Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 71 of 333
Found at i:21644076 original size:39 final size:40
Alignment explanation
Indices: 21643973--21644236 Score: 324
Period size: 40 Copynumber: 6.7 Consensus size: 40
21643963 TTGAATGATG
* * * *
21643973 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAATGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
21644012 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
21644053 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
21644092 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
21644132 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
21644171 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
21644210 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21644237 AACGAGGAGC
Statistics
Matches: 195, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
39 71 0.36
40 114 0.58
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:21644190 original size:119 final size:121
Alignment explanation
Indices: 21643973--21644236 Score: 369
Period size: 119 Copynumber: 2.2 Consensus size: 121
21643963 TTGAATGATG
* * *
21643973 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAATGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATGACAATATCCGGACTAAGACCCGAAGGCATT
* *
21644037 TGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTA-AA
66 TGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
21644092 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGAT-ACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATGAC-AATATCCGGACTAAGACCCGAAGGCAT
* *
21644154 TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
65 TTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
*
21644212 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21644237 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
118 35 0.27
119 80 0.62
120 14 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATGACAATATCCGGACTAAGACCCGAAGGCATT
TGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:21644269 original size:79 final size:79
Alignment explanation
Indices: 21643973--21644236 Score: 363
Period size: 79 Copynumber: 3.3 Consensus size: 79
21643963 TTGAATGATG
* * * * * **
21643973 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAATGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
21644036 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAT
*
21644053 TCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
21644118 TGCGAGATACTAAT
66 TGCGAGATACTAAT
21644132 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
*
21644197 TGCGAGTTACT-AT
66 TGCGAGATACTAAT
* *
21644210 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
21644237 AACGAGGAGC
Statistics
Matches: 168, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
78 3 0.02
79 133 0.79
80 32 0.19
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:21645818 original size:39 final size:39
Alignment explanation
Indices: 21645774--21645854 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
21645764 ATTATATTAT
21645774 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
* *
21645813 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
21645852 CAG
1 CAG
21645855 TGTCTTGCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (39 bp):
CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
Found at i:21647855 original size:10 final size:9
Alignment explanation
Indices: 21647840--21647866 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
21647830 TAATACCGAG
21647840 TTTTTTTTA
1 TTTTTTTTA
21647849 TTTTTTTTA
1 TTTTTTTTA
21647858 TTTTTTTTA
1 TTTTTTTTA
21647867 ATAACAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:21648982 original size:5 final size:5
Alignment explanation
Indices: 21648972--21649069 Score: 83
Period size: 6 Copynumber: 18.2 Consensus size: 5
21648962 TATGTCTTTC
*
21648972 AAAAT AAAAT AATAAT AAAATT GAAAT AAAAAT CAAAAT CAAAAT AAAAAT
1 AAAAT AAAAT AA-AAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT -AAAAT
*
21649023 AAAAAT AAAAT -AAAG AAAAT AAAAAT AAAA- ATAAAT AAAAT AAAAT
1 -AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT A-AAAT AAAAT AAAAT
21649069 A
1 A
21649070 GGAGGATTCA
Statistics
Matches: 80, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
4 4 0.05
5 35 0.44
6 41 0.51
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:21649004 original size:6 final size:6
Alignment explanation
Indices: 21648972--21649057 Score: 86
Period size: 6 Copynumber: 14.3 Consensus size: 6
21648962 TATGTCTTTC
* * * * *
21648972 AAAAT- AAAATA ATAAT- AAAATT GAAATA AAAATC AAAATC AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
21649018 AAAATA AAAATA AAATAAA GAAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAA-ATA -AAAATA AAAATA AAAATA AA
21649058 TAAAATAAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
5 9 0.13
6 52 0.76
7 4 0.06
8 3 0.04
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:21649010 original size:12 final size:11
Alignment explanation
Indices: 21648972--21649067 Score: 92
Period size: 11 Copynumber: 8.8 Consensus size: 11
21648962 TATGTCTTTC
21648972 AAAAT-AAAAT
1 AAAATAAAAAT
*
21648982 AATAATAAAATT
1 AA-AATAAAAAT
*
21648994 GAAATAAAAAT
1 AAAATAAAAAT
*
21649005 CAAAATCAAAAT
1 -AAAATAAAAAT
21649017 AAAAATAAAAAT
1 -AAAATAAAAAT
*
21649029 AAAAT--AAAG
1 AAAATAAAAAT
21649038 AAAATAAAAAT
1 AAAATAAAAAT
*
21649049 AAAA-ATAAAT
1 AAAATAAAAAT
21649059 AAAATAAAA
1 AAAATAAAA
21649068 TAGGAGGATT
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.12
10 11 0.16
11 26 0.38
12 24 0.35
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:21649047 original size:21 final size:21
Alignment explanation
Indices: 21648995--21649067 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
21648985 AATAAAATTG
* *
21648995 AAATAAAAATCAAAATCAAAATAA
1 AAATAAAAATAAAAAT--AAA-GA
21649019 AAATAAAAAT-AAAATAAAGA
1 AAATAAAAATAAAAATAAAGA
*
21649039 AAATAAAAATAAAAATAAATA
1 AAATAAAAATAAAAATAAAGA
21649060 AAATAAAA
1 AAATAAAA
21649068 TAGGAGGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.24
21 20 0.43
23 5 0.11
24 10 0.22
ACGTcount: A:0.79, C:0.03, G:0.01, T:0.16
Consensus pattern (21 bp):
AAATAAAAATAAAAATAAAGA
Found at i:21658321 original size:40 final size:40
Alignment explanation
Indices: 21658266--21658489 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
21658256 TATTCGGATG
21658266 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
21658306 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
21658349 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
21658389 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
21658429 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCAAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
21658469 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
21658490 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 12 0.07
40 113 0.69
41 1 0.01
43 37 0.23
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:21658409 original size:83 final size:80
Alignment explanation
Indices: 21658270--21658489 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
21658260 CGGATGATAT
* **
21658270 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
21658335 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
21658353 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
21658418 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
21658433 CCGGGCTAAGACCCAAAGGCATTTGTGCAAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
21658490 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 44 0.35
81 2 0.02
83 64 0.51
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:21658509 original size:123 final size:122
Alignment explanation
Indices: 21658266--21658490 Score: 330
Period size: 123 Copynumber: 1.9 Consensus size: 122
21658256 TATTCGGATG
** * * *
21658266 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCAAAGGCA
* * *
21658331 TTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTGCGAG-AGTTGCTATACCCGGGCTAAATCCCGAAGACATTTGTGCAAGTGACT
*
21658389 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCAAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCAAAGGCA
*
21658454 TTTGTGC-A-AGTTGCTATATCC-GGCTAAATCCCGAAGA
66 TTTGTGCGAGAGTTGCTATACCCGGGCTAAATCCCGAAGA
21658491 TACTTGGGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
119 14 0.15
120 12 0.13
122 1 0.01
123 66 0.71
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (122 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCAAAGGCA
TTTGTGCGAGAGTTGCTATACCCGGGCTAAATCCCGAAGACATTTGTGCAAGTGACT
Found at i:21667071 original size:47 final size:47
Alignment explanation
Indices: 21666993--21667724 Score: 1153
Period size: 47 Copynumber: 15.3 Consensus size: 47
21666983 CCCTTCGGGA
* * * * * * *
21666993 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21667040 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21667087 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21667134 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21667185 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
21667234 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21667281 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21667328 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21667375 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21667426 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
21667475 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21667522 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21667569 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21667616 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21667663 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21667712 CTTATCACATATA
1 CTTATCACATATA
21667725 CTATCATGTA
Statistics
Matches: 644, Mismatches: 27, Indels: 28
0.92 0.04 0.04
Matches are distributed among these distances:
46 2 0.00
47 410 0.64
49 138 0.21
50 2 0.00
51 92 0.14
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21667416 original size:241 final size:241
Alignment explanation
Indices: 21666993--21667724 Score: 1312
Period size: 241 Copynumber: 3.1 Consensus size: 241
21666983 CCCTTCGGGA
* * * * * * * * *
21666993 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGACCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
21667058 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
21667123 GGCTATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
131 GGCTATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
21667188 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGT
196 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGC
21667234 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
21667299 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
21667364 GGCTATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
131 GGCTATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
21667429 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGC
196 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGC
21667475 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
21667540 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
21667605 GGCTATTAGGCCTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
131 GGCTATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
21667666 ATCACATATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
196 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
21667712 CTTATCACATATA
1 CTTATCACATATA
21667725 CTATCATGTA
Statistics
Matches: 478, Mismatches: 12, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
236 1 0.00
237 98 0.21
241 379 0.79
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (241 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
GGCTATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGC
Found at i:21670546 original size:15 final size:15
Alignment explanation
Indices: 21670526--21670555 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21670516 ACAAACAGAT
21670526 GTCTTCATTTAAGCC
1 GTCTTCATTTAAGCC
21670541 GTCTTCATTTAAGCC
1 GTCTTCATTTAAGCC
21670556 ATTTTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (15 bp):
GTCTTCATTTAAGCC
Found at i:21672694 original size:49 final size:48
Alignment explanation
Indices: 21672621--21672764 Score: 198
Period size: 49 Copynumber: 2.9 Consensus size: 48
21672611 AGCCGAAGCT
* *
21672621 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
* * *
21672669 AGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAC
**
21672720 ATCTAATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC
21672765 TCACAATAGA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
48 2 0.02
49 39 0.46
50 39 0.46
51 4 0.05
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (48 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
Found at i:21672751 original size:50 final size:51
Alignment explanation
Indices: 21672633--21672768 Score: 206
Period size: 50 Copynumber: 2.7 Consensus size: 51
21672623 CTGGTACGCA
* **
21672633 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACACG
* *
21672682 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACACG
21672732 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
21672769 AATAGATCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
49 29 0.37
50 45 0.58
51 4 0.05
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACACG
Found at i:21675907 original size:43 final size:42
Alignment explanation
Indices: 21675860--21675983 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
21675850 TCCCAGACGT
* * *
21675860 GGTCTTACAT-ATAATCAAATATCGATGCCACTTTCCCAAATAG
1 GGTCTTACATGA-AATCAAATA-CGATGCCAATGTCCCAAACAG
* *
21675903 GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAAACAG
** *
21675945 GGTCTTACATGTAAATCATAAGCCGATGCCAACGTCCCA
1 GGTCTTACATG-AAATCA-AATACGATGCCAATGTCCCA
21675984 GACGTGGTCT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 27 0.39
43 25 0.36
44 18 0.26
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAAACAG
Found at i:21677115 original size:13 final size:13
Alignment explanation
Indices: 21677097--21677121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21677087 CACAAACGAT
21677097 AAAATTTTCACAC
1 AAAATTTTCACAC
21677110 AAAATTTTCACA
1 AAAATTTTCACA
21677122 GACATTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:21691446 original size:28 final size:29
Alignment explanation
Indices: 21691369--21691455 Score: 140
Period size: 29 Copynumber: 3.0 Consensus size: 29
21691359 TGGCCTATCT
21691369 CATTCATATGGCCCATTAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
*
21691398 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
* *
21691427 -ATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
21691455 C
1 C
21691456 CTTTATAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 25 0.47
29 28 0.53
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAATTCA
Found at i:21691476 original size:57 final size:57
Alignment explanation
Indices: 21691370--21691479 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
21691360 GGCCTATCTC
* **
21691370 ATTCATATGGCCCATTAGGCCCAATTCACATTCATATGGCCCATCAGGCCCAATTCA
1 ATTCATATGGCCCATTAGGCCCAAATCACATTCATAAAGCCCATCAGGCCCAATTCA
* * * * * *
21691427 ATTCATATGGCCTATTAGGCCCAAATCACCTTTATAAATCCCGTTAGGCCCAA
1 ATTCATATGGCCCATTAGGCCCAAATCACATTCATAAAGCCCATCAGGCCCAA
21691480 ATCACCTTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 44 1.00
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (57 bp):
ATTCATATGGCCCATTAGGCCCAAATCACATTCATAAAGCCCATCAGGCCCAATTCA
Found at i:21695894 original size:28 final size:29
Alignment explanation
Indices: 21695745--21695879 Score: 136
Period size: 29 Copynumber: 4.8 Consensus size: 29
21695735 ACCCCTACGT
*
21695745 ACATGCATATGGCCCACTT-GGCCC-A-TC
1 ACATTCATATGGCCCA-TTAGGCCCAATTC
* *
21695772 -TATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
*
21695800 ACATTCATATGGCCCATTAGGTCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * **
21695829 ATATTCATAT-GCCTATTAGGCCCAAACC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* *
21695857 ACCTTTATATGGCCCATTAGGCC
1 ACATTCATATGGCCCATTAGGCC
21695880 TAGATCACCT
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
25 1 0.01
26 18 0.20
27 1 0.01
28 23 0.26
29 45 0.51
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:21697277 original size:17 final size:17
Alignment explanation
Indices: 21697241--21697276 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
21697231 ACTAAAAAAA
*
21697241 TTTGGGATTTCGGGATT
1 TTTGGGATTTCAGGATT
21697258 TTTGGG-TTTCAGGATT
1 TTTGGGATTTCAGGATT
21697274 TTT
1 TTT
21697277 TTTGGGGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.11, C:0.06, G:0.31, T:0.53
Consensus pattern (17 bp):
TTTGGGATTTCAGGATT
Found at i:21699065 original size:43 final size:42
Alignment explanation
Indices: 21698984--21699067 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
21698974 AAATCGTACA
*
21698984 ATGCCAATGTCCCAACGTGGTCTTACATGTAGCTACATATCG
1 ATGCCAATGTCCCAACGTGGTCTTACATGTAACTACATATCG
* *
21699026 ATGCCACTGTCCCAGACAG-GGTCTTACTTGTAAAC-ACATATC
1 ATGCCAATGTCCCA-AC-GTGGTCTTACATGT-AACTACATATC
21699068 AGAAGCACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 13 0.36
43 20 0.56
44 3 0.08
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTCCCAACGTGGTCTTACATGTAACTACATATCG
Found at i:21702466 original size:53 final size:54
Alignment explanation
Indices: 21702385--21702592 Score: 206
Period size: 53 Copynumber: 3.9 Consensus size: 54
21702375 TTTTCTTTTT
* * ** *
21702385 GAACTTACCATTGCTATGTTTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
21702438 GAACTTACCAATGCTATGCCTTGGCATGGTCTTACATGAG-A-CCTTTTCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTATCC-TTGCCTTATA
* * * * * *
21702492 GTAACTCATCAATACCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
21702547 GAACTTATCAATGCCATGCCTTGGCATGGTCTTGCATGATATCCTT
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
21702593 ATCTTACCAA
Statistics
Matches: 128, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 41 0.32
55 41 0.32
56 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:21702585 original size:54 final size:54
Alignment explanation
Indices: 21702409--21702592 Score: 228
Period size: 55 Copynumber: 3.4 Consensus size: 54
21702399 TATGTTTTGA
* * * *
21702409 CATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTTACCAATGCTATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
* * * * * *
21702462 CATGGTCTTACATGAGA-CCTTTTCCTTATAGTAACTCATCAATACCATGTCTTGA
1 CATGGTCTTACATGATATCC-TTGCCTTATAG-AACTTATCAATGCCATGCCTTGG
*
21702517 CATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
*
21702571 CATGGTCTTGCATGATATCCTT
1 CATGGTCTTACATGATATCCTT
21702593 ATCTTACCAA
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 22 0.20
54 40 0.37
55 42 0.39
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
Found at i:21703388 original size:31 final size:30
Alignment explanation
Indices: 21703353--21703410 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
21703343 AAAACTCAAA
21703353 CTTTGGAAAAATTACAATTTTGCCCCTAAAC
1 CTTT-GAAAAATTACAATTTTGCCCCTAAAC
*
21703384 CTTTGCAAAATTACAATTTTGCCCCTA
1 CTTTGAAAAATTACAATTTTGCCCCTA
21703411 GGATCAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (30 bp):
CTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:21709781 original size:25 final size:25
Alignment explanation
Indices: 21709729--21709786 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
21709719 ATAAAACCTA
*
21709729 AAAATGAAATAGTATTAAACGAAAAT
1 AAAAT-AAAAAGTATTAAACGAAAAT
*
21709755 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAACGAAAAT
21709780 -AAATAAA
1 AAAATAAA
21709787 GATAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.21
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAACGAAAAT
Found at i:21717091 original size:24 final size:25
Alignment explanation
Indices: 21717064--21717142 Score: 92
Period size: 24 Copynumber: 3.3 Consensus size: 25
21717054 CACTCGGCGA
*
21717064 TGGTGGTACATCCTCATGTGGA-TG
1 TGGTGGTACATCATCATGTGGACTG
* *
21717088 TGGTAGTACAACATCATGT-GACTG
1 TGGTGGTACATCATCATGTGGACTG
* *
21717112 TGGTGGTACATCTTCATGT-GACTA
1 TGGTGGTACATCATCATGTGGACTG
21717136 TGGTGGT
1 TGGTGGT
21717143 GTCAGCATTG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.04
24 45 0.96
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.34
Consensus pattern (25 bp):
TGGTGGTACATCATCATGTGGACTG
Found at i:21721287 original size:9 final size:9
Alignment explanation
Indices: 21721269--21721457 Score: 234
Period size: 9 Copynumber: 20.6 Consensus size: 9
21721259 TATTTATGTA
21721269 TTATGTAAG
1 TTATGTAAG
*
21721278 TTATGCAAG
1 TTATGTAAG
*
21721287 TCATGTAAG
1 TTATGTAAG
*
21721296 TTATGATATATAT
1 TTATG---TA-AG
21721309 TTATGTAAG
1 TTATGTAAG
21721318 TTATGTAAG
1 TTATGTAAG
*
21721327 CTATGTAAG
1 TTATGTAAG
*
21721336 TTATGGAAG
1 TTATGTAAG
21721345 TTATGTAAG
1 TTATGTAAG
*
21721354 CTATGTAAG
1 TTATGTAAG
*
21721363 TTATATAAG
1 TTATGTAAG
21721372 TTATGTAAG
1 TTATGTAAG
*
21721381 TTATATAAG
1 TTATGTAAG
21721390 TTATGTAAG
1 TTATGTAAG
21721399 TTATGTAAG
1 TTATGTAAG
*
21721408 CTATGTAAG
1 TTATGTAAG
*
21721417 TTTTGTAAG
1 TTATGTAAG
*
21721426 TTATATAAG
1 TTATGTAAG
*
21721435 CTATGTAAG
1 TTATGTAAG
21721444 TTATGTAAG
1 TTATGTAAG
21721453 TTATG
1 TTATG
21721458 GTTATATTTT
Statistics
Matches: 152, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
9 142 0.93
10 2 0.01
12 2 0.01
13 6 0.04
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.42
Consensus pattern (9 bp):
TTATGTAAG
Found at i:21724060 original size:27 final size:28
Alignment explanation
Indices: 21723979--21724073 Score: 120
Period size: 27 Copynumber: 3.4 Consensus size: 28
21723969 GAGATTGGCG
* * * *
21723979 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
21724008 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21724036 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
21724063 TTGAGTGTGCG
1 CTAAGTGTGCG
21724074 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 23 0.38
28 22 0.37
29 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:21724087 original size:29 final size:27
Alignment explanation
Indices: 21724004--21724087 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
21723994 TAAATTGTAC
* *
21724004 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
21724032 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
* *
21724059 AGCATTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
21724088 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 22 0.45
28 22 0.45
29 5 0.10
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.35
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:21732089 original size:27 final size:28
Alignment explanation
Indices: 21732008--21732101 Score: 127
Period size: 27 Copynumber: 3.4 Consensus size: 28
21731998 GAGATTGGCG
* * * *
21732008 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
21732037 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21732065 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
21732092 CTGAGTGTGC
1 CTAAGTGTGC
21732102 AGACTTAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.38
28 22 0.37
29 15 0.25
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:21732116 original size:29 final size:27
Alignment explanation
Indices: 21732033--21732116 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
21732023 TAAATTGTAC
* *
21732033 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
21732061 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
21732088 AGCACTGAGTGTGCAGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
21732117 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:21739024 original size:18 final size:19
Alignment explanation
Indices: 21738992--21739027 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21738982 CTATTCATTC
*
21738992 TGTCATTCTTTTCTTTTTT
1 TGTCATTCTTCTCTTTTTT
21739011 TGTC-TTCTTCTCTTTTT
1 TGTCATTCTTCTCTTTTT
21739028 ATTTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.03, C:0.19, G:0.06, T:0.72
Consensus pattern (19 bp):
TGTCATTCTTCTCTTTTTT
Found at i:21742077 original size:16 final size:16
Alignment explanation
Indices: 21742056--21742098 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
21742046 GTAGATCGGC
*
21742056 AAAAGCCGAAATGCTG
1 AAAAGCCGAAAAGCTG
*
21742072 AAAAGCCGAAAAGTTG
1 AAAAGCCGAAAAGCTG
*
21742088 AAAAGCTGAAA
1 AAAAGCCGAAA
21742099 GTTTGGCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.14, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:21742082 original size:8 final size:8
Alignment explanation
Indices: 21742056--21742098 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
21742046 GTAGATCGGC
*
21742056 AAAAGCCG
1 AAAAGCTG
*
21742064 AAATGCTG
1 AAAAGCTG
*
21742072 AAAAGCCG
1 AAAAGCTG
*
21742080 AAAAGTTG
1 AAAAGCTG
21742088 AAAAGCTG
1 AAAAGCTG
21742096 AAA
1 AAA
21742099 GTTTGGCTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.51, C:0.14, G:0.23, T:0.12
Consensus pattern (8 bp):
AAAAGCTG
Found at i:21742140 original size:19 final size:19
Alignment explanation
Indices: 21742118--21742155 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21742108 TGGTAGTCTT
*
21742118 GCGAGTGCATGGACTTTGG
1 GCGAGTCCATGGACTTTGG
*
21742137 GCGATTCCATGGACTTTGG
1 GCGAGTCCATGGACTTTGG
21742156 TTGTGAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.29
Consensus pattern (19 bp):
GCGAGTCCATGGACTTTGG
Found at i:21742306 original size:28 final size:28
Alignment explanation
Indices: 21742275--21742421 Score: 138
Period size: 28 Copynumber: 5.1 Consensus size: 28
21742265 GTGAGCATGA
21742275 ATAT-AATGTGATTTGGGCTGGATGGGCC
1 ATATAAATGTGATTTGGGCT-GATGGGCC
* *
21742303 ATATAAATGAGA-TTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGG-CTGATGGGCC
* **
21742331 ATATAAAGGTGATTTGACCCTGATGGGCC
1 ATATAAATGTGATTTG-GGCTGATGGGCC
*
21742360 ATATGAAATGTGAATTGGGGCTGATGGGCC
1 ATAT-AAATGTG-ATTTGGGCTGATGGGCC
* **
21742390 ATATAAATGAGA-TTGGGCCAAGTGGGCC
1 ATATAAATGTGATTTGGGCTGA-TGGGCC
21742418 ATAT
1 ATAT
21742422 GCATGTATGT
Statistics
Matches: 97, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
27 6 0.06
28 37 0.38
29 30 0.31
30 20 0.21
31 4 0.04
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTTGGGCTGATGGGCC
Found at i:21750647 original size:22 final size:21
Alignment explanation
Indices: 21750622--21750684 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
21750612 GTAACTACGT
21750622 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
*
21750644 TTGGCACAGAACCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
21750666 TTGGCGCAAAGCCATAATC
1 TTGGCACAAA-CCATAATC
21750685 GGAATAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.12
22 28 0.82
23 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:21751156 original size:27 final size:27
Alignment explanation
Indices: 21751125--21751474 Score: 227
Period size: 27 Copynumber: 13.0 Consensus size: 27
21751115 TTGATAAATC
*
21751125 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
21751152 TACAAACCAATGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
21751179 TTGAAAGTCAAGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTT
** * * * *
21751207 TGTAAATTAGGGGTATTTCTGTAAATT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * * **
21751234 TCCAAATTAATGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
**
21751261 TACAAATTGAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * ** * *
21751288 TGCAAGTTGAGGATATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
21751315 TATAAGTCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * * *
21751342 TGCAAGTCGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* ** * * **
21751369 TATAGGTCGATGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
21751396 TACAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
21751423 T-GTATTCCAAGGGTATTT-AGTAATTT
1 TACAAAT-CAAGGGTATTTCAGTAATTT
** *
21751449 TGTAAACCAAGGGTATTTCAGTAATT
1 TACAAATCAAGGGTATTTCAGTAATT
21751475 CTACCCTACA
Statistics
Matches: 260, Mismatches: 59, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
26 21 0.08
27 216 0.83
28 23 0.09
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:21751268 original size:54 final size:54
Alignment explanation
Indices: 21751127--21751474 Score: 261
Period size: 54 Copynumber: 6.4 Consensus size: 54
21751117 GATAAATCTA
* * * * *
21751127 CAAACCAAGGGTATTTCAGTAATTTTACAAACCAATGGTATTTCTGTAATTTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAA-TTTTG
* ** * * * * *
21751182 -AAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTCTGTAAATTTC
1 CAAA-TCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTG
* * * **
21751236 CAAATTAATGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTG
* ** * * *
21751290 CAAGTTGAGGATATTTCGGTAATTTTATAAGTCAAGGGTATTTCAGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTG
* * * ** * * ** *
21751344 CAAGTCGAGGGTATTTCGGTAATTTTATAGGTCGATGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTG
* * * ** *
21751398 CAAATTAGGGGTATTTTGGTAATTTT-GTATTCCAAGGGTATTT-AGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTACAAAT-CAAGGGTATTTCAGTAATTTTG
* * *
21751451 TAAACCAAGGGTATTTCAGTAATT
1 CAAATCAAGGGTATTTCGGTAATT
21751475 CTACCCTACA
Statistics
Matches: 233, Mismatches: 57, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
53 27 0.12
54 166 0.71
55 40 0.17
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (54 bp):
CAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTG
Found at i:21751450 original size:26 final size:26
Alignment explanation
Indices: 21751406--21751474 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
21751396 TACAAATTAG
* **
21751406 GGGTATTTTGGTAATTTTGTATTCCAA
1 GGGTA-TTTAGTAATTTTGTAAACCAA
21751433 GGGTATTTAGTAATTTTGTAAACCAA
1 GGGTATTTAGTAATTTTGTAAACCAA
21751459 GGGTATTTCAGTAATT
1 GGGTATTT-AGTAATT
21751475 CTACCCTACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 26 0.68
27 12 0.32
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTGTAAACCAA
Found at i:21751486 original size:27 final size:27
Alignment explanation
Indices: 21751456--21751539 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
21751446 TTTTGTAAAC
21751456 CAAGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * *
21751483 CAAGAGCATTTCAGTAATTCTATCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
21751510 CAGGGGTATTTTAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
21751537 CAA
1 CAA
21751540 ATATGATATT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:21751875 original size:47 final size:47
Alignment explanation
Indices: 21751801--21751902 Score: 186
Period size: 47 Copynumber: 2.1 Consensus size: 47
21751791 TACACACTTG
21751801 TTTACAAGAACGCGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
1 TTTA-AAGAACGCGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
*
21751849 TTTAAAGAACGTGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
1 TTTAAAGAACGCGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
21751896 TTTAAAG
1 TTTAAAG
21751903 CTAGCTTCTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 49 0.92
48 4 0.08
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (47 bp):
TTTAAAGAACGCGTCGAAGTCCACCCTAACTCATCTGGTTCGCTCTA
Found at i:21752519 original size:15 final size:15
Alignment explanation
Indices: 21752496--21752526 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21752486 TTATGGACCC
21752496 ATACGTCTAGGCCCA
1 ATACGTCTAGGCCCA
*
21752511 ATACTTCTAGGCCCA
1 ATACGTCTAGGCCCA
21752526 A
1 A
21752527 ATTTGGGGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (15 bp):
ATACGTCTAGGCCCA
Found at i:21753606 original size:43 final size:43
Alignment explanation
Indices: 21753527--21753609 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
21753517 ATCGTACAAC
**
21753527 GCCAATGTCCCAGACGTGGTCTTACATGTAGCCACATATCAAT
1 GCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCAAT
*
21753570 GCCACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATC
1 GCCAATGTCCCAGAC-GTGGTCTTACAT-GTAAACACATATC
21753610 GGAACCACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.03
43 33 0.94
44 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
GCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCAAT
Found at i:21754397 original size:17 final size:18
Alignment explanation
Indices: 21754372--21754406 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21754362 AGTACTCAAA
*
21754372 GCAACAATC-TCAAAAAC
1 GCAAAAATCATCAAAAAC
21754389 GCAAAAATCATCAAAAAC
1 GCAAAAATCATCAAAAAC
21754407 CAAGTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.57, C:0.26, G:0.06, T:0.11
Consensus pattern (18 bp):
GCAAAAATCATCAAAAAC
Found at i:21758077 original size:80 final size:81
Alignment explanation
Indices: 21757942--21758125 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
21757932 ATTTTACCCC
* * ** **
21757942 ACAAGGGTATCTCGGTAATTCTACCCTAGAGAGGTATTTTGATATTTCTGTCCTACAAGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAATATTTCTACCCTACAAGGGTATT
21758007 TCGATAATTC-ATCC-T
66 TCGATAATTCTA-CCTT
* *
21758022 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTT-TACCCTACAGGGGTAT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAAT-ATTTCTACCCTACAAGGGTAT
*
21758086 TTCGGTAATTCTACCTT
65 TTCGATAATTCTACCTT
* *
21758103 ACAGGGGTATTTTGGTAATTCTA
1 ACAAGGGTATTTCGGTAATTCTA
21758126 TAACTTATCC
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 63 0.70
81 27 0.30
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (81 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAATATTTCTACCCTACAAGGGTATT
TCGATAATTCTACCTT
Found at i:21758123 original size:27 final size:27
Alignment explanation
Indices: 21757928--21758125 Score: 209
Period size: 27 Copynumber: 7.4 Consensus size: 27
21757918 GGGGCAAAAT
* * * *
21757928 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
21757955 GGTAATTCTACCCTAGAGAGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * ** *
21757982 GATATTTCTGTCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
21758009 GATAATTC-ATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
21758035 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
21758062 AATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
21758089 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
21758116 GGTAATTCTA
1 GGTAATTCTA
21758126 TAACTTATCC
Statistics
Matches: 142, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 24 0.17
27 118 0.83
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:21764763 original size:27 final size:26
Alignment explanation
Indices: 21764715--21764774 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
21764705 GCGAGACTGC
*
21764715 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
21764742 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
21764768 TAGATAT
1 CAGATAT
21764775 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:21765473 original size:26 final size:27
Alignment explanation
Indices: 21765444--21765635 Score: 211
Period size: 26 Copynumber: 7.4 Consensus size: 27
21765434 AGGGCAAAAT
* *
21765444 GGTAATT-TACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
21765470 GGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21765496 AGTATTTCTACCCTACAA-GGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21765522 GATAATTCTATCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21765548 GATAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
21765574 AATAGTT-TACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
21765600 -GTAATTCTACCTTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
21765625 GGTAATTCTAC
1 GGTAATTCTAC
21765636 AACTTATCCA
Statistics
Matches: 143, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
25 29 0.20
26 101 0.71
27 13 0.09
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:21765596 original size:78 final size:77
Alignment explanation
Indices: 21765460--21765635 Score: 250
Period size: 78 Copynumber: 2.3 Consensus size: 77
21765450 TTACCCCACA
* * *
21765460 AGGGTATCTCGGTAATTCTACCCTACAGGGTATTTCAGTATTTCTACCCTACAAGGTATTTCGAT
1 AGGGTATTTCGGTAATTCTACCCTACAGGGTATTTCAATAGTTCTACCCTACAAGGTATTTCG-T
21765525 AATTCTATCC-TAC
65 AATTCTA-CCTTAC
* *
21765538 AGGGTATTTCGATAATTCTACCCTACAGGGGTA-TTCAATAGTT-TACCCTACAGGGGTATTTCG
1 AGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTCAATAGTTCTACCCTACA-AGGTATTTCG
21765601 TAATTCTACCTTAC
64 TAATTCTACCTTAC
21765615 AGGGTATTTCGGTAATTCTAC
1 AGGGTATTTCGGTAATTCTAC
21765636 AACTTATCCA
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
76 2 0.02
77 40 0.45
78 42 0.47
79 5 0.06
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (77 bp):
AGGGTATTTCGGTAATTCTACCCTACAGGGTATTTCAATAGTTCTACCCTACAAGGTATTTCGTA
ATTCTACCTTAC
Found at i:21789445 original size:27 final size:27
Alignment explanation
Indices: 21789397--21789628 Score: 369
Period size: 27 Copynumber: 8.6 Consensus size: 27
21789387 TAAATTGTGC
21789397 AGCACT-AGTGT-CGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
21789422 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
21789449 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
*
21789477 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
21789504 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
21789532 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
21789559 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
21789587 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
21789614 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21789629 GACTTAATAT
Statistics
Matches: 195, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
25 6 0.03
26 5 0.03
27 105 0.54
28 79 0.41
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:21789479 original size:55 final size:55
Alignment explanation
Indices: 21789397--21789628 Score: 389
Period size: 55 Copynumber: 4.3 Consensus size: 55
21789387 TAAATTGTGC
21789397 AGCACT-AGTGT-CGAG-TTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
21789449 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
*
21789504 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
* * * *
21789559 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
*
21789614 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21789629 GACTTAATAT
Statistics
Matches: 172, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
52 6 0.03
53 5 0.03
54 4 0.02
55 157 0.91
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
Found at i:21797566 original size:27 final size:28
Alignment explanation
Indices: 21797510--21797744 Score: 388
Period size: 27 Copynumber: 8.5 Consensus size: 28
21797500 TAAATTGTGC
21797510 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
21797538 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
21797565 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
21797593 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
21797620 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
21797648 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
21797675 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
21797703 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
21797730 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21797745 GACTTAATAT
Statistics
Matches: 197, Mismatches: 7, Indels: 7
0.93 0.03 0.03
Matches are distributed among these distances:
27 102 0.52
28 95 0.48
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:21797575 original size:55 final size:55
Alignment explanation
Indices: 21797510--21797744 Score: 416
Period size: 55 Copynumber: 4.3 Consensus size: 55
21797500 TAAATTGTGC
21797510 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
21797565 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
*
21797620 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
* * * *
21797675 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
*
21797730 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21797745 GACTTAATAT
Statistics
Matches: 175, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 175 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
Found at i:21802697 original size:46 final size:46
Alignment explanation
Indices: 21802647--21802819 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
21802637 TGGTTGAGCA
*
21802647 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
** * * * * *
21802693 TCCGAACTCGTTGAGTTGAGTCTAAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
21802740 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
21802786 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
21802820 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 59 0.58
47 27 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:21802814 original size:93 final size:93
Alignment explanation
Indices: 21802644--21802814 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
21802634 GGATGGTTGA
*
21802644 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
*
21802709 TGAGTCTAAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* *
21802737 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAG
*
21802801 TTGAGTCCGAGTTC
65 TTGAGTCCAAGTTC
21802815 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:21812318 original size:42 final size:42
Alignment explanation
Indices: 21812271--21812366 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 42
21812261 CCAGACGAGA
* *
21812271 TCTTACAAGTAATCA-ACTATCGATGCCACTGTCC-CGACAGGG
1 TCTTACAAGTAATCATA-T-TCGATGCCAATGTCCAAGACAGGG
* *
21812313 TCTTAC-ACTAAATCATATTCGATGCCAATGTCCAAGACATGG
1 TCTTACAAGT-AATCATATTCGATGCCAATGTCCAAGACAGGG
*
21812355 TCTTACACGTAA
1 TCTTACAAGTAA
21812367 ATCTCAAATC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
41 16 0.36
42 26 0.59
43 2 0.05
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (42 bp):
TCTTACAAGTAATCATATTCGATGCCAATGTCCAAGACAGGG
Found at i:21812345 original size:41 final size:43
Alignment explanation
Indices: 21812290--21812369 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 43
21812280 TAATCAACTA
* *
21812290 TCGATGCCACTGTCC-CGACAGGGTCTTACAC-TAAATCATAT
1 TCGATGCCAATGTCCAAGACAGGGTCTTACACGTAAATCATAT
*
21812331 TCGATGCCAATGTCCAAGACATGGTCTTACACGTAAATC
1 TCGATGCCAATGTCCAAGACAGGGTCTTACACGTAAATC
21812370 TCAAATCGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 14 0.41
42 14 0.41
43 6 0.18
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
TCGATGCCAATGTCCAAGACAGGGTCTTACACGTAAATCATAT
Found at i:21812384 original size:44 final size:41
Alignment explanation
Indices: 21812289--21812389 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 41
21812279 GTAATCAACT
* *
21812289 ATCGATGCCACTGTCCCGACAGGGTCTTACACTAAATCATA
1 ATCGATGCCAATGTCCAGACAGGGTCTTACACTAAATCATA
* *
21812330 TTCGATGCCAATGTCCAAGACATGGTCTTACACGTAAATC-TCAA
1 ATCGATGCCAATGTCC-AGACAGGGTCTTACAC-TAAATCAT--A
*
21812374 ATCGATGCCAACGTCC
1 ATCGATGCCAATGTCC
21812390 TAAAGGTGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
41 14 0.28
42 15 0.30
43 6 0.12
44 15 0.30
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (41 bp):
ATCGATGCCAATGTCCAGACAGGGTCTTACACTAAATCATA
Found at i:21814235 original size:29 final size:30
Alignment explanation
Indices: 21814195--21814262 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
21814185 CTCATTGACT
* * *
21814195 TGTGACACACGACCATGTCG-TAGGCCGTG
1 TGTGTCACACGACCATGTAGCAAGGCCGTG
* *
21814224 TGTGTCACACGACCGTGTAGCAAGGTCGTG
1 TGTGTCACACGACCATGTAGCAAGGCCGTG
21814254 TGTGTCACA
1 TGTGTCACA
21814263 TGGCCGTGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.24
Consensus pattern (30 bp):
TGTGTCACACGACCATGTAGCAAGGCCGTG
Found at i:21820197 original size:47 final size:47
Alignment explanation
Indices: 21820143--21820739 Score: 835
Period size: 47 Copynumber: 12.6 Consensus size: 47
21820133 TATTTGAATA
* *
21820143 AATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21820190 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21820239 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21820286 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21820335 AATGTGAAAGTGTATGTATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
21820382 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
21820431 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAACGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21820478 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21820525 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21820572 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21820619 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
21820666 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
21820713 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
21820740 TCCCAAAGGG
Statistics
Matches: 513, Mismatches: 29, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 375 0.73
49 136 0.27
50 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:21820380 original size:22 final size:22
Alignment explanation
Indices: 21820352--21820429 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
21820342 AAGTGTATGT
21820352 ATGTGATAAGGCCGAATGACCA
1 ATGTGATAAGGCCGAATGACCA
* * **
21820374 ATGTGATGAATG-TGAAAGTGTATATA
1 ATGTGAT-AAGGCCG-AA-TG-A-CCA
21820400 TATGTGATAAGGCCGAATGACCA
1 -ATGTGATAAGGCCGAATGACCA
21820423 ATGTGAT
1 ATGTGAT
21820430 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
22 15 0.37
23 6 0.15
24 3 0.07
25 3 0.07
26 6 0.15
27 8 0.20
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGACCA
Found at i:21820738 original size:94 final size:95
Alignment explanation
Indices: 21820143--21820739 Score: 841
Period size: 96 Copynumber: 6.3 Consensus size: 95
21820133 TATTTGAATA
* *
21820143 AATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATA
* *
21820208 TATGTGATAAGGCCTAATGGCCGATGTGATG
65 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21820239 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATA
* *
21820304 TATGTGATAAGGCCTAATGGCCGATGTGATG
65 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21820335 AATGTGAAAGTGTATGTATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATA
*
21820400 TATGTGATAAGGCCGAATGACCAATGTGATG
65 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
21820431 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAACA-TG-CAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGATAT
*
21820493 ATATGAGATAAGGCCGAATGGCCAATGTGATG
64 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
21820525 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG-CAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGATAT
*
21820587 ATATGAGATAAGGCCGAATGGCCAATGTGATG
64 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21820619 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-TATA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATA
21820682 TATGTGATAAGGCCGAATGGCCAATGTGATG
65 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
21820713 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
21820740 TCCCAAAGGG
Statistics
Matches: 468, Mismatches: 29, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
93 2 0.00
94 231 0.49
96 233 0.50
97 2 0.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (95 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATAT
ATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:21822767 original size:25 final size:23
Alignment explanation
Indices: 21822751--21822807 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
21822741 GAGCTGATGG
*
21822751 ACAGTAAGCTCTATTGAACTGAA
1 ACAGTAAGCTCTATTGAGCTGAA
**
21822774 ACAGTAAGCTCTAACGAGCTGAAA
1 ACAGTAAGCTCTATTGAGCTG-AA
*
21822798 ATAGTAAGCT
1 ACAGTAAGCT
21822808 TTTACGAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (23 bp):
ACAGTAAGCTCTATTGAGCTGAA
Found at i:21822795 original size:23 final size:23
Alignment explanation
Indices: 21822751--21822819 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 23
21822741 GAGCTGATGG
** *
21822751 ACAGTAAGCTCTATTGAACTGAA
1 ACAGTAAGCTCTAACGAGCTGAA
21822774 ACAGTAAGCTCTAACGAGCTGAAA
1 ACAGTAAGCTCTAACGAGCTG-AA
* * *
21822798 ATAGTAAGCTTTTACGAGCTGA
1 ACAGTAAGCTCTAACGAGCTGA
21822820 TGTATCGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (23 bp):
ACAGTAAGCTCTAACGAGCTGAA
Found at i:21833440 original size:40 final size:40
Alignment explanation
Indices: 21833385--21833598 Score: 326
Period size: 40 Copynumber: 5.4 Consensus size: 40
21833375 TGGTAACCGA
* * *
21833385 GCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGG
*
21833425 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
21833465 GCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
21833505 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
21833545 GCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
*
21833584 GCTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
21833599 TCCTTGGTTT
Statistics
Matches: 164, Mismatches: 8, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
39 17 0.10
40 146 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:21841320 original size:40 final size:40
Alignment explanation
Indices: 21841265--21841480 Score: 287
Period size: 40 Copynumber: 5.4 Consensus size: 40
21841255 GATGGTAACC
* *
21841265 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCT
* * *
21841305 GGGCTAATTCCCGAAGGCATTTGTGCAAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
21841345 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT-T
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
21841384 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
1 -GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
* * *
21841425 AGGCTAAGTCTCGAAGGCATTTGAGCGAG-TAGCTATATC-
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCT
* *
21841464 CGGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
21841481 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 16 0.10
40 141 0.89
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
Found at i:21846511 original size:93 final size:93
Alignment explanation
Indices: 21846396--21846566 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
21846386 GCCCAAAAGT
* *
21846396 GAACTCGGACTCAAGTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
21846460 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
21846489 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21846554 CGAGTTCGGATGC
66 CGAGTTCGGATGC
21846567 TCAATCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21846561 original size:46 final size:46
Alignment explanation
Indices: 21846392--21846563 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
21846382 ACCCGCCCAA
* * *
21846392 AAGTGAACTCGGACTCAAGTCAACGAGCTCAGG-CGTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCAT
*
21846438 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
* *
21846486 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
21846531 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21846564 TGCTCAATCA
Statistics
Matches: 107, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 57 0.53
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:21857054 original size:43 final size:43
Alignment explanation
Indices: 21856988--21857205 Score: 343
Period size: 43 Copynumber: 5.1 Consensus size: 43
21856978 CTGGCATTAC
* * *
21856988 GCCTACTAGGCACGAAGGCCCGAATACACATAACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
21857031 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
*
21857074 GCCTGCTAGGCACGAAGGCCAGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
21857117 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
* * * *
21857160 GCCTGCTAAGCACGAA-GCCCGAATATA-AT-ACCAGCACTAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
21857200 GCCTGC
1 GCCTGC
21857206 GGGATTTATC
Statistics
Matches: 166, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 15 0.09
41 2 0.01
42 10 0.06
43 139 0.84
ACGTcount: A:0.32, C:0.33, G:0.23, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
Found at i:21868956 original size:56 final size:56
Alignment explanation
Indices: 21868862--21869082 Score: 316
Period size: 56 Copynumber: 3.9 Consensus size: 56
21868852 TCTTACATGT
* * * * *
21868862 AATCACATATCGATGCCAATGTACTAAACGTGGTCTTACTCACACACATATATTGG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATTGA
* * * *
21868918 AATCACATATTGATGCCAACGTATTAAACATGGCCTTACTTGCACAAATATATTGA
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATTGA
* *
21868974 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTTGCACACATATATCGA
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATTGA
* **
21869030 AATCACATATCGATGCCAACATATTAAATGTGGTCTTACTCGCACACATATAT
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATAT
21869083 CGATGCCATG
Statistics
Matches: 148, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 148 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATTGA
Found at i:21877055 original size:55 final size:54
Alignment explanation
Indices: 21876960--21877109 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
21876950 CTACTTTGTT
* ** * *
21876960 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
21877014 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
21877069 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
21877110 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:21877072 original size:27 final size:27
Alignment explanation
Indices: 21876932--21877109 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
21876922 TAAATTGTAC
21876932 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
21876959 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
21876985 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
21877013 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
21877041 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
21877068 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
21877095 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21877110 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:21877073 original size:82 final size:81
Alignment explanation
Indices: 21876933--21877088 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
21876923 AAATTGTACA
* * * *
21876933 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
21876998 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
21877014 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
21877077 TGTGCGAGTTGA
63 TGTGCGAATTGA
21877089 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:21885051 original size:55 final size:54
Alignment explanation
Indices: 21884956--21885105 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
21884946 CTACTTTGTT
* ** * *
21884956 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
21885010 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
21885065 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
21885106 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:21885068 original size:27 final size:27
Alignment explanation
Indices: 21884928--21885105 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
21884918 TAAATTGTAC
21884928 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
21884955 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
21884981 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
21885009 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
21885037 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
21885064 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
21885091 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21885106 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:21885069 original size:82 final size:81
Alignment explanation
Indices: 21884929--21885084 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
21884919 AAATTGTACA
* * * *
21884929 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
21884994 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
21885010 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
21885073 TGTGCGAGTTGA
63 TGTGCGAATTGA
21885085 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:21893066 original size:18 final size:18
Alignment explanation
Indices: 21893035--21893072 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21893025 TCACATAATA
*
21893035 TTTATATATTTTTATATT
1 TTTATATATTTTTACATT
21893053 TTTATAT-TATTTTACATT
1 TTTATATAT-TTTTACATT
21893071 TT
1 TT
21893073 AACAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATATATTTTTACATT
Found at i:21893298 original size:21 final size:22
Alignment explanation
Indices: 21893266--21893316 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
21893256 TATTTCAAAA
*
21893266 TTCATTATTTATT-ACTATGTT
1 TTCATTATTTATTAAATATGTT
21893287 TTCATGTA-TTATTAAATATG-T
1 TTCAT-TATTTATTAAATATGTT
21893308 TT-ATTATTT
1 TTCATTATTT
21893317 TATATTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.08
20 4 0.15
21 13 0.50
22 7 0.27
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (22 bp):
TTCATTATTTATTAAATATGTT
Found at i:21912232 original size:14 final size:13
Alignment explanation
Indices: 21912206--21912230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21912196 TTTTTTTGAA
21912206 TTTTATTTTTTTC
1 TTTTATTTTTTTC
21912219 TTTTATTTTTTT
1 TTTTATTTTTTT
21912231 TCAATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.04, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTC
Found at i:21913293 original size:6 final size:6
Alignment explanation
Indices: 21913207--21913279 Score: 83
Period size: 6 Copynumber: 12.0 Consensus size: 6
21913197 ATATAAAGAC
** * * * *
21913207 AAAATA AACGTA AAAACTT AAAATT AAAATT AAAATA AAGATA AAAATA
1 AAAATA AAAATA AAAA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
21913256 AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA
21913280 TACTTAAAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
6 53 0.91
7 5 0.09
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:21953413 original size:13 final size:13
Alignment explanation
Indices: 21953391--21953423 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21953381 TTGCTATAGT
*
21953391 TTAG-TTAGTTGA
1 TTAGTTTAGTTAA
21953403 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
21953416 TTAGTTTA
1 TTAGTTTA
21953424 ATAAACATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:21957270 original size:6 final size:6
Alignment explanation
Indices: 21957218--21957269 Score: 77
Period size: 6 Copynumber: 8.7 Consensus size: 6
21957208 TCCTCCTATC
* * *
21957218 TTTTTG TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTTTAA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
21957266 TTTT
1 TTTT
21957270 ATTATTTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:21960211 original size:13 final size:13
Alignment explanation
Indices: 21960189--21960221 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
21960179 TTGCTTTAGT
21960189 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
21960201 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
21960214 TTAGTTTA
1 TTAGTTTA
21960222 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:21969893 original size:60 final size:60
Alignment explanation
Indices: 21969826--21969945 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
21969816 ATCCAGCTAT
* * * *
21969826 TATCAGTTGCGAGTTGAGGAGTCGGGCGTGCCTAAGACAGCTTTCGGAATGAGGTATGGC
1 TATCAGTTGCGAGTTAAAGAGTCGGGCATGCCTAAGACAGCTTTCAGAATGAGGTATGGC
21969886 TATCAGTTGCGAGTTAAAGAGTCGGGCATGCCTAAGACAGCTTTCAGAATGAGGTATGGC
1 TATCAGTTGCGAGTTAAAGAGTCGGGCATGCCTAAGACAGCTTTCAGAATGAGGTATGGC
21969946 CACTATGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (60 bp):
TATCAGTTGCGAGTTAAAGAGTCGGGCATGCCTAAGACAGCTTTCAGAATGAGGTATGGC
Found at i:21986944 original size:23 final size:23
Alignment explanation
Indices: 21986917--21986970 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
21986907 TGTTCTTAAG
21986917 CACACAGACATGTGCTTTGCCTC
1 CACACAGACATGTGCTTTGCCTC
* * * *
21986940 TACACGGGCGTGTGCTTTGCCTC
1 CACACAGACATGTGCTTTGCCTC
21986963 CACACAGA
1 CACACAGA
21986971 AGTGTGAGGC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.24
Consensus pattern (23 bp):
CACACAGACATGTGCTTTGCCTC
Found at i:21992557 original size:75 final size:75
Alignment explanation
Indices: 21992434--21992578 Score: 272
Period size: 75 Copynumber: 1.9 Consensus size: 75
21992424 AATTACCATG
*
21992434 TTAGAGTGTTTGGTATTTAAGTAGTATTAATTGTTAACTAAGAAATGTAATAATGTGTTGTACTT
1 TTAGAGTGTTTGGTATTTAAGTAGTATAAATTGTTAACTAAGAAATGTAATAATGTGTTGTACTT
21992499 TTTTTATAAA
66 TTTTTATAAA
*
21992509 TTAGAGTGTTTGGTATTTAAGTAGTGTAAATTGTTAACTAAGAAATGTAATAATGTGTTGTACTT
1 TTAGAGTGTTTGGTATTTAAGTAGTATAAATTGTTAACTAAGAAATGTAATAATGTGTTGTACTT
21992574 TTTTT
66 TTTTT
21992579 TTTATAAATT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.47
Consensus pattern (75 bp):
TTAGAGTGTTTGGTATTTAAGTAGTATAAATTGTTAACTAAGAAATGTAATAATGTGTTGTACTT
TTTTTATAAA
Found at i:21993688 original size:26 final size:26
Alignment explanation
Indices: 21993657--21993706 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
21993647 TCTGATTAGA
21993657 ATTTTCATATTTTCAAAACATATATC
1 ATTTTCATATTTTCAAAACATATATC
*
21993683 ATTTTCATATTTTCAGAACATATA
1 ATTTTCATATTTTCAAAACATATA
21993707 GCATATCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTTTCATATTTTCAAAACATATATC
Found at i:21995684 original size:40 final size:40
Alignment explanation
Indices: 21995622--21995879 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
21995612 AAGCCAAGTA
* * * * *
21995622 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
21995661 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21995701 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21995741 CCTTTGGGACTTAGCCCGGAAATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21995781 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
21995821 CCTTCGGGACATAGCCCGGGA-CTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCC-GGATATAGTAACTCGCACAAATG
21995861 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21995880 TTATCATCCA
Statistics
Matches: 194, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 14 0.07
40 177 0.91
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:22003842 original size:40 final size:40
Alignment explanation
Indices: 22003780--22003997 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
22003770 AAGCCAAGTA
* * * * *
22003780 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
22003819 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
22003859 CCTTCGGGACTTACCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
22003899 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
22003939 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
22003979 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
22003998 TTATCATCCA
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.08
40 150 0.92
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:22009181 original size:23 final size:23
Alignment explanation
Indices: 22009155--22009203 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
22009145 AATTACAAAA
*
22009155 TCCTAC-CCAACCAGCCTCTACAC
1 TCCTACTCCAACCAACC-CTACAC
* *
22009178 TCCTTCTCCATCCAACCCTACAC
1 TCCTACTCCAACCAACCCTACAC
22009201 TCC
1 TCC
22009204 ATGTAGGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.22, C:0.53, G:0.02, T:0.22
Consensus pattern (23 bp):
TCCTACTCCAACCAACCCTACAC
Found at i:22012142 original size:46 final size:45
Alignment explanation
Indices: 22012092--22012258 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 45
22012082 TTGAGCATCC
22012092 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
* * * *
22012138 AACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAGTCCG
*
22012184 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*
22012229 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
22012259 GGGGCAGGTT
Statistics
Matches: 103, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 34 0.33
46 60 0.58
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:22019719 original size:46 final size:46
Alignment explanation
Indices: 22019669--22019837 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
22019659 TGAGCATCCA
* *
22019669 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * * *
22019715 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* *
22019762 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
*
22019808 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
22019838 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 57 0.56
47 29 0.29
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:22019821 original size:93 final size:93
Alignment explanation
Indices: 22019662--22019832 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
22019652 GGATGGTTGA
* * *
22019662 GCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGGCCGAACTCGTTGAGT
22019727 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
22019755 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGGCCGAACTCGTTGAGT
22019820 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
22019833 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGGCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:22021716 original size:17 final size:18
Alignment explanation
Indices: 22021684--22021718 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22021674 CCGCGTTGTT
22021684 CACCCGTATGGGCCCACA
1 CACCCGTATGGGCCCACA
*
22021702 CACCCGTGT-GGCCCACA
1 CACCCGTATGGGCCCACA
22021719 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.46, G:0.23, T:0.11
Consensus pattern (18 bp):
CACCCGTATGGGCCCACA
Found at i:22035597 original size:40 final size:40
Alignment explanation
Indices: 22035325--22035590 Score: 317
Period size: 40 Copynumber: 6.7 Consensus size: 40
22035315 TTGAATGATG
* * * *
22035325 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
22035365 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22035405 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** * * *
22035445 TCCGAACTAAGAT-CTGAAGGCATTTATGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22035485 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22035525 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22035566 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22035591 AACGAGTAGC
Statistics
Matches: 203, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
39 1 0.00
40 192 0.95
41 10 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22042516 original size:80 final size:80
Alignment explanation
Indices: 22042383--22042648 Score: 360
Period size: 80 Copynumber: 3.3 Consensus size: 80
22042373 TTGAATGATG
* * * *
22042383 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
22042447 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* *
22042463 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAATCCGGACTAAGATCTGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGTGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
*
22042527 TATGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* * **
22042543 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATT
22042607 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
*
22042624 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22042649 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
79 3 0.02
80 153 0.93
81 9 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:22042655 original size:40 final size:40
Alignment explanation
Indices: 22042383--22042648 Score: 326
Period size: 40 Copynumber: 6.7 Consensus size: 40
22042373 TTGAATGATG
* * * *
22042383 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
22042423 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22042463 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
22042503 TCCGGACTAAGAT-CTGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22042543 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22042583 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22042624 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22042649 AACGAGTAGC
Statistics
Matches: 205, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
39 1 0.00
40 194 0.95
41 10 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22042655 original size:80 final size:79
Alignment explanation
Indices: 22042383--22042681 Score: 338
Period size: 80 Copynumber: 3.7 Consensus size: 79
22042373 TTGAATGATG
* * * * **
22042383 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAA-ATCCGAAGGCATT
22042447 TGTGCGAGTTACTAAA
64 TGTGCGAGTTACTAAA
* * ** *
22042463 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAATCCGGACTAAGATCTGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAA-ATCCGAAGGCATT
*
22042527 TATGCGAGTTACTAAA
64 TGTGCGAGTTACTAAA
*
22042543 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAAT-CCGAAGGCATTT
22042608 GTGCGAGTTACTATAA
65 GTGCGAGTTACTA-AA
* ** *
22042624 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAA-TCCGAAGG
22042682 TACGTGATTT
Statistics
Matches: 192, Mismatches: 20, Indels: 15
0.85 0.09 0.07
Matches are distributed among these distances:
79 19 0.10
80 164 0.85
81 9 0.05
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:22042655 original size:120 final size:119
Alignment explanation
Indices: 22042436--22042681 Score: 313
Period size: 120 Copynumber: 2.1 Consensus size: 119
22042426 GGACTAAGAT
*
22042436 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
* * *
22042501 AATCCGGACTAAGATCTGAAGGCATTTATGCGAGTTA-CTAAATCCGGGTTAAGTC
66 AATCCGGACTAAGATCCGAAGGCATTTATACGAG-TAGCTAAATCC-GGTTAAATC
**
22042556 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
* * * *
22042620 ATAA-CCGGGCTATG-TCCCGAAGGCATTTGA-ACGAGTAGCTATATCCGGTTAAATT
65 A-AATCCGGACTAAGAT-CCGAAGGCATTT-ATACGAGTAGCTAAATCCGGTTAAATC
22042675 CCGAAGG
1 CCGAAGG
22042682 TACGTGATTT
Statistics
Matches: 111, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
119 19 0.17
120 89 0.80
121 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (119 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
AATCCGGACTAAGATCCGAAGGCATTTATACGAGTAGCTAAATCCGGTTAAATC
Found at i:22046403 original size:16 final size:16
Alignment explanation
Indices: 22046384--22046415 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22046374 AATTGTTTTA
22046384 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
22046400 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
22046416 ACTTCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:22050464 original size:22 final size:23
Alignment explanation
Indices: 22050439--22050484 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
22050429 CAACCAAACC
22050439 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
22050461 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
22050484 A
1 A
22050485 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:22050490 original size:23 final size:23
Alignment explanation
Indices: 22050446--22050490 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22050436 ACCAATTCAA
*
22050446 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
22050469 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
22050491 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:22054711 original size:27 final size:27
Alignment explanation
Indices: 22054670--22054744 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
22054660 CTTTGTGGTA
* *
22054670 AAATGACTGTATTGCCCCTGTATA-G-T
1 AAATGACTATTTTGCCCCT-TATATGCT
22054696 AGAATGACTATTTTG-CCCTTATATGCT
1 A-AATGACTATTTTGCCCCTTATATGCT
22054723 AAGATGACTATTTTG-CCCTTAT
1 AA-ATGACTATTTTGCCCCTTAT
22054745 GTGATGTATG
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 4 0.09
26 7 0.16
27 32 0.74
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.39
Consensus pattern (27 bp):
AAATGACTATTTTGCCCCTTATATGCT
Found at i:22055086 original size:19 final size:19
Alignment explanation
Indices: 22055062--22055103 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
22055052 TGGGTAGGAC
22055062 CTGCATACTACACTAATTA
1 CTGCATACTACACTAATTA
* *
22055081 CTGCATACTGCACTATTTA
1 CTGCATACTACACTAATTA
22055100 CTGC
1 CTGC
22055104 TACAGTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (19 bp):
CTGCATACTACACTAATTA
Found at i:22060691 original size:24 final size:24
Alignment explanation
Indices: 22060664--22060743 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
22060654 TTCCTGTTAA
*
22060664 TGGCTCTCTAGAGCTTCCCGATAT
1 TGGCTCTCTAGAGCTTCCCAATAT
* * * *
22060688 TGGCTCGCTTGAACCTTCCCAACAT
1 TGGCTCTCTAG-AGCTTCCCAATAT
* *
22060713 TGGCTC-ATATGAGCTTCCCAATAA
1 TGGCTCTCTA-GAGCTTCCCAATAT
22060737 TGGCTCT
1 TGGCTCT
22060744 TCGGAGCTTC
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
24 26 0.60
25 17 0.40
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.31
Consensus pattern (24 bp):
TGGCTCTCTAGAGCTTCCCAATAT
Found at i:22060750 original size:24 final size:24
Alignment explanation
Indices: 22060612--22060755 Score: 67
Period size: 24 Copynumber: 5.8 Consensus size: 24
22060602 GTCCTGATAT
22060612 ATGGCTCTTCGTGAGCTTCCCAATTA
1 ATGGCTCTTCG-GAGCTTCCCAA-TA
* *** ***
22060638 AAGGCTCTTATTAAGCTTCCTGTTA
1 ATGGCTCTT-CGGAGCTTCCCAATA
* *
22060663 ATGGCTC-TCTAGAGCTTCCCGATA
1 ATGGCTCTTC-GGAGCTTCCCAATA
* * * *
22060687 TTGGCTCGCTT-GAACCTTCCCAACA
1 ATGGCT--CTTCGGAGCTTCCCAATA
* * **
22060712 TTGGCTCATATGAGCTTCCCAATA
1 ATGGCTCTTCGGAGCTTCCCAATA
22060736 ATGGCTCTTCGGAGCTTCCC
1 ATGGCTCTTCGGAGCTTCCC
22060756 GTTATATGGC
Statistics
Matches: 84, Mismatches: 28, Indels: 14
0.67 0.22 0.11
Matches are distributed among these distances:
23 2 0.02
24 42 0.50
25 23 0.27
26 16 0.19
27 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (24 bp):
ATGGCTCTTCGGAGCTTCCCAATA
Found at i:22061532 original size:22 final size:22
Alignment explanation
Indices: 22061504--22061549 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
22061494 GCTTGAATTA
* *
22061504 ATTGTCTTGTATTGTTTTGTTT
1 ATTGTCTTGTATTCTTTTATTT
22061526 ATTGTCTTGTATTCTTTTATTT
1 ATTGTCTTGTATTCTTTTATTT
22061548 AT
1 AT
22061550 GTGTTAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.07, G:0.13, T:0.67
Consensus pattern (22 bp):
ATTGTCTTGTATTCTTTTATTT
Found at i:22072522 original size:50 final size:50
Alignment explanation
Indices: 22072458--22072800 Score: 327
Period size: 50 Copynumber: 6.8 Consensus size: 50
22072448 AACAATCCGG
* * *
22072458 TACATGTAGTAGCCTGCACTTAGTCCTACACACGTGACCTAACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA
* * * * *
22072508 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CTATCTGA
* * * * * * *
22072559 TACGCATAGTATCTTGCACTTAGTACTACACATGCGA-CTAACTATCTGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA
* * * * *
22072608 TACATGTAGTAGCCTGCACATAGTACTTCACACATGACCTAACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA
* * *
22072658 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCATGTA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CTATC-TG-A
* * * * * *
22072711 TGCA--TAGTAGACTGCACTTAGTACAACACATGCGACCTAACTATCTGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA
*
22072759 TACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
22072801 AACCATGTTA
Statistics
Matches: 231, Mismatches: 52, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
48 3 0.01
49 36 0.16
50 119 0.52
51 66 0.29
52 3 0.01
53 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA
Found at i:22072640 original size:150 final size:149
Alignment explanation
Indices: 22072407--22072838 Score: 594
Period size: 150 Copynumber: 2.9 Consensus size: 149
22072397 GAAGCTATCT
* * * * * * * * *
22072407 GGTACGCATAGTAGCCTGAAGTTCGTAATACACATGCAACCAACAATCCGGTACATGTAGTAGCC
1 GGTACGCATAGTA-ACTGCACTTAGTACTACACATGCGACTAACTATCTGGTACATGTAGTAGCC
*
22072472 TGCACTTAGTCCTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
65 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
*
22072537 ACACGTGATTGAAGTTGTCG
130 ACACGTGATTGAAGTTGTCA
*
22072557 GGTACGCATAGTATCTTGCACTTAGTACTACACATGCGACTAACTATCTGGTACATGTAGTAGCC
1 GGTACGCATAGTAAC-TGCACTTAGTACTACACATGCGACTAACTATCTGGTACATGTAGTAGCC
* * *
22072622 TGCACATAGTACTTCACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
65 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
22072687 ACACGTGATTGAAGTTGTCA
130 ACACGTGATTGAAGTTGTCA
* * *
22072707 TGTATGCATAGTAGACTGCACTTAGTACAACACATGCGACCTAACTATCTGGTACATGTAGTAGC
1 GGTACGCATAGTA-ACTGCACTTAGTACTACACATGCGA-CTAACTATCTGGTACATGTAGTAGC
* * * * * *
22072772 CTGCACTTAGTACTACACACGTGACCTAAAACCATGTTAAACACATAGTATCCTGCACATAGTAC
64 CTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
22072837 TA
127 TA
22072839 TACATGTGTT
Statistics
Matches: 250, Mismatches: 27, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
149 1 0.00
150 167 0.67
151 50 0.20
153 32 0.13
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (149 bp):
GGTACGCATAGTAACTGCACTTAGTACTACACATGCGACTAACTATCTGGTACATGTAGTAGCCT
GCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACA
CACGTGATTGAAGTTGTCA
Found at i:22094614 original size:23 final size:21
Alignment explanation
Indices: 22094561--22094614 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
22094551 AAAGGAAATT
* *
22094561 AAAGAAGGAAGAGATGAGATA
1 AAAGAAGAAAGAAATGAGATA
22094582 AAAGAAAAGAAAGAAATGAAGAGTA
1 AAAG--AAGAAAGAAATG-AGA-TA
22094607 AAAGAAGA
1 AAAGAAGA
22094615 TAATTTCGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 4 0.15
23 14 0.52
24 3 0.11
25 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.28, T:0.07
Consensus pattern (21 bp):
AAAGAAGAAAGAAATGAGATA
Found at i:22099556 original size:64 final size:64
Alignment explanation
Indices: 22099476--22099659 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
22099466 AGACATTATG
* * *
22099476 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
22099540 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAAAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
22099605 AA
63 AA
* * *
22099607 AT-TGGCTAGGTCACATGGGTGGTACTAAT-TGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
22099660 CAAAATTATG
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 24 0.25
65 1 0.01
66 21 0.22
67 32 0.33
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:22112239 original size:32 final size:32
Alignment explanation
Indices: 22112202--22112265 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
22112192 AAGAGAGAAA
22112202 ACCAAGAAGTGACCAAAAATCCCTTGATTTTC
1 ACCAAGAAGTGACCAAAAATCCCTTGATTTTC
* **
22112234 ACCAAGATGTGACTGAAAATCCCTTGATTTTC
1 ACCAAGAAGTGACCAAAAATCCCTTGATTTTC
22112266 TCCCACTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (32 bp):
ACCAAGAAGTGACCAAAAATCCCTTGATTTTC
Found at i:22113162 original size:16 final size:16
Alignment explanation
Indices: 22113141--22113199 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
22113131 AATGCCATTA
22113141 TTCTAAATAATAGTTG
1 TTCTAAATAATAGTTG
*
22113157 TTCTAAACT-TTAGTTG
1 TTCTAAA-TAATAGTTG
* **
22113173 TTCTCAATAGGAGTTG
1 TTCTAAATAATAGTTG
22113189 TTCTCAAATAA
1 TTCT-AAATAA
22113200 CAACACTGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.82
17 5 0.15
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (16 bp):
TTCTAAATAATAGTTG
Found at i:22117774 original size:3 final size:3
Alignment explanation
Indices: 22117766--22117809 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
22117756 ACTTTGAGGA
*
22117766 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
22117810 CATTAACTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.02, C:0.00, G:0.30, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:22120301 original size:25 final size:25
Alignment explanation
Indices: 22120273--22120321 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
22120263 CTTATAATCA
* *
22120273 AAAAATGACTATTTTACCCCTAGGT
1 AAAAATGACCATTGTACCCCTAGGT
22120298 AAAAATGACCATTGTACCCCTAGG
1 AAAAATGACCATTGTACCCCTAGG
22120322 GTTTAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTGTACCCCTAGGT
Found at i:22120470 original size:25 final size:25
Alignment explanation
Indices: 22120434--22120528 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
22120424 GAGGAAGTGC
*
22120434 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
22120459 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
22120484 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
22120509 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
22120529 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Done.