGCCT
Found at i:49584918 original size:27 final size:27
Alignment explanation
Indices: 49584888--49584993 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
49584878 TAGAAAATGA
*
49584888 AAGCCTTTGTGGCAATCTATGAAATTG
1 AAGCCTTTGTGGCAATCTATGAAATAG
**
49584915 AAGCCTTTGTGGTGTATCTA--AAATAG
1 AAGCCTTTGTGG-CAATCTATGAAATAG
* * *
49584941 AAGCTTTTGTGGAAATCTATGAAATGG
1 AAGCCTTTGTGGCAATCTATGAAATAG
*
49584968 AAGCCTTTGAGGCAATCTATAGAAAT
1 AAGCCTTTGTGGCAATCTAT-GAAAT
49584994 GAATGTCTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
25 5 0.08
26 16 0.25
27 34 0.52
28 10 0.15
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (27 bp):
AAGCCTTTGTGGCAATCTATGAAATAG
Found at i:49585153 original size:27 final size:27
Alignment explanation
Indices: 49585123--49585205 Score: 139
Period size: 27 Copynumber: 3.1 Consensus size: 27
49585113 ATGTGTGGCT
49585123 AACTCTGAAGGAATAGTACATATGGTG
1 AACTCTGAAGGAATAGTACATATGGTG
*
49585150 AACTCTGAAGGAATAGTACATATGATG
1 AACTCTGAAGGAATAGTACATATGGTG
**
49585177 AACTCTGAAGGAATAGTATGTATGGTG
1 AACTCTGAAGGAATAGTACATATGGTG
49585204 AA
1 AA
49585206 TATTAAGAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.27
Consensus pattern (27 bp):
AACTCTGAAGGAATAGTACATATGGTG
Found at i:49586201 original size:47 final size:47
Alignment explanation
Indices: 49586132--49586225 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
49586122 TACTTGGTTC
* *
49586132 AATCGGCTAAATAATATGTATCATTATAGATATTCACAATTTACACT
1 AATCGGCTAAATAATATGTATCATTATACACATTCACAATTTACACT
49586179 AATCGGCTAAATAATATGTATCATTATACACATTCACAATTTACACT
1 AATCGGCTAAATAATATGTATCATTATACACATTCACAATTTACACT
49586226 TAATTAGCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (47 bp):
AATCGGCTAAATAATATGTATCATTATACACATTCACAATTTACACT
Found at i:49589583 original size:148 final size:148
Alignment explanation
Indices: 49589360--49589656 Score: 576
Period size: 148 Copynumber: 2.0 Consensus size: 148
49589350 TTAGTCAAAG
49589360 TCTCCCATGTTACAGGGGTCGACTACACTGACCTTTTCCCATTACGACTTGGATATCTCTCTGCA
1 TCTCCCATGTTACAGGGGTCGACTACACTGACCTTTTCCCATTACGACTTGGATATCTCTCTGCA
49589425 CAGAGCTTCAATACTGATGCCGTTTGTTTCTATGGAAACTAGACTCAGAGAGGAATCCATAAATA
66 CAGAGCTTCAATACTGATGCCGTTTGTTTCTATGGAAACTAGACTCAGAGAGGAATCCATAAATA
49589490 TATGGTATGACCCCTAAT
131 TATGGTATGACCCCTAAT
49589508 TCTCCCATGTTACAGGGGTCGACTACACTGACCTTTTCCCATTACGACTTGGATATCTCTCTGCA
1 TCTCCCATGTTACAGGGGTCGACTACACTGACCTTTTCCCATTACGACTTGGATATCTCTCTGCA
* *
49589573 CAGAGCTTCAATACTGATGCCGTTTGTTTCTATGGAAACTAGACTCAGATAGGAATCCATACATA
66 CAGAGCTTCAATACTGATGCCGTTTGTTTCTATGGAAACTAGACTCAGAGAGGAATCCATAAATA
49589638 TATGGTATGACCCCTAAT
131 TATGGTATGACCCCTAAT
49589656 T
1 T
49589657 ATCTCTGGTC
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 147 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (148 bp):
TCTCCCATGTTACAGGGGTCGACTACACTGACCTTTTCCCATTACGACTTGGATATCTCTCTGCA
CAGAGCTTCAATACTGATGCCGTTTGTTTCTATGGAAACTAGACTCAGAGAGGAATCCATAAATA
TATGGTATGACCCCTAAT
Found at i:49597046 original size:50 final size:50
Alignment explanation
Indices: 49596961--49597176 Score: 220
Period size: 50 Copynumber: 4.3 Consensus size: 50
49596951 GCTAAATGAC
* * * * **
49596961 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
* * * * *
49597011 CTTGAATATTCGGCCATGA-AGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTA-AATTGGAT
* * * *
49597062 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
** * *
49597111 CTTCCATATTCGGCCATATATGTAAGCACATATGTGATATTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
*
49597161 CTTCTATATTCGGCCA
1 CTTGTATATTCGGCCA
49597177 AATGAGTGAT
Statistics
Matches: 138, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
49 6 0.04
50 126 0.91
51 6 0.04
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
Found at i:49597140 original size:100 final size:100
Alignment explanation
Indices: 49596961--49597176 Score: 283
Period size: 100 Copynumber: 2.2 Consensus size: 100
49596951 GCTAAATGAC
* * ** *
49596961 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGATCTTGAATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTCAATATTCGGCC
* *
49597026 ATGAAGGTATGCACAAATGTGATATTATATTTGAAT
66 ATGAAGGTAAGCACAAATGTGATATTAAATTTG-AT
* * *
49597062 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTCCATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTCAATATTCGGCC
* *
49597126 AT-ATATGTAAGCACATATGTGATATTAAATTTGAT
66 ATGA-AGGTAAGCACAAATGTGATATTAAATTTGAT
*
49597161 CTTCTATATTCGGCCA
1 CTTGTATATTCGGCCA
49597177 AATGAGTGAT
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
99 3 0.03
100 97 0.97
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (100 bp):
CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTCAATATTCGGCC
ATGAAGGTAAGCACAAATGTGATATTAAATTTGAT
Found at i:49599713 original size:42 final size:43
Alignment explanation
Indices: 49599613--49599720 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
49599603 GCCATATTCC
* * * *
49599613 AGATATGGTCTTACATGAAATCTCGTATCGATGCTAATAGCTT
1 AGATATGGTCTTACACGAAATCTCATATCGATGCTAATACCCT
* * *
49599656 AGCTATGGTCTTACACGAAGTCTCATATCGATGC-CATACCCT
1 AGATATGGTCTTACACGAAATCTCATATCGATGCTAATACCCT
*
49599698 AGATATGGTCTTACACGTAATCT
1 AGATATGGTCTTACACGAAATCT
49599721 TAGTAGCCCT
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 25 0.45
43 30 0.55
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
AGATATGGTCTTACACGAAATCTCATATCGATGCTAATACCCT
Found at i:49601549 original size:43 final size:43
Alignment explanation
Indices: 49601454--49601566 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
49601444 TCAGGATGTG
* * * * * **
49601454 ATTACATGTAAGGCCATGTTTGGGACATTGGCATTGTATTGTG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGCA
*
49601497 ATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-CA
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGCA
*
49601540 ATTACGTGTAAGACCTTGTCTGGGACA
1 ATTACGTGTAAGACCATGTCTGGGACA
49601567 GTGATATCGA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 56 0.95
44 3 0.05
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGCA
Found at i:49618151 original size:43 final size:43
Alignment explanation
Indices: 49618103--49618273 Score: 186
Period size: 43 Copynumber: 4.0 Consensus size: 43
49618093 ATTATCGAGA
* *
49618103 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
** * *
49618146 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCG-TAT
* * * *
49618190 T-CGATTACGTGTAAGACCCTATCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * *
49618231 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 -TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
49618274 GAGCTTTATG
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 8 0.07
43 96 0.89
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:49618251 original size:86 final size:85
Alignment explanation
Indices: 49618106--49618268 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 85
49618096 ATCGAGATGT
* * * * ** *
49618106 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTATGTGTAAGACCATGTCT
1 GATTACATGTAAGACCATATCTGGGACAGTGGCATCGTATTGTGATAACATGTAAGACCATATCT
49618171 GGGACATTGGCATCGTTAATC
66 GGGACA-TGGCATCGTTAATC
* *
49618192 GATTACGTGTAAGACCCTATCTGGGACAGTGGCATCG-ATATGTGATAACATGTAAGACCATATC
1 GATTACATGTAAGACCATATCTGGGACAGTGGCATCGTAT-TGTGATAACATGTAAGACCATATC
*
49618256 TGGGATATGGCAT
65 TGGGACATGGCAT
49618269 TGTATGAGCT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
85 8 0.12
86 58 0.88
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (85 bp):
GATTACATGTAAGACCATATCTGGGACAGTGGCATCGTATTGTGATAACATGTAAGACCATATCT
GGGACATGGCATCGTTAATC
Found at i:49620691 original size:50 final size:50
Alignment explanation
Indices: 49620612--49620873 Score: 181
Period size: 50 Copynumber: 5.2 Consensus size: 50
49620602 GTCACGTGTT
* * *
49620612 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGCG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAAGTCGCATGTG
* * * **
49620662 TAGTACTAAGTGCAGGCTGCTATGCGTACCCG-TT-A-ACTTCGGCCATGTGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAAGTC-G-CA--TGTG
* * * * * *
49620713 TAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAAGTCGCGTGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAAGTCGCATGTG
* * ** * ** * *
49620763 TAGTACTAAGTGCAGGCTACTATGCATACTTG-TTAACTTCGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA-TAAG-TCGCATGTG
** ** * *
49620814 TAGTACTAAGTTTAGGCTACTACATGTACCAGATTGATAGGTCGTATGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAAGTCGCATGTG
49620864 TAGTACTAAG
1 TAGTACTAAG
49620874 GTCATGCTAC
Statistics
Matches: 157, Mismatches: 45, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
47 3 0.02
48 2 0.01
49 5 0.03
50 75 0.48
51 63 0.40
52 5 0.03
53 1 0.01
54 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAAGTCGCATGTG
Found at i:49620729 original size:51 final size:49
Alignment explanation
Indices: 49620661--49620835 Score: 158
Period size: 51 Copynumber: 3.5 Consensus size: 49
49620651 GGTCGCATGC
* *
49620661 GTAGTACTAAGTGCAGGCTGCTATGCGTACCCGTTAACTTCGGCCATGTGT
1 GTAGTACTAAGTGCAGGCTACTATGCGTACTCGTTAACTTCGG-CA-GTGT
* * * *
49620712 GTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAA-GTC-GC-GTGT
1 GTAGTACTAAGTGCAGGCTACTATGCGTA-C---TCGTTAACTTCGGCAGTGT
* * *
49620762 GTAGTACTAAGTGCAGGCTACTATGCATACTTGTTAACTTCGATCACGTGT
1 GTAGTACTAAGTGCAGGCTACTATGCGTACTCGTTAACTTCG-GCA-GTGT
**
49620813 GTAGTACTAAGTTTAGGCTACTA
1 GTAGTACTAAGTGCAGGCTACTA
49620836 CATGTACCAG
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
46 6 0.06
47 2 0.02
49 2 0.02
50 30 0.30
51 51 0.50
52 2 0.02
53 1 0.01
54 2 0.02
55 5 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (49 bp):
GTAGTACTAAGTGCAGGCTACTATGCGTACTCGTTAACTTCGGCAGTGT
Found at i:49620787 original size:101 final size:101
Alignment explanation
Indices: 49620604--49620892 Score: 373
Period size: 101 Copynumber: 2.9 Consensus size: 101
49620594 CATTGTGAGT
* *
49620604 CACGTGTTTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGCGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
* *
49620669 AAGTGCAGGCTGCTATGCGTACCCGTTAACTTCGGC
66 AAGTGCAGGCTACTATGCGTACCCGTTAACTTCGAC
* * * * * * *
49620705 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAAGTCGCGTGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
* ** *
49620770 AAGTGCAGGCTACTATGCATACTTGTTAACTTCGAT
66 AAGTGCAGGCTACTATGCGTACCCGTTAACTTCGAC
** * *
49620806 CACGTGTGTAGTACTAAGTTTAGGCTACTACATGTACCAGATTGATAGGTCGTATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
* *
49620871 AAG-GTCATGCTACTATGTGTAC
66 AAGTG-CAGGCTACTATGCGTAC
49620893 AAGAGAGCTT
Statistics
Matches: 158, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
100 1 0.01
101 157 0.99
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGTTAACTTCGAC
Found at i:49621117 original size:16 final size:16
Alignment explanation
Indices: 49621096--49621127 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49621086 AGAATGGAGT
49621096 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
49621112 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
49621128 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:49624688 original size:15 final size:15
Alignment explanation
Indices: 49624668--49624706 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
49624658 TATGATATTG
49624668 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
49624682 TTATCTTGGATTTCTC
1 -TATCTTGGATTTCTC
49624698 TATCTTGGA
1 TATCTTGGA
49624707 GCCTAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 22 0.96
16 1 0.04
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:49627771 original size:51 final size:51
Alignment explanation
Indices: 49627698--49628944 Score: 1740
Period size: 51 Copynumber: 24.5 Consensus size: 51
49627688 TGATAGGTCG
* * *
49627698 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
* * ** * *
49627749 CGTGTGTAGTACTAAGTTCAGGCTACTACGCGTATCAAATGGTTAA----G-TCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTA-C---CGGTTAACTTCGATCA
* * * *
49627799 CGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
* * ** * *
49627850 CGTGTGTAGTACTAAGTTCAGGCTACTACGCGTATCAAATGGTTAA----G-TCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTA-C---CGGTTAACTTCGATCA
* * * *
49627900 CGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
* * ** * *
49627951 CGTGTGTAGTACTAAGTTCAGGCTACTACGCGTATCAAATGGTTAA----G-TCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTA-C---CGGTTAACTTCGATCA
*
49628001 CGTGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628052 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628103 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628154 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628205 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628256 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628307 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628358 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628409 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628460 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628511 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628562 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628613 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628664 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
49628715 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
** * * * ** *
49628766 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT-GGTT-AAGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGA-TCA
* * * *** * * * * *
49628816 CGTGAGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGA--TAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACC-GGTTAACTTCGATCA
* * * *
49628866 CATGTGTAGTACTAAGTGCAAGCTACTATGCATACCCGTTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
* *
49628917 CGTGTGTAGTACTGAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
49628945 CGTGTATTAG
Statistics
Matches: 1095, Mismatches: 68, Indels: 66
0.89 0.06 0.05
Matches are distributed among these distances:
46 16 0.01
49 7 0.01
50 172 0.16
51 882 0.81
52 3 0.00
55 15 0.01
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (51 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCA
Found at i:49629065 original size:151 final size:151
Alignment explanation
Indices: 49627644--49629051 Score: 814
Period size: 153 Copynumber: 9.3 Consensus size: 151
49627634 TCCGTTTTGA
* * * * * * * * *
49627644 GTCACGTGTTTAGTACAAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCGCATGTGTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG-TTAACTTCGATCACATGTGTAG
* * * * * ** ** * * *
49627707 TACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGGTCACGTGTGTAGTACTAAGT-TCAGG
65 TACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAAGTCACGTGAGCAATACTAAGTGT-AGG
* * * * * *
49627771 CTACTACGCGTATCAAATGGTTAA
128 CTACTACGTGTACCAGATTGATAG
* * * * *
49627795 GTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGGTCACGTGTGTAGT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGTTAACTTCGATCACATGTGTAGT
* * * * * * * *
49627860 ACTAAGTTCAGGCTACTACGCGTATCAAATGGTTAAGTCGCGTGTGTAGTACTAAGTGCAGGCTA
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGAGCAATACTAAGTGTAGGCTA
* * * * *
49627925 CTATGCGTACCCG-TTAACTTCG
131 CTACGTGTACCAGATTGA--TAG
* * * * ** ** * * *
49627947 GTCACGTGTGTAGTACTAAGTTCAGGCTACTACGCGTATCAAAT-GGTT-AAGTCGCGTGTGTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGTTAACTTCGA-TCACATGTGTAG
*** * * * ** * * * * * *
49628010 TACTAAGTGCAGGCTACTATACGTACCGGTTAACTT-CGATCACATGTGTAGTACTAAGTGCAGG
65 TACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAAG-TCACGTGAGCAATACTAAGTGTAGG
*** * * *
49628074 CTACTATACGTACC-GGTTAACTTCG
128 CTACTACGTGTACCAGATTGA--TAG
* * *
49628099 ATCACATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCACATGTGTAGT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGTTAACTTCGATCACATGTGTAGT
*** * * * ** * * * * * *
49628164 ACTAAGTGCAGGCTACTATACGTACCGGTTAACTT-CGATCACATGTGTAGTACTAAGTGCAGGC
66 ACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAAG-TCACGTGAGCAATACTAAGTGTAGGC
*** * * *
49628228 TACTATACGTACC-GGTTAACTTCG
129 TACTACGTGTACCAGATTGA--TAG
* * *
49628252 ATCACATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCACATGTGTAGT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGTTAACTTCGATCACATGTGTAGT
*** * * * ** * * * * * *
49628317 ACTAAGTGCAGGCTACTATACGTACCGGTTAACTT-CGATCACATGTGTAGTACTAAGTGCAGGC
66 ACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAAG-TCACGTGAGCAATACTAAGTGTAGGC
*** * * *
49628381 TACTATACGTACC-GGTTAACTTCG
129 TACTACGTGTACCAGATTGA--TAG
* * *
49628405 ATCACATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCACATGTGTAGT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGTTAACTTCGATCACATGTGTAGT
*** * * * ** * * * * * *
49628470 ACTAAGTGCAGGCTACTATACGTACCGGTTAACTT-CGATCACATGTGTAGTACTAAGTGCAGGC
66 ACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAAG-TCACGTGAGCAATACTAAGTGTAGGC
*** * * *
49628534 TACTATACGTACC-GGTTAACTTCG
129 TACTACGTGTACCAGATTGA--TAG
* * *
49628558 ATCACATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCACATGTGTAGT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGTTAACTTCGATCACATGTGTAGT
*** * * * ** * * * * * *
49628623 ACTAAGTGCAGGCTACTATACGTACCGGTTAACTT-CGATCACATGTGTAGTACTAAGTGCAGGC
66 ACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAAG-TCACGTGAGCAATACTAAGTGTAGGC
*** * * *
49628687 TACTATACGTACC-GGTTAACTTCG
129 TACTACGTGTACCAGATTGA--TAG
* * *
49628711 ATCACATGTGTAGTACTAAGTGCAGGCTACTATACGTACCGGTTAACTTCGATCACATGTGTAGT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGTTAACTTCGATCACATGTGTAGT
* * *
49628776 ACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAAGTCACGTGAGTAGTACTAAGTGTAGGCTA
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGAGCAATACTAAGTGTAGGCTA
49628841 CTACGTGTACCAGATTGATAG
131 CTACGTGTACCAGATTGATAG
* * * * *
49628862 GTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGTTAACTTCGATCACATGTGTAGT
* * * *
49628927 ACTGAGTGCAGGCTACTACGTGTATTAGATGGTTAAGTTACGTGTGCAATACTAAGTGTAGGCTA
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGAGCAATACTAAGTGTAGGCTA
49628992 CTACGTGTACCAGATTGATAG
131 CTACGTGTACCAGATTGATAG
*
49629013 GTCATATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
49629052 TAGAGAGTTT
Statistics
Matches: 1139, Mismatches: 105, Indels: 26
0.90 0.08 0.02
Matches are distributed among these distances:
150 4 0.00
151 286 0.25
152 193 0.17
153 655 0.58
154 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (151 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGTTAACTTCGATCACATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGAGCAATACTAAGTGTAGGCTA
CTACGTGTACCAGATTGATAG
Found at i:49629276 original size:16 final size:16
Alignment explanation
Indices: 49629255--49629285 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49629245 AGAATGGAGT
49629255 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
49629271 AAGTGAAATTTTGTA
1 AAGTGAAATTATGTA
49629286 TTAAAACAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:49632987 original size:51 final size:49
Alignment explanation
Indices: 49632919--49633056 Score: 168
Period size: 49 Copynumber: 2.8 Consensus size: 49
49632909 GTGAGGTCAT
* * *
49632919 GTGTGTAGTACTTAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAAA-T-TGATCAC
* * ** * *
49632970 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGC
1 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAAATTGATCAC
*
49633019 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
49633057 TAACTTCGGC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
49 40 0.53
50 1 0.01
51 34 0.45
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAAATTGATCAC
Found at i:49636124 original size:14 final size:15
Alignment explanation
Indices: 49636060--49636124 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
49636050 GTATCTTAGG
49636060 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
49636075 TTTCTTTATTCTAGG-
1 TTTCTTTATTCT-GGA
49636090 TTT-TTCT-TTCTTGGA
1 TTTCTT-TATTC-TGGA
*
49636105 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
49636119 TTTCTT
1 TTTCTT
49636125 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
14 15 0.35
15 21 0.49
16 7 0.16
ACGTcount: A:0.09, C:0.14, G:0.12, T:0.65
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:49637831 original size:40 final size:40
Alignment explanation
Indices: 49637776--49637854 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
49637766 TAGTCATAAG
49637776 TACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGA
1 TACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGA
*
49637816 TACATGTTAGAGTGAGAATTTGATGTTTCCATAGAAGGG
1 TACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGG
49637855 GAAAATGATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (40 bp):
TACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGA
Found at i:49638698 original size:49 final size:49
Alignment explanation
Indices: 49638619--49638813 Score: 250
Period size: 49 Copynumber: 4.0 Consensus size: 49
49638609 ACTATTGTGA
* *
49638619 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
49638668 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
49638717 GTGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 G-G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
49638768 GGTCACATGTGTAGTACGAAGTGCGGGCTACTA--TGCTACCAGATAA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTG-TACCAGATAA
49638814 CTTCGGCTAC
Statistics
Matches: 126, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
47 2 0.02
48 9 0.07
49 72 0.57
50 2 0.02
51 41 0.33
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:49638797 original size:100 final size:100
Alignment explanation
Indices: 49638612--49638807 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
49638602 CAAATGAACT
* *
49638612 ATTGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATG
1 ATTGTGA-GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATG
*
49638677 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAA
65 TGTAGTACGAAGTGCAGGCTACTATGC-TACCCGAAA
*
49638714 ATTGTGA-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCACATGT
1 ATTGTGAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGT
*
49638778 GTAGTACGAAGTGCGGGCTACTATGCTACC
66 GTAGTACGAAGTGCAGGCTACTATGCTACC
49638808 AGATAACTTC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
99 4 0.04
100 78 0.88
102 7 0.08
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (100 bp):
ATTGTGAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGT
GTAGTACGAAGTGCAGGCTACTATGCTACCCGAAA
Found at i:49644040 original size:58 final size:57
Alignment explanation
Indices: 49643958--49644101 Score: 155
Period size: 57 Copynumber: 2.5 Consensus size: 57
49643948 CTCATTATAG
* * * * *
49643958 AAAGGATTTAGCCCGTACGGGTAATCCTGATATAATCCC-TCTCAAGCATATGTTACAA
1 AAAGGATTTAGCCTGGACTGGTAATCCTGAT-TAAGCCCTTCT-AAGCATACGTTACAA
* * * * * *
49644016 ATAGGATTTAGCCTGGACTAGTAATCCTAATTGAGCTCTTCTGAGCATACGTTACAA
1 AAAGGATTTAGCCTGGACTGGTAATCCTGATTAAGCCCTTCTAAGCATACGTTACAA
*
49644073 AAAGGATTTAGCCTGGAATGGTAATCCTG
1 AAAGGATTTAGCCTGGACTGGTAATCCTG
49644102 TAATACAATA
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
57 42 0.60
58 28 0.40
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (57 bp):
AAAGGATTTAGCCTGGACTGGTAATCCTGATTAAGCCCTTCTAAGCATACGTTACAA
Found at i:49646694 original size:46 final size:46
Alignment explanation
Indices: 49646594--49646813 Score: 216
Period size: 46 Copynumber: 4.7 Consensus size: 46
49646584 TTATTTGTGT
* * *
49646594 GCCAGTGTAAGACATGTCTGGGATATGCATTGGCCAC-ATTATG-AGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGTA-A
* ** *
49646640 GCCGGTGTAAGACATGTCTGGGACATGTGTCGGCCTCGAGATGTAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTAA
*
49646686 GCCAGTGTAAGACATGTCTGGGGCATGCATCGGCCACGAGATGT--
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTAA
* * *
49646730 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGGATATGTAAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-GAGATGT-A-A
*
49646780 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
49646814 ACTTGATGGA
Statistics
Matches: 146, Mismatches: 19, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 86 0.59
47 2 0.01
50 31 0.21
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTAA
Found at i:49646776 original size:92 final size:95
Alignment explanation
Indices: 49646594--49646859 Score: 271
Period size: 92 Copynumber: 2.8 Consensus size: 95
49646584 TTATTTGTGT
* * * *
49646594 GCCAGTGTAAGACATGTCTGGGATATGCATTGGCCAC-ATTATGAGAGCCGGTGTAAGA-CATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGAGA--CAGTGTAAGACCATGT
*
49646657 CTGGGACATGTG--TCGGCCTCGAGATGT-A-A
64 CTGGGACATG-GCATCAGCCTCGAGATGTAAGA
* * *
49646686 GCCAGTGTAAGACATGTCTGGGGCATGCATCGGCCACGA-GATGTGTCAGTGTAAGACCATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGAGACAGTGTAAGACCATGTCT
* *
49646750 GGGACATGGCATCAGCAC-GGATATGTAAGA
66 GGGACATGGCATCAGC-CTCGAGATGTAAGA
* * **
49646780 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGGATGAGACAGTGTAAGACCATG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAT-GATGAGACAGTGTAAGACCATG
*
49646844 TTTGGGACATGGCATC
63 TCTGGGACATGGCATC
49646860 GGCATTATAC
Statistics
Matches: 145, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
90 10 0.07
91 15 0.10
92 48 0.33
93 3 0.02
94 12 0.08
95 17 0.12
96 5 0.03
97 35 0.24
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.24
Consensus pattern (95 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGAGACAGTGTAAGACCATGTCT
GGGACATGGCATCAGCCTCGAGATGTAAGA
Found at i:49646787 original size:50 final size:46
Alignment explanation
Indices: 49646688--49646860 Score: 167
Period size: 47 Copynumber: 3.7 Consensus size: 46
49646678 AGATGTAAGC
* * ** * *
49646688 CAGTGTAAGA-CATGTCTGGGGCAT-GCATCGGCCACGA-GATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GACTGGATGATGAGA
49646732 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GGAT-ATGTAAGA
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTGGATGATG--AGA
*
49646780 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGA
1 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGACTGGAT-GATGAGA
*
49646829 CAGTGTAAGACCATGTTTGGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
49646861 GCATTATACC
Statistics
Matches: 110, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
44 10 0.09
45 13 0.12
46 11 0.10
47 31 0.28
48 4 0.04
49 8 0.07
50 30 0.27
51 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACTGGATGATGAGA
Found at i:49653694 original size:17 final size:17
Alignment explanation
Indices: 49653674--49653715 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
49653664 ATAAATAACA
49653674 AATTTATTC-TTTCCTTT
1 AATTT-TTCATTTCCTTT
*
49653691 AATTTTTCAATTTCTTTT
1 AATTTTTC-ATTTCCTTT
49653709 AATTTTT
1 AATTTTT
49653716 AAATTTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 5 0.23
18 14 0.64
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTTTTCATTTCCTTT
Found at i:49653709 original size:18 final size:18
Alignment explanation
Indices: 49653683--49653721 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
49653673 AAATTTATTC
*
49653683 TTTCCTTTAATTTTTCAA
1 TTTCCTTTAATTTTTAAA
*
49653701 TTTCTTTTAATTTTTAAA
1 TTTCCTTTAATTTTTAAA
49653719 TTT
1 TTT
49653722 ACATTGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCCTTTAATTTTTAAA
Found at i:49653849 original size:10 final size:10
Alignment explanation
Indices: 49653836--49653878 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
49653826 TTGATTTTTT
49653836 AAAATTTAAA
1 AAAATTTAAA
49653846 AAAA-TTATAA
1 AAAATTTA-AA
49653856 AAAATTTAAA
1 AAAATTTAAA
*
49653866 AATTATTTAAA
1 AA-AATTTAAA
49653877 AA
1 AA
49653879 TTAAAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 3 0.10
10 14 0.48
11 12 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:49653856 original size:18 final size:17
Alignment explanation
Indices: 49653835--49653913 Score: 52
Period size: 18 Copynumber: 4.4 Consensus size: 17
49653825 ATTGATTTTT
49653835 TAAAATTTAAAAAAATTA
1 TAAAATTTAAAAAAA-TA
* *
49653853 TAAAAAATTTAAAAATTATT
1 T--AAAATTTAAAAA-AATA
* *
49653873 TAAAAATT-AAAATATA
1 TAAAATTTAAAAAAATA
*
49653889 TTAAAATTATTAAAAAATA
1 -TAAAATT-TAAAAAAATA
49653908 TAAAAT
1 TAAAAT
49653914 ATATATTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
16 3 0.06
17 10 0.20
18 14 0.29
19 7 0.14
20 14 0.29
21 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAATTTAAAAAAATA
Found at i:49653873 original size:11 final size:10
Alignment explanation
Indices: 49653839--49653908 Score: 51
Period size: 10 Copynumber: 7.2 Consensus size: 10
49653829 ATTTTTTAAA
*
49653839 ATTTAAAAAA
1 ATTTAAAAAT
49653849 ATTATAAAAA-
1 ATT-TAAAAAT
49653859 ATTTAAAAATT
1 ATTTAAAAA-T
49653870 ATTT-AAAA-
1 ATTTAAAAAT
49653878 A-TT-AAAAT
1 ATTTAAAAAT
*
49653886 ATATTAAAATT
1 AT-TTAAAAAT
*
49653897 ATTAAAAAAT
1 ATTTAAAAAT
49653907 AT
1 AT
49653909 AAAATATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
7 6 0.12
8 2 0.04
9 6 0.12
10 20 0.40
11 16 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTTAAAAAT
Found at i:49653883 original size:27 final size:28
Alignment explanation
Indices: 49653834--49653917 Score: 93
Period size: 27 Copynumber: 3.0 Consensus size: 28
49653824 AATTGATTTT
*
49653834 TTAAAATT-TAAAAAAATTATAAAAAAT-
1 TTAAAATTATTAAAAAA-TATAAAAAATA
* *
49653861 TTAAAAATTATTTAAAAAT-TAAAATATA
1 TT-AAAATTATTAAAAAATATAAAAAATA
*
49653889 TTAAAATTATTAAAAAATATAAAATATA
1 TTAAAATTATTAAAAAATATAAAAAATA
49653917 T
1 T
49653918 ATTTTATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
27 24 0.49
28 19 0.39
29 6 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
TTAAAATTATTAAAAAATATAAAAAATA
Found at i:49653891 original size:10 final size:10
Alignment explanation
Indices: 49653878--49653917 Score: 57
Period size: 9 Copynumber: 4.2 Consensus size: 10
49653868 TTATTTAAAA
49653878 ATTAAAATAT
1 ATTAAAATAT
49653888 ATTAAAAT-T
1 ATTAAAATAT
*
49653897 ATTAAAAAAT
1 ATTAAAATAT
49653907 A-TAAAATAT
1 ATTAAAATAT
49653916 AT
1 AT
49653918 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 16 0.62
10 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:49653902 original size:19 final size:18
Alignment explanation
Indices: 49653878--49653913 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
49653868 TTATTTAAAA
*
49653878 ATTAAAATATATTAAAATT
1 ATTAAAAAATA-TAAAATT
49653897 ATTAAAAAATATAAAAT
1 ATTAAAAAATATAAAAT
49653914 ATATATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTAAAAAATATAAAATT
Found at i:49653925 original size:26 final size:27
Alignment explanation
Indices: 49653834--49653917 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 27
49653824 AATTGATTTT
* *
49653834 TTAAAATT-TAAAAAAATTATAAA-AAA
1 TTAAAATTATTAAAAAATTA-AAATATA
*
49653860 TTTAAAAATTATTTAAAAATTAAAATATA
1 -TT-AAAATTATTAAAAAATTAAAATATA
49653889 TTAAAATTATTAAAAAATATAAAATATA
1 TTAAAATTATTAAAAAAT-TAAAATATA
49653917 T
1 T
49653918 ATTTTATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
27 17 0.35
28 21 0.43
29 11 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
TTAAAATTATTAAAAAATTAAAATATA
Found at i:49663070 original size:38 final size:38
Alignment explanation
Indices: 49663009--49663197 Score: 166
Period size: 38 Copynumber: 4.9 Consensus size: 38
49662999 ATTTGATGTG
* * *
49663009 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTAGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
*
49663049 TATCCGGGTTAAATCCCGCAGGCTTCGCGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
** *
49663087 TATCCGGGTTAAATTTCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * * *
49663125 TATCTGGGTTAAATCCCGCAAGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * *
49663163 TATCTGAGCTTAAAGTCCCGCAGGTTTTGTGCTGG
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGG
49663198 TGACTGGATT
Statistics
Matches: 125, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
37 2 0.02
38 86 0.69
39 13 0.10
40 24 0.19
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:49665072 original size:5 final size:5
Alignment explanation
Indices: 49665062--49665130 Score: 63
Period size: 5 Copynumber: 14.0 Consensus size: 5
49665052 GCCCTCCTAC
* * * *
49665062 TATAT TATAT TATAT TATAT TATAT TATAC TGTAT CATAT T-TAT T-TAA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
49665110 TATAT TAATAT T-TAT ATATAT
1 TATAT T-ATAT TATAT -TATAT
49665131 GCATTAATGA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
4 10 0.19
5 34 0.65
6 8 0.15
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:49682147 original size:32 final size:32
Alignment explanation
Indices: 49682111--49682178 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
49682101 GTAAATGTTA
49682111 GGTTTGATATGGAAAATAATGTGCATTGAAAT
1 GGTTTGATATGGAAAATAATGTGCATTGAAAT
* *
49682143 GGTTTGATATGGCAAATAATTTGCATTGAAAT
1 GGTTTGATATGGAAAATAATGTGCATTGAAAT
49682175 GGTT
1 GGTT
49682179 ATTATGATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (32 bp):
GGTTTGATATGGAAAATAATGTGCATTGAAAT
Found at i:49683882 original size:46 final size:44
Alignment explanation
Indices: 49683829--49683947 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 44
49683819 TATGTGTGCT
*
49683829 AGTGTAAGACATGTCTGGGACATGCATCGACCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-A--ACATTGACGAGAGCC
* * *
49683875 AGTGTAAGACATGTCTGGTACATGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAACATT--GACGAGAGCC
49683921 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
49683948 TAGCCTCGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
43 4 0.06
45 1 0.02
46 60 0.92
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACATTGACGAGAGCC
Found at i:49684070 original size:49 final size:49
Alignment explanation
Indices: 49684012--49684183 Score: 161
Period size: 49 Copynumber: 3.5 Consensus size: 49
49684002 TGTTGAGTGT
** *
49684012 CAGTGTAAGACCTGTTTGGGACATGGCATCGACAC-CGGTAGATGAGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGAC-CTCAATAGATGAAAGC
* ** * * *
49684061 CAGTGTAAGACCTGTTTAGGACATAACATCGGCCTCAATATATGAAAGT
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCAATAGATGAAAGC
* * ** **
49684110 CAGTGTAAGAACTGTTTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCAATAGATGAAAGC
*
49684157 CAGTGTAAGACCATGTCTGGGACATGG
1 CAGTGTAAGACC-TGTTTGGGACATGG
49684184 TGCCAGCATC
Statistics
Matches: 98, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
47 15 0.15
48 14 0.14
49 69 0.70
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCAATAGATGAAAGC
Found at i:49686601 original size:18 final size:19
Alignment explanation
Indices: 49686573--49686608 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
49686563 TGACACAGGA
49686573 GACACGCTCGTGTTTTCTC
1 GACACGCTCGTGTTTTCTC
49686592 GACA-GCTCGTGTTTTCT
1 GACACGCTCGTGTTTTCT
49686609 GACTGTGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.11, C:0.28, G:0.22, T:0.39
Consensus pattern (19 bp):
GACACGCTCGTGTTTTCTC
Found at i:49695205 original size:15 final size:13
Alignment explanation
Indices: 49695176--49695202 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49695166 GCTCGGCAGG
49695176 GACACGCCCGTGT
1 GACACGCCCGTGT
49695189 GACACGCCCGTGT
1 GACACGCCCGTGT
49695202 G
1 G
49695203 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:49697136 original size:16 final size:16
Alignment explanation
Indices: 49697111--49697161 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
49697101 TAAAATTTCT
49697111 AAAATCTAATAAAAATA
1 AAAAT-TAATAAAAATA
***
49697128 AAAATTAATTTCAATA
1 AAAATTAATAAAAATA
*
49697144 AAAATTAA-AAACATA
1 AAAATTAATAAAAATA
49697159 AAA
1 AAA
49697162 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATTAATAAAAATA
Found at i:49697525 original size:18 final size:18
Alignment explanation
Indices: 49697502--49697537 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
49697492 TCCTCATGAA
49697502 AAGCATGCTCGAGATGCC
1 AAGCATGCTCGAGATGCC
49697520 AAGCATGCTCGAGATGCC
1 AAGCATGCTCGAGATGCC
49697538 TTGTGGAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (18 bp):
AAGCATGCTCGAGATGCC
Found at i:49712342 original size:29 final size:27
Alignment explanation
Indices: 49712324--49712393 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
49712314 ATATTAAGTC
49712324 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
49712351 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
49712379 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
49712394 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:49712387 original size:28 final size:28
Alignment explanation
Indices: 49712324--49712421 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
49712314 ATATTAAGTC
*
49712324 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
49712351 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
49712379 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
49712408 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49712422 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49717135 original size:6 final size:6
Alignment explanation
Indices: 49717105--49717387 Score: 107
Period size: 6 Copynumber: 45.7 Consensus size: 6
49717095 AAGAAGCATT
* * * *
49717105 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAAA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
49717154 ATCAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATTAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * * * *
49717203 ATCAGGTA A-CAAA ATCAAA ACCAGA ACCAGA ATCAGA ATCAGGTG AT-AGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * * * * *
49717253 ACCAAA ATCAGT ATCAGGTA AT-AAA ATCAGA ATCAAA ATTAGGTG AT-AGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
49717303 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
49717353 ATCAGA ATCAGT ATCAGA TAACAGA ATCAGA ATCA
1 ATCAGA ATCAGA ATCAGA -ATCAGA ATCAGA ATCA
49717388 AAATGTGAAT
Statistics
Matches: 203, Mismatches: 47, Indels: 54
0.67 0.15 0.18
Matches are distributed among these distances:
5 14 0.07
6 154 0.76
7 24 0.12
8 11 0.05
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:49717167 original size:37 final size:37
Alignment explanation
Indices: 49717114--49717207 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
49717104 TATCAGAACT
* *
49717114 AGAATCAAAATGAGAATCAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAAAATCAGGTGAC
* * *
49717151 AGAATCAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAAAATCAGGTGAC
* *
49717188 AGAATCAGAATTAGTATCAG
1 AGAATCAGAATCAGAATCAG
49717208 GTAACAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAAAATCAGGTGAC
Found at i:49717174 original size:18 final size:18
Alignment explanation
Indices: 49717105--49717391 Score: 70
Period size: 19 Copynumber: 15.1 Consensus size: 18
49717095 AAGAAGCATT
49717105 ATCAGAA-CTAGAATCAAA
1 ATCAGAATC-AGAATCAAA
*
49717123 ATGAGAATCAGAATCAAA
1 ATCAGAATCAGAATCAAA
* *
49717141 ATCAG-GTGACAGAATCAGA
1 ATCAGAAT--CAGAATCAAA
*
49717160 ATCAGAATTAGAATCAGAA
1 ATCAGAATCAGAATCA-AA
* **
49717179 TTAGGTGACAGAATCAGAATTAGT
1 --A--T--CAGAATCAGAATCAAA
*
49717203 ATCAGGTAA-CAAAATCAAA
1 ATCA-G-AATCAGAATCAAA
* * *
49717222 ACCAGAACCAGAATCAGA
1 ATCAGAATCAGAATCAAA
* *
49717240 ATCAGGTGAT-AGAACCAAA
1 ATCA-G-AATCAGAATCAAA
*
49717259 ATCAGTATCAGGTAAT-AAA
1 ATCAGAATCA-G-AATCAAA
* * **
49717278 ATCAGAATCAAAATTAGGTG
1 ATCAGAATCAGAATCA--AA
**
49717298 AT-AGAATCAGAATCAGT
1 ATCAGAATCAGAATCAAA
*
49717315 ATCAGGTAA-CAGAATCAGA
1 ATCA-G-AATCAGAATCAAA
* * *
49717334 ATCAGAATTAG-GTGACAGA
1 ATCAGAATCAGAAT--CAAA
*
49717353 ATCAGAATCAGTATCAGATA
1 ATCAGAATCAGAATCA-A-A
49717373 A-CAGAATCAGAATCAAA
1 ATCAGAATCAGAATCAAA
49717390 AT
1 AT
49717392 GTGAATGCAA
Statistics
Matches: 197, Mismatches: 40, Indels: 64
0.65 0.13 0.21
Matches are distributed among these distances:
17 15 0.08
18 50 0.25
19 103 0.52
20 14 0.07
21 1 0.01
22 1 0.01
23 1 0.01
25 12 0.06
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (18 bp):
ATCAGAATCAGAATCAAA
Found at i:49717207 original size:62 final size:62
Alignment explanation
Indices: 49717126--49717294 Score: 203
Period size: 62 Copynumber: 2.7 Consensus size: 62
49717116 AATCAAAATG
** * * *
49717126 AGAATCAGAATCAAAATCAGGTGACAGAATCAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAATTAGAATCAGAATCAGGTGAC
* * * ** *
49717188 AGAATCAGAATTAGTATCAGGTAACAAAATCAAAACCAGAACCAGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAATTAGAATCAGAATCAGGTGAC
* * * *
49717250 AGAACCAAAATCAGTATCAGGTAATAAAATCAGAATCAAAATTAG
1 AGAATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAATTAG
49717295 GTGATAGAAT
Statistics
Matches: 87, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
62 87 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAATTAGAATCAGAATCAGGTGAC
Found at i:49717209 original size:25 final size:25
Alignment explanation
Indices: 49717150--49717244 Score: 63
Period size: 25 Copynumber: 3.9 Consensus size: 25
49717140 AATCAGGTGA
*
49717150 CAGAATCA-G-AATCAGAATTAGAAT
1 CAGAATCAGGTAA-CAGAATCAGAAT
* *
49717174 CAGAATTAGGTGACAGAATCAGAAT
1 CAGAATCAGGTAACAGAATCAGAAT
* * * * *
49717199 TAGTATCAGGTAACAAAATCAAAAC
1 CAGAATCAGGTAACAGAATCAGAAT
*
49717224 CAGAACCA-G-AATCAGAATCAG
1 CAGAATCAGGTAA-CAGAATCAG
49717245 GTGATAGAAC
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
23 2 0.04
24 15 0.28
25 35 0.66
26 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
CAGAATCAGGTAACAGAATCAGAAT
Found at i:49717254 original size:25 final size:25
Alignment explanation
Indices: 49717224--49717387 Score: 175
Period size: 25 Copynumber: 6.6 Consensus size: 25
49717214 AAATCAAAAC
* *
49717224 CAGAACCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* * * *
49717249 TAGAACCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* * * * *
49717274 TAAAATCAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
49717299 TAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
49717324 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
49717349 CAGAATCAGAATCAGTATCAGATAA
1 CAGAATCAGAATCAGAATCAGGTAA
49717374 CAGAATCAGAATCA
1 CAGAATCAGAATCA
49717388 AAATGTGAAT
Statistics
Matches: 115, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 115 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:49717312 original size:50 final size:50
Alignment explanation
Indices: 49717224--49717391 Score: 246
Period size: 50 Copynumber: 3.4 Consensus size: 50
49717214 AAATCAAAAC
* * * * *
49717224 CAGAACCAGAATCAGAATCAGGTGATAGAACCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATTAGGTGATAGAATCAGAATCAGTATCAGGTAA
* *
49717274 TAAAATCAGAATCAAAATTAGGTGATAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATTAGGTGATAGAATCAGAATCAGTATCAGGTAA
* * *
49717324 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGATAA
1 CAGAATCAGAATCAAAATTAGGTGATAGAATCAGAATCAGTATCAGGTAA
49717374 CAGAATCAGAATCAAAAT
1 CAGAATCAGAATCAAAAT
49717392 GTGAATGCAA
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 105 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (50 bp):
CAGAATCAGAATCAAAATTAGGTGATAGAATCAGAATCAGTATCAGGTAA
Found at i:49717601 original size:54 final size:53
Alignment explanation
Indices: 49717509--49717616 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
49717499 AGCATGACTG
* * * * *
49717509 CCAGAACAGATATTGTGATAGAGTCACCAGATACAGATATTGTGGCAAAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATATGGCAAAGCCA
* * *
49717562 CCAGAACAGATATTTGTGGCATAGCCACCAGAAATAGATAATATGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATATGGCAAAGCCA
49717616 C
1 C
49717617 TTAACAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATATGGCAAAGCCA
Found at i:49717608 original size:27 final size:27
Alignment explanation
Indices: 49717509--49717616 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
49717499 AGCATGACTG
** * *
49717509 CCAG-AACAGATATTGTGATAGAGTCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
*
49717535 CCAGATACAGATATTGTGGCAAAGCCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
*
49717562 CCAG-AACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATA-TTGTGGCAAAGCCA
* * *
49717589 CCAGAAATAGATAATATGGCAAAGCCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
49717616 C
1 C
49717617 TTAACAAAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 11 0.16
27 50 0.74
28 7 0.10
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.19
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAAAGCCA
Found at i:49718213 original size:27 final size:27
Alignment explanation
Indices: 49718183--49718317 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
49718173 GGGGCAAAAT
* *
49718183 GGTAATTCTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
49718210 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
49718237 GGTATTTCTACCTTACAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
49718264 GGTAATTCTACCCTACATA-GGTATTTT
1 GGTAATTCTACCCTACA-AGGGTATTTC
* * * *
49718291 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
49718318 AATAATTTTG
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
27 90 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:49718230 original size:54 final size:54
Alignment explanation
Indices: 49718172--49718280 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
49718162 TTAACACCCT
*
49718172 AGGGGCAAAAT-GGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTAC
1 AGGGG-AAAATCGGTAATTCTACCCCACAAAGGTATCTCGGTAATTCTACCCTAC
* ** * ** *
49718226 AGGGGTATTTCGGTATTTCTACCTTACAAAGGTATTTCGGTAATTCTACCCTAC
1 AGGGGAAAATCGGTAATTCTACCCCACAAAGGTATCTCGGTAATTCTACCCTAC
49718280 A
1 A
49718281 TAGGTATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.04
54 44 0.96
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (54 bp):
AGGGGAAAATCGGTAATTCTACCCCACAAAGGTATCTCGGTAATTCTACCCTAC
Found at i:49723725 original size:22 final size:22
Alignment explanation
Indices: 49723700--49723743 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
49723690 AAAAAAAAAG
49723700 AATGGCTGCTTTTATGGTGAAT
1 AATGGCTGCTTTTATGGTGAAT
49723722 AATGGCTGCTTTTATGGTGAAT
1 AATGGCTGCTTTTATGGTGAAT
49723744 CTAAGCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.27, T:0.41
Consensus pattern (22 bp):
AATGGCTGCTTTTATGGTGAAT
Found at i:49727147 original size:17 final size:17
Alignment explanation
Indices: 49727125--49727160 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
49727115 CACGCCCGGC
49727125 GCTGTCACCATTAACAA
1 GCTGTCACCATTAACAA
49727142 GCTGTCACCATTAACAA
1 GCTGTCACCATTAACAA
49727159 GC
1 GC
49727161 ATAAAGTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.22
Consensus pattern (17 bp):
GCTGTCACCATTAACAA
Found at i:49732634 original size:31 final size:31
Alignment explanation
Indices: 49732584--49732649 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
49732574 AACCCTTCCT
* * *
49732584 GCATTAAATCGAACTAAAAACAGCAAATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
*
49732615 GCATGAAATCCAACCAAAAACAGCAAATGTA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
49732646 GCAT
1 GCAT
49732650 AAAAAATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.20, G:0.12, T:0.17
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGCAAATATA
Found at i:49732912 original size:21 final size:21
Alignment explanation
Indices: 49732887--49732936 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
49732877 TTCTGCTCTG
49732887 CTCTG-CTACCATCGCTGCTGC
1 CTCTGCCTACC-TCGCTGCTGC
* *
49732908 CTCTGCCTTCCTCGCTGCTGT
1 CTCTGCCTACCTCGCTGCTGC
*
49732929 CGCTGCCT
1 CTCTGCCT
49732937 CCGCTCTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.04, C:0.44, G:0.20, T:0.32
Consensus pattern (21 bp):
CTCTGCCTACCTCGCTGCTGC
Found at i:49733371 original size:13 final size:14
Alignment explanation
Indices: 49733345--49733373 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
49733335 AGTAATGACA
49733345 AATTAAACCATTAT
1 AATTAAACCATTAT
49733359 AATTAAA-CATTAT
1 AATTAAACCATTAT
49733372 AA
1 AA
49733374 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:49735240 original size:28 final size:29
Alignment explanation
Indices: 49735175--49735247 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
49735165 TTAATCAAAA
*
49735175 CCCTAAACCTTAAAC-CATTAAAGTATATC
1 CCCTAAACCTTAAACTCA-TAAACTATATC
49735204 CCCGT-AACCTTAAACTC-TAAACTATATC
1 CCC-TAAACCTTAAACTCATAAACTATATC
* *
49735232 CTCTAAACCCTAAACT
1 CCCTAAACCTTAAACT
49735248 ATATCCCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 1 0.03
28 22 0.58
29 13 0.34
30 2 0.05
ACGTcount: A:0.38, C:0.32, G:0.03, T:0.27
Consensus pattern (29 bp):
CCCTAAACCTTAAACTCATAAACTATATC
Found at i:49735244 original size:21 final size:21
Alignment explanation
Indices: 49735214--49735266 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
49735204 CCCGTAACCT
* *
49735214 TAAACTCTAAACTATATCCTC
1 TAAACCCTAAACTATATCCCC
49735235 TAAACCCTAAACTATATCCCC
1 TAAACCCTAAACTATATCCCC
*
49735256 T-AACCATAAAC
1 TAAACCCTAAAC
49735267 CACAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCCTAAACTATATCCCC
Found at i:49736188 original size:40 final size:40
Alignment explanation
Indices: 49736122--49736197 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
49736112 AATCTTAAAC
* *
49736122 ATATTTGCGGCGTTTTAGAGAAAAACGCCTCTAATGACAG
1 ATATTTGCGGCGTTTTACAGAAAAACGCCGCTAATGACAG
*
49736162 ATATTTCGCGGCGTTTTACA-ATAAACGCCGCTAATG
1 ATATTT-GCGGCGTTTTACAGAAAAACGCCGCTAATG
49736198 CCAGTATAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (40 bp):
ATATTTGCGGCGTTTTACAGAAAAACGCCGCTAATGACAG
Found at i:49738153 original size:44 final size:45
Alignment explanation
Indices: 49738098--49738187 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
49738088 GAACTATGCG
* *
49738098 ATCTGAACTCA-TGAGTTGTGATATGAGTTTATGATATATGCGAC
1 ATCTGAACTCATTGAGTTATGATATGAGTTCATGATATATGCGAC
* * *
49738142 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTATGATATGAGTTCATGATATATGCGAC
49738187 A
1 A
49738188 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 11 0.28
45 29 0.73
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTATGATATGAGTTCATGATATATGCGAC
Found at i:49740149 original size:10 final size:10
Alignment explanation
Indices: 49740134--49740161 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
49740124 AATAGAGGAA
49740134 AAAGTAAAAC
1 AAAGTAAAAC
49740144 AAAGTAAAAC
1 AAAGTAAAAC
49740154 AAAGTAAA
1 AAAGTAAA
49740162 CATGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAGTAAAAC
Found at i:49747979 original size:25 final size:25
Alignment explanation
Indices: 49747951--49748000 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
49747941 GTATGTGTCG
49747951 ATACAATACCTTCTACCTATTTGGC
1 ATACAATACCTTCTACCTATTTGGC
49747976 ATACAATACCTTCTACCTATTTGGC
1 ATACAATACCTTCTACCTATTTGGC
49748001 TAACATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (25 bp):
ATACAATACCTTCTACCTATTTGGC
Found at i:49749647 original size:20 final size:20
Alignment explanation
Indices: 49749622--49749790 Score: 115
Period size: 20 Copynumber: 8.8 Consensus size: 20
49749612 CTTAACTTTA
*
49749622 TAATGTTTTCAGTAATTTTG
1 TAATATTTTCAGTAATTTTG
* * *
49749642 TAATGTTTTTAG-AATTATG
1 TAATATTTTCAGTAATTTTG
* * *
49749661 GAAT-TTATT-A-CAACTTTG
1 TAATATT-TTCAGTAATTTTG
49749679 TAATATTTT-AGTAATTTT-
1 TAATATTTTCAGTAATTTTG
* *
49749697 TAATTTTTTTAGTAATTTTG
1 TAATATTTTCAGTAATTTTG
* *
49749717 TATTATTTTCAGTAGTTATTG
1 TAATATTTTCAGTAATT-TTG
*
49749738 -AAT-TTCTT-A-TAAGTTTG
1 TAATATT-TTCAGTAATTTTG
* *
49749755 TAATGTTTTCAGTAATTTCG
1 TAATATTTTCAGTAATTTTG
49749775 TAATATTTTCAGTAAT
1 TAATATTTTCAGTAAT
49749791 ATTGAATTCT
Statistics
Matches: 118, Mismatches: 19, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.03
18 30 0.25
19 33 0.28
20 49 0.42
21 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (20 bp):
TAATATTTTCAGTAATTTTG
Found at i:49749755 original size:38 final size:38
Alignment explanation
Indices: 49749638--49749771 Score: 121
Period size: 38 Copynumber: 3.6 Consensus size: 38
49749628 TTTCAGTAAT
* * * *
49749638 TTTGTAATGTTTTTAG-AATTATGGAATTTATTACAAC
1 TTTGTAATATTTTCAGTAATTATTGAATTTATTATAAC
* * *
49749675 TTTGTAATATTTT-AGTAATT-TTTAATTTTTTTAGTAAT
1 TTTGTAATATTTTCAGTAATTATTGAA-TTTATTA-TAAC
* * * *
49749713 TTTGTATTATTTTCAGTAGTTATTGAATTTCTTATAAG
1 TTTGTAATATTTTCAGTAATTATTGAATTTATTATAAC
*
49749751 TTTGTAATGTTTTCAGTAATT
1 TTTGTAATATTTTCAGTAATT
49749772 TCGTAATATT
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
36 5 0.06
37 22 0.28
38 35 0.45
39 12 0.15
40 4 0.05
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.56
Consensus pattern (38 bp):
TTTGTAATATTTTCAGTAATTATTGAATTTATTATAAC
Found at i:49749835 original size:57 final size:57
Alignment explanation
Indices: 49749713--49749840 Score: 136
Period size: 57 Copynumber: 2.2 Consensus size: 57
49749703 TTTTAGTAAT
* * * * * * *
49749713 TTTGTATTATTTTCAGTAGTTATTGAATTTCTTATAAGTTTGTAATGTTTTCAGTAA
1 TTTGTAATATTTTCAGTAGATATTGAATTTCTTACAAGTATGTAATCTTTGCAATAA
49749770 TTTCGTAATATTTTCAGTA-ATATTGAA-TTCTTACACA-TATGTAACTCTTTGCAATAA
1 TTT-GTAATATTTTCAGTAGATATTGAATTTCTTACA-AGTATGTAA-TCTTTGCAATAA
49749827 CTTTGTAATATTTT
1 -TTTGTAATATTTT
49749841 AAGAATTGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
56 13 0.22
57 30 0.50
58 17 0.28
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (57 bp):
TTTGTAATATTTTCAGTAGATATTGAATTTCTTACAAGTATGTAATCTTTGCAATAA
Found at i:49751056 original size:5 final size:5
Alignment explanation
Indices: 49751046--49751084 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
49751036 CGTTTAGTGT
* * *
49751046 TTTTA TTTTA TTTTA TTTTA CTTTA TTTTC TTCTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
49751085 CGTCAGTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:49751072 original size:20 final size:20
Alignment explanation
Indices: 49751047--49751084 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49751037 GTTTAGTGTT
*
49751047 TTTATTTTATTTTATTTTAC
1 TTTATTTTATTCTATTTTAC
*
49751067 TTTATTTTCTTCTATTTT
1 TTTATTTTATTCTATTTT
49751085 CGTCAGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTATTTTATTCTATTTTAC
Found at i:49754632 original size:10 final size:9
Alignment explanation
Indices: 49754616--49754737 Score: 56
Period size: 10 Copynumber: 13.3 Consensus size: 9
49754606 TATTTTTTTC
49754616 ATAAAAATT
1 ATAAAAATT
*
49754625 ATTAAAAAATC
1 A-T-AAAAATT
49754636 ATAAAAAATT
1 AT-AAAAATT
49754646 ATAAAAA-T
1 ATAAAAATT
49754654 ATAAAAATGGT
1 ATAAAAAT--T
* *
49754665 -TACATATT
1 ATAAAAATT
49754673 A-AAAAA-T
1 ATAAAAATT
* *
49754680 -GAAAATTT
1 ATAAAAATT
* *
49754688 ATATGAACTT
1 ATA-AAAATT
*
49754698 ATAAATATT
1 ATAAAAATT
*
49754707 ATAAAAAAT
1 ATAAAAATT
*
49754716 CTAATAAATT
1 ATAA-AAATT
49754726 ATAAAAATT
1 ATAAAAATT
49754735 ATA
1 ATA
49754738 GGATTAATAA
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
7 5 0.06
8 13 0.15
9 28 0.33
10 30 0.36
11 8 0.10
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:49754639 original size:20 final size:20
Alignment explanation
Indices: 49754614--49754661 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
49754604 AATATTTTTT
49754614 TCATAAAAATTATTA-AAAAA
1 TCATAAAAA-TATTATAAAAA
49754634 TCATAAAAA-ATTATAAAAA
1 TCATAAAAATATTATAAAAA
49754653 T-ATAAAAAT
1 TCATAAAAAT
49754662 GGTTACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 11 0.42
19 6 0.23
20 9 0.35
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
TCATAAAAATATTATAAAAA
Found at i:49754779 original size:21 final size:21
Alignment explanation
Indices: 49754744--49754791 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
49754734 TATAGGATTA
* *
49754744 ATAAAACATATTTAACATTTT
1 ATAAAACATATTTAAAATTCT
49754765 ATAACAACATA-TTAAAATTCT
1 ATAA-AACATATTTAAAATTCT
49754786 ATAAAA
1 ATAAAA
49754792 ATCATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.67
22 6 0.25
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAACATATTTAAAATTCT
Done.