Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 98 of 135
Found at i:33582931 original size:14 final size:14
Alignment explanation
Indices: 33582912--33582938 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33582902 CGGATAAATG
33582912 GAAGGAAGGAACAT
1 GAAGGAAGGAACAT
33582926 GAAGGAAGGAACA
1 GAAGGAAGGAACA
33582939 ATTCAAATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.37, T:0.04
Consensus pattern (14 bp):
GAAGGAAGGAACAT
Found at i:33591327 original size:4 final size:4
Alignment explanation
Indices: 33591318--33591368 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
33591308 AGACTAGTGT
33591318 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
33591366 TTT
1 TTT
33591369 TTTGGTTCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:33600492 original size:193 final size:192
Alignment explanation
Indices: 33600163--33600548 Score: 727
Period size: 193 Copynumber: 2.0 Consensus size: 192
33600153 GTAAAATTTT
*
33600163 TTAGCCCGGCCAGACCCGAATCACATGGCTAATTCCCTAATAGCGCTTAGTCTCTATTAGACCTG
1 TTAGCCCGGCCAGACCCGAATCACATGGCTAATTCCCTAATAGCCCTTAGTCTCTATTAGACCTG
*
33600228 ATCATAAGCCGGGTCACCCGTCCAAGCCTCAAAGCCTACTCGAAAAGTGAGAGGGTTTAAGCAAA
66 ATCATAAGCCGGGTCACCCGTCCAAGCCTCAAAGCCTACTCGAAAAGTAAGAGGGTTTAAGCAAA
33600293 AATATAGGCCCAAAAAATGGGCTTCGACAAAAAATGAGGCCCATTTCCTAAACAGATAGAGTC
131 AATATAGGCCCAAAAAA-GGGCTTCGACAAAAAATGAGGCCCATTTCCTAAACAGATAGAGTC
33600356 TTAGCCCGGCCAGACCCGAATCACATGGCTAATTCCCTAATAGCCCTTAGTCTCTATTAGACCTG
1 TTAGCCCGGCCAGACCCGAATCACATGGCTAATTCCCTAATAGCCCTTAGTCTCTATTAGACCTG
*
33600421 ATCATAAGCCGGGTCATCCGTCCAAGCCTCAAAGCCTACTCGAAAAGTAAGAGGGTTTAAGCAAA
66 ATCATAAGCCGGGTCACCCGTCCAAGCCTCAAAGCCTACTCGAAAAGTAAGAGGGTTTAAGCAAA
*
33600486 AATATAGGCCCAAAAAAGGGCTTCGACAAAAAATGAGGCCCATTTCCTAAACAGATCGAGTC
131 AATATAGGCCCAAAAAAGGGCTTCGACAAAAAATGAGGCCCATTTCCTAAACAGATAGAGTC
33600548 T
1 T
33600549 CGGGTAAGAT
Statistics
Matches: 189, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
192 45 0.24
193 144 0.76
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (192 bp):
TTAGCCCGGCCAGACCCGAATCACATGGCTAATTCCCTAATAGCCCTTAGTCTCTATTAGACCTG
ATCATAAGCCGGGTCACCCGTCCAAGCCTCAAAGCCTACTCGAAAAGTAAGAGGGTTTAAGCAAA
AATATAGGCCCAAAAAAGGGCTTCGACAAAAAATGAGGCCCATTTCCTAAACAGATAGAGTC
Found at i:33606054 original size:30 final size:28
Alignment explanation
Indices: 33606018--33606073 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
33606008 AAGATTCTTT
33606018 CTTTTTCATTTATACTCATTTTCTTTTTTG
1 CTTTTTCA-TTATACTCATTTT-TTTTTTG
* *
33606048 CTTTTTCATTATTCTCCTTTTTTTTT
1 CTTTTTCATTATACTCATTTTTTTTT
33606074 GGCTAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 11 0.46
30 8 0.33
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.70
Consensus pattern (28 bp):
CTTTTTCATTATACTCATTTTTTTTTTG
Found at i:33616225 original size:20 final size:19
Alignment explanation
Indices: 33616195--33616237 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
33616185 TACATATATA
33616195 TTTTCTTCTTTTTATCATT
1 TTTTCTTCTTTTTATCATT
* *
33616214 TTTTCTTTCTTTTTCTCCTT
1 TTTTC-TTCTTTTTATCATT
33616234 TTTT
1 TTTT
33616238 ATGCGACTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTCTTCTTTTTATCATT
Found at i:33617300 original size:15 final size:14
Alignment explanation
Indices: 33617262--33617306 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 14
33617252 CACAAAAGCT
*
33617262 TCTTCATTTTCTT-
1 TCTTCCTTTTCTTC
33617275 T-TTCCTTTTCTTC
1 TCTTCCTTTTCTTC
33617288 TCTTCCTTCTTCTTC
1 TCTTCCTT-TTCTTC
33617303 TCTT
1 TCTT
33617307 TTCACTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 10 0.36
13 2 0.07
14 6 0.21
15 10 0.36
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (14 bp):
TCTTCCTTTTCTTC
Found at i:33623130 original size:60 final size:59
Alignment explanation
Indices: 33623016--33623185 Score: 169
Period size: 52 Copynumber: 3.0 Consensus size: 59
33623006 TTCCAATTCG
* * * * *
33623016 CATTTGATACTCATGATGACACAGAGTCGTTGGACCT-TTAATCTGTAATGGGATTCATTT
1 CATTT-ATACTCATGATGACACATAGTCATCGGACCTCTTAATCCGTAA-AGGATTCATTT
*
33623076 CATTTAATACTCATGATGACACATAGTCATCGAACCTCTTAATCCGTAAAGG----A-TT
1 CATTT-ATACTCATGATGACACATAGTCATCGGACCTCTTAATCCGTAAAGGATTCATTT
* *
33623131 CA--TATACTCATGATG-CAACATAGTCATCGGATCTCATAATCCGTAAAGGATTCAT
1 CATTTATACTCATGATGAC-ACATAGTCATCGGACCTCTTAATCCGTAAAGGATTCAT
33623186 ACACTCATAA
Statistics
Matches: 93, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
51 1 0.01
52 41 0.44
53 1 0.01
55 4 0.04
56 2 0.02
60 34 0.37
61 10 0.11
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (59 bp):
CATTTATACTCATGATGACACATAGTCATCGGACCTCTTAATCCGTAAAGGATTCATTT
Found at i:33623155 original size:52 final size:52
Alignment explanation
Indices: 33623082--33623268 Score: 268
Period size: 52 Copynumber: 3.6 Consensus size: 52
33623072 ATTTCATTTA
* *
33623082 ATACTCATGATGACACATAGTCATCGAACCTCTTAATCCGTAAAGGATTCAT
1 ATACTCATGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
33623134 ATACTCATGATG-CAACATAGTCATCGGATCTCATAATCCGTAAAGGATTCAT
1 ATACTCATGATGAC-ACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * * * *
33623186 ACACTCATAATGACACATAGTTATCGGACCTCAAAACCCGTAAAAGATTCAT
1 ATACTCATGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
33623238 ATACTCATGATGACACATAGTCATTGGACCT
1 ATACTCATGATGACACATAGTCATCGGACCT
33623269 TTTTCATTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
51 1 0.01
52 117 0.98
53 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (52 bp):
ATACTCATGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:33623537 original size:12 final size:12
Alignment explanation
Indices: 33623520--33623544 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33623510 AATTTCTCAC
33623520 ATTAAATCATTT
1 ATTAAATCATTT
33623532 ATTAAATCATTT
1 ATTAAATCATTT
33623544 A
1 A
33623545 AAACAATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTAAATCATTT
Found at i:33625557 original size:13 final size:13
Alignment explanation
Indices: 33625539--33625563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33625529 CCCATTTTAT
33625539 CATTTTTAGCATG
1 CATTTTTAGCATG
33625552 CATTTTTAGCAT
1 CATTTTTAGCAT
33625564 TTTTAACTTA
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:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Found at i:33634055 original size:53 final size:53
Alignment explanation
Indices: 33633936--33634223 Score: 321
Period size: 53 Copynumber: 5.6 Consensus size: 53
33633926 TTCACATTTG
* * *
33633936 ATAACTCACGATGACACAGAGTCATCAGCCCTTTTAATCCGTAATAGGATTTAT
1 ATAACTCACGATGACACAGAGTCATCGGACC-TTTAATCCGTAATAGGATTCAT
* * *
33633990 AT-ACTTACGATGACAAAGAGTCATCAGACCTTTAATCCGTAATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * *
33634042 ATAACTCATGATGACAC--AGTCATCGGACCTTTAATTCGTAATAGGAATCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
*
33634093 ATAACTCACAATGACACAGAGTCATCGG---------CCGTAATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * * **
33634137 ATAGCTTATGATGACACAGAGTCATCGGACCTTTAATTTGTAATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * *
33634190 CTAACTCACGATGACATAGAGTTATCGGACCTTT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTT
33634224 TTGCATTTAC
Statistics
Matches: 196, Mismatches: 26, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
44 38 0.19
51 46 0.23
52 23 0.12
53 87 0.44
54 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (53 bp):
ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
Found at i:33634151 original size:44 final size:44
Alignment explanation
Indices: 33634078--33634164 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
33634068 ACCTTTAATT
33634078 CGTAATAGGAATCATATAACTCACAATGACACAGAGTCATCGGC
1 CGTAATAGGAATCATATAACTCACAATGACACAGAGTCATCGGC
* * * **
33634122 CGTAATAGGATTCATATAGCTTATGATGACACAGAGTCATCGG
1 CGTAATAGGAATCATATAACTCACAATGACACAGAGTCATCGG
33634165 ACCTTTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (44 bp):
CGTAATAGGAATCATATAACTCACAATGACACAGAGTCATCGGC
Found at i:33634195 original size:97 final size:95
Alignment explanation
Indices: 33634026--33634217 Score: 294
Period size: 97 Copynumber: 2.0 Consensus size: 95
33634016 GACCTTTAAT
33634026 CCGTAATAGGATTCATATAACTCATGATGACACAGTCATCGGACCTTTAATTCGTAATAGGAATC
1 CCGTAATAGGATTCATATAACTCATGATGACACAGTCATCGGACCTTTAATTCGTAATAGGAATC
33634091 ATATAACTCACAATGACACAGAGTCATCGG
66 ATATAACTCACAATGACACAGAGTCATCGG
* * * *
33634121 CCGTAATAGGATTCATATAGCTTATGATGACACAGAGTCATCGGACCTTTAATTTGTAATAGGAT
1 CCGTAATAGGATTCATATAACTCATGATGACAC--AGTCATCGGACCTTTAATTCGTAATAGGAA
* * * *
33634186 TCATCTAACTCACGATGACATAGAGTTATCGG
64 TCATATAACTCACAATGACACAGAGTCATCGG
33634218 ACCTTTTTGC
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 31 0.36
97 56 0.64
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (95 bp):
CCGTAATAGGATTCATATAACTCATGATGACACAGTCATCGGACCTTTAATTCGTAATAGGAATC
ATATAACTCACAATGACACAGAGTCATCGG
Found at i:33642667 original size:23 final size:22
Alignment explanation
Indices: 33642632--33642679 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
33642622 TCAGTAACAC
* *
33642632 TAATTTAATAAATAATAATGAAT
1 TAATTAAAGAAATAATAAT-AAT
*
33642655 TAATTAAAGAAATAATTATAAT
1 TAATTAAAGAAATAATAATAAT
33642677 TAA
1 TAA
33642680 CTAAGGTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
TAATTAAAGAAATAATAATAAT
Found at i:33657962 original size:24 final size:25
Alignment explanation
Indices: 33657932--33657983 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
33657922 ATTAATTCAA
33657932 TTTATATTACATTTGCACTGAC-AT
1 TTTATATTACATTTGCACTGACAAT
* *
33657956 TTTATATTACTTTTTCACTGACAAT
1 TTTATATTACATTTGCACTGACAAT
33657981 TTT
1 TTT
33657984 TACTCTTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTATATTACATTTGCACTGACAAT
Found at i:33687113 original size:12 final size:12
Alignment explanation
Indices: 33687096--33687136 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
33687086 TAGGTTCTAT
33687096 TTCTTCTTTCTC
1 TTCTTCTTTCTC
33687108 TTCTTCCTTTC-C
1 TTCTT-CTTTCTC
33687120 TTCTTC-TTCTTC
1 TTCTTCTTTC-TC
33687132 TTCTT
1 TTCTT
33687137 GATCCTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.12
11 1 0.04
12 17 0.65
13 5 0.19
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (12 bp):
TTCTTCTTTCTC
Found at i:33696567 original size:79 final size:79
Alignment explanation
Indices: 33696435--33696594 Score: 232
Period size: 79 Copynumber: 2.0 Consensus size: 79
33696425 TTGTTAAATT
* * *
33696435 CGATGTTAATATTCAAGTTCAGCTTAGCAGACTATGAGTCAGTGTTAATATTCAAGCTGCGGCTT
1 CGATGTTAATATTCAAGTTCAGCTTAGAAGACCATGAGTCAGTGTTAACATTCAAGCTGCGGCTT
33696500 AGCAAGCTATGAGC
66 AGCAAGCTATGAGC
* * * *
33696514 CGATGTTCATATTCAAGTTTCAGCTTCGAAGGCCATGAGTCAGTG-TAACATTCAAGCTTCGGCT
1 CGATGTTAATATTCAAG-TTCAGCTTAGAAGACCATGAGTCAGTGTTAACATTCAAGCTGCGGCT
*
33696578 TAGCAGGCTATGAGC
65 TAGCAAGCTATGAGC
33696593 CG
1 CG
33696595 GTGAATACGT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 49 0.68
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (79 bp):
CGATGTTAATATTCAAGTTCAGCTTAGAAGACCATGAGTCAGTGTTAACATTCAAGCTGCGGCTT
AGCAAGCTATGAGC
Found at i:33696591 original size:39 final size:40
Alignment explanation
Indices: 33696438--33696591 Score: 170
Period size: 40 Copynumber: 3.9 Consensus size: 40
33696428 TTAAATTCGA
*
33696438 TGTTAATATTCAAG-TTCAGCTTAGCAGACTATGAGTCAG
1 TGTTAATATTCAAGCTTCAGCTTAGCAGGCTATGAGTCAG
* * * *
33696477 TGTTAATATTCAAGCTGCGGCTTAGCAAGCTATGAG-CCG
1 TGTTAATATTCAAGCTTCAGCTTAGCAGGCTATGAGTCAG
* * * * *
33696516 ATGTTCATATTCAAGTTTCAGCTTCGAAGGCCATGAGTCAG
1 -TGTTAATATTCAAGCTTCAGCTTAGCAGGCTATGAGTCAG
* *
33696557 TG-TAACATTCAAGCTTCGGCTTAGCAGGCTATGAG
1 TGTTAATATTCAAGCTTCAGCTTAGCAGGCTATGAG
33696592 CCGGTGAATA
Statistics
Matches: 91, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
39 42 0.46
40 47 0.52
41 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (40 bp):
TGTTAATATTCAAGCTTCAGCTTAGCAGGCTATGAGTCAG
Found at i:33712306 original size:11 final size:11
Alignment explanation
Indices: 33712290--33712324 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
33712280 CATGCAAGTT
*
33712290 TTTATCGAAGA
1 TTTATCCAAGA
33712301 TTTATCCAAGA
1 TTTATCCAAGA
*
33712312 TTTCTCCAAGA
1 TTTATCCAAGA
33712323 TT
1 TT
33712325 GCAAAACCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (11 bp):
TTTATCCAAGA
Found at i:33720571 original size:2 final size:2
Alignment explanation
Indices: 33720564--33720597 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
33720554 ATATAATTAA
* *
33720564 AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33720598 GCATATGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33720598 original size:6 final size:6
Alignment explanation
Indices: 33720564--33720607 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
33720554 ATATAATTAA
* * * *
33720564 ATATAT ATATAT ATATAT ATATGT ATATGT ATATGC ATATGT AT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT AT
33720608 GCCTGTCTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:33723015 original size:44 final size:45
Alignment explanation
Indices: 33722967--33723057 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
33722957 TCAATTAAAG
*
33722967 GAATAAAAATTAAAG-AAAAAAGAAGAGAGAGAGTACAGATTATA
1 GAATAAAAATTAAAGAAAAAAAGAAAAGAGAGAGTACAGATTATA
33723011 GAATAAAAATTAAAGAAAAAAAGAAAAGAGAGAGTACAGATTATA
1 GAATAAAAATTAAAGAAAAAAAGAAAAGAGAGAGTACAGATTATA
33723056 GA
1 GA
33723058 GTAATAAAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 15 0.33
45 30 0.67
ACGTcount: A:0.63, C:0.02, G:0.20, T:0.15
Consensus pattern (45 bp):
GAATAAAAATTAAAGAAAAAAAGAAAAGAGAGAGTACAGATTATA
Found at i:33723575 original size:42 final size:42
Alignment explanation
Indices: 33723489--33723616 Score: 118
Period size: 42 Copynumber: 3.1 Consensus size: 42
33723479 TTAGTGACGT
* * **
33723489 TTTTCCCATAAACGCAAGTAATGCTCTTTA-CTTTTAGCACCG
1 TTTTCCCATAAACGCAACTATTGCTCTTTACCTTTT-GCGGCG
* *
33723531 TTTTCCCATAAACGCCACTATTGCTCTATACCTTTTGCGGCG
1 TTTTCCCATAAACGCAACTATTGCTCTTTACCTTTTGCGGCG
** * **
33723573 TTTTTCAAATAAACACTGCTATTG-T-TTTACCTTTTGCGGCG
1 -TTTTCCCATAAACGCAACTATTGCTCTTTACCTTTTGCGGCG
33723614 TTT
1 TTT
33723617 ATAGGAAAAC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 3 0.04
41 15 0.21
42 31 0.43
43 23 0.32
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (42 bp):
TTTTCCCATAAACGCAACTATTGCTCTTTACCTTTTGCGGCG
Found at i:33723616 original size:41 final size:41
Alignment explanation
Indices: 33723560--33723723 Score: 172
Period size: 41 Copynumber: 4.0 Consensus size: 41
33723550 ATTGCTCTAT
* * *
33723560 ACCTTTTGCGGCGTTTTTCAAATAAACACTGCTATTGTTTT
1 ACCTTTAGCGGCGTTTTTCAAATAAACACTGCTATTGCTTG
* * * *
33723601 ACCTTTTGCGGCGTTTAT-AGGA-AAACACCGCTATTGCTTG
1 ACCTTTAGCGGCGTTTTTCA-AATAAACACTGCTATTGCTTG
* **
33723641 ACCTTTAGCGGTGTTTTTCCCATAAACACTGCTATTGCTTG
1 ACCTTTAGCGGCGTTTTTCAAATAAACACTGCTATTGCTTG
* **
33723682 ACCTTTAGCAGCGTTTTTCCTATAAACA-TCGCTATTGCTTG
1 ACCTTTAGCGGCGTTTTTCAAATAAACACT-GCTATTGCTTG
33723723 A
1 A
33723724 TCTCTAATTT
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
40 33 0.31
41 72 0.69
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (41 bp):
ACCTTTAGCGGCGTTTTTCAAATAAACACTGCTATTGCTTG
Found at i:33725573 original size:41 final size:40
Alignment explanation
Indices: 33725406--33725609 Score: 203
Period size: 40 Copynumber: 5.1 Consensus size: 40
33725396 ATTAGCGGTA
* * * * * * *
33725406 TTTATGGGAAAGCGCCGCTATTACTTAACCTTTAGCGACG
1 TTTATGGAAAAACGCCGCTATTGCTTTACCTTTTGTGGCG
** * **
33725446 TTT-TCTAATAAACGCCACTATTGCTTTACCTTTTAAGGCG
1 TTTATGGAA-AAACGCCGCTATTGCTTTACCTTTTGTGGCG
* *
33725486 TTTACGTAAAAACGCCGCTATTGCTTTACCTTTTGTGGCG
1 TTTATGGAAAAACGCCGCTATTGCTTTACCTTTTGTGGCG
* *
33725526 TTTATGGAAAAACGCCGCTATTGTTTTACCTTTTTGTGGTG
1 TTTATGGAAAAACGCCGCTATTGCTTTACC-TTTTGTGGCG
** * *
33725567 TTTATGGAAAAACGCCGCTATTAATCTACTTTTTGTGGCG
1 TTTATGGAAAAACGCCGCTATTGCTTTACCTTTTGTGGCG
33725607 TTT
1 TTT
33725610 TCTGTCCAAA
Statistics
Matches: 136, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.01
40 96 0.71
41 38 0.28
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (40 bp):
TTTATGGAAAAACGCCGCTATTGCTTTACCTTTTGTGGCG
Found at i:33725608 original size:81 final size:80
Alignment explanation
Indices: 33725455--33725609 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 80
33725445 GTTTTCTAAT
* ** *
33725455 AAACGCCACTATTGCTTTACCTTTTAAGGCGTTTACGTAAAAACGCCGCTATTGCTTTACCTTTT
1 AAACGCCACTATTGCTTTACCTTTTAAGGCGTTTACGGAAAAACGCCGCTATTAATCTACCTTTT
33725520 GTGGCGTTTATGGAA
66 GTGGCGTTTATGGAA
* * ** * * *
33725535 AAACGCCGCTATTGTTTTACCTTTTTGTGGTGTTTATGGAAAAACGCCGCTATTAATCTACTTTT
1 AAACGCCACTATTGCTTTACC-TTTTAAGGCGTTTACGGAAAAACGCCGCTATTAATCTACCTTT
33725600 TGTGGCGTTT
65 TGTGGCGTTT
33725610 TCTGTCCAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 19 0.30
81 44 0.70
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (80 bp):
AAACGCCACTATTGCTTTACCTTTTAAGGCGTTTACGGAAAAACGCCGCTATTAATCTACCTTTT
GTGGCGTTTATGGAA
Found at i:33732477 original size:19 final size:17
Alignment explanation
Indices: 33732431--33732470 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
33732421 AAATTCTAGT
*
33732431 TTTTCTTTTT--TTCTT
1 TTTTCTTTTTCCTTCTC
33732446 TTTTCTTTTTCCTTCTC
1 TTTTCTTTTTCCTTCTC
33732463 TTTTCTTT
1 TTTTCTTT
33732471 CTCTCCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.45
17 12 0.55
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTTCCTTCTC
Found at i:33732668 original size:2 final size:2
Alignment explanation
Indices: 33732661--33732690 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33732651 TTTGGCTTTA
33732661 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33732691 TTCATTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33747163 original size:38 final size:38
Alignment explanation
Indices: 33747121--33747198 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
33747111 TAAAATTCTA
33747121 TGTTCCATTGGAAATCATTACTTAGGAAAAGCTCTTTG
1 TGTTCCATTGGAAATCATTACTTAGGAAAAGCTCTTTG
33747159 TGTTCCATTGGAAATCATTACTTAGGAAAAGCTCTTTG
1 TGTTCCATTGGAAATCATTACTTAGGAAAAGCTCTTTG
33747197 TG
1 TG
33747199 ATCTAGGAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (38 bp):
TGTTCCATTGGAAATCATTACTTAGGAAAAGCTCTTTG
Found at i:33750610 original size:20 final size:21
Alignment explanation
Indices: 33750585--33750623 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
33750575 TTTCTTTTTT
33750585 CTTCTCTTCTCT-TTCTTTGA
1 CTTCTCTTCTCTCTTCTTTGA
*
33750605 CTTCTCTTTTCTCTTCTTT
1 CTTCTCTTCTCTCTTCTTT
33750624 TGTAACACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.03, C:0.31, G:0.03, T:0.64
Consensus pattern (21 bp):
CTTCTCTTCTCTCTTCTTTGA
Found at i:33752408 original size:25 final size:25
Alignment explanation
Indices: 33752372--33752426 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
33752362 TTATTCTTGG
33752372 AGAAAACTAAAGA-AAACAAGTTAAA-
1 AGAAAACTAAAGACAAA-AAG-TAAAT
33752397 AGAAAA-TAAAAGACAAAAAGTAAAT
1 AGAAAACT-AAAGACAAAAAGTAAAT
33752422 AGAAA
1 AGAAA
33752427 GATTGTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 5 0.19
25 19 0.70
26 3 0.11
ACGTcount: A:0.71, C:0.05, G:0.13, T:0.11
Consensus pattern (25 bp):
AGAAAACTAAAGACAAAAAGTAAAT
Found at i:33766007 original size:13 final size:13
Alignment explanation
Indices: 33765989--33766013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33765979 CTCCTTATAT
33765989 CATTTTTAGCATG
1 CATTTTTAGCATG
33766002 CATTTTTAGCAT
1 CATTTTTAGCAT
33766014 TTTATATTTA
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:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Found at i:33775295 original size:67 final size:67
Alignment explanation
Indices: 33775183--33775322 Score: 210
Period size: 67 Copynumber: 2.1 Consensus size: 67
33775173 GAGGCGGTCA
* * *
33775183 GTAACCCCATGTTTAATGTCCTAGTGGACTCCACATGTTGTCATAGCCAAGCTAAGGTCTTACAC
1 GTAACCCCATGTTCAATGTCCTAGAGGACTCCACATGTTGTCATAGCCAAGCTAAGATCTTACAC
33775248 AT
66 AT
* * *
33775250 GTAACTCCATGTTCAATGTCCTAGAGGACTCCACATGTT-TCCATAGTCGAGCTAAGATCTTACA
1 GTAACCCCATGTTCAATGTCCTAGAGGACTCCACATGTTGT-CATAGCCAAGCTAAGATCTTACA
33775314 CAT
65 CAT
33775317 GTAACC
1 GTAACC
33775323 TATTTGAGGT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 1 0.02
67 64 0.98
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (67 bp):
GTAACCCCATGTTCAATGTCCTAGAGGACTCCACATGTTGTCATAGCCAAGCTAAGATCTTACAC
AT
Found at i:33778182 original size:31 final size:32
Alignment explanation
Indices: 33778111--33778217 Score: 110
Period size: 33 Copynumber: 3.3 Consensus size: 32
33778101 GGACTATATC
* * *
33778111 TGTGTTTACTGTCCCAGC-AGACTATTTATGTTT
1 TGTGTTTATTGTCCCAACGA-ACTATTT-TATTT
*
33778144 TGTGTTTATTGTCCCAACGAACTATTTT-TTA
1 TGTGTTTATTGTCCCAACGAACTATTTTATTT
* * *
33778175 TGTGTTTATTATCCCAACGGATTATCTTTATTT
1 TGTGTTTATTGTCCCAACGAACTAT-TTTATTT
33778208 TGTGTTTATT
1 TGTGTTTATT
33778218 ATCCTAGGGG
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
31 24 0.38
32 4 0.06
33 35 0.55
34 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (32 bp):
TGTGTTTATTGTCCCAACGAACTATTTTATTT
Found at i:33778218 original size:33 final size:33
Alignment explanation
Indices: 33778141--33778269 Score: 145
Period size: 33 Copynumber: 4.0 Consensus size: 33
33778131 ACTATTTATG
* *
33778141 TTTTGTGTTTATTGTCCCAACGAACTAT-TTT-
1 TTTTGTGTTTATTATCCCAACGGACTATCTTTA
* *
33778172 TTATGTGTTTATTATCCCAACGGATTATCTTTA
1 TTTTGTGTTTATTATCCCAACGGACTATCTTTA
* **
33778205 TTTTGTGTTTATTATCCTAGGGGACTATCTTTA
1 TTTTGTGTTTATTATCCCAACGGACTATCTTTA
* * * *
33778238 TTCTATGTTTACTATCCCAATGGACTATCTTT
1 TTTTGTGTTTATTATCCCAACGGACTATCTTT
33778270 GTGGATTCCA
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.30
32 3 0.04
33 54 0.67
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (33 bp):
TTTTGTGTTTATTATCCCAACGGACTATCTTTA
Found at i:33781771 original size:25 final size:25
Alignment explanation
Indices: 33781743--33781805 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
33781733 AAATTTAAAC
*
33781743 ATATTTAAATTTATTATTAATTATT
1 ATATTTAATTTTATTATTAATTATT
* *
33781768 ATATTTGATTTTATTATTAATTGTT
1 ATATTTAATTTTATTATTAATTATT
*
33781793 CTATTTAATTTTA
1 ATATTTAATTTTA
33781806 AAGATTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (25 bp):
ATATTTAATTTTATTATTAATTATT
Found at i:33786840 original size:1 final size:1
Alignment explanation
Indices: 33786834--33786858 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
33786824 CATTAAACAC
33786834 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
33786859 TCGAAATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:33787737 original size:26 final size:27
Alignment explanation
Indices: 33787683--33787738 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
33787673 CCCACTTAAA
*
33787683 TACCTAAACTTTTTTTTTCATTTTAGG
1 TACCTAAACTTTTTTTTTCATATTAGG
*
33787710 TACCTAATCTTTTTTTTTCATATT-GG
1 TACCTAAACTTTTTTTTTCATATTAGG
33787736 TAC
1 TAC
33787739 TTGTGTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.55
Consensus pattern (27 bp):
TACCTAAACTTTTTTTTTCATATTAGG
Found at i:33788270 original size:18 final size:18
Alignment explanation
Indices: 33788249--33788296 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
33788239 TTTTTGCTTT
*
33788249 AAAAATTCTTTTCATGTC
1 AAAAATTCTTTTCACGTC
*
33788267 AAAAGTAT-TTTTCACGTC
1 AAAAAT-TCTTTTCACGTC
*
33788285 AAAAATACTTTT
1 AAAAATTCTTTT
33788297 AAAAAATACT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (18 bp):
AAAAATTCTTTTCACGTC
Found at i:33790342 original size:60 final size:60
Alignment explanation
Indices: 33790255--33790391 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 60
33790245 TTTCGTTTAA
* * * * * *
33790255 TTTGGCCCCTAAAATTTTCTAAAATTATATTTTAACCCCAAAACTTT-TAGTAAATTACAT
1 TTTGACCCTTAAACTTTTCCAAAATTATATTTTAACCCCAAAACTTTCCA-AAAATTACAT
* *
33790315 TTTGACCCTTAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTCCAAAAATTACAT
1 TTTGACCCTTAAACTTTTCCAAAATTATATTTTAACCCCAAAACTTTCCAAAAATTACAT
* *
33790375 TTTTACCCTCAAACTTT
1 TTTGACCCTTAAACTTT
33790392 CTAAAACTCC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
60 65 0.98
61 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (60 bp):
TTTGACCCTTAAACTTTTCCAAAATTATATTTTAACCCCAAAACTTTCCAAAAATTACAT
Found at i:33790366 original size:29 final size:29
Alignment explanation
Indices: 33790261--33790406 Score: 141
Period size: 30 Copynumber: 4.9 Consensus size: 29
33790251 TTAATTTGGC
* * *
33790261 CCCTAAAATTTTCTAAAATTATATTTTAA
1 CCCTAAAACTTTCTAAAATTACATTTTGA
*
33790290 CCCCAAAACTTT-TAGTAAATTACATTTTGA
1 CCCTAAAACTTTCTA--AAATTACATTTTGA
* * *
33790320 CCCTTAAACTTTTCCAAAATTATATTTTGA
1 CCCTAAAAC-TTTCTAAAATTACATTTTGA
* *
33790350 CCCTAAAACTTTCCAAAAATTACATTTTTA
1 CCCTAAAACTTT-CTAAAATTACATTTTGA
* * *
33790380 CCCTCAAACTTTCTAAAACTCCATTTT
1 CCCTAAAACTTTCTAAAATTACATTTT
33790407 TAACCCTGAT
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.02
29 25 0.26
30 65 0.68
31 3 0.03
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (29 bp):
CCCTAAAACTTTCTAAAATTACATTTTGA
Found at i:33790413 original size:60 final size:59
Alignment explanation
Indices: 33790284--33790471 Score: 147
Period size: 59 Copynumber: 3.2 Consensus size: 59
33790274 TAAAATTATA
* * * * * *
33790284 TTTTAACCCCAAAACTTT-TAGTAAATTACATTTTGACCCTTAAACTTTTCCAAAAT-TAT
1 TTTTAACCCTAAAACTTTCCA-AAAATTACATTTTTACCCTCAAAC-TTTCCAAAATCCAT
* *
33790343 ATTTTGACCCTAAAACTTTCCAAAAATTACATTTTTACCCTCAAACTTTCTAAAACTCCAT
1 -TTTTAACCCTAAAACTTTCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAA-TCCAT
* *
33790404 TTTTAACCCT--GA-TTTCACCAAAAATTACCA-TTTTACCC-CTAAATTTTCCAAAATTCCAT
1 TTTTAACCCTAAAACTTT--CCAAAAATTA-CATTTTTACCCTC-AAACTTTCCAAAA-TCCAT
*
33790463 TTTTGACCC
1 TTTTAACCC
33790472 CGATTTCACC
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 50 0.47
60 49 0.46
61 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (59 bp):
TTTTAACCCTAAAACTTTCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAATCCAT
Found at i:33790426 original size:29 final size:29
Alignment explanation
Indices: 33790394--33790485 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 29
33790384 CAAACTTTCT
*
33790394 AAAACTCCATTTTTAACCCTGATTTCACC
1 AAAATTCCATTTTTAACCCTGATTTCACC
* * *
33790423 AAAAATTACCA-TTTTACCCCTAAATTT-TCC
1 -AAAATT-CCATTTTTAACCCT-GATTTCACC
* *
33790453 AAAATTCCATTTTTGACCCCGATTTCACC
1 AAAATTCCATTTTTAACCCTGATTTCACC
33790482 AAAA
1 AAAA
33790486 ATTACTATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
28 7 0.14
29 19 0.39
30 16 0.33
31 7 0.14
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTCCATTTTTAACCCTGATTTCACC
Found at i:33790438 original size:30 final size:30
Alignment explanation
Indices: 33790404--33790496 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 30
33790394 AAAACTCCAT
33790404 TTTTAACCCTGATTTCACCAAAAATTACCA
1 TTTTAACCCTGATTTCACCAAAAATTACCA
* * *
33790434 TTTTACCCCTAAATTT-TCC-AAAATT-CCA
1 TTTTAACCCT-GATTTCACCAAAAATTACCA
* * *
33790462 TTTTTGACCCCGATTTCACCAAAAATTACTA
1 -TTTTAACCCTGATTTCACCAAAAATTACCA
33790493 TTTT
1 TTTT
33790497 GCCCTCGAGT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
28 7 0.14
29 15 0.31
30 21 0.43
31 6 0.12
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (30 bp):
TTTTAACCCTGATTTCACCAAAAATTACCA
Found at i:33790438 original size:59 final size:60
Alignment explanation
Indices: 33790362--33790502 Score: 189
Period size: 59 Copynumber: 2.4 Consensus size: 60
33790352 CTAAAACTTT
* *
33790362 CCAAAAATTA-CATTTTTACCCTC-AAACTTTCTAAAACTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCA-TTTTACCCTCTAAACTTTCCAAAACTCCATTTTTAACCCCGATTTCA
* * *
33790421 CCAAAAATTACCATTTTACCC-CTAAATTTTCCAAAATTCCATTTTTGACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCTAAACTTTCCAAAACTCCATTTTTAACCCCGATTTCA
* *
33790480 CCAAAAATTACTATTTTGCCCTC
1 CCAAAAATTACCATTTTACCCTC
33790503 GAGTATCCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
58 1 0.01
59 68 0.94
60 3 0.04
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (60 bp):
CCAAAAATTACCATTTTACCCTCTAAACTTTCCAAAACTCCATTTTTAACCCCGATTTCA
Found at i:33790898 original size:96 final size:98
Alignment explanation
Indices: 33790730--33790913 Score: 239
Period size: 96 Copynumber: 1.9 Consensus size: 98
33790720 AAAATTTTAA
* * * * * * *
33790730 AATCGACGCAATATTTTTTTTATTTCGAGTTTTGAAACTTTGCGCCTTTAGCTTACTAGGTGCGA
1 AATCGACGCAATAGTTTTCTTATTTCGAGTTATGAAAATTTGCGCCTTTAACTCACTAGGTGCAA
**
33790795 TTTTTCTTCAAATCGAAATAATCGAATATCCTT
66 CCTTTCTTCAAATCGAAATAATCGAATATCCTT
*
33790828 AATCGAGGCAAT-GTTTTCTTATCTTCG-GTTATGAAAATTTGCGCC-TTAACTCACTAGGTGCA
1 AATCGACGCAATAGTTTTCTTAT-TTCGAGTTATGAAAATTTGCGCCTTTAACTCACTAGGTGCA
*
33790890 ACCTTTCTTCAAATCGAGATAATC
65 ACCTTTCTTCAAATCGAAATAATC
33790914 AAACACCCTT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
96 35 0.47
97 24 0.32
98 15 0.20
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (98 bp):
AATCGACGCAATAGTTTTCTTATTTCGAGTTATGAAAATTTGCGCCTTTAACTCACTAGGTGCAA
CCTTTCTTCAAATCGAAATAATCGAATATCCTT
Found at i:33795858 original size:26 final size:26
Alignment explanation
Indices: 33795828--33795880 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
33795818 ACTCACAAAT
**
33795828 ATAATGCAATGCATTCATACTCAAGC
1 ATAATGCAATGCACCCATACTCAAGC
33795854 ATAATGCAATGCACCCATACTCAAGC
1 ATAATGCAATGCACCCATACTCAAGC
33795880 A
1 A
33795881 CACCAACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (26 bp):
ATAATGCAATGCACCCATACTCAAGC
Found at i:33797809 original size:17 final size:18
Alignment explanation
Indices: 33797780--33797817 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
33797770 AACACAATGT
*
33797780 AATCACAAAGCATGATAC
1 AATCACAAAGCATAATAC
33797798 AATCAC-AAGCATAATAC
1 AATCACAAAGCATAATAC
33797815 AAT
1 AAT
33797818 GCACCCATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.53, C:0.21, G:0.08, T:0.18
Consensus pattern (18 bp):
AATCACAAAGCATAATAC
Found at i:33798124 original size:975 final size:978
Alignment explanation
Indices: 33795849--33798665 Score: 4226
Period size: 977 Copynumber: 2.9 Consensus size: 978
33795839 CATTCATACT
* * *
33795849 CAAGCATAATGCAATGCACCCATACTCAAGCACACCAACACAATGAAGTGGTTCCCCAGAACCCC
1 CAAGCATAATGCAATGCACCCATACTCCAGCACA-CAACACAGTGAAGAGGTTCCCCAGAACCCC
* *
33795914 TTCCCAACCAATCGCCACCAATCGCAGTGTGGTTTTACTATCAGCCGTTTGAAGGGGTGATAACC
65 TTCCCAACCAATCGTCACCAATCGCAGTGTGGTTTTACTATCAGCCATTTGAAGGGGTGATAA-C
* * *
33795979 ACGTCTTCCACCGTGCAATCCCAATCGATGAGCACACAATGGTATGATTTCACATTTTTCACAAT
129 ACGTCTTCCACCGTACAATCCCAACCCATGAGCACACAATGGTATGATTTCACATTTTTCACAAT
* * * *
33796044 CTCAGTCTTAATCTCAAGATGATATAAATTTATATCAAAGTTCTCAGTAAAATTATCAAATTATA
194 CTCAGTCTTAATCTCAAGATGATATAAATATATATCAGAGTTCTCAGTATAATTATCACATTATA
* *
33796109 TTAAATTAACCACATTCCAATGAACATACATGACAATATCAACATGCTTAAACATAGCTCAAATC
259 TTAAATTAACCACATTCCAATGAACATGCATGACAATATCAACATGCTTAAACACAGCTCAAATC
* * *
33796174 ATAATCATACCATTTTTTTGCAGCAGAGAATAATATCATACAAATATCATTTATCCAAATAAACA
324 ATAATCATACCATTTTTTTACAACACAGAATAATATCATACAAATATCATTTATCCAAATAAACA
* *
33796239 CATGATAACACATCACAAAACGTAATCATACAATAATATGTAATACAGTCAGAAACACTCCTCTA
389 CATGATAACACATCACAAAACGTAATCATACAATAAGATGTAATACAGTCAGAAACACACCTCTA
* * *
33796304 GAAAACTGAAGCTCTAATGACGAGGAGGTCGTCTACCACGTACTGATCTAGCACCGGATCTAATA
454 GGAAACTGAAGCTCTAATAACGAGGAGGTCGTCTACCACGTACTGATCTAGCACTGGATCTAATA
* * *
33796369 GGATTAGAACCTACAAACACAAATTCTACATCAGAAACTATTCTTAAGCCACCACTAAATATAGC
519 GGATTAGAACCTACAAACAAAAATTCTACATCAGAAAC-ATTCTTAAGCCACCACTAAATACAAC
** * * *
33796434 ACTAAACCGAAATAACTCACGTGTAACTCTCAAAGCTAGTGTAGGAGCAAGTTGCACAGGTGGAG
583 ACTAAACCGAAATAACTCACGTGTAACTCTCGGAGCTGGTGTAAGAGCAGGTTGCACAGGTGGAG
*
33796499 GAGGAGGTAAATCTTTAACCTCGGAGTCGTGATCATCTAAAACACACAATATCTCACATTAGATT
648 GAGGAGGTAAATCTTTGACCTCGGAGTCGTGATCATCTAAAACACACAATATCTCACATTAGATT
*
33796564 CCCAAATTACACCTCTTAATAACACCAAGTACAAAATTAAGAGTAAAACAACTAAAACGAGGCTT
713 CCCAAATTACACCTCTTAATAACACCAAGTACAAAATTAAGAGTAAAATAACTAAAACGAGGCTT
* ** ** * * *
33796629 CCAAGTTTGAATTTGATGAAATACACAGTGAAAACGGACCCAGGACATTAAAAAATGATAGGGTA
778 TCGGGTTTGAATTTGATGAAATGGACAGTGAAAACGGACTCAGGACATTGAAAAATGGTAGGGTA
*** * * *
33796694 -AGATTTTCCAAAAAAAGTCAAAGGTCAATCAGAAAGACAACAGTCAACGGTTAACGATCAATGG
843 GAG-TTTT-TGGAAAAAGTCAAAGGTCAACCAGAAAGACAACAG---A-GGTCAACGATCAACGG
*
33796758 TTAAAGTACATACATCCTATTACATTATCATAATAATATTATAACACATAATGTAACCACAAAAG
902 TTAAAGTACATACATCCTATTACATTATCACAATAATATTATAACACA-AATGTAACCACAAAAG
33796823 CATGATACAATCA
966 CATGATACAATCA
* * *
33796836 CAAGCATAATGCAATGCAGCCATACTCCAG-------CACAGTGAAGAGTTTCCCCAGAACCCTT
1 CAAGCATAATGCAATGCACCCATACTCCAGCACACAACACAGTGAAGAGGTTCCCCAGAACCCCT
*
33796894 TCCAAACCAATCGTCACCAATCGCAGTGTGGTTTTACTATCAGCCATTTGAAGGGGTGATAATCA
66 TCCCAACCAATCGTCACCAATCGCAGTGTGGTTTTACTATCAGCCATTTGAAGGGGTGATAA-CA
33796959 CGTCTTCCACCGTACAATCCCAACCCATGAGCACACAATGGTATGATTTCACATTTTTCACAATC
130 CGTCTTCCACCGTACAATCCCAACCCATGAGCACACAATGGTATGATTTCACATTTTTCACAATC
*
33797024 TCAGTCTTAATCTCAAGATGATATAAATATATATCAGAGTTCTTAGTATAATTATCACATTATAT
195 TCAGTCTTAATCTCAAGATGATATAAATATATATCAGAGTTCTCAGTATAATTATCACATTATAT
*
33797089 TAAATTAACCACATTCCAACGAACATGCATGACAATATCAACATGCTTAAACACAGCTCAAATCA
260 TAAATTAACCACATTCCAATGAACATGCATGACAATATCAACATGCTTAAACACAGCTCAAATCA
* * * *
33797154 TAATCATACAATTTTTTTACAACACAGAATAACATCATACAGATATCATTTATCCAAATCAACAC
325 TAATCATACCATTTTTTTACAACACAGAATAATATCATACAAATATCATTTATCCAAATAAACAC
* *
33797219 ATGATAAAACATCACAAAACGTAATCATACAATAAGATGTAATACAATCAGAAACACACCTCTAG
390 ATGATAACACATCACAAAACGTAATCATACAATAAGATGTAATACAGTCAGAAACACACCTCTAG
* * * *
33797284 GAAACTGAAGCTCTAATAACGAGGAGGTTGTCTACCATGTGCTGATCTAACACTGGATCTAATAG
455 GAAACTGAAGCTCTAATAACGAGGAGGTCGTCTACCACGTACTGATCTAGCACTGGATCTAATAG
* *
33797349 GATTAGAACCTACAAACATAAATTCTACATCAGAAAC-TTCTTAAGCCACCACTAAATACAAAAC
520 GATTAGAACCTACAAACAAAAATTCTACATCAGAAACATTCTTAAGCCACCACTAAATACAACAC
* * * * *
33797413 TAAACCGAAATAACTTACGTGTAACTCTCGGAGTTGGTGCAAGAACAGGTTGCACAGGTGGAAGA
585 TAAACCGAAATAACTCACGTGTAACTCTCGGAGCTGGTGTAAGAGCAGGTTGCACAGGTGGAGGA
* *
33797478 GGAGGTAAATCTTCGACCTCGGAGTCGTGATCACCTAAAACACACAATATCTCACATTAGATTCC
650 GGAGGTAAATCTTTGACCTCGGAGTCGTGATCATCTAAAACACACAATATCTCACATTAGATTCC
* *
33797543 CAAATTACATCTCTTAATAACACCAAGTACAAAATTAAGAGTAAAATAACTAAAACAAGGCTTTC
715 CAAATTACACCTCTTAATAACACCAAGTACAAAATTAAGAGTAAAATAACTAAAACGAGGCTTTC
* * * * * * *
33797608 GGGTTCGAATTTGACGAAATGGATAGCGTAAACGGACTCAAGACATCGAAAAATGGTAGGGTAGA
780 GGGTTTGAATTTGATGAAATGGACAGTGAAAACGGACTCAGGACATTGAAAAATGGTAGGGTAGA
*
33797673 GTTTATTGGAAAAAGTCAACA-GTCAACCAGAAAGAC-A-AG-GGTCAACGGTCAACGGTTAAAG
845 GTTT-TTGGAAAAAGTCAA-AGGTCAACCAGAAAGACAACAGAGGTCAACGATCAACGGTTAAAG
* *
33797734 TATATACATCCTATTACATTATCACAATAATATTATAACAC-AATGTAATCAC-AAAGCATGATA
908 TACATACATCCTATTACATTATCACAATAATATTATAACACAAATGTAACCACAAAAGCATGATA
33797797 CAATCA
973 CAATCA
* *
33797803 CAAGCATAATACAATGCACCCATACTCCAGCACACTAACACAGTAAAGAGGTTCCCCAGAACCCC
1 CAAGCATAATGCAATGCACCCATACTCCAGCACAC-AACACAGTGAAGAGGTTCCCCAGAACCCC
* *** *
33797868 TTCCCAACCAATCGTTACCAATCGCAGTGTGGTTTTACTATCAATTATTTGAAGGAGTGATAACA
65 TTCCCAACCAATCGTCACCAATCGCAGTGTGGTTTTACTATCAGCCATTTGAAGGGGTGATAAC-
* * *
33797933 ACGTCTTACACCGTACAATCTCAACCTATGAGCACACAATTGG-ATGATTTCACATTTTTCACAA
129 ACGTCTTCCACCGTACAATCCCAACCCATGAGCACACAA-TGGTATGATTTCACATTTTTCACAA
* *
33797997 TCTCAGTCTCAATCTCAAGATGATATGAATATATATCAGAGTTCTCAGTATAATTATCACATTAT
193 TCTCAGTCTTAATCTCAAGATGATATAAATATATATCAGAGTTCTCAGTATAATTATCACATTAT
33798062 ATTAAATTAACCACATTCCAATGAACATGCATGACAATATCAACATGCTTAAACACAGCTCAAAT
258 ATTAAATTAACCACATTCCAATGAACATGCATGACAATATCAACATGCTTAAACACAGCTCAAAT
* *
33798127 CATAATCATACCATTTTATTACAACACAGAATAATATCATACAAATATCATTTATCCAAATTAAC
323 CATAATCATACCATTTTTTTACAACACAGAATAATATCATACAAATATCATTTATCCAAATAAAC
* * *
33798192 ACATGATAACACATCACAAAACGTAATCATACAATAGGATGTAATACAGTAAAAAACACACCTCT
388 ACATGATAACACATCACAAAACGTAATCATACAATAAGATGTAATACAGTCAGAAACACACCTCT
* * * *
33798257 AAGAAACTAAAGCTCTAGTAACGAGGAGGTCATCTACCACGTACTGATCTAGCACTGGATCTAAT
453 AGGAAACTGAAGCTCTAATAACGAGGAGGTCGTCTACCACGTACTGATCTAGCACTGGATCTAAT
* * *
33798322 GGGATTAGAACCTACAAACAAAAATTCTACATCAGAAGCTATTCCTAAGCCACCACTAAATACAA
518 AGGATTAGAACCTACAAACAAAAATTCTACATCAGAAAC-ATTCTTAAGCCACCACTAAATACAA
* * *
33798387 CAGTAAATCAAAATAACTCACGTGTAACTCTCGGAGCTGGTGTAAGAGCAGGTTGCACAGGTGGA
582 CACTAAACCGAAATAACTCACGTGTAACTCTCGGAGCTGGTGTAAGAGCAGGTTGCACAGGTGGA
* ** * * *
33798452 GGAGGAGGTAAATTTTTGGTCTCGGAGCCATAATCATCTAAAACACACAATATCTCACATTAGAT
647 GGAGGAGGTAAATCTTTGACCTCGGAGTCGTGATCATCTAAAACACACAATATCTCACATTAGAT
* * *
33798517 TCTCAAATTTCACCTTTTAATAACACCAAGTACAAAATTAAGAGTAAAATAACTAAAACGAGGCT
712 TCCCAAATTACACCTCTTAATAACACCAAGTACAAAATTAAGAGTAAAATAACTAAAACGAGGCT
* * * *
33798582 TTCGGGTTTAAATTTGATGAAATGGACAGTGAAAACGAACTTAGGACGTTGAAAAATGGTAGGGT
777 TTCGGGTTTGAATTTGATGAAATGGACAGTGAAAACGGACTCAGGACATTGAAAAATGGTAGGGT
* *
33798647 AGGGTTTCCTGGAAAAAGT
842 AGAGTTT-TTGGAAAAAGT
33798666 AAACGATCAA
Statistics
Matches: 1655, Mismatches: 160, Indels: 40
0.89 0.09 0.02
Matches are distributed among these distances:
967 45 0.03
968 10 0.01
970 58 0.04
974 1 0.00
975 479 0.29
976 4 0.00
977 544 0.33
978 4 0.00
979 482 0.29
987 28 0.02
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.25
Consensus pattern (978 bp):
CAAGCATAATGCAATGCACCCATACTCCAGCACACAACACAGTGAAGAGGTTCCCCAGAACCCCT
TCCCAACCAATCGTCACCAATCGCAGTGTGGTTTTACTATCAGCCATTTGAAGGGGTGATAACAC
GTCTTCCACCGTACAATCCCAACCCATGAGCACACAATGGTATGATTTCACATTTTTCACAATCT
CAGTCTTAATCTCAAGATGATATAAATATATATCAGAGTTCTCAGTATAATTATCACATTATATT
AAATTAACCACATTCCAATGAACATGCATGACAATATCAACATGCTTAAACACAGCTCAAATCAT
AATCATACCATTTTTTTACAACACAGAATAATATCATACAAATATCATTTATCCAAATAAACACA
TGATAACACATCACAAAACGTAATCATACAATAAGATGTAATACAGTCAGAAACACACCTCTAGG
AAACTGAAGCTCTAATAACGAGGAGGTCGTCTACCACGTACTGATCTAGCACTGGATCTAATAGG
ATTAGAACCTACAAACAAAAATTCTACATCAGAAACATTCTTAAGCCACCACTAAATACAACACT
AAACCGAAATAACTCACGTGTAACTCTCGGAGCTGGTGTAAGAGCAGGTTGCACAGGTGGAGGAG
GAGGTAAATCTTTGACCTCGGAGTCGTGATCATCTAAAACACACAATATCTCACATTAGATTCCC
AAATTACACCTCTTAATAACACCAAGTACAAAATTAAGAGTAAAATAACTAAAACGAGGCTTTCG
GGTTTGAATTTGATGAAATGGACAGTGAAAACGGACTCAGGACATTGAAAAATGGTAGGGTAGAG
TTTTTGGAAAAAGTCAAAGGTCAACCAGAAAGACAACAGAGGTCAACGATCAACGGTTAAAGTAC
ATACATCCTATTACATTATCACAATAATATTATAACACAAATGTAACCACAAAAGCATGATACAA
TCA
Found at i:33803983 original size:23 final size:23
Alignment explanation
Indices: 33803905--33803986 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
33803895 CAACAGTTTG
*
33803905 GTTCGATTAAAGTTAATAGGTCA
1 GTTCGATCAAAGTTAATAGGTCA
* * *
33803928 GTT-TAGCCAAATTTAATAGGTCA
1 GTTCGA-TCAAAGTTAATAGGTCA
*
33803951 GTTCTG-TCAAAGTTAATGGGTCA
1 GTTC-GATCAAAGTTAATAGGTCA
33803974 GTTCGATCAAAGT
1 GTTCGATCAAAGT
33803987 CAATGGCTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
22 2 0.04
23 45 0.96
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (23 bp):
GTTCGATCAAAGTTAATAGGTCA
Found at i:33803991 original size:23 final size:23
Alignment explanation
Indices: 33803946--33803997 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
33803936 AAATTTAATA
*
33803946 GGTCAGTTCTGTCAAAGTTAATG
1 GGTCAGTTCTGTCAAAGTCAATG
33803969 GGTCAGTTC-GATCAAAGTCAATG
1 GGTCAGTTCTG-TCAAAGTCAATG
*
33803992 GCTCAG
1 GGTCAG
33803998 GTTGGGTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (23 bp):
GGTCAGTTCTGTCAAAGTCAATG
Found at i:33806621 original size:28 final size:28
Alignment explanation
Indices: 33806574--33806732 Score: 151
Period size: 28 Copynumber: 5.7 Consensus size: 28
33806564 TCAAATATAA
*
33806574 CCTTTTCATAG-TATCCTTACGGATATT
1 CCTTTTCATTGATATCCTTACGGATATT
*
33806601 CCTTTTCATTGATATCGTTACGGATA-T
1 CCTTTTCATTGATATCCTTACGGATATT
* * * * *
33806628 CCCTTTAAATAATATCCTTAAGGATATT
1 CCTTTTCATTGATATCCTTACGGATATT
* * *
33806656 CTTTTTCATTGATATCCTTGCGGATATC
1 CCTTTTCATTGATATCCTTACGGATATT
* * * *
33806684 CCTTTCCAGTAATATCCTTACAGATATT
1 CCTTTTCATTGATATCCTTACGGATATT
*
33806712 ACTTTTCATTGGATATTCCTT
1 CCTTTTCATT-GATA-TCCTT
33806733 TTCATTGATA
Statistics
Matches: 101, Mismatches: 27, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
27 31 0.31
28 62 0.61
29 3 0.03
30 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.44
Consensus pattern (28 bp):
CCTTTTCATTGATATCCTTACGGATATT
Found at i:33806633 original size:55 final size:55
Alignment explanation
Indices: 33806574--33806732 Score: 201
Period size: 55 Copynumber: 2.8 Consensus size: 55
33806564 TCAAATATAA
* * *
33806574 CCTTTTCATAGTATCCTTACGGATATTCCTTTTCATTGATATCGTTACGGATATC
1 CCTTTACATAATATCCTTACGGATATTCCTTTTCATTGATATCCTTACGGATATC
* * * *
33806629 CCTTTAAATAATATCCTTAAGGATATTCTTTTTCATTGATATCCTTGCGGATATC
1 CCTTTACATAATATCCTTACGGATATTCCTTTTCATTGATATCCTTACGGATATC
* * *
33806684 CCTTTCCAGTAATATCCTTACAGATATTACTTTTCATTGGATATTCCTT
1 CCTTTACA-TAATATCCTTACGGATATTCCTTTTCATT-GATA-TCCTT
33806733 TTCATTGATA
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
55 54 0.61
56 25 0.28
57 4 0.05
58 5 0.06
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.44
Consensus pattern (55 bp):
CCTTTACATAATATCCTTACGGATATTCCTTTTCATTGATATCCTTACGGATATC
Found at i:33806728 original size:17 final size:16
Alignment explanation
Indices: 33806706--33806747 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
33806696 TATCCTTACA
33806706 GATATTACTTTTCATT
1 GATATTACTTTTCATT
*
33806722 GGATATTCCTTTTCATT
1 -GATATTACTTTTCATT
33806739 GATA-TACTT
1 GATATTACTT
33806748 GCGGATATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 4 0.17
17 15 0.65
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (16 bp):
GATATTACTTTTCATT
Found at i:33806735 original size:73 final size:73
Alignment explanation
Indices: 33806649--33806803 Score: 251
Period size: 73 Copynumber: 2.2 Consensus size: 73
33806639 ATATCCTTAA
* *
33806649 GGATATTCTTTTTCATTGATATCCTTGCGGATATCCCTTTCCAGTAATATCCTTACAGATATTAC
1 GGATATTCCTTTTCATTGATATACTTGCGGATATCCCTTTCCAGTAATATCCTTACAGATATTAC
33806714 TTTTCATT
66 TTTTCATT
* * *
33806722 GGATATTCCTTTTCATTGATATACTTGCGGATATCCCTTTCTAGTAATATCCTTACGGATATTCC
1 GGATATTCCTTTTCATTGATATACTTGCGGATATCCCTTTCCAGTAATATCCTTACAGATATTAC
33806787 TTTTCATT
66 TTTTCATT
33806795 -GATA-TCCTT
1 GGATATTCCTT
33806804 ATAGATATTC
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
71 5 0.06
72 4 0.05
73 68 0.88
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.45
Consensus pattern (73 bp):
GGATATTCCTTTTCATTGATATACTTGCGGATATCCCTTTCCAGTAATATCCTTACAGATATTAC
TTTTCATT
Found at i:33806784 original size:56 final size:56
Alignment explanation
Indices: 33806722--33806880 Score: 221
Period size: 56 Copynumber: 2.8 Consensus size: 56
33806712 ACTTTTCATT
* * * *
33806722 GGATATTCCTTTTCATTGATATACTTGCGGATATCCC-TTTCTAGTAATATCCTTAC
1 GGATATTCCTTTTCATTGATATCCTTGTGGATATCCCTTTTC-AATAACATCCTTAC
* * *
33806778 GGATATTCCTTTTCATTGATATCCTTATAGATATTCCTTTTCAATAACATCCTTAC
1 GGATATTCCTTTTCATTGATATCCTTGTGGATATCCCTTTTCAATAACATCCTTAC
* *
33806834 AGATATTCCTTTTCATTGATATCCTTGTGGATACCCCTTTTCAATAA
1 GGATATTCCTTTTCATTGATATCCTTGTGGATATCCCTTTTCAATAA
33806881 TTTTAGAGAA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
56 86 0.96
57 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.43
Consensus pattern (56 bp):
GGATATTCCTTTTCATTGATATCCTTGTGGATATCCCTTTTCAATAACATCCTTAC
Found at i:33806830 original size:129 final size:128
Alignment explanation
Indices: 33806594--33806859 Score: 376
Period size: 129 Copynumber: 2.1 Consensus size: 128
33806584 GTATCCTTAC
*
33806594 GGATATTCCTTTTCATTGATATCGTTACGGATATCCCTTTAAATAATATCCTTAAGGATATTCTT
1 GGATATTCCTTTTCATTGATATCGTTACGGATATCCCTTTAAATAATATCCTTAAGGATATTCCT
* * * *
33806659 TTTCATTGATATCCTTGCGGATATCCCTTTCCAGTAATATCCTTACAGATATTACTTTTCATT
66 TTTCATTGATATCCTTACAGATATCCCTTTCCAATAACATCCTTACAGATATTACTTTTCATT
* * * *
33806722 GGATATTCCTTTTCATTGATATAC-TTGCGGATATCCCTTTCTAGTAATATCCTTACGGATATTC
1 GGATATTCCTTTTCATTGATAT-CGTTACGGATATCCCTTT-AAATAATATCCTTAAGGATATTC
* * * *
33806786 CTTTTCATTGATATCCTTATAGATATTCCTTTTCAATAACATCCTTACAGATATTCCTTTTCATT
64 CTTTTCATTGATATCCTTACAGATATCCCTTTCCAATAACATCCTTACAGATATTACTTTTCATT
33806851 -GATA-TCCTT
1 GGATATTCCTT
33806860 GTGGATACCC
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
127 5 0.04
128 41 0.33
129 77 0.63
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.44
Consensus pattern (128 bp):
GGATATTCCTTTTCATTGATATCGTTACGGATATCCCTTTAAATAATATCCTTAAGGATATTCCT
TTTCATTGATATCCTTACAGATATCCCTTTCCAATAACATCCTTACAGATATTACTTTTCATT
Found at i:33806876 original size:28 final size:28
Alignment explanation
Indices: 33806722--33806859 Score: 161
Period size: 28 Copynumber: 4.9 Consensus size: 28
33806712 ACTTTTCATT
* *
33806722 GGATATTCCTTTTCATTGATATACTTGC
1 GGATATTCCTTTTCATTGATATCCTTAC
* * *
33806750 GGATA-TCCCTTTCTAGTAATATCCTTAC
1 GGATATTCCTTTTC-ATTGATATCCTTAC
*
33806778 GGATATTCCTTTTCATTGATATCCTTAT
1 GGATATTCCTTTTCATTGATATCCTTAC
* * * *
33806806 AGATATTCCTTTTCAATAACATCCTTAC
1 GGATATTCCTTTTCATTGATATCCTTAC
*
33806834 AGATATTCCTTTTCATTGATATCCTT
1 GGATATTCCTTTTCATTGATATCCTT
33806860 GTGGATACCC
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
27 7 0.08
28 77 0.85
29 7 0.08
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (28 bp):
GGATATTCCTTTTCATTGATATCCTTAC
Found at i:33807557 original size:14 final size:14
Alignment explanation
Indices: 33807538--33807571 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
33807528 TGACTAATTT
33807538 AAGCTTACCAGTTG
1 AAGCTTACCAGTTG
33807552 AAGCTTACCAGTTG
1 AAGCTTACCAGTTG
33807566 AAGCTT
1 AAGCTT
33807572 GAACCTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (14 bp):
AAGCTTACCAGTTG
Found at i:33807728 original size:12 final size:13
Alignment explanation
Indices: 33807703--33807740 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
33807693 CAATTTATTA
*
33807703 TTTCATTTGATTTC
1 TTTCATTT-CTTTC
33807717 TTTC-TTTCTTTC
1 TTTCATTTCTTTC
33807729 TTTCATTTCTTT
1 TTTCATTTCTTT
33807741 TTAATTAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 8 0.36
13 10 0.45
14 4 0.18
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTCATTTCTTTC
Found at i:33809364 original size:25 final size:25
Alignment explanation
Indices: 33809311--33809364 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
33809301 TCATACCAAT
* * *
33809311 ATATTCAAACTCACAAGTATGATTT
1 ATATTCAAACTCACAAGTATAAATC
33809336 ATATTCAAACTCACAAGTATAAATC
1 ATATTCAAACTCACAAGTATAAATC
33809361 ATAT
1 ATAT
33809365 AACCGTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATTCAAACTCACAAGTATAAATC
Found at i:33810101 original size:28 final size:28
Alignment explanation
Indices: 33810017--33810139 Score: 94
Period size: 27 Copynumber: 4.4 Consensus size: 28
33810007 ACGTCCTTTT
* *
33810017 TAACCTTTTCATTGTTTATCCTTTCGAATA
1 TAACCTTTTCATAG-TTATCC-TTCGGATA
*
33810047 TAACCTTTTCA-A-ATATCCGTTCGGATA
1 TAACCTTTTCATAGTTATCC-TTCGGATA
*
33810074 TAACCTTTTCATAG-TATCCTTACAGATA
1 TAACCTTTTCATAGTTATCCTT-CGGATA
* * *
33810102 T-TCCTTTTCATTGATATCCTTGCGGATA
1 TAACCTTTTCATAGTTATCCTT-CGGATA
*
33810130 T-CCCTTTTCA
1 TAACCTTTTCA
33810140 ATAATAGCCT
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
27 35 0.44
28 33 0.42
30 11 0.14
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (28 bp):
TAACCTTTTCATAGTTATCCTTCGGATA
Found at i:33810186 original size:58 final size:56
Alignment explanation
Indices: 33810059--33810264 Score: 240
Period size: 56 Copynumber: 3.6 Consensus size: 56
33810049 ACCTTTTCAA
* *
33810059 ATATCCGTT-CGGATATAACCTTTTC-ATAGTATCCTTACAGATATTCC-TTTTCATTG
1 ATATCC-TTGCGGATAT-CCCTTTTCAATAATATCCTTACA-ATATTCCTTTTTCATTG
*
33810115 ATATCCTTGCGGATATCCCTTTTCAATAATAGCCTTACGAATATTCCTTTTTTCATTG
1 ATATCCTTGCGGATATCCCTTTTCAATAATATCCTTAC-AATATTCC-TTTTTCATTG
* *
33810173 ATATCCTTGCGGATATCCCTTTCCAATAATATCCTTACAAATATTTCTTTTT-ATTG
1 ATATCCTTGCGGATATCCCTTTTCAATAATATCCTTAC-AATATTCCTTTTTCATTG
** * * *
33810229 ATATCCTTATGGATATTCCTTTTCATTGATATCCTT
1 ATATCCTTGCGGATATCCCTTTTCAATAATATCCTT
33810265 GTTAAATAAT
Statistics
Matches: 132, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
55 9 0.07
56 65 0.49
57 6 0.05
58 52 0.39
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (56 bp):
ATATCCTTGCGGATATCCCTTTTCAATAATATCCTTACAATATTCCTTTTTCATTG
Found at i:33810216 original size:28 final size:28
Alignment explanation
Indices: 33810050--33810264 Score: 141
Period size: 28 Copynumber: 7.7 Consensus size: 28
33810040 TCGAATATAA
*
33810050 CCTTTTC-A-AATATCCGTT-CGGATATAA
1 CCTTTTCAATAATATCC-TTACGGATAT-C
* * *
33810077 CCTTTTC-ATAGTATCCTTACAGATATT
1 CCTTTTCAATAATATCCTTACGGATATC
* * *
33810104 CCTTTTCATTGATATCCTTGCGGATATC
1 CCTTTTCAATAATATCCTTACGGATATC
* *
33810132 CCTTTTCAATAATAGCCTTACGAATATTC
1 CCTTTTCAATAATATCCTTACGGATA-TC
* * * *
33810161 CTTTTTTCATTGATATCCTTGCGGATATC
1 C-CTTTTCAATAATATCCTTACGGATATC
* ** *
33810190 CCTTTCCAATAATATCCTTACAAATATT
1 CCTTTTCAATAATATCCTTACGGATATC
* * * * * *
33810218 TCTTTTTATTGATATCCTTATGGATATT
1 CCTTTTCAATAATATCCTTACGGATATC
* *
33810246 CCTTTTCATTGATATCCTT
1 CCTTTTCAATAATATCCTT
33810265 GTTAAATAAT
Statistics
Matches: 145, Mismatches: 38, Indels: 9
0.76 0.20 0.05
Matches are distributed among these distances:
27 17 0.12
28 103 0.71
29 6 0.04
30 19 0.13
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.45
Consensus pattern (28 bp):
CCTTTTCAATAATATCCTTACGGATATC
Found at i:33810305 original size:100 final size:100
Alignment explanation
Indices: 33810173--33810353 Score: 229
Period size: 100 Copynumber: 1.8 Consensus size: 100
33810163 TTTTTCATTG
* ** * * *
33810173 ATATCCTTGCGGATATCCCTTTCCAATAATATCCTTACAAATATTTCTTTTTATTGATATCCTTA
1 ATATCCTTACGGATATCCCTTTCCAATAATATCCTTACAAATATCCCTTTTCAATAATATCCTTA
*
33810238 TGGATATTCCTTTTCATTGATATCCTTGTTAAATA
66 CGGATATTCCTTTTCATTGATATCCTTGTTAAATA
* * * ***
33810273 ATATCCTTACGGATATTCCTTT-TAATTGATATCCTTGTGAATATCCCTTTTCAATAATATCCTT
1 ATATCCTTACGGATATCCCTTTCCAA-TAATATCCTTACAAATATCCCTTTTCAATAATATCCTT
33810337 ACGGATATTCCTTTTCA
65 ACGGATATTCCTTTTCA
33810354 GATATTCATT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
99 2 0.03
100 65 0.97
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (100 bp):
ATATCCTTACGGATATCCCTTTCCAATAATATCCTTACAAATATCCCTTTTCAATAATATCCTTA
CGGATATTCCTTTTCATTGATATCCTTGTTAAATA
Found at i:33810335 original size:72 final size:72
Alignment explanation
Indices: 33810197--33810336 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 72
33810187 ATCCCTTTCC
* * * * * *
33810197 AATAATATCCTTACAAATATTTCTTTTTATTGATATCCTTATGGATATTCCTTTTCATTGATATC
1 AATAATATCCTTACAAATATTCCTTTTAATTGATATCCTTATGAATATCCCTTTTCAATAATATC
33810262 CTTGTTA
66 CTTGTTA
** *
33810269 AATAATATCCTTACGGATATTCCTTTTAATTGATATCCTTGTGAATATCCCTTTTCAATAATATC
1 AATAATATCCTTACAAATATTCCTTTTAATTGATATCCTTATGAATATCCCTTTTCAATAATATC
33810334 CTT
66 CTT
33810337 ACGGATATTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.47
Consensus pattern (72 bp):
AATAATATCCTTACAAATATTCCTTTTAATTGATATCCTTATGAATATCCCTTTTCAATAATATC
CTTGTTA
Found at i:33810352 original size:28 final size:28
Alignment explanation
Indices: 33810256--33810397 Score: 118
Period size: 28 Copynumber: 5.2 Consensus size: 28
33810246 CCTTTTCATT
*
33810256 GATA-TCCTTGTTAAATAATATCCTTACG
1 GATATTCCTT-TTCAATAATATCCTTACG
* **
33810284 GATATTCCTTTT-AATTGATATCCTTGTG
1 GATATTCCTTTTCAA-TAATATCCTTACG
* *
33810312 AATATCCCTTTTCAATAATATCCTTACG
1 GATATTCCTTTTCAATAATATCCTTACG
*
33810340 GATATTCCTTTTCAGAT-AT-TCATT-CG
1 GATATTCCTTTTCA-ATAATATCCTTACG
* *
33810366 GATATAACCTTTTC-A-AATATCCTTTCG
1 GATAT-TCCTTTTCAATAATATCCTTACG
33810393 GATAT
1 GATAT
33810398 AATTTTTTCA
Statistics
Matches: 93, Mismatches: 13, Indels: 17
0.76 0.11 0.14
Matches are distributed among these distances:
25 3 0.03
26 11 0.12
27 20 0.22
28 50 0.54
29 9 0.10
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.43
Consensus pattern (28 bp):
GATATTCCTTTTCAATAATATCCTTACG
Found at i:33810407 original size:27 final size:27
Alignment explanation
Indices: 33810318--33810399 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
33810308 TGTGAATATC
*
33810318 CCTTTTCAATAATATCC-TTACGGATAT-T
1 CCTTTTC-A-AATATCCATT-CGGATATAA
* *
33810346 CCTTTTCAGATATTCATTCGGATATAA
1 CCTTTTCAAATATCCATTCGGATATAA
*
33810373 CCTTTTCAAATATCCTTTCGGATATAA
1 CCTTTTCAAATATCCATTCGGATATAA
33810400 TTTTTTCACA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
26 12 0.26
27 27 0.59
28 7 0.15
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CCTTTTCAAATATCCATTCGGATATAA
Found at i:33811242 original size:5 final size:5
Alignment explanation
Indices: 33811232--33811260 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
33811222 CAATTTATTG
33811232 TTTCA TTTCA TTTCA TTTCA TTTCA TTTC
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTC
33811261 TTTTTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTCA
Found at i:33815012 original size:27 final size:25
Alignment explanation
Indices: 33814944--33815018 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
33814934 ACCGTTAAAG
* *
33814944 AAATATAGCTTATTTGAGCCCAAAA
1 AAATATAGCTCATTCGAGCCCAAAA
* *
33814969 AAATTATTGCTCATTCGAGCCTAAAA
1 AAA-TATAGCTCATTCGAGCCCAAAA
33814995 CAGAATATAGCTCATTCGAGCCCA
1 -A-AATATAGCTCATTCGAGCCCA
33815019 GAATAGAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 3 0.07
26 18 0.44
27 18 0.44
28 2 0.05
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (25 bp):
AAATATAGCTCATTCGAGCCCAAAA
Found at i:33815026 original size:27 final size:25
Alignment explanation
Indices: 33814940--33815029 Score: 81
Period size: 27 Copynumber: 3.4 Consensus size: 25
33814930 TCGAACCGTT
* *
33814940 AAAGAAATATAGCTTATTTGAGCCCA
1 AAAG-AATATAGCTCATTCGAGCCCA
* * *
33814966 AAAAAATTATTGCTCATTCGAGCCTAA
1 AAAGAA-TATAGCTCATTCGAGCC-CA
33814993 AACAGAATATAGCTCATTCGAGCCCA
1 AA-AGAATATAGCTCATTCGAGCCCA
33815019 GAATAGAATAT
1 -AA-AGAATAT
33815030 TGTTACTCAC
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
25 2 0.04
26 18 0.35
27 28 0.55
28 3 0.06
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (25 bp):
AAAGAATATAGCTCATTCGAGCCCA
Found at i:33820547 original size:10 final size:10
Alignment explanation
Indices: 33820526--33820629 Score: 57
Period size: 10 Copynumber: 9.5 Consensus size: 10
33820516 TTTAACACAA
33820526 CACATATTAAT
1 CACAT-TTAAT
33820537 CACATTTAAT
1 CACATTTAAT
33820547 CACATTTAAT
1 CACATTTAAT
* *
33820557 CGCA-TTAGT
1 CACATTTAAT
* *
33820566 CACATGAATATTT
1 CACAT--TTA-AT
33820579 CAACATTTCTCACAT
1 C-ACA-TT-T-A-AT
*
33820594 CACATAATAAT
1 CACAT-TTAAT
*
33820605 CACATTTAGT
1 CACATTTAAT
33820615 CACATTTAAT
1 CACATTTAAT
33820625 CACAT
1 CACAT
33820630 GAATATTTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
9 7 0.10
10 35 0.49
11 12 0.17
12 3 0.04
13 4 0.06
14 7 0.10
15 4 0.06
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (10 bp):
CACATTTAAT
Found at i:33820569 original size:68 final size:68
Alignment explanation
Indices: 33820480--33820625 Score: 188
Period size: 68 Copynumber: 2.2 Consensus size: 68
33820470 CATTCTTTTA
* * *
33820480 CACA-TTAATTGCATTAATCACATGAGTACTT-AAGCATTTAACACAACACATATTAATCACATT
1 CACATTTAATCGCATTAATCACATGAATACTTCAA-CATTTAACACAACACATAATAATCACATT
33820543 TAAT
65 TAAT
* * ** *
33820547 CACATTTAATCGCATTAGTCACATGAATATTTCAACATTTCTCACATCACATAATAATCACATTT
1 CACATTTAATCGCATTAATCACATGAATACTTCAACATTTAACACAACACATAATAATCACATTT
*
33820612 AGT
66 AAT
33820615 CACATTTAATC
1 CACATTTAATC
33820626 ACATGAATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
67 4 0.06
68 62 0.91
69 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (68 bp):
CACATTTAATCGCATTAATCACATGAATACTTCAACATTTAACACAACACATAATAATCACATTT
AAT
Found at i:33820570 original size:19 final size:21
Alignment explanation
Indices: 33820526--33820629 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 21
33820516 TTTAACACAA
33820526 CACATATTAATCACATTTAAT
1 CACATATTAATCACATTTAAT
* *
33820547 CACAT-TTAATCGCA-TTAGT
1 CACATATTAATCACATTTAAT
* *
33820566 CACATGAATATTTCAACATTTCTCACAT
1 CACAT-ATTA-ATC-ACA-TT-T-A-AT
* *
33820594 CACATAATAATCACATTTAGT
1 CACATATTAATCACATTTAAT
33820615 CACAT-TTAATCACAT
1 CACATATTAATCACAT
33820630 GAATATTTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
19 9 0.14
20 17 0.26
21 13 0.20
22 3 0.05
23 3 0.05
24 2 0.03
25 4 0.06
26 3 0.05
27 5 0.08
28 6 0.09
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (21 bp):
CACATATTAATCACATTTAAT
Found at i:33820649 original size:23 final size:23
Alignment explanation
Indices: 33820622--33820735 Score: 158
Period size: 23 Copynumber: 5.0 Consensus size: 23
33820612 AGTCACATTT
* *
33820622 AATCACATGAATATTTAAGCGCA
1 AATCACATTAATATTTAAGCACA
33820645 AATCACATTAATATTTAAGCACA
1 AATCACATTAATATTTAAGCACA
* *
33820668 AATCACATTGATATTTAAGCATA
1 AATCACATTAATATTTAAGCACA
* * *
33820691 AATAATATTAATATTTAAGCAGA
1 AATCACATTAATATTTAAGCACA
33820714 AATCACATTAATATTTAA-CACA
1 AATCACATTAATATTTAAGCACA
33820736 TTTATTGATA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
22 3 0.04
23 77 0.96
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (23 bp):
AATCACATTAATATTTAAGCACA
Found at i:33821176 original size:36 final size:36
Alignment explanation
Indices: 33821136--33821205 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
33821126 AATATATTCA
33821136 CTGTCACATGACATGAATAACATACCCACATATTTT
1 CTGTCACATGACATGAATAACATACCCACATATTTT
* *
33821172 CTGTCTCATGGCATGAATAACATACCCACATATT
1 CTGTCACATGACATGAATAACATACCCACATATT
33821206 CACTTTCACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (36 bp):
CTGTCACATGACATGAATAACATACCCACATATTTT
Found at i:33824695 original size:18 final size:18
Alignment explanation
Indices: 33824669--33824709 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
33824659 TTTGAAGATA
* * *
33824669 TTCCGTCACTCGAGCATG
1 TTCCTTCACCCGAACATG
33824687 TTCCTTCACCCGAACATG
1 TTCCTTCACCCGAACATG
33824705 TTCCT
1 TTCCT
33824710 CCTCCAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.37, G:0.15, T:0.32
Consensus pattern (18 bp):
TTCCTTCACCCGAACATG
Found at i:33833072 original size:22 final size:21
Alignment explanation
Indices: 33833022--33833073 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
33833012 TTTCACTAAT
* *
33833022 ATAAATACAATATATTAATAT
1 ATAAATACAATATATAAATAA
33833043 ATACAATACAA-ATATAAAATTAA
1 ATA-AATACAATATAT-AAA-TAA
33833066 ATAAATAC
1 ATAAATAC
33833074 GAAGCACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 7 0.27
22 14 0.54
23 5 0.19
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAAATACAATATATAAATAA
Found at i:33838990 original size:21 final size:21
Alignment explanation
Indices: 33838952--33839002 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
33838942 TTCTTTATTT
* *
33838952 TTTATTCTCCTTTACTTCTCCC
1 TTTATT-TTCTTTACTTCTCCA
*
33838974 TTTATTTTCTTTCCTTCTCCA
1 TTTATTTTCTTTACTTCTCCA
*
33838995 TTTCTTTT
1 TTTATTTT
33839003 TATATAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.08, C:0.29, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTATTTTCTTTACTTCTCCA
Found at i:33840392 original size:23 final size:23
Alignment explanation
Indices: 33840369--33840461 Score: 136
Period size: 23 Copynumber: 4.1 Consensus size: 23
33840359 ATTTACTCAT
* *
33840369 AAATCACATTAATATTTAAACAT
1 AAATCACATTAATATTTAAGCAC
*
33840392 AAATCACATTAACATTTAAGCAC
1 AAATCACATTAATATTTAAGCAC
33840415 AAATCACATTAATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAC
33840438 AAATCACATTAACT-TTTAA-CAC
1 AAATCACATTAA-TATTTAAGCAC
33840460 AA
1 AA
33840462 TTAATGATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
22 5 0.08
23 59 0.91
24 1 0.02
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATCACATTAATATTTAAGCAC
Found at i:33840408 original size:46 final size:46
Alignment explanation
Indices: 33840369--33840461 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
33840359 ATTTACTCAT
*
33840369 AAATCACATTAATATTTAAACATAAATCACATTAACATTTAAGCAC
1 AAATCACATTAATATTTAAACACAAATCACATTAACATTTAAGCAC
* *
33840415 AAATCACATTAATATTTAAGCACAAATCACATTAACTTTTAA-CAC
1 AAATCACATTAATATTTAAACACAAATCACATTAACATTTAAGCAC
33840460 AA
1 AA
33840462 TTAATGATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 5 0.11
46 39 0.89
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.30
Consensus pattern (46 bp):
AAATCACATTAATATTTAAACACAAATCACATTAACATTTAAGCAC
Found at i:33840897 original size:36 final size:36
Alignment explanation
Indices: 33840850--33840929 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
33840840 TTAACACAAT
* **
33840850 ATATTCACTGTCACATGGCATGAATAGTATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
**
33840886 ATATTTACTGTCTTATGGCATGAATAACATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
*
33840922 AAATTTAC
1 ATATTTAC
33840930 ATTAATAGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (36 bp):
ATATTTACTGTCACATGGCATGAATAACATACCCAC
Found at i:33840954 original size:23 final size:23
Alignment explanation
Indices: 33840919--33841070 Score: 196
Period size: 23 Copynumber: 6.6 Consensus size: 23
33840909 ATAACATACC
* * * *
33840919 CACAAATTTACATTAATAGTCAAA
1 CACAAA-TCACATTAATATTTAAG
*
33840943 CATAAATCACATTAATATTTAAG
1 CACAAATCACATTAATATTTAAG
* * *
33840966 CATAAATCATATTAAAATTTAAG
1 CACAAATCACATTAATATTTAAG
33840989 CACAAATCACATTAATATTTAAG
1 CACAAATCACATTAATATTTAAG
*
33841012 CACAAATCACATTAATATGTAAG
1 CACAAATCACATTAATATTTAAG
*
33841035 CACAAATCAAATTAATATTTAAG
1 CACAAATCACATTAATATTTAAG
*
33841058 CATAAATCACATT
1 CACAAATCACATT
33841071 TGTAACATCT
Statistics
Matches: 113, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
23 108 0.96
24 5 0.04
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (23 bp):
CACAAATCACATTAATATTTAAG
Found at i:33842161 original size:21 final size:22
Alignment explanation
Indices: 33842137--33842196 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 22
33842127 AGTGCCCTTT
*
33842137 TATTTCACTTC-GATGCCCATG
1 TATTACACTTCTGATGCCCATG
* * *
33842158 TATTGCA-TTCTGGTGCCCTTG
1 TATTACACTTCTGATGCCCATG
*
33842179 TATTACAC-TCTGGTGCCC
1 TATTACACTTCTGATGCCC
33842197 CTATGTTCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.38
Consensus pattern (22 bp):
TATTACACTTCTGATGCCCATG
Found at i:33842230 original size:22 final size:22
Alignment explanation
Indices: 33842205--33842259 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
33842195 CCCTATGTTC
33842205 GCACTTCGGTGCCCCCGTA-AAT
1 GCACTTCGGTGCCCCC-TATAAT
*
33842227 GCACTTCGGT-ACCCCTATAAT
1 GCACTTCGGTGCCCCCTATAAT
*
33842248 GCACCTCGGTGC
1 GCACTTCGGTGC
33842260 TTCTATGCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.07
21 16 0.57
22 10 0.36
ACGTcount: A:0.18, C:0.36, G:0.22, T:0.24
Consensus pattern (22 bp):
GCACTTCGGTGCCCCCTATAAT
Found at i:33843421 original size:32 final size:32
Alignment explanation
Indices: 33843385--33843453 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
33843375 ATGTTTTGAG
33843385 AATTGAATGTATGAGATTGAGTTGTTATGATT
1 AATTGAATGTATGAGATTGAGTTGTTATGATT
** *
33843417 AATTGCTTGTTTGAGATTGAGTTGTTATGATT
1 AATTGAATGTATGAGATTGAGTTGTTATGATT
33843449 AATTG
1 AATTG
33843454 CTTGTTCTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (32 bp):
AATTGAATGTATGAGATTGAGTTGTTATGATT
Found at i:33843453 original size:18 final size:18
Alignment explanation
Indices: 33843400--33843453 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
33843390 AATGTATGAG
33843400 ATTGAGTTGTTATGATTA
1 ATTGAGTTGTTATGATTA
* *
33843418 ATTG-CTTGTT-TGA--G
1 ATTGAGTTGTTATGATTA
33843432 ATTGAGTTGTTATGATTA
1 ATTGAGTTGTTATGATTA
33843450 ATTG
1 ATTG
33843454 CTTGTTCTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
14 4 0.14
15 5 0.18
16 6 0.21
17 5 0.18
18 8 0.29
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (18 bp):
ATTGAGTTGTTATGATTA
Found at i:33843454 original size:32 final size:32
Alignment explanation
Indices: 33843396--33843459 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
33843386 ATTGAATGTA
33843396 TGAGATTGAGTTGTTATGATTAATTGCTTGTT
1 TGAGATTGAGTTGTTATGATTAATTGCTTGTT
33843428 TGAGATTGAGTTGTTATGATTAATTGCTTGTT
1 TGAGATTGAGTTGTTATGATTAATTGCTTGTT
33843460 CTTGTGTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.03, G:0.25, T:0.50
Consensus pattern (32 bp):
TGAGATTGAGTTGTTATGATTAATTGCTTGTT
Found at i:33855939 original size:17 final size:18
Alignment explanation
Indices: 33855911--33855957 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
33855901 GCAAACATTT
33855911 TTTTCTTCTTTTCTT-TTC
1 TTTTC-TCTTTTCTTCTTC
33855929 TTTTCTCTTTTCTTCTTC
1 TTTTCTCTTTTCTTCTTC
33855947 -TTTCT-TTTTCT
1 TTTTCTCTTTTCT
33855958 CATTTTCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.21
17 14 0.50
18 8 0.29
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTCTTTTCTTCTTC
Found at i:33867954 original size:21 final size:22
Alignment explanation
Indices: 33867910--33867963 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
33867900 TTCGCACTTC
* *
33867910 GGTGCCCCCGTAAATACACTTT
1 GGTGCCCCTGTAAATACACCTT
*
33867932 GGTGCCCCTGT-AATGCACCTT
1 GGTGCCCCTGTAAATACACCTT
*
33867953 GGTGCTCCTGT
1 GGTGCCCCTGT
33867964 GCATTGATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.15, C:0.31, G:0.24, T:0.30
Consensus pattern (22 bp):
GGTGCCCCTGTAAATACACCTT
Found at i:33874134 original size:127 final size:127
Alignment explanation
Indices: 33873921--33874166 Score: 402
Period size: 127 Copynumber: 1.9 Consensus size: 127
33873911 CTACAGTGGC
* *
33873921 AGTTTTGGGTGCAATCTGGTATTGCTCATGCGGTGACAGTTTTGGGCGCAAATTTGGATGTTATT
1 AGTTTTGGGTACAATCTGGTAATGCTCATGCGGTGACAGTTTTGGGCGCAAATTTGGATGTTATT
* * * * * *
33873986 TTGTAGCGACAACTCTGTACACCTTCATGCATTGATCCTTCTGGATAGGTTCCTATGGTGAT
66 TTGCAGCGACAACCCTGTACACCTTCATGCATTCATACTTCTAGATAAGTTCCTATGGTGAT
* *
33874048 AGTTTTGGGTACAATCTGGTAATGCTCATGTGGTGACAGTTTTGGGTGCAAATTTGGATGTTATT
1 AGTTTTGGGTACAATCTGGTAATGCTCATGCGGTGACAGTTTTGGGCGCAAATTTGGATGTTATT
33874113 TTGCAGCGACAACCCTGTACACCTTCATGCATTCATACTTCTAGATAAGTTCCT
66 TTGCAGCGACAACCCTGTACACCTTCATGCATTCATACTTCTAGATAAGTTCCT
33874167 GCTGTGACAT
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 109 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.37
Consensus pattern (127 bp):
AGTTTTGGGTACAATCTGGTAATGCTCATGCGGTGACAGTTTTGGGCGCAAATTTGGATGTTATT
TTGCAGCGACAACCCTGTACACCTTCATGCATTCATACTTCTAGATAAGTTCCTATGGTGAT
Found at i:33874206 original size:127 final size:127
Alignment explanation
Indices: 33873945--33874212 Score: 310
Period size: 127 Copynumber: 2.1 Consensus size: 127
33873935 TCTGGTATTG
* * *
33873945 CTCATGCGGTGACAGTTTTGGGCGCAAATTTGGATGTTATTTTGTAGCGACAACTCTGTACACCT
1 CTCATGTGGTGACAGTTTTGGGCGCAAATTTGGATGTTATTTTGCAGCGACAACCCTGTACACCT
* * * * * *** * **
33874010 TCATGCATTGATCCTTCTGGATAGGTTCCTATGGTGATAGTTTTGGGTACAATCTGGTAATG
66 TCATGCATTCATACTTCTAGATAAGTTCCTATGGTGACAGTTCAAGATACAATCTGGTAACA
*
33874072 CTCATGTGGTGACAGTTTTGGGTGCAAATTTGGATGTTATTTTGCAGCGACAACCCTGTACACCT
1 CTCATGTGGTGACAGTTTTGGGCGCAAATTTGGATGTTATTTTGCAGCGACAACCCTGTACACCT
* *
33874137 TCATGCATTCATACTTCTAGATAAGTTCCTGCT-GTGACA-TCTCAAGATATAATACT-G-AACA
66 TCATGCATTCATACTTCTAGATAAGTTCCT-ATGGTGACAGT-TCAAGATACAAT-CTGGTAACA
*
33874198 CTCAATGTGGCGACA
1 CTC-ATGTGGTGACA
33874213 TTAGTAGAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
126 6 0.05
127 110 0.92
128 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (127 bp):
CTCATGTGGTGACAGTTTTGGGCGCAAATTTGGATGTTATTTTGCAGCGACAACCCTGTACACCT
TCATGCATTCATACTTCTAGATAAGTTCCTATGGTGACAGTTCAAGATACAATCTGGTAACA
Found at i:33876604 original size:38 final size:38
Alignment explanation
Indices: 33876553--33876625 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
33876543 TCGAGATCTA
33876553 AATTATCTTCCTTTACTATAGCATCTGTAACAACTCTG
1 AATTATCTTCCTTTACTATAGCATCTGTAACAACTCTG
*
33876591 AATTATCTTCCTTTACTGTAGCATCTGTAACAACT
1 AATTATCTTCCTTTACTATAGCATCTGTAACAACT
33876626 TCAATTAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (38 bp):
AATTATCTTCCTTTACTATAGCATCTGTAACAACTCTG
Found at i:33878637 original size:38 final size:39
Alignment explanation
Indices: 33878595--33878682 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 39
33878585 ATGCTGCGAC
*
33878595 ATTCTTGGGTGCAA-TTGAAGAATACTTATGCAGCAATA
1 ATTCTTGGGTGCAATTTGAAGAATACTTATGCAGCAACA
* * *
33878633 ATTC-TGGATGCAATTTGAAGAATATTTATGCAGCGACA
1 ATTCTTGGGTGCAATTTGAAGAATACTTATGCAGCAACA
33878671 A-TCTTGGGTGCA
1 ATTCTTGGGTGCA
33878683 TTCCGAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
37 10 0.23
38 33 0.77
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (39 bp):
ATTCTTGGGTGCAATTTGAAGAATACTTATGCAGCAACA
Found at i:33878933 original size:126 final size:127
Alignment explanation
Indices: 33878702--33878960 Score: 421
Period size: 126 Copynumber: 2.0 Consensus size: 127
33878692 TATTCCTACT
* * *
33878702 GTGACAGTTTTGGGTGCAATCTTGTAGTGCTCATGCGGTGGCAGTTTTGGGTGCAAATTTGGATG
1 GTGACAGTTTTGGGTGCAATCTGGTAGTGCTCATGCGGTGACAGTTTTGGGCGCAAATTTGGATG
* * *
33878767 TTATTTTGTAGAGAGAACTCTGTACACCTTCATGCATTGATCCTTCTGGATAGGTTCTTGCG
66 TTATTTTGCAGAGACAACTCTGTACACCTTCATGCATTGATCCTTCTGGATAGGTTCCTGCG
*
33878829 GTGATAGTTTTGGGTGCAATCTGGTAGTGCT-ATGCGGTGACAGTTTTGGGCGCAAATTTGGATG
1 GTGACAGTTTTGGGTGCAATCTGGTAGTGCTCATGCGGTGACAGTTTTGGGCGCAAATTTGGATG
* * *
33878893 TTATTTTGCAGCGACAACTCTGTACACCTTCATGCATTGATCCTTTTGGATAGGTTCCTGCT
66 TTATTTTGCAGAGACAACTCTGTACACCTTCATGCATTGATCCTTCTGGATAGGTTCCTGCG
33878955 GTGACA
1 GTGACA
33878961 TCTCAAGATA
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
126 92 0.76
127 29 0.24
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (127 bp):
GTGACAGTTTTGGGTGCAATCTGGTAGTGCTCATGCGGTGACAGTTTTGGGCGCAAATTTGGATG
TTATTTTGCAGAGACAACTCTGTACACCTTCATGCATTGATCCTTCTGGATAGGTTCCTGCG
Found at i:33880213 original size:18 final size:18
Alignment explanation
Indices: 33880190--33880224 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33880180 GCGCTTTCGC
33880190 TTGTCTTTGGCGAGCTTT
1 TTGTCTTTGGCGAGCTTT
*
33880208 TTGTCTTTGGTGAGCTT
1 TTGTCTTTGGCGAGCTT
33880225 CCTCTTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.14, G:0.29, T:0.51
Consensus pattern (18 bp):
TTGTCTTTGGCGAGCTTT
Found at i:33881379 original size:38 final size:38
Alignment explanation
Indices: 33881328--33881404 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
33881318 ATTGTCGAGA
33881328 TCTGAATTATCTTCCTTTACTATAGCATCTGTAACAAC
1 TCTGAATTATCTTCCTTTACTATAGCATCTGTAACAAC
* * *
33881366 TCTGAATTGTCTTCCTTTATTGTAGCATCTGTAACAAC
1 TCTGAATTATCTTCCTTTACTATAGCATCTGTAACAAC
33881404 T
1 T
33881405 TCAATTAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (38 bp):
TCTGAATTATCTTCCTTTACTATAGCATCTGTAACAAC
Found at i:33886042 original size:38 final size:38
Alignment explanation
Indices: 33885991--33886063 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
33885981 TCGAGATCTA
33885991 AATTATCTTCCTTTACTATAGCATCTGTAACAACTCTG
1 AATTATCTTCCTTTACTATAGCATCTGTAACAACTCTG
* * *
33886029 AATTATCTTCCTTTATTGTAGCATCTGTAAGAACT
1 AATTATCTTCCTTTACTATAGCATCTGTAACAACT
33886064 TTAATTAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.41
Consensus pattern (38 bp):
AATTATCTTCCTTTACTATAGCATCTGTAACAACTCTG
Found at i:33888060 original size:37 final size:38
Alignment explanation
Indices: 33888019--33888104 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
33888009 CTGTACATGT
* *
33888019 TTATGCAGCGATA-TTCCTGGTTGCAA-TTAAAGAATAC
1 TTATGCAGCAATAGTT-CTGGATGCAATTTAAAGAATAC
* * *
33888056 TTATGCAGCAATAGTTCTTGATGCAATTTGAAGAATAT
1 TTATGCAGCAATAGTTCTGGATGCAATTTAAAGAATAC
33888094 TTATGCAGCAA
1 TTATGCAGCAA
33888105 CAATCTTGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 20 0.48
38 22 0.52
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (38 bp):
TTATGCAGCAATAGTTCTGGATGCAATTTAAAGAATAC
Found at i:33888112 original size:37 final size:37
Alignment explanation
Indices: 33888040--33888112 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 37
33888030 TATTCCTGGT
* *
33888040 TGCAATTAAAGAATACTTATGCAGCAATAGTTCTTGA
1 TGCAATTAAAGAATACTTATGCAGCAACAGATCTTGA
* *
33888077 TGCAATTTGAAGAATATTTATGCAGCAACA-ATCTTG
1 TGCAA-TTAAAGAATACTTATGCAGCAACAGATCTTG
33888113 GGTGCATTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 10 0.32
38 21 0.68
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (37 bp):
TGCAATTAAAGAATACTTATGCAGCAACAGATCTTGA
Found at i:33889374 original size:17 final size:17
Alignment explanation
Indices: 33889354--33889398 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
33889344 GACAATGTAG
*
33889354 ATGCAGCGACAATAAAA
1 ATGCAGGGACAATAAAA
33889371 ATGCAGGGACAATAAAA
1 ATGCAGGGACAATAAAA
33889388 ATGCAGGGACA
1 ATGCAGGGACA
33889399 GTTATACTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.49, C:0.16, G:0.24, T:0.11
Consensus pattern (17 bp):
ATGCAGGGACAATAAAA
Found at i:33890410 original size:17 final size:17
Alignment explanation
Indices: 33890371--33890419 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
33890361 ATATATATGG
**
33890371 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* *
33890388 AGATGCAGTGACAATAA
1 AAATGCAATGACAATAA
*
33890405 AAATGCAAGGACAAT
1 AAATGCAATGACAAT
33890420 TATACTACAG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.18
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:33893714 original size:37 final size:38
Alignment explanation
Indices: 33893673--33893760 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 38
33893663 ATACATATTC
*
33893673 ATGCAGCGACA-TTCCTAGG-TGCAA-TTGAGGAATACTT
1 ATGCAGCGACAGTT-CT-GGATGCAATTTGAAGAATACTT
* *
33893710 ATGCAGCGATAGTTCTGGATGCAATTTGAAGAATATTT
1 ATGCAGCGACAGTTCTGGATGCAATTTGAAGAATACTT
*
33893748 ATGCAGTGACAGT
1 ATGCAGCGACAGT
33893761 CTTGGGTGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
36 2 0.05
37 17 0.40
38 24 0.56
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (38 bp):
ATGCAGCGACAGTTCTGGATGCAATTTGAAGAATACTT
Found at i:33901306 original size:29 final size:27
Alignment explanation
Indices: 33901266--33901328 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 27
33901256 GAAAAATCAA
33901266 CACACAATACACAGCACAGAATAAAAT
1 CACACAATACACAGCACAGAATAAAAT
* * **
33901293 CACACAGATAACACATCACCGAATATTAT
1 CACACA-AT-ACACAGCACAGAATAAAAT
33901322 CACACAA
1 CACACAA
33901329 GGTGTGGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 6 0.20
28 3 0.10
29 21 0.70
ACGTcount: A:0.51, C:0.29, G:0.06, T:0.14
Consensus pattern (27 bp):
CACACAATACACAGCACAGAATAAAAT
Found at i:33904560 original size:27 final size:27
Alignment explanation
Indices: 33904522--33904588 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
33904512 AAAAGTTAAT
* *
33904522 GGTCAAAATCAA-ATGTCAATACTCAAA
1 GGTCAAAGTCAACA-GTCAATAATCAAA
*
33904549 GGTCAAAGTCAACAGTCAATAATCAAC
1 GGTCAAAGTCAACAGTCAATAATCAAA
*
33904576 GATCAACAGTCAA
1 GGTCAA-AGTCAA
33904589 TGGTTCGATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 27 0.79
28 7 0.21
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.19
Consensus pattern (27 bp):
GGTCAAAGTCAACAGTCAATAATCAAA
Found at i:33904681 original size:19 final size:20
Alignment explanation
Indices: 33904638--33904686 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
33904628 TGAGTTGAAT
33904638 TTGGGTTCGGGTCGAGCTCA
1 TTGGGTTCGGGTCGAGCTCA
*
33904658 -CGGGTATCGGGTCGAG-T-A
1 TTGGGT-TCGGGTCGAGCTCA
33904676 TTGGG-TCGGGT
1 TTGGGTTCGGGT
33904687 TGGTGGGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
17 6 0.24
18 1 0.04
19 8 0.32
20 10 0.40
ACGTcount: A:0.10, C:0.16, G:0.45, T:0.29
Consensus pattern (20 bp):
TTGGGTTCGGGTCGAGCTCA
Found at i:33914542 original size:17 final size:18
Alignment explanation
Indices: 33914520--33914560 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
33914510 TTACTTTTCA
33914520 TGCATTCTT-ATTGTGC-T
1 TGCATTCTTAATTGT-CTT
33914537 TGCATT-TTAATTGTCTT
1 TGCATTCTTAATTGTCTT
33914554 TGCATTC
1 TGCATTC
33914561 ATTTTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.54
Consensus pattern (18 bp):
TGCATTCTTAATTGTCTT
Found at i:33915287 original size:41 final size:41
Alignment explanation
Indices: 33915242--33915325 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
33915232 GCATGATACT
33915242 AACATTGATGAAGTTGCAGTTTTAAGTTATTCATAGCTATA
1 AACATTGATGAAGTTGCAGTTTTAAGTTATTCATAGCTATA
*
33915283 AACATTGATGAAGTTGCAGTTTTAAGTTGTTCATAGCTATA
1 AACATTGATGAAGTTGCAGTTTTAAGTTATTCATAGCTATA
33915324 AA
1 AA
33915326 TTGTCAACGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.38
Consensus pattern (41 bp):
AACATTGATGAAGTTGCAGTTTTAAGTTATTCATAGCTATA
Found at i:33921577 original size:37 final size:37
Alignment explanation
Indices: 33921526--33921611 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
33921516 GCGGTGACAA
* *
33921526 TTTTGGGTGTAATCTGGAACTGCTCATGCAGCAACAG
1 TTTTGGGTGCAATCTGAAACTGCTCATGCAGCAACAG
* ** *
33921563 TTTTGGGTGCAATCTGAAAGTGCTCATGTGGCGACAG
1 TTTTGGGTGCAATCTGAAACTGCTCATGCAGCAACAG
*
33921600 TTTTGGGCGCAA
1 TTTTGGGTGCAA
33921612 ATTTGGATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (37 bp):
TTTTGGGTGCAATCTGAAACTGCTCATGCAGCAACAG
Found at i:33924430 original size:23 final size:22
Alignment explanation
Indices: 33924390--33924435 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
33924380 ATTTGCACAT
33924390 AAATCACATTAATATTTAAGCAC
1 AAATCACATTAATATTTAA-CAC
33924413 AAATCACATTAACT-TTTAACAC
1 AAATCACATTAA-TATTTAACAC
33924435 A
1 A
33924436 TTTAATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.18
23 17 0.77
24 1 0.05
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (22 bp):
AAATCACATTAATATTTAACAC
Found at i:33930489 original size:16 final size:17
Alignment explanation
Indices: 33930455--33930495 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
33930445 ACTATAATGC
33930455 AAATGCTAGAACAAAT-A
1 AAATGC-AGAACAAATAA
33930472 AAATGCAGAGAC-AATAA
1 AAATGCAGA-ACAAATAA
33930489 AAATGCA
1 AAATGCA
33930496 ATGACAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (17 bp):
AAATGCAGAACAAATAA
Found at i:33940918 original size:50 final size:50
Alignment explanation
Indices: 33940860--33940960 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
33940850 AGTATGCAAA
*
33940860 TTATATGAATGAATAGATTTTAGCACAGATTAAACATAATTCACAACAAG
1 TTATATGAATGAATAGATTTTAGCACAGATTAAACACAATTCACAACAAG
33940910 TTATATGAATGAATAGATTTTAGCACAGATTAAACACAATTCACAACAAG
1 TTATATGAATGAATAGATTTTAGCACAGATTAAACACAATTCACAACAAG
33940960 T
1 T
33940961 ATAACATAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.30
Consensus pattern (50 bp):
TTATATGAATGAATAGATTTTAGCACAGATTAAACACAATTCACAACAAG
Found at i:33944519 original size:69 final size:69
Alignment explanation
Indices: 33944441--33944573 Score: 230
Period size: 69 Copynumber: 1.9 Consensus size: 69
33944431 ATTTACATAT
* * *
33944441 AATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCATAAATTATATTAACATTTAAG
1 AATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAACATTTAAG
33944506 AACA
66 AACA
*
33944510 AATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAACTTTTAA
1 AATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAACATTTAA
33944574 CACATTTCAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.35
Consensus pattern (69 bp):
AATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAACATTTAAG
AACA
Found at i:33944573 original size:23 final size:23
Alignment explanation
Indices: 33944436--33944566 Score: 199
Period size: 23 Copynumber: 5.7 Consensus size: 23
33944426 AGTTCATTTA
33944436 CATATAATCACATTAATATTTAAG
1 CATA-AATCACATTAATATTTAAG
33944460 CATAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
* * *
33944483 CATAAATTATATTAACATTTAAG
1 CATAAATCACATTAATATTTAAG
* *
33944506 AACAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
*
33944529 CACAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
33944552 CATAAATCACATTAA
1 CATAAATCACATTAA
33944567 CTTTTAACAC
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
23 93 0.96
24 4 0.04
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.34
Consensus pattern (23 bp):
CATAAATCACATTAATATTTAAG
Found at i:33946378 original size:21 final size:19
Alignment explanation
Indices: 33946347--33946388 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 19
33946337 TATAGCAATA
33946347 TTTCTTTTTTCTTTTCTCTT
1 TTTCTTTTTTCTTTTCT-TT
33946367 TTTCTCTTTTTCTTTTCTTT
1 TTTCT-TTTTTCTTTTCTTT
33946387 TT
1 TT
33946389 CTCAATCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTCTTTTTTCTTTTCTTT
Found at i:33947176 original size:21 final size:21
Alignment explanation
Indices: 33947137--33947177 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33947127 TCCTTCCTCC
*
33947137 TTGTGCTTCTTCATTTTGTCT
1 TTGTGCTTCCTCATTTTGTCT
33947158 TTGTGCTTCCTC-TTCTTGTC
1 TTGTGCTTCCTCATT-TTGTC
33947178 CTTCGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.02, C:0.24, G:0.15, T:0.59
Consensus pattern (21 bp):
TTGTGCTTCCTCATTTTGTCT
Found at i:33960939 original size:56 final size:56
Alignment explanation
Indices: 33960834--33960940 Score: 126
Period size: 56 Copynumber: 1.9 Consensus size: 56
33960824 TAAGGTATAG
** **
33960834 GGGACACACAGGCTAAGCACACGGGCATGTGCCAGACAGTGTGTGTATACTATTTA
1 GGGACACACAGGCTAAGCACACAAGCATGTGCCAGACAGTGTGAATATACTATTTA
* * * *
33960890 GGGACACATAGGCTAGGCACACAAGCATGTTCTAGACCA-TGTGAATATACT
1 GGGACACACAGGCTAAGCACACAAGCATGTGCCAGA-CAGTGTGAATATACT
33960941 GTTTTGTAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
56 40 0.95
57 2 0.05
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (56 bp):
GGGACACACAGGCTAAGCACACAAGCATGTGCCAGACAGTGTGAATATACTATTTA
Found at i:33966291 original size:26 final size:26
Alignment explanation
Indices: 33966262--33966328 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
33966252 AACATGGGAC
*
33966262 ATAAAAAATTAACATCAGAATATAAA
1 ATAAAAAATAAACATCAGAATATAAA
* * *
33966288 ATAAGAAATAAACATTAGAATTTAAA
1 ATAAAAAATAAACATCAGAATATAAA
* *
33966314 ACAAAAAAAAAACAT
1 ATAAAAAATAAACAT
33966329 TTTAAATCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.21
Consensus pattern (26 bp):
ATAAAAAATAAACATCAGAATATAAA
Found at i:33979121 original size:80 final size:81
Alignment explanation
Indices: 33978964--33979121 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 81
33978954 TTGAATTTCC
* * * **
33978964 CGTGGAAATAAATTATAAAAAATTTATTGATGTGACATAAAATAATTGAATGGGATTATATATGA
1 CGTGAAAATAAATTATAAAAAATATATTGATGTGACATAAAATAATTGAATGGAACCATATATGA
* * *
33979029 GGTGGTGGAAGTGATA
66 AGTGATGAAAGTGATA
* * ** *
33979045 CGTGAAAATAAGTTGTAAAAAA-ATATTGATGTGGTATAAAATAATTGGATGGAACCATATATGA
1 CGTGAAAATAAATTATAAAAAATATATTGATGTGACATAAAATAATTGAATGGAACCATATATGA
33979109 AGTGATGAAAGTG
66 AGTGATGAAAGTG
33979122 GTTCGTAGAA
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
80 45 0.70
81 19 0.30
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.30
Consensus pattern (81 bp):
CGTGAAAATAAATTATAAAAAATATATTGATGTGACATAAAATAATTGAATGGAACCATATATGA
AGTGATGAAAGTGATA
Found at i:33985160 original size:19 final size:19
Alignment explanation
Indices: 33985138--33985177 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
33985128 ATGCACCTCG
33985138 TGTGCCAAG-ATGTACTTTA
1 TGTGCC-AGTATGTACTTTA
*
33985157 TGTGCCAGTATGTGCTTTA
1 TGTGCCAGTATGTACTTTA
33985176 TG
1 TG
33985178 CTCTAAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (19 bp):
TGTGCCAGTATGTACTTTA
Done.