Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 222 of 253
Found at i:72732164 original size:31 final size:31
Alignment explanation
Indices: 72732129--72732245 Score: 108
Period size: 31 Copynumber: 4.1 Consensus size: 31
72732119 AGCTTGGAGG
*
72732129 TTTTTAAGAAGCATCTTTAAAGACATCTCAT
1 TTTTTAGGAAGCATCTTTAAAGACATCTCAT
* **
72732160 TTTTTAGGAAGCAT-TTT---G-GA----GG
1 TTTTTAGGAAGCATCTTTAAAGACATCTCAT
72732182 TTTTTAGGAAGCATCTTTAAAGACATCTCAT
1 TTTTTAGGAAGCATCTTTAAAGACATCTCAT
* * *
72732213 TTTTTAGGAAGTATCTTTAAAGATATCTTAT
1 TTTTTAGGAAGCATCTTTAAAGACATCTCAT
72732244 TT
1 TT
72732246 AGCTCTAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
22 14 0.21
23 3 0.04
26 2 0.03
27 2 0.03
30 3 0.04
31 43 0.64
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (31 bp):
TTTTTAGGAAGCATCTTTAAAGACATCTCAT
Found at i:72732179 original size:53 final size:53
Alignment explanation
Indices: 72732122--72732223 Score: 195
Period size: 53 Copynumber: 1.9 Consensus size: 53
72732112 GATAGACAGC
72732122 TTGGAGGTTTTTAAGAAGCATCTTTAAAGACATCTCATTTTTTAGGAAGCATT
1 TTGGAGGTTTTTAAGAAGCATCTTTAAAGACATCTCATTTTTTAGGAAGCATT
*
72732175 TTGGAGGTTTTTAGGAAGCATCTTTAAAGACATCTCATTTTTTAGGAAG
1 TTGGAGGTTTTTAAGAAGCATCTTTAAAGACATCTCATTTTTTAGGAAG
72732224 TATCTTTAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (53 bp):
TTGGAGGTTTTTAAGAAGCATCTTTAAAGACATCTCATTTTTTAGGAAGCATT
Found at i:72733109 original size:32 final size:32
Alignment explanation
Indices: 72733049--72733119 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
72733039 TCCGTCCATT
* *
72733049 TTAAAAT-TTACAAAAAATATATTAATAATTA
1 TTAAAATGTTACAAAAAATATAGTAATAATAA
* * *
72733080 TTAAAATGTTATAAAGAATTTAGTAATAATAA
1 TTAAAATGTTACAAAAAATATAGTAATAATAA
72733112 TTAAAATG
1 TTAAAATG
72733120 CTAGTACGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 7 0.21
32 27 0.79
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (32 bp):
TTAAAATGTTACAAAAAATATAGTAATAATAA
Found at i:72733629 original size:14 final size:14
Alignment explanation
Indices: 72733610--72733663 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
72733600 GTTTGCAGGT
*
72733610 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
72733624 AAAATGATTTCTGG
1 AAAATGATTTCCGG
*
72733638 AAAAT-AATTCCTTGG
1 AAAATGATTTCC--GG
72733653 AAAATGATTTC
1 AAAATGATTTC
72733664 TGAAAAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 4 0.12
14 17 0.53
15 7 0.22
16 4 0.12
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:72733676 original size:14 final size:14
Alignment explanation
Indices: 72733617--72733676 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
72733607 GGTAAAATGT
* *
72733617 TTTCCGGAAAATGA
1 TTTCTGGAAAATAA
72733631 TTTCTGGAAAATAA
1 TTTCTGGAAAATAA
* *
72733645 TTCCTTGGAAAATGA
1 TTTC-TGGAAAATAA
*
72733660 TTTCTGAAAAATAA
1 TTTCTGGAAAATAA
72733674 TTT
1 TTT
72733677 ACTTTTCTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 26 0.68
15 12 0.32
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (14 bp):
TTTCTGGAAAATAA
Found at i:72733944 original size:24 final size:23
Alignment explanation
Indices: 72733900--72733944 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
72733890 TAAATAAATA
*
72733900 AATCATTTTAAATATATAATAAT
1 AATCATTTTAAATATAGAATAAT
72733923 AATCAATTATTAAAT-TAGAATA
1 AATC-ATT-TTAAATATAGAATA
72733945 TTAACCGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 9 0.47
25 6 0.32
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
AATCATTTTAAATATAGAATAAT
Found at i:72734161 original size:22 final size:22
Alignment explanation
Indices: 72734136--72734204 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
72734126 ATCCAAGTGC
72734136 ATAACTAATATTACACCATATG
1 ATAACTAATATTACACCATATG
72734158 ATAACTAATATTACACCATATG
1 ATAACTAATATTACACCATATG
*
72734180 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCATATG
72734202 ATA
1 ATA
72734205 GCAACAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.30
Consensus pattern (22 bp):
ATAACTAATATTACACCATATG
Found at i:72734241 original size:46 final size:45
Alignment explanation
Indices: 72734078--72734246 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 45
72734068 ATTAATAATA
* * * * * **
72734078 TTATCCAAATACATAATTAGTATTACACTACATGATAACAACAACA
1 TTATCCAAGTGCATAACTAATATTACACCACATGAT-ACAACAATT
* *
72734124 TTATCCAAGTGCATAACTAATATTACACCATATGAT--AACTAATA
1 TTATCCAAGTGCATAACTAATATTACACCACATGATACAAC-AATT
*
72734168 TTACACCATA-TG-ATAACTAATATTACACCACATGATAGCAACAATT
1 TTA-TCCA-AGTGCATAACTAATATTACACCACATGATA-CAACAATT
*
72734214 TTTTCCAAGTGCATAACTAATATTACACCACAT
1 TTATCCAAGTGCATAACTAATATTACACCACAT
72734247 TAAAAGTATC
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 3 0.03
44 30 0.29
45 10 0.10
46 57 0.55
47 3 0.03
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (45 bp):
TTATCCAAGTGCATAACTAATATTACACCACATGATACAACAATT
Found at i:72735243 original size:32 final size:32
Alignment explanation
Indices: 72735197--72735257 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
72735187 TGTCAGTCAT
72735197 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
72735229 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
72735258 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:72735264 original size:27 final size:30
Alignment explanation
Indices: 72735197--72735270 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
72735187 TGTCAGTCAT
*
72735197 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
72735229 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
72735257 -TCAATATCTAACAA
1 TTCAATATCTAACAA
72735271 AATCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:72737378 original size:22 final size:20
Alignment explanation
Indices: 72737323--72737381 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
72737313 AAAATTGTAA
*
72737323 TTTAACTATA-AAATTAAGAT
1 TTTAA-TATATAAATTAAAAT
*
72737343 TTTAATATTTTAAATTGAAAAT
1 TTTAATA-TATAAATT-AAAAT
72737365 TTGTAATATATAAATTA
1 TT-TAATATATAAATTA
72737382 TGTATAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 6 0.19
22 13 0.41
23 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTAATATATAAATTAAAAT
Found at i:72740050 original size:19 final size:19
Alignment explanation
Indices: 72740026--72740062 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
72740016 GGAGAGAGAA
72740026 AAAAGTGTTACAAATAAGG
1 AAAAGTGTTACAAATAAGG
72740045 AAAAGTGTTACAAATAAG
1 AAAAGTGTTACAAATAAG
72740063 TAACGGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.19, T:0.22
Consensus pattern (19 bp):
AAAAGTGTTACAAATAAGG
Found at i:72742567 original size:23 final size:24
Alignment explanation
Indices: 72742513--72742574 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
72742503 AAGTCTATAA
* *
72742513 AAATCAATTAGAAGAAGATTTAAG
1 AAATCACTTAGAAGAAGATTGAAG
** *
72742537 GGAGCACTTAGAA-AAGATTGAAG
1 AAATCACTTAGAAGAAGATTGAAG
72742560 AAATCACTT-GAAGAA
1 AAATCACTTAGAAGAA
72742575 CACCATCGGA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
22 3 0.10
23 17 0.59
24 9 0.31
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (24 bp):
AAATCACTTAGAAGAAGATTGAAG
Found at i:72743263 original size:14 final size:14
Alignment explanation
Indices: 72743244--72743273 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
72743234 GTTGTGTTCG
72743244 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
*
72743258 TAGTTAAGTTAGAT
1 TAGTTAAATTAGAT
72743272 TA
1 TA
72743274 AAAACAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:72747322 original size:43 final size:43
Alignment explanation
Indices: 72747274--72747431 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 43
72747264 ATTACCGAGA
72747274 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
* * *
72747317 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCAACAT-TA-
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGC-A-TTGTAT
* * * *
72747360 TATGATTTCGTGTAAGACCATGTCT-GAGACATTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTAG-GACATTGGCATTGTAT
* *
72747402 ATGTGATAACATGTAAGACCATATCTAGGA
1 -TGTGATTACATGTAAGACCATGTCTAGGA
72747432 TATGACATTG
Statistics
Matches: 96, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 88 0.92
44 4 0.04
45 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
Found at i:72759477 original size:5 final size:5
Alignment explanation
Indices: 72759467--72759491 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
72759457 TTTTTCTTGC
72759467 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
72759492 TACTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:72778060 original size:43 final size:43
Alignment explanation
Indices: 72778012--72778220 Score: 253
Period size: 43 Copynumber: 4.9 Consensus size: 43
72778002 TACCGAGATG
*
72778012 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGCAT-TA
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTG-ATATA
*
72778055 TGATTACGTGTAAAACCATGTCTGGGACATTGGCATTG-TATTA
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGATA-TA
* * *
72778098 TGATTACGTGTAAAACCATGTCTGGGACATTGGCATCGTTATA
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGATATA
* * * *
72778141 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGATATG
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGATATA
* * * * *
72778184 TGATAACATGTAAGACCATATCTGAGATA-TGGCATTG
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTG
72778221 TATGAGCTAT
Statistics
Matches: 147, Mismatches: 16, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.01
42 7 0.05
43 137 0.93
44 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGATATA
Found at i:72784278 original size:86 final size:85
Alignment explanation
Indices: 72784083--72784349 Score: 360
Period size: 86 Copynumber: 3.1 Consensus size: 85
72784073 CTATAGCAGG
* *
72784083 CGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTTACAAACGCCGCTAAAGACCATGACGTT
1 CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTTACAAACGCCGCTAAAGACCATGACCTT
*
72784148 TAGCGGCGC-TTTCCTAAAAA
66 TAGCGGCGCTTTTCC-GAAAA
*
72784168 CGCCGCTAAAGACCATGACCTTTAGCGGCCCTTTTTTTACAAACGCCGCTAAAGACCATGACCTT
1 CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTTACAAACGCCGCTAAAGACCATGACCTT
* *
72784233 TATCGGCACTTTTCACGAAAA
66 TAGCGGCGCTTTTC-CGAAAA
** * * *
72784254 CGATGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCTT--AAACGCCGCTAAAGATCATGACC
1 CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTT--TTTACAAACGCCGCTAAAGACCATGACC
*
72784317 TTTAGCGGCGCTTTTCCCGCAAA
64 TTTAGCGGCGCTTTT-CCGAAAA
72784340 CGCCGCTAAA
1 CGCCGCTAAA
72784350 AATCATGAAT
Statistics
Matches: 160, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
85 69 0.43
86 87 0.54
87 2 0.01
88 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (85 bp):
CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTTACAAACGCCGCTAAAGACCATGACCTT
TAGCGGCGCTTTTCCGAAAA
Found at i:72784357 original size:43 final size:43
Alignment explanation
Indices: 72784083--72784349 Score: 322
Period size: 43 Copynumber: 6.2 Consensus size: 43
72784073 CTATAGCAGG
* ***
72784083 CGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTTACAAA
1 CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
72784126 CGCCGCTAAAGACCATGACGTTTAGCGGCGC-TTTCCTAAAAA
1 CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAA
* ***
72784168 CGCCGCTAAAGACCATGACCTTTAGCGGCCCTTTTTTTACAAA
1 CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
72784211 CGCCGCTAAAGACCATGACCTTTATCGGCACTTTTCACGA-AAA
1 CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTC-CCACAAA
** * **
72784254 CGATGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCTTAAA
1 CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAA
* *
72784297 CGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCGCAAA
1 CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAA
72784340 CGCCGCTAAA
1 CGCCGCTAAA
72784350 AATCATGAAT
Statistics
Matches: 196, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
42 38 0.19
43 157 0.80
44 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:72784413 original size:22 final size:23
Alignment explanation
Indices: 72784385--72784427 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
72784375 TTTATTTTAA
*
72784385 TTAAATAATAT-TTATTTTTATG
1 TTAAATAATATATTATGTTTATG
*
72784407 TTAAATATTATATTATGTTTA
1 TTAAATAATATATTATGTTTA
72784428 ATTTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAAATAATATATTATGTTTATG
Found at i:72787664 original size:9 final size:9
Alignment explanation
Indices: 72787639--72787684 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
72787629 TATTGTTTAA
72787639 TTTTA-ATT
1 TTTTATATT
72787647 TTTTA-ATT
1 TTTTATATT
72787655 TTTTATATT
1 TTTTATATT
72787664 TTTTATATT
1 TTTTATATT
*
72787673 TTTTTTATT
1 TTTTATATT
72787682 TTT
1 TTT
72787685 CTTTCAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
8 13 0.36
9 23 0.64
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTATATT
Found at i:72787811 original size:7 final size:7
Alignment explanation
Indices: 72787801--72787863 Score: 81
Period size: 7 Copynumber: 8.9 Consensus size: 7
72787791 TATATTTAAG
72787801 TTTTTTA
1 TTTTTTA
72787808 TTTTTTA
1 TTTTTTA
72787815 TTTTTTA
1 TTTTTTA
72787822 TTTTTTA
1 TTTTTTA
*
72787829 TTTTTAAA
1 TTTTT-TA
72787837 TTTTTTA
1 TTTTTTA
*
72787844 TTTTTAA
1 TTTTTTA
* *
72787851 ATTTTAA
1 TTTTTTA
72787858 TTTTTT
1 TTTTTT
72787864 TGAAGATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
7 43 0.88
8 6 0.12
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:72787826 original size:15 final size:15
Alignment explanation
Indices: 72787801--72787848 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
72787791 TATATTTAAG
72787801 TTTTTTATTTTTTA-
1 TTTTTTATTTTTTAT
72787815 TTTTTTATTTTTTAT
1 TTTTTTATTTTTTAT
**
72787830 TTTTAAATTTTTTAT
1 TTTTTTATTTTTTAT
72787845 TTTT
1 TTTT
72787849 AAATTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 14 0.45
15 17 0.55
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:72787854 original size:8 final size:8
Alignment explanation
Indices: 72787828--72787888 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 8
72787818 TTTATTTTTT
72787828 ATTTTTAA
1 ATTTTTAA
*
72787836 ATTTTT-T
1 ATTTTTAA
72787843 ATTTTTAA
1 ATTTTTAA
72787851 A-TTTTAA
1 ATTTTTAA
*
72787858 TTTTTTTGAA
1 -ATTTTT-AA
72787868 GATTTTTATA
1 -ATTTTTA-A
72787878 ATTTTTAA
1 ATTTTTAA
72787886 ATT
1 ATT
72787889 AACATATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
7 12 0.28
8 11 0.26
9 12 0.28
10 8 0.19
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (8 bp):
ATTTTTAA
Found at i:72788355 original size:24 final size:24
Alignment explanation
Indices: 72788328--72788376 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
72788318 CCAAAATAGC
*
72788328 AATTAATTTTTATTTAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
72788352 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
72788376 A
1 A
72788377 TAAATATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:72789069 original size:41 final size:40
Alignment explanation
Indices: 72788986--72789150 Score: 204
Period size: 40 Copynumber: 4.1 Consensus size: 40
72788976 GTTATATAAC
* * ** * *
72788986 TTTTAGTGGCGTTTTACCAAAAGTGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTAACAAAAACGCCGCTATTGCTCAGT
*
72789026 TTTTAGCGGCGTTTTAACAAAAAACGTCGCTATTGCTCAGT
1 TTTTAGCGGCGTTTTAAC-AAAAACGCCGCTATTGCTCAGT
** * *
72789067 TTTTAGCGGCGTTTTTGCTAAAACGCTGCTATTGCTCAGT
1 TTTTAGCGGCGTTTTAACAAAAACGCCGCTATTGCTCAGT
* *
72789107 TTTTAGCGGCGTTTTAATAAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTAACAAAAACGCCGCTATTGCTCAGT
72789147 TTTT
1 TTTT
72789151 TTACAATTTT
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 73 0.69
41 33 0.31
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTAACAAAAACGCCGCTATTGCTCAGT
Found at i:72789078 original size:81 final size:80
Alignment explanation
Indices: 72788986--72789150 Score: 215
Period size: 81 Copynumber: 2.0 Consensus size: 80
72788976 GTTATATAAC
* * *
72788986 TTTTAGTGGCG-TTTTACCAAAAGTGCCGCTAATGCTCTGTTTTTAGCGGCGTTTTAACAAAAAA
1 TTTTAGCGGCGTTTTTACCAAAA-CGCCGCTAATGCTCAGTTTTTAGCGGCGTTTTAA-AAAAAA
*
72789050 CGTCGCTATTGCTCAGT
64 CGCCGCTATTGCTCAGT
* * * * *
72789067 TTTTAGCGGCGTTTTTGCTAAAACGCTGCTATTGCTCAGTTTTTAGCGGCGTTTTAATAAAAACG
1 TTTTAGCGGCGTTTTTACCAAAACGCCGCTAATGCTCAGTTTTTAGCGGCGTTTTAAAAAAAACG
*
72789132 CCGCTATTGCTCTGT
66 CCGCTATTGCTCAGT
72789147 TTTT
1 TTTT
72789151 TTACAATTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 24 0.33
81 40 0.55
82 9 0.12
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (80 bp):
TTTTAGCGGCGTTTTTACCAAAACGCCGCTAATGCTCAGTTTTTAGCGGCGTTTTAAAAAAAACG
CCGCTATTGCTCAGT
Found at i:72789820 original size:23 final size:23
Alignment explanation
Indices: 72789792--72789839 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
72789782 TCCCACTCGC
72789792 CAGCACAAGCCCCTGAATGCTAG
1 CAGCACAAGCCCCTGAATGCTAG
72789815 CAGCACAAGCCCCTGAATGCTAG
1 CAGCACAAGCCCCTGAATGCTAG
72789838 CA
1 CA
72789840 TCACCCATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.35, G:0.21, T:0.12
Consensus pattern (23 bp):
CAGCACAAGCCCCTGAATGCTAG
Found at i:72790544 original size:15 final size:16
Alignment explanation
Indices: 72790524--72790556 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
72790514 TATATATTTT
72790524 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
72790539 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
72790556 T
1 T
72790557 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:72790692 original size:25 final size:26
Alignment explanation
Indices: 72790632--72790680 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
72790622 ACTTGTTTTA
*
72790632 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
72790656 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
72790681 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:72790835 original size:10 final size:10
Alignment explanation
Indices: 72790810--72790846 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
72790800 TTTGTATGGG
72790810 CCCGGCCCGAA
1 CCCGGCCCG-A
72790821 CCCGGCCCGA
1 CCCGGCCCGA
72790831 CCCGGCCCGA
1 CCCGGCCCGA
72790841 CCCGGC
1 CCCGGC
72790847 ACATGATCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.11, C:0.59, G:0.30, T:0.00
Consensus pattern (10 bp):
CCCGGCCCGA
Found at i:72794211 original size:4 final size:4
Alignment explanation
Indices: 72794202--72794248 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
72794192 ATATAGTACA
*
72794202 TATC TATC TATC TATC TATT TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT
72794249 ATATATGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (4 bp):
TATC
Found at i:72794476 original size:27 final size:29
Alignment explanation
Indices: 72794423--72794478 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
72794413 CATAGCTTAA
*
72794423 GTATCAATTGAGAAAAATAATATGTATAG
1 GTATCAATTGAGAAAAATAATAGGTATAG
72794452 GTATCAAATTGA-AAAAA-AAT-GGTATAG
1 GTATC-AATTGAGAAAAATAATAGGTATAG
72794479 TTTAAGTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 6 0.24
28 3 0.12
29 10 0.40
30 6 0.24
ACGTcount: A:0.50, C:0.04, G:0.18, T:0.29
Consensus pattern (29 bp):
GTATCAATTGAGAAAAATAATAGGTATAG
Found at i:72796485 original size:41 final size:41
Alignment explanation
Indices: 72796423--72796501 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
72796413 TAATTATACT
* **
72796423 CTGAATTGCACATACAAGCCCCTATTTGTACTTTGGTACCC
1 CTGAATAGCACATACAAGCCCCTATTTACACTTTGGTACCC
** *
72796464 CTGAATAGCACATACGTGCCCCTGTTTACACTTTGGTA
1 CTGAATAGCACATACAAGCCCCTATTTACACTTTGGTA
72796502 ACTTTAAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (41 bp):
CTGAATAGCACATACAAGCCCCTATTTACACTTTGGTACCC
Found at i:72800161 original size:48 final size:47
Alignment explanation
Indices: 72800109--72800237 Score: 132
Period size: 48 Copynumber: 2.7 Consensus size: 47
72800099 TACGAAGCCT
*
72800109 CATATCGGTGTCGATGCCATGTCCCAGACATGGTCTTACACTGGAACA
1 CATATCGGTG-CGATGCCATGTCCCAGACATGGTCCTACACTGGAACA
** * ** *
72800157 CATATCAATGCTAATGCCATGTCCCAGACATGGTCCTACACTGGCTCT
1 CATATCGGTGC-GATGCCATGTCCCAGACATGGTCCTACACTGGAACA
* * *
72800205 CATCTCGGATGCCGACGCCATGTCCTAGACATG
1 CATATCGG-TG-CGATGCCATGTCCCAGACATG
72800238 TTCTGACATG
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
47 1 0.02
48 44 0.68
49 19 0.29
50 1 0.02
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (47 bp):
CATATCGGTGCGATGCCATGTCCCAGACATGGTCCTACACTGGAACA
Found at i:72824249 original size:28 final size:28
Alignment explanation
Indices: 72824209--72824269 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
72824199 ATGTACTAGA
*
72824209 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
72824237 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
72824265 ATACC
1 ATACC
72824270 TCTAGGGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:72824440 original size:27 final size:27
Alignment explanation
Indices: 72824376--72824468 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 27
72824366 TGGAGGAAGC
*
72824376 GTTCTGGTGGCTA-TGCCACAAATTATCT
1 GTTCTGGTGGC-ACTGCCACATA-TATCT
* * *
72824404 ATTCTAGTGGCCCTGCCACATATATCT
1 GTTCTGGTGGCACTGCCACATATATCT
72824431 GTTCTGGTGGCACTGCCACAATATATCT
1 GTTCTGGTGGCACTGCCAC-ATATATCT
72824459 GTATCTGGTG
1 GT-TCTGGTG
72824469 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
27 21 0.38
28 27 0.49
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (27 bp):
GTTCTGGTGGCACTGCCACATATATCT
Found at i:72824479 original size:29 final size:29
Alignment explanation
Indices: 72824416--72824493 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 29
72824406 TCTAGTGGCC
*
72824416 CTGCCAC-ATATATCTGT-TCTGGTGGCA
1 CTGCCACAATATATCTGTATCTGGTGACA
*
72824443 CTGCCACAATATATCTGTATCTGGTGACT
1 CTGCCACAATATATCTGTATCTGGTGACA
* *
72824472 CTGTCACACT-T-TCTGTATCTGG
1 CTGCCACAATATATCTGTATCTGG
72824494 CAGCCATGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.40
28 11 0.24
29 16 0.36
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (29 bp):
CTGCCACAATATATCTGTATCTGGTGACA
Found at i:72832364 original size:41 final size:41
Alignment explanation
Indices: 72832231--72832372 Score: 182
Period size: 41 Copynumber: 3.5 Consensus size: 41
72832221 AATTATACTT
* * * *
72832231 TGAATTTCACAT-CGAGCCCCTGTTTGTACTTCGGTACCCT
1 TGAATTACACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* *
72832271 TGAATTACAAATACGTGCCCTTGTTTGTACTTCGGTTCCCC
1 TGAATTACACATACGTGCCCTTGTTTGTACTTCGGTACCCC
72832312 TGAATTACACATACGTGCCCTTGTTTGTAC-TCTGGTACCCC
1 TGAATTACACATACGTGCCCTTGTTTGTACTTC-GGTACCCC
*
72832353 TGAA-TAGCACATACATGCCC
1 TGAATTA-CACATACGTGCCC
72832373 CTAATTACAC
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
40 14 0.16
41 76 0.84
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (41 bp):
TGAATTACACATACGTGCCCTTGTTTGTACTTCGGTACCCC
Found at i:72835375 original size:20 final size:20
Alignment explanation
Indices: 72835309--72835375 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
72835299 ATTTTAGTAA
*
72835309 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
72835329 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
72835349 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
72835369 ACATGAT
1 ACATGAT
72835376 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:72835483 original size:24 final size:24
Alignment explanation
Indices: 72835424--72835507 Score: 123
Period size: 24 Copynumber: 3.4 Consensus size: 24
72835414 GGAGGATGTG
72835424 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* * *
72835448 GATAAAGGGCTTACGCCCCAATTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
72835473 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
72835497 TAAAAGAGGCT
1 TAAAAG-GGCT
72835508 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
24 27 0.52
25 25 0.48
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:72835519 original size:25 final size:24
Alignment explanation
Indices: 72835424--72835521 Score: 108
Period size: 24 Copynumber: 4.0 Consensus size: 24
72835414 GGAGGATGTG
*
72835424 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTAGGCCCCAGTTAT
* * *
72835448 GATAAAGGGCTTACGCCCCAATTAT
1 TA-AAAGGGCTTAGGCCCCAGTTAT
*
72835473 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTAGGCCCCAGTTAT
*
72835497 TAAAAGAGGC-TAGGCCTCTAGTTAT
1 TAAAAG-GGCTTAGGCC-CCAGTTAT
72835522 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
24 32 0.51
25 31 0.49
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTAGGCCCCAGTTAT
Found at i:72835750 original size:31 final size:31
Alignment explanation
Indices: 72835715--72835777 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
72835705 CATTTACAGT
72835715 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* ** *
72835746 AAAGGCTTTGGCCCAGTGTTATTAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
72835777 A
1 A
72835778 GTGTGAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:72842553 original size:85 final size:84
Alignment explanation
Indices: 72842404--72842716 Score: 290
Period size: 85 Copynumber: 3.8 Consensus size: 84
72842394 ACTACTGCTA
* *
72842404 ATTTGTAGTTACTGCCACTTG--TGGGTGCACAACATGTTTGCAAATTAAACAAATTACCACTTG
1 ATTTGTAGTTACTGCCACTTGTTTGGGTGCACAACATATTTGCAAATTAAACAAACTACCACTTG
*
72842467 GTTCATGATTGAACCACAT
66 GTTCATGACTGAACCACAT
* * * * * * * *
72842486 ATTTGTAGTTACTGCCATTTGTTATGGTTGCAAAACATATTTGTAGATTAAACATACTGCCATTT
1 ATTTGTAGTTACTGCCACTTGTT-TGGGTGCACAACATATTTGCAAATTAAACAAACTACCACTT
72842551 GGTTCATGACTGAACCACAT
65 GGTTCATGACTGAACCACAT
* *
72842571 ATTTGCAGTTACTGTCACTTGTTTGGGTGCACAACATATTTGACAAATT--------T-CCACTT
1 ATTTGTAGTTACTGCCACTTGTTTGGGTGCACAACATATTTG-CAAATTAAACAAACTACCACTT
* *
72842627 GGTTCGT-AATCGAACCACAT
65 GGTTCATGACT-GAACCACAT
* * * * * * * * *
72842647 ATTTGCACTTATTTCCACTTGTTGTAGGTGCACAACAAATTTGCTAATTAAATAAACTGCCACTT
1 ATTTGTAGTTACTGCCACTTGTT-TGGGTGCACAACATATTTGCAAATTAAACAAACTACCACTT
72842712 GGTTC
65 GGTTC
72842717 GTGATCAAAC
Statistics
Matches: 188, Mismatches: 28, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
75 2 0.01
76 44 0.23
77 18 0.10
82 20 0.11
84 18 0.10
85 86 0.46
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (84 bp):
ATTTGTAGTTACTGCCACTTGTTTGGGTGCACAACATATTTGCAAATTAAACAAACTACCACTTG
GTTCATGACTGAACCACAT
Found at i:72849383 original size:13 final size:13
Alignment explanation
Indices: 72849365--72849391 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72849355 GCTCGGCAGG
72849365 GACACGCCCGTGT
1 GACACGCCCGTGT
72849378 GACACGCCCGTGT
1 GACACGCCCGTGT
72849391 G
1 G
72849392 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:72851318 original size:48 final size:48
Alignment explanation
Indices: 72851245--72851804 Score: 550
Period size: 48 Copynumber: 11.8 Consensus size: 48
72851235 GGTAAGAGGT
* ** *
72851245 CGATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCATAACAATGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
* * *** *
72851293 CAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
* *
72851341 CGATGCCATGTTCCAATCATGGTCTTACACTAGCTCTCATAACAATGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
* *** *
72851389 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
* * *** *
72851437 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
* * * * *
72851485 TGATGCCATG-T-C--TC-T-ATCTTACACTAGCTCTCATAACAATCC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
* * *** *
72851527 CGATGCCATGTTCCAAACGTGGTCTTACACTGGCTCACATATTGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
* *
72851575 CGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATAACAATGC
1 CGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACATAACAATGC
*
72851623 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACAT---ATTGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
* * * *
72851668 AGCGATGCGATGTTCTAGACATGGTCTTACACTAGCTCTCATAACAATGC
1 --CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
* * * ** *
72851718 TGATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATATTAA-GG
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
* * *
72851765 CTATGCCATG-TCCTAGACATGGTCTTACACTGGCTCACAT
1 CGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACAT
72851805 GTACCCTAAC
Statistics
Matches: 420, Mismatches: 78, Indels: 29
0.80 0.15 0.06
Matches are distributed among these distances:
42 29 0.07
43 2 0.00
44 2 0.00
45 4 0.01
46 5 0.01
47 73 0.17
48 298 0.71
49 3 0.01
50 4 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
Found at i:72851563 original size:138 final size:143
Alignment explanation
Indices: 72851245--72851775 Score: 567
Period size: 138 Copynumber: 3.7 Consensus size: 143
72851235 GGTAAGAGGT
* ** * * *** * * * *
72851245 CGATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCATAACAATGCCAATGCCATGTTCCAAA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGA
* *
72851310 CATGGTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTTCCAATCATGGTCTTACACTAGC
66 CATGGTCTTACACTAGCTCACATATTGAGGCCGATGCCATGTTCC-ATCATGATCTTACACTAGC
*
72851375 TCTCATAACAATGC
130 TCTCATAACAATCC
72851389 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGA
*
72851454 CATGGTCTTACACTAGCTCACATATTGAGGCTGATGCCATG-T-C-TC-T-ATCTTACACTAGCT
66 CATGGTCTTACACTAGCTCACATATTGAGGCCGATGCCATGTTCCATCATGATCTTACACTAGCT
72851514 CTCATAACAATCC
131 CTCATAACAATCC
* *
72851527 CGATGCCATGTTCCAAACGTGGTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCTAGA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGA
* *** * * *
72851592 CATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGC
66 CATGGTCTTACACTAGCTCACATATTGAGGCCGATGCCATGTTCC-ATCATGATCTTACACTAGC
* * *
72851657 TCACAT---ATTGCAG
130 TCTCATAACAAT-C-C
* * * * * *** * * * *
72851670 CGATGCGATGTTCTAGACATGGTCTTACACTAGCTCTCATAACAATGCTGATGCCATGTTCCAAA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGA
* * * *
72851735 CATAGTCTTACACTGGCTCACATATTAAGG-CTATGCCATGT
66 CATGGTCTTACACTAGCTCACATATTGAGGCCGATGCCATGT
72851776 CCTAGACATG
Statistics
Matches: 329, Mismatches: 50, Indels: 18
0.83 0.13 0.05
Matches are distributed among these distances:
138 123 0.37
139 2 0.01
140 3 0.01
141 2 0.01
142 13 0.04
143 77 0.23
144 109 0.33
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (143 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCACATATTGAGGCCGATGCCATGTTCCATCATGATCTTACACTAGCT
CTCATAACAATCC
Found at i:72856716 original size:28 final size:28
Alignment explanation
Indices: 72856680--72856737 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
72856670 GAAGAAGAAA
*
72856680 GAAAGTCCACTAGCTTATTGCTTATCAT
1 GAAAGTCCACTAGCTTATTACTTATCAT
* *
72856708 GAAATTCCACTGGCTTATTACTTATCAT
1 GAAAGTCCACTAGCTTATTACTTATCAT
72856736 GA
1 GA
72856738 CATACTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (28 bp):
GAAAGTCCACTAGCTTATTACTTATCAT
Found at i:72861201 original size:15 final size:16
Alignment explanation
Indices: 72861181--72861210 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72861171 CTCAATCCAC
72861181 AATTAC-TTTAATCAT
1 AATTACATTTAATCAT
72861196 AATTACATTTAATCA
1 AATTACATTTAATCA
72861211 ACATATAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTACATTTAATCAT
Found at i:72864269 original size:18 final size:18
Alignment explanation
Indices: 72864242--72864277 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
72864232 AAAACTAGTT
72864242 TCATACCCGTATTATGTG
1 TCATACCCGTATTATGTG
*
72864260 TCATAGCCGTATTATGTG
1 TCATACCCGTATTATGTG
72864278 CGCGTTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (18 bp):
TCATACCCGTATTATGTG
Found at i:72880270 original size:26 final size:26
Alignment explanation
Indices: 72880241--72880348 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
72880231 TGATACAAAT
72880241 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
72880267 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72880293 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
72880319 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72880345 TGAT
1 TGAT
72880349 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:72887221 original size:26 final size:26
Alignment explanation
Indices: 72887192--72887299 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
72887182 TGATACAAAT
72887192 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
72887218 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72887244 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
72887270 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72887296 TGAT
1 TGAT
72887300 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:72890580 original size:46 final size:46
Alignment explanation
Indices: 72890530--72890705 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
72890520 TGATAGAGCA
72890530 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72890576 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
72890621 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
72890669 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72890706 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:72890686 original size:93 final size:93
Alignment explanation
Indices: 72890527--72890698 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
72890517 GGATGATAGA
*
72890527 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
72890592 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
72890620 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
72890684 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
72890699 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:72899871 original size:22 final size:21
Alignment explanation
Indices: 72899836--72899892 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
72899826 AAAGGATATC
* *
72899836 TACAAATTAAATCTCCAAGAT
1 TACAAATCATATCTCCAAGAT
*
72899857 TACAAAATCATATCTTCAAGAT
1 TAC-AAATCATATCTCCAAGAT
* *
72899879 TGCATATCATATCT
1 TACAAATCATATCT
72899893 AAGACTATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.33
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:72913585 original size:27 final size:27
Alignment explanation
Indices: 72913555--72913695 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
72913545 GTGACGAAGT
72913555 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
72913582 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * *
72913609 CATCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
72913636 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
72913663 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
72913690 CACCAG
1 CACCAG
72913696 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 10 0.10
27 86 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:72913640 original size:54 final size:54
Alignment explanation
Indices: 72913555--72913695 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
72913545 GTGACGAAGT
*
72913555 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
72913609 CATCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
72913663 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
72913696 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:72915354 original size:26 final size:26
Alignment explanation
Indices: 72915323--72915430 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
72915313 TGAAATGCCC
72915323 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
72915349 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
72915375 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
72915401 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
72915427 ATCA
1 ATCA
72915431 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:72922829 original size:24 final size:25
Alignment explanation
Indices: 72922802--72922857 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
72922792 TTATTCGCTA
*
72922802 AATTAGGCTTATATGCTT-TTTTTT
1 AATTAGGCTTATAGGCTTATTTTTT
* * *
72922826 AATTCGCCTTTTAGGCTTATTTTTT
1 AATTAGGCTTATAGGCTTATTTTTT
72922851 AATTAGG
1 AATTAGG
72922858 GAAATAGGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.21, C:0.11, G:0.14, T:0.54
Consensus pattern (25 bp):
AATTAGGCTTATAGGCTTATTTTTT
Found at i:72927883 original size:21 final size:22
Alignment explanation
Indices: 72927842--72927883 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
72927832 GAAATTATAT
*
72927842 TAATTTTAAAAGAGCAAATAAG
1 TAATTTTAAAAGAGAAAATAAG
*
72927864 TAATTTTAAAA-ATAAAATAA
1 TAATTTTAAAAGAGAAAATAA
72927884 ATTAAAGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (22 bp):
TAATTTTAAAAGAGAAAATAAG
Found at i:72929848 original size:49 final size:49
Alignment explanation
Indices: 72929795--72929945 Score: 144
Period size: 49 Copynumber: 3.1 Consensus size: 49
72929785 GGGTGTTACA
* * *
72929795 AGTTGCTAACTAGATTGGCGTATGAGTTGGGTGTCTGGTAGGGCATGTT
1 AGTTGCTAACCAGATTGGCGTATGAGGTGGGTGTCTCGTAGGGCATGTT
* * **
72929844 AGTTGCTAACCAGATTGGCGTATGTGGTGGGTTTCTCGTAGGGTTTGTT
1 AGTTGCTAACCAGATTGGCGTATGAGGTGGGTGTCTCGTAGGGCATGTT
* * * * * *
72929893 AATTGCTAATCAGCTTGGTGTTATG-GGT-GATGCCATCGATAGGGCATGTT
1 AGTTGCTAACCAGATTGGCG-TATGAGGTGGGTGTC-TCG-TAGGGCATGTT
72929943 AGT
1 AGT
72929946 AGATAACTAT
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
48 3 0.04
49 64 0.78
50 15 0.18
ACGTcount: A:0.19, C:0.12, G:0.34, T:0.36
Consensus pattern (49 bp):
AGTTGCTAACCAGATTGGCGTATGAGGTGGGTGTCTCGTAGGGCATGTT
Found at i:72938545 original size:21 final size:22
Alignment explanation
Indices: 72938505--72938546 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
72938495 GCCTAAATGG
*
72938505 TCACATGGGCGTGTTGCCCCTC
1 TCACACGGGCGTGTTGCCCCTC
72938527 TCACACGGGCGTG-TGCCCCT
1 TCACACGGGCGTGTTGCCCCT
72938547 GTGTTAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.38, G:0.29, T:0.24
Consensus pattern (22 bp):
TCACACGGGCGTGTTGCCCCTC
Found at i:72941507 original size:36 final size:36
Alignment explanation
Indices: 72941467--72941540 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
72941457 TGTATTTAAC
*
72941467 TGTGTCGAATTGAATTT-TAGT-AACTATATATATATA
1 TGTGTCGAATTG-ATTTATAATGAA-TATATATATATA
* *
72941503 TGTGTTGAATTGATTTATAATGAATATATATGTATA
1 TGTGTCGAATTGATTTATAATGAATATATATATATA
72941539 TG
1 TG
72941541 CTGAAGTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 4 0.12
36 27 0.82
37 2 0.06
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (36 bp):
TGTGTCGAATTGATTTATAATGAATATATATATATA
Found at i:72941812 original size:43 final size:42
Alignment explanation
Indices: 72941715--72941813 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
72941705 GATTTGAGAT
* * *
72941715 TTACGTGTAAGACCATGTTTAGGCCATTGACATCGAATATGA
1 TTACATGTAAGACCATGTTTAGGACAGTGACATCGAATATGA
* * * *
72941757 TTTCATGTAAGACCCTGTTTGGGACAGTGGCATCG-ATAGTTGA
1 TTACATGTAAGACCATGTTTAGGACAGTGACATCGAATA--TGA
72941800 TTACATGTAAGACC
1 TTACATGTAAGACC
72941814 TCGTCTAGGA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.06
42 28 0.60
43 16 0.34
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCATGTTTAGGACAGTGACATCGAATATGA
Found at i:72944113 original size:19 final size:19
Alignment explanation
Indices: 72944089--72944186 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
72944079 AATCTTTAAG
72944089 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
72944108 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
72944127 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
72944144 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
72944163 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
72944184 GAT
1 GAT
72944187 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:72944119 original size:36 final size:35
Alignment explanation
Indices: 72944079--72944186 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
72944069 ATGGAAATAT
72944079 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
72944115 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
72944151 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
72944187 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:72944719 original size:25 final size:25
Alignment explanation
Indices: 72944691--72944739 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
72944681 GTGCATAGTT
72944691 TCATTT-TTTTATATGCTATGTTTAA
1 TCATTTCTTTTATATGCTAT-TTTAA
*
72944716 TCATTTCTTTTATGTGCTATTTTA
1 TCATTTCTTTTATATGCTATTTTA
72944740 TGATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.61
Consensus pattern (25 bp):
TCATTTCTTTTATATGCTATTTTAA
Found at i:72949827 original size:1 final size:1
Alignment explanation
Indices: 72949821--72949889 Score: 66
Period size: 1 Copynumber: 69.0 Consensus size: 1
72949811 CTTCTATTTC
* * * * * * * *
72949821 AAAAAAAAAGAAAAAAAGAAAAGAAAAAGAGAAAAAGAAAAAAAAAAAAGAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
72949886 AAAA
1 AAAA
72949890 TGGAGAGGCC
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:72949842 original size:13 final size:13
Alignment explanation
Indices: 72949821--72949889 Score: 111
Period size: 13 Copynumber: 5.2 Consensus size: 13
72949811 CTTCTATTTC
72949821 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
*
72949834 AAAAGAAAAGAAA
1 AAAAAAAAAGAAA
*
72949847 AAGAGAAAAAGAAA
1 AA-AAAAAAAGAAA
72949861 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
72949874 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
72949887 AAA
1 AAA
72949890 TGGAGAGGCC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
13 40 0.78
14 11 0.22
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:72949849 original size:19 final size:18
Alignment explanation
Indices: 72949821--72949889 Score: 97
Period size: 19 Copynumber: 3.9 Consensus size: 18
72949811 CTTCTATTTC
72949821 AAAAAAAAAGAAAAAAAG
1 AAAAAAAAAGAAAAAAAG
*
72949839 AAAAGAAAAAGAGAAAAAG
1 AAAA-AAAAAGAAAAAAAG
*
72949858 AAAAAAAAA-AAAGAAA-
1 AAAAAAAAAGAAAAAAAG
72949874 AAAAAAAAAGAAAAAA
1 AAAAAAAAAGAAAAAA
72949890 TGGAGAGGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
16 9 0.20
17 10 0.22
18 9 0.20
19 17 0.38
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAG
Found at i:72950893 original size:43 final size:43
Alignment explanation
Indices: 72950835--72951398 Score: 199
Period size: 41 Copynumber: 13.5 Consensus size: 43
72950825 AAATTCAGCG
72950835 TCTTAATC-CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
1 TCTT-ATCTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
** * * *
72950878 TCTTATCTCATTAAGCAGTA--GTAGAGCAGATCGAAGACTTGC---
1 TCTTATCTCCCTAAGCAGTAGGGTA-A-CAGGT-TAA-ATTTGCAGA
*
72950920 -CTTAATC-CCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAGA
1 TCTT-ATCTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
* * * *
72950962 TCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CT-C-G-
1 TCTTATCTCCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGA
* * *
72951003 CCTTAATC-CCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAAA
1 TCTT-ATCTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
* * * * *
72951046 TCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAGGA-CT-C-G-
1 TCTTATCTCCCTAAGCAGTAG-GGTAACAGGT-TA-AATTTGCAGA
* *
72951087 CCTTAATC-CCCTAAGC-GTTAGGGTAACAGGTTAAATTTACAGA
1 TCTT-ATCTCCCTAAGCAG-TAGGGTAACAGGTTAAATTTGCAGA
* * * * *
72951130 TCTTATCTCCCTAAGTAGTAGTGG-AGCAGATCGAAGA-CT-C-G-
1 TCTTATCTCCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGA
72951171 TCTTAATC-CCCTAAGCAGTAGGGTAACAGG-----TTTGCAGA
1 TCTT-ATCTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
* * * ** *** *
72951209 TCTTATCTCCCTAAGTAGTAGTGG-AGCAGATCGACGATGACTCG-
1 TCTTATCTCCCTAAGCAGTAG-GGTAACAGGTTAAATTTG-C-AGA
*
72951253 CCTTAATC-CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
1 TCTT-ATCTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
* * **
72951296 TCTTATCTCCCTAAGCAGTA--GTAGAGCAGATCGAAGACCTGC---
1 TCTTATCTCCCTAAGCAGTAGGGTA-A-CAGGT-TAA-ATTTGCAGA
* *
72951338 -CTTAATC-CCATAAGCAGTAGGGTAACAGGTTAAATTTGTAGA
1 TCTT-ATCTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
72951380 TCTTA--TCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAG
72951399 CGGAGCAGAT
Statistics
Matches: 377, Mismatches: 75, Indels: 140
0.64 0.13 0.24
Matches are distributed among these distances:
35 1 0.00
36 1 0.00
37 4 0.01
38 20 0.05
39 11 0.03
40 16 0.04
41 114 0.30
42 39 0.10
43 112 0.30
44 43 0.11
45 16 0.04
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
Found at i:72950977 original size:84 final size:84
Alignment explanation
Indices: 72950836--72951445 Score: 914
Period size: 84 Copynumber: 7.3 Consensus size: 84
72950826 AATTCAGCGT
** *
72950836 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCATTAAGCAGTAGTA
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
*
72950901 GAGCAGATCGAAGACTTGC
66 GAGCAGATCGAAGACTCGC
*
72950920 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTAGTG
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
72950985 GAGCAGATCGAAGACTCGC
66 GAGCAGATCGAAGACTCGC
* *
72951004 CTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTAGTG
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
*
72951069 GAGCAGATCGAGGACTCGC
66 GAGCAGATCGAAGACTCGC
* *
72951088 CTTAATCCCCTAAGC-GTTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGTAGTAGT
1 CTTAATCCCCTAAGCAG-TAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
72951152 GGAGCAGATCGAAGACTCGT
65 GGAGCAGATCGAAGACTCGC
*
72951172 CTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTTGCAGATCTTATCTCCCTAAGTAGTAGTG
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
72951232 GAGCAGATCGACGATGACTCGC
66 GAGCAGATCGA--A-GACTCGC
*
72951254 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTA
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
72951319 GAGCAGATCGAAGAC-CTGC
66 GAGCAGATCGAAGACTC-GC
* * *
72951338 CTTAATCCCATAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTA--TCCCTAAGCAGTAGCG
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
* *
72951401 GAGCAGATCGAAGATGATGCAC
66 GAGCAGATCGAAGA--CT-CGC
*
72951423 CTTAACCCCCTAAGCAGTAGGGT
1 CTTAATCCCCTAAGCAGTAGGGT
72951446 CCAAGATGAT
Statistics
Matches: 484, Mismatches: 27, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
79 41 0.08
81 1 0.00
82 63 0.13
83 2 0.00
84 312 0.64
85 24 0.05
86 1 0.00
87 40 0.08
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (84 bp):
CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACTCGC
Found at i:72952233 original size:19 final size:20
Alignment explanation
Indices: 72952209--72952251 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
72952199 AATCTTTAAG
72952209 GATATGCAATCTT-AGATAT
1 GATATGCAATCTTAAGATAT
*
72952228 GATATGCAATTTTGAAGATAT
1 GATATGCAATCTT-AAGATAT
72952249 GAT
1 GAT
72952252 CTTGTAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (20 bp):
GATATGCAATCTTAAGATAT
Found at i:72970371 original size:15 final size:15
Alignment explanation
Indices: 72970353--72970384 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
72970343 AATTTTACTG
*
72970353 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
72970368 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
72970383 TT
1 TT
72970385 TGCAAGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:72972009 original size:42 final size:42
Alignment explanation
Indices: 72971952--72972034 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
72971942 TTTCAAAAAT
*
72971952 AATATTATTTTAATAGTATAATATTAAATTAA-ATTAAATTA
1 AATATTATATTAATAGTATAATATTAAATTAATATTAAATTA
** *
72971993 AATACTTATATTAATAGTATTTTATTAATTTAATATTAAATT
1 AATA-TTATATTAATAGTATAATATTAAATTAATATTAAATT
72972035 GATTATCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 4 0.11
42 24 0.67
43 8 0.22
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (42 bp):
AATATTATATTAATAGTATAATATTAAATTAATATTAAATTA
Found at i:72972056 original size:11 final size:11
Alignment explanation
Indices: 72971970--72972056 Score: 51
Period size: 11 Copynumber: 8.3 Consensus size: 11
72971960 TTTAATAGTA
72971970 TAATATTAAAT
1 TAATATTAAAT
72971981 TAA-ATTAAAT
1 TAATATTAAAT
*
72971991 TAAATACTTATAT
1 T-AATA-TTAAAT
*
72972004 TAATAGT--AT
1 TAATATTAAAT
* *
72972013 T-TTATTAATT
1 TAATATTAAAT
72972023 TAATATTAAAT
1 TAATATTAAAT
* **
72972034 T--GATTATCT
1 TAATATTAAAT
72972043 TAATATTAAAT
1 TAATATTAAAT
72972054 TAA
1 TAA
72972057 ATTTAATATT
Statistics
Matches: 55, Mismatches: 13, Indels: 16
0.65 0.15 0.19
Matches are distributed among these distances:
8 3 0.05
9 9 0.16
10 10 0.18
11 22 0.40
12 5 0.09
13 6 0.11
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
TAATATTAAAT
Found at i:72972062 original size:37 final size:36
Alignment explanation
Indices: 72971970--72972066 Score: 101
Period size: 39 Copynumber: 2.7 Consensus size: 36
72971960 TTTAATAGTA
72971970 TAATATTAAATTAAA-TTAA-ATTAAATACTTATAT
1 TAATATTAAATTAAATTTAATATTAAATACTTATAT
* ** *
72972004 TAATAGTATTTTATTAATTTAATATTAAATTGA-TTATCT
1 TAATATTAAATTA--AATTTAATATTAAA-T-ACTTATAT
72972043 TAATATTAAATTAAATTTAATATT
1 TAATATTAAATTAAATTTAATATT
72972067 TATATTGTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
34 10 0.20
36 2 0.04
37 15 0.30
38 6 0.12
39 16 0.32
40 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (36 bp):
TAATATTAAATTAAATTTAATATTAAATACTTATAT
Found at i:72972345 original size:39 final size:39
Alignment explanation
Indices: 72972302--72972385 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
72972292 AAAAAATTTC
*
72972302 TAGAGATATTTTTCTAATTTACAACTTGACCCAAAAGTT
1 TAGAGATATTTTTCTAATTTACAAATTGACCCAAAAGTT
72972341 TAGAGATATTTTTCTAATTTACAAATTGACCCAAAAGTT
1 TAGAGATATTTTTCTAATTTACAAATTGACCCAAAAGTT
72972380 TAGAGA
1 TAGAGA
72972386 AATTATAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (39 bp):
TAGAGATATTTTTCTAATTTACAAATTGACCCAAAAGTT
Found at i:72973460 original size:29 final size:29
Alignment explanation
Indices: 72973413--72973483 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
72973403 ACTGGTACAT
* *
72973413 AGTACCTGATAA-TATAACAC-AGGCACAA
1 AGTACCTGAAAACTGTAACACTA-GCACAA
* *
72973441 AGTGCCTGAAAACTGTAACACTAGTACAA
1 AGTACCTGAAAACTGTAACACTAGCACAA
*
72973470 AGTACCTGATAACT
1 AGTACCTGAAAACT
72973484 ATAATTACCG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
28 10 0.29
29 24 0.69
30 1 0.03
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (29 bp):
AGTACCTGAAAACTGTAACACTAGCACAA
Found at i:72975173 original size:79 final size:82
Alignment explanation
Indices: 72975062--72975246 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
72975052 GCTACTCGTT
* * *
72975062 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
72975125 GGATTTAGTAAC-TCGCG
65 GGATATAGTAACTTAGCA
* **
72975142 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
72975205 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
72975222 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
72975247 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:72975246 original size:40 final size:40
Alignment explanation
Indices: 72975043--72975246 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
72975033 CGGAATTTAA
** *
72975043 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
72975083 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
72975123 CCGGATTTAGTAACTCGCGCAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
72975162 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
72975202 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
72975242 CCGGA
1 CCGGA
72975247 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:72993901 original size:30 final size:29
Alignment explanation
Indices: 72993857--72993913 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
72993847 CAAGGCCATG
*
72993857 ACACAGGGCATGTGGCCTACCCATGTGTC
1 ACACAGGGCATGTGGACTACCCATGTGTC
* *
72993886 ACACACGGGCTTGTGGATTACCCATGTG
1 ACACA-GGGCATGTGGACTACCCATGTG
72993914 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (29 bp):
ACACAGGGCATGTGGACTACCCATGTGTC
Found at i:72996347 original size:46 final size:46
Alignment explanation
Indices: 72996172--72996347 Score: 144
Period size: 46 Copynumber: 3.8 Consensus size: 46
72996162 TCACTTTTGT
* * * *
72996172 GAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATT---ATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-G--GCATTGACACGA
* * **
72996218 GAACCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGGCGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGACACGA
* * ** * *
72996266 GTGCTAGTGTAAGACATGTCTGGGGTATGCTTCGGCCTTGACACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGACACG-A
72996313 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
72996348 TACGTGATGT
Statistics
Matches: 102, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
45 4 0.04
46 55 0.54
47 25 0.25
48 18 0.18
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGACACGA
Found at i:73001704 original size:47 final size:47
Alignment explanation
Indices: 73001550--73001720 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 47
73001540 ATTATCAAAG
73001550 CCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTGAGACGA-GAA
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGA-C-TTGAGA-GATGAA
* * * **
73001598 CTAGTGTAAGA-CACGTCTGGGACAT-GCATCGGC-T-ACGAGATGCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-GAGATGAA
* * *
73001642 TCAATGTAAGACCATGTCTGGGACATGGCATCGACTTGATG-GATAAA
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-GAGATGAA
*
73001689 CCAGTGTAAGACCATGTC-GGGACATGCCATCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
73001721 GCATTATACC
Statistics
Matches: 99, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 3 0.03
44 12 0.12
45 13 0.13
46 26 0.26
47 33 0.33
48 12 0.12
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (47 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAGATGAA
Found at i:73001720 original size:92 final size:91
Alignment explanation
Indices: 73001554--73001722 Score: 229
Period size: 92 Copynumber: 1.8 Consensus size: 91
73001544 TCAAAGCCAG
* *
73001554 TGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGAACTAGTGTAAGACACGTCTGGG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGA-GAAAACCAGTGTAAGACACGTCTGGG
73001619 ACATGCATCGGCTACGAGATGCGTCAA
65 ACATGCATCGGCTACGAGATGCGTCAA
*
73001646 TGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATG-GATAAACCAGTGTAAGACCATGTC-
1 TGTAAGACCATGTCTGGGACATGGCATCAGCA-TTGA-GAGA-AAACCAGTGTAAGA-CACGTCT
73001707 GGGACATGCCATCGGC
62 GGGACATG-CATCGGC
73001723 ATTATACCCT
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
90 3 0.04
91 25 0.36
92 41 0.59
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (91 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGAGAAAACCAGTGTAAGACACGTCTGGGA
CATGCATCGGCTACGAGATGCGTCAA
Found at i:73010118 original size:6 final size:6
Alignment explanation
Indices: 73010107--73010145 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
73010097 TCATCTTATC
73010107 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
73010146 CAATTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:73010151 original size:18 final size:18
Alignment explanation
Indices: 73010112--73010152 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
73010102 TTATCTTTTT
**
73010112 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTTATTTCA
73010130 ATTTTTATTTTTATTTCA
1 ATTTTTATTTTTATTTCA
73010148 ATTTT
1 ATTTT
73010153 ATTATTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (18 bp):
ATTTTTATTTTTATTTCA
Found at i:73020387 original size:40 final size:41
Alignment explanation
Indices: 73020332--73020418 Score: 131
Period size: 40 Copynumber: 2.1 Consensus size: 41
73020322 TATAATCAAT
*
73020332 TTTTATTATATTTTTTAATTTGTATATTGTTTTAAGATTTG
1 TTTTAATATATTTTTTAATTTGTATATTGTTTTAAGATTTG
* * *
73020373 TTTTAATATATTTTTT-ATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATTTTTTAATTTGTATATTGTTTTAAGATTTG
73020413 TTTTAA
1 TTTTAA
73020419 ATGTATTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 27 0.64
41 15 0.36
ACGTcount: A:0.23, C:0.01, G:0.08, T:0.68
Consensus pattern (41 bp):
TTTTAATATATTTTTTAATTTGTATATTGTTTTAAGATTTG
Found at i:73022376 original size:18 final size:18
Alignment explanation
Indices: 73022353--73022388 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
73022343 CTTTCAAAGA
73022353 AAATCGTGTAAAAATCCT
1 AAATCGTGTAAAAATCCT
73022371 AAATCGTGTAAAAATCCT
1 AAATCGTGTAAAAATCCT
73022389 CTTTCAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (18 bp):
AAATCGTGTAAAAATCCT
Found at i:73028519 original size:34 final size:34
Alignment explanation
Indices: 73028469--73028543 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
73028459 TTTTAAATCA
* *
73028469 ACTTTAGGGGCTCCAACCACCACCAAAGGCAACG
1 ACTTTAGAGGCGCCAACCACCACCAAAGGCAACG
* * *
73028503 ACTTTAGAGGCGCCAACCACCACTAATGGCGACG
1 ACTTTAGAGGCGCCAACCACCACCAAAGGCAACG
73028537 ACTTTAG
1 ACTTTAG
73028544 GGTTGCTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.32, G:0.21, T:0.16
Consensus pattern (34 bp):
ACTTTAGAGGCGCCAACCACCACCAAAGGCAACG
Found at i:73033311 original size:47 final size:47
Alignment explanation
Indices: 73033231--73033419 Score: 290
Period size: 47 Copynumber: 4.0 Consensus size: 47
73033221 GTTGAATTTA
* *
73033231 AAGCTTGTTAAA-TTGCTCTTAACATATCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* **
73033277 AAGCTTGTTAAATTTGCTCTTAAAATTTTTGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* *
73033324 AATCTTGTTAAATTTGTTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* *
73033371 AAGCTTGTTAAATTTGCCCTTATTATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
73033418 AA
1 AA
73033420 AGAAAATTTT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 12 0.09
47 117 0.91
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:73034292 original size:45 final size:44
Alignment explanation
Indices: 73034237--73034399 Score: 197
Period size: 45 Copynumber: 3.7 Consensus size: 44
73034227 TTATTCGAAC
*
73034237 CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG
1 CTTTGAGCCTAACAGGCTATAATGCCGGTGAGATACTATTCGGG
* * *
73034281 CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTTGAG
1 -CTTTGAGCCTAACAGGCTATAATGCCGGTGAGATACTATTCGGG
* *
73034326 CTTTCGAGCCTAACAGGCTATAATGCCAGTGAAATGA-TA-TCGGG
1 CTTT-GAGCCTAACAGGCTATAATGCCGGTGAGAT-ACTATTCGGG
* * *
73034370 CTTCGAGCCTAACAGGCGA-AATACCGGTGA
1 CTTTGAGCCTAACAGGCTATAATGCCGGTGA
73034400 ATGAATTCAG
Statistics
Matches: 105, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
42 9 0.09
43 14 0.13
44 10 0.10
45 71 0.68
46 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (44 bp):
CTTTGAGCCTAACAGGCTATAATGCCGGTGAGATACTATTCGGG
Found at i:73040936 original size:47 final size:47
Alignment explanation
Indices: 73040864--73041052 Score: 326
Period size: 47 Copynumber: 4.0 Consensus size: 47
73040854 GTTGAATTTA
73040864 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
73040910 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
*
73040957 AAGCTTGTTAAATTTGTTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* * * *
73041004 AAGGTTGTTAAATTTGCCCTTATTATTTCCTGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
73041051 AA
1 AA
73041053 AGAAAATTTT
Statistics
Matches: 136, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 12 0.09
47 124 0.91
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:73041918 original size:45 final size:44
Alignment explanation
Indices: 73041862--73042006 Score: 186
Period size: 45 Copynumber: 3.3 Consensus size: 44
73041852 TTCGAACCTA
*
73041862 TGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTT
1 TGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGAG-CTT
* *
73041907 TGAGCCCAGCAGGCTATAATGCCGATGAGATACTATTCGAGCTT
1 TGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGAGCTT
* * *
73041951 TCAAGCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCGGGCTT
1 T-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-ACTATTCGAGCTT
*
73041995 CGAGCCTAGCAG
1 TGAGCCTAGCAG
73042007 ACAAGATACC
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
43 10 0.11
44 11 0.12
45 66 0.75
46 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (44 bp):
TGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGAGCTT
Found at i:73043885 original size:63 final size:63
Alignment explanation
Indices: 73043796--73043955 Score: 212
Period size: 63 Copynumber: 2.5 Consensus size: 63
73043786 TATCTCTATG
*
73043796 GATGTCATGGAGTCTTTCATCCATGGTTTTACACTGATTCACCATCCAGACACACTATCTTTT
1 GATGTCATGGAGTCTTTCATCCATGGTCTTACACTGATTCACCATCCAGACACACTATCTTTT
* * * ** ***
73043859 GATGTCACGGAGTCTTTCATCAATGGTCTTACACTGATTCGCCATCTTGGTTCACTATCTTTT
1 GATGTCATGGAGTCTTTCATCCATGGTCTTACACTGATTCACCATCCAGACACACTATCTTTT
** *
73043922 GATACCATGGAATCTTTCATCCATGGTCTTACAC
1 GATGTCATGGAGTCTTTCATCCATGGTCTTACAC
73043956 CGTATATCTT
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 83 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (63 bp):
GATGTCATGGAGTCTTTCATCCATGGTCTTACACTGATTCACCATCCAGACACACTATCTTTT
Found at i:73046048 original size:30 final size:30
Alignment explanation
Indices: 73046012--73046072 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
73046002 TTCCCGAGCC
*
73046012 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
*
73046042 TAGGGGCAAAAATGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
73046072 T
1 T
73046073 GTATTAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:73050835 original size:3 final size:3
Alignment explanation
Indices: 73050827--73050852 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
73050817 ATAAAAACTG
73050827 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
73050853 TTGCAAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:73059719 original size:10 final size:10
Alignment explanation
Indices: 73059700--73059749 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
73059690 TAATTTTAGG
*
73059700 ATTTAACTTT
1 ATTTATCTTT
73059710 ATTTATCTTT
1 ATTTATCTTT
*
73059720 AATTATCTTT
1 ATTTATCTTT
73059730 ATTTAT-TTGT
1 ATTTATCTT-T
*
73059740 AATTATCTTT
1 ATTTATCTTT
73059750 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:73059731 original size:20 final size:20
Alignment explanation
Indices: 73059706--73059749 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
73059696 TAGGATTTAA
73059706 CTTTATTTATCTT-TAATTAT
1 CTTTATTTAT-TTGTAATTAT
73059726 CTTTATTTATTTGTAATTAT
1 CTTTATTTATTTGTAATTAT
73059746 CTTT
1 CTTT
73059750 TAGAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (20 bp):
CTTTATTTATTTGTAATTAT
Found at i:73061819 original size:57 final size:56
Alignment explanation
Indices: 73061731--73061858 Score: 184
Period size: 57 Copynumber: 2.3 Consensus size: 56
73061721 GAAATTCACT
* *
73061731 TGAAATTGGTATAAACTTATCGATTAATGATAGAATATGACACTTAAATGAATTGTG
1 TGAAATTGGTATAAACTTATCGATTAATGATAGAATATGACA-TTAAATGAATTATA
* * * * *
73061788 TGAAATTGGTTTAAACTTATGGATTGATGATAGAATATGACATTGAATGAGTTATA
1 TGAAATTGGTATAAACTTATCGATTAATGATAGAATATGACATTAAATGAATTATA
73061844 TGAAATTGGTATAAA
1 TGAAATTGGTATAAA
73061859 TTGGTAATGT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
56 24 0.38
57 39 0.62
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.36
Consensus pattern (56 bp):
TGAAATTGGTATAAACTTATCGATTAATGATAGAATATGACATTAAATGAATTATA
Found at i:73063822 original size:49 final size:48
Alignment explanation
Indices: 73063766--73064036 Score: 202
Period size: 46 Copynumber: 5.7 Consensus size: 48
73063756 TAAACTGCTA
* *
73063766 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCAAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-TCAAGGCCG
* * *
73063815 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCT-AACAT-AACTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-TCAA--G-GCCG
* * * * *
73063865 ATACCATGTCCCAGACAT-GTCTTATACTAGCT-TACGTCTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CATCTCAAGGCCG
* * * * *
73063912 ATG-CAAGTCCCAGACAT-GTCTTACACTAGC-ACTCGTCTCCATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTCAAGGCCG
* * * ** *
73063958 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT-CTCAAGGCCG
*
73064006 ATG-CTTGTCCCAGACAT-GTCTTACACTAGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT
73064037 CACACAAATG
Statistics
Matches: 180, Mismatches: 30, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
46 50 0.28
47 34 0.19
48 27 0.15
49 48 0.27
50 21 0.12
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCAAGGCCG
Found at i:73065572 original size:21 final size:21
Alignment explanation
Indices: 73065548--73065604 Score: 51
Period size: 22 Copynumber: 2.7 Consensus size: 21
73065538 AATTTGAACT
* *
73065548 CTTGAAGTCACAACACTATCC
1 CTTGAAGTCACAACACCAACC
* * *
73065569 CTTGGATGTCACGACGCCAACC
1 CTT-GAAGTCACAACACCAACC
*
73065591 CTTGAAGTTACAAC
1 CTTGAAGTCACAAC
73065605 GTCGAACCCT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.23
Consensus pattern (21 bp):
CTTGAAGTCACAACACCAACC
Found at i:73068353 original size:11 final size:11
Alignment explanation
Indices: 73068339--73068382 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
73068329 ATATAAATAT
73068339 TATTTTATTAA
1 TATTTTATTAA
*
73068350 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
73068363 TATTTTATTAT
1 TATTTTATTAA
73068374 TATTTTATT
1 TATTTTATT
73068383 TAGTATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:73070190 original size:64 final size:65
Alignment explanation
Indices: 73070061--73070191 Score: 192
Period size: 64 Copynumber: 2.0 Consensus size: 65
73070051 GCGAGCATCC
* * * *
73070061 TGATCGGTATTTGATCCTACATGTGTTGCGGACATACTGCAGCTCTTTATGACCGTCCTGTTATA
1 TGATCGGTATTTGATCCTACATATATTGCGGACATACTGCAGCTCTTTATGACCGTCCCGATATA
* **
73070126 TGATCGGTA-TTGATCCTGCATATATTGCGGACATACTGCAGCTCTTTATGAGTGTCCCGATATA
1 TGATCGGTATTTGATCCTACATATATTGCGGACATACTGCAGCTCTTTATGACCGTCCCGATATA
73070190 TG
1 TG
73070192 GCTCTTCACG
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
64 50 0.85
65 9 0.15
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (65 bp):
TGATCGGTATTTGATCCTACATATATTGCGGACATACTGCAGCTCTTTATGACCGTCCCGATATA
Found at i:73070274 original size:24 final size:25
Alignment explanation
Indices: 73070227--73070275 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
73070217 CTGGCTTGAA
*
73070227 CTTCCTAATATATGGCTATTCGGAG
1 CTTCCTAATATATAGCTATTCGGAG
* *
73070252 CTTCCTGATA-ATAGCTTTTCGGAG
1 CTTCCTAATATATAGCTATTCGGAG
73070276 TTACCAGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (25 bp):
CTTCCTAATATATAGCTATTCGGAG
Found at i:73070387 original size:25 final size:25
Alignment explanation
Indices: 73070323--73070387 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 25
73070313 TCTTATGAGT
**
73070323 TTCCTGTTATA-GG-TCGGATAAGC
1 TTCCTGTTATATGGCTCACATAAGC
* * * *
73070346 TTCTTATTACATTGCTCACATAAGC
1 TTCCTGTTATATGGCTCACATAAGC
73070371 TTCCTGTTATATGGCTC
1 TTCCTGTTATATGGCTC
73070388 GAGAGAGTGT
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
23 8 0.27
24 1 0.03
25 21 0.70
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (25 bp):
TTCCTGTTATATGGCTCACATAAGC
Found at i:73071360 original size:12 final size:12
Alignment explanation
Indices: 73071343--73071367 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73071333 ACCAGGCATG
73071343 TACTCGAACACT
1 TACTCGAACACT
73071355 TACTCGAACACT
1 TACTCGAACACT
73071367 T
1 T
73071368 TCGAGAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (12 bp):
TACTCGAACACT
Found at i:73079884 original size:31 final size:31
Alignment explanation
Indices: 73079846--73079909 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
73079836 CCTTTTCATA
73079846 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
73079877 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
73079908 TT
1 TT
73079910 ACTGTAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:73080210 original size:25 final size:24
Alignment explanation
Indices: 73080103--73080223 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
73080093 GCTTTATCAT
*
73080103 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
73080128 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
73080151 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
73080175 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
* *
73080200 ATAATTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
73080224 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
23 18 0.20
24 41 0.47
25 29 0.33
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:73080294 original size:9 final size:9
Alignment explanation
Indices: 73080280--73080332 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
73080270 ACATCATGTG
73080280 CATATCATA
1 CATATCATA
*
73080289 CATATCATGTG
1 CATATCA--TA
73080300 CATATCATA
1 CATATCATA
*
73080309 CATGTCATA
1 CATATCATA
73080318 TGCATATCATA
1 --CATATCATA
73080329 CATA
1 CATA
73080333 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:73080297 original size:20 final size:20
Alignment explanation
Indices: 73080272--73080338 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
73080262 TTACGAATAC
73080272 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
73080292 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
73080312 GTCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
73080332 ACCATGT
1 ATCATGT
73080339 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:73080312 original size:15 final size:15
Alignment explanation
Indices: 73080284--73080327 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
73080274 CATGTGCATA
73080284 TCATA-CATATCATG
1 TCATATCATATCATG
73080298 TGCATATCATA-CATG
1 T-CATATCATATCATG
73080313 TCATATGCATATCAT
1 TCATAT-CATATCAT
73080328 ACATACCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.23
15 13 0.50
16 7 0.27
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (15 bp):
TCATATCATATCATG
Found at i:73084041 original size:24 final size:21
Alignment explanation
Indices: 73084014--73084078 Score: 58
Period size: 24 Copynumber: 2.8 Consensus size: 21
73084004 GATGAAAGGG
73084014 GAAAAGAAAGGGAAGGGAATAGAA
1 GAAAAGAAAGGGAAGGG-A-AG-A
* *
73084038 GAAAAGATGAGGAAGAAAGGAAGA
1 GAAAAGA-AAGG--GAAGGGAAGA
73084062 GAAAAGAAAGGGAAGGG
1 GAAAAGAAAGGGAAGGG
73084079 GGAAGGGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
21 5 0.15
23 3 0.09
24 15 0.44
25 5 0.15
26 1 0.03
27 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.03
Consensus pattern (21 bp):
GAAAAGAAAGGGAAGGGAAGA
Found at i:73088467 original size:9 final size:9
Alignment explanation
Indices: 73088453--73088489 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
73088443 TATAGTTTGA
73088453 TATTTGAAT
1 TATTTGAAT
73088462 TATTTGAAT
1 TATTTGAAT
*
73088471 TATTTGAGT
1 TATTTGAAT
*
73088480 TATTCGAAT
1 TATTTGAAT
73088489 T
1 T
73088490 TGAAAACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.03, G:0.14, T:0.54
Consensus pattern (9 bp):
TATTTGAAT
Found at i:73093784 original size:7 final size:8
Alignment explanation
Indices: 73093768--73093793 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
73093758 GTCCCTATAC
73093768 TTTTATTT
1 TTTTATTT
73093776 TTTTATTT
1 TTTTATTT
73093784 TTTTATTT
1 TTTTATTT
73093792 TT
1 TT
73093794 CCTTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:73102111 original size:19 final size:20
Alignment explanation
Indices: 73102087--73102125 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
73102077 GCGGATACTC
73102087 TTTAAAAAG-TAAATAATTT
1 TTTAAAAAGATAAATAATTT
73102106 TTTAAAAAGATAAATAATTT
1 TTTAAAAAGATAAATAATTT
73102126 ATCATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTAAAAAGATAAATAATTT
Found at i:73107518 original size:24 final size:24
Alignment explanation
Indices: 73107480--73107525 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
73107470 TGTATAACGG
73107480 GAAACTCATAAGAGCC-ATAATCA
1 GAAACTCATAAGAGCCAATAATCA
*
73107503 GAAAGCTCATACGAGCCAATAAT
1 GAAA-CTCATAAGAGCCAATAAT
73107526 GGGTAGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (24 bp):
GAAACTCATAAGAGCCAATAATCA
Found at i:73107640 original size:26 final size:26
Alignment explanation
Indices: 73107600--73107670 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
73107590 AGTCATATCG
*
73107600 AGAAGCTCA-AGAGAGCCATTAATCA
1 AGAAGCTCACAAAGAGCCATTAATCA
** *
73107625 AGAATTTCACAAAGAGCCTTTAATCA
1 AGAAGCTCACAAAGAGCCATTAATCA
* *
73107651 GGAAGCTCACGAAGAGCCAT
1 AGAAGCTCACAAAGAGCCAT
73107671 ATATCGGGAT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 7 0.19
26 29 0.81
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (26 bp):
AGAAGCTCACAAAGAGCCATTAATCA
Found at i:73125736 original size:3 final size:3
Alignment explanation
Indices: 73125728--73125824 Score: 51
Period size: 3 Copynumber: 32.7 Consensus size: 3
73125718 AGACTTATAT
*
73125728 TTA TTA TTA TTA TGT- TTA TTA TTA TT- TTGA GTA TTA TTA TT- TCTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA
* * * * * * *
73125773 TTA TTT TTG TTA CTA TTG TT- TTA TT- TGTA TTA TTA CTG TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
73125817 TTA TTA TT
1 TTA TTA TT
73125825 GTTGTTGTTG
Statistics
Matches: 71, Mismatches: 14, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
2 7 0.10
3 60 0.85
4 4 0.06
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:73125745 original size:15 final size:15
Alignment explanation
Indices: 73125722--73125768 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
73125712 AATTTGAGAC
*
73125722 TTATATTTATTATTA
1 TTATGTTTATTATTA
73125737 TTATGTTTATTATTA
1 TTATGTTTATTATTA
* **
73125752 TTTTGAGTATTATTA
1 TTATGTTTATTATTA
73125767 TT
1 TT
73125769 TCTATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATGTTTATTATTA
Done.