Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 147 of 352
Found at i:48232570 original size:40 final size:40
Alignment explanation
Indices: 48232487--48232701 Score: 292
Period size: 40 Copynumber: 5.4 Consensus size: 40
48232477 AAGCCAAGTA
* * * *
48232487 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATA-ATAACTCGCACAAATG
* * * *
48232525 CCTTCGGGACATAGCCCGGACATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* *
48232565 CCTTCGGGACTTAGCCCGGATATCATAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
*
48232605 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
*
48232645 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
48232685 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
48232702 AGTTATCATC
Statistics
Matches: 159, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
38 12 0.08
39 15 0.09
40 132 0.83
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
Found at i:48238273 original size:40 final size:40
Alignment explanation
Indices: 48238213--48238311 Score: 135
Period size: 40 Copynumber: 2.5 Consensus size: 40
48238203 GATTATAATG
* * *
48238213 CCTTCGGGACTTAGCTCGGATATAGTAGCTCACACAAATA
1 CCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATA
* * *
48238253 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATA
*
48238293 CCTTCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48238312 TTATCATCCG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATA
Found at i:48240329 original size:17 final size:18
Alignment explanation
Indices: 48240288--48240329 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
48240278 CAAATTAGCC
48240288 TCAAAATTCATACCATTA
1 TCAAAATTCATACCATTA
*
48240306 CCAAAATCTCATA-C-TTA
1 TCAAAAT-TCATACCATTA
48240323 TCAAAAT
1 TCAAAAT
48240330 GAGTCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 7 0.33
19 5 0.24
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (18 bp):
TCAAAATTCATACCATTA
Found at i:48241321 original size:43 final size:43
Alignment explanation
Indices: 48241274--48241399 Score: 164
Period size: 43 Copynumber: 2.9 Consensus size: 43
48241264 TATCCCAAAT
*
48241274 ATGGTCTTACATGTTATCACATATCGATGCCTCTCTCCCAGAC
1 ATGGTCTTACATGTTATCACATATCGATGCCTCTGTCCCAGAC
** * ** *
48241317 ATGGTCTTACATGAAATCTCATAT-GAATGCCAATGTCTCAGAC
1 ATGGTCTTACATGTTATCACATATCG-ATGCCTCTGTCCCAGAC
*
48241360 ATGGTCTTACATGTTATCACATATCGATGTCTCTGTCCCA
1 ATGGTCTTACATGTTATCACATATCGATGCCTCTGTCCCA
48241400 AATAGGGTCG
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 65 0.97
44 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (43 bp):
ATGGTCTTACATGTTATCACATATCGATGCCTCTGTCCCAGAC
Found at i:48248198 original size:17 final size:18
Alignment explanation
Indices: 48248157--48248198 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
48248147 CAAATTAGCC
48248157 TCAAAATTCATACCATTA
1 TCAAAATTCATACCATTA
*
48248175 CCAAAATCTCATA-C-TTA
1 TCAAAAT-TCATACCATTA
48248192 TCAAAAT
1 TCAAAAT
48248199 GAGTCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 7 0.33
19 5 0.24
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (18 bp):
TCAAAATTCATACCATTA
Found at i:48267707 original size:55 final size:57
Alignment explanation
Indices: 48267577--48267716 Score: 160
Period size: 55 Copynumber: 2.5 Consensus size: 57
48267567 CTCATTACAG
* * * **
48267577 AAAGGATTTAGCCTGGACAGGTAATCCTGATATAAGTCCTCTCGAGCATATGTTATGG
1 AAAGGATTTAGCCTGGACAGGTAATCC-GAAATAAGTCCTCTCAAGCATATGTCATAA
** *
48267635 ATTGGATTTAGCTTGGACAGGTAATCC-AAATCAAGTCCT-T-AAGCATATGTCATAA
1 AAAGGATTTAGCCTGGACAGGTAATCCGAAAT-AAGTCCTCTCAAGCATATGTCATAA
*
48267690 AAAGGATTTAGCCTGGACTGGTAATCC
1 AAAGGATTTAGCCTGGACAGGTAATCC
48267717 TGTTGTATAC
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
55 34 0.49
56 4 0.06
57 7 0.10
58 24 0.35
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (57 bp):
AAAGGATTTAGCCTGGACAGGTAATCCGAAATAAGTCCTCTCAAGCATATGTCATAA
Found at i:48269575 original size:37 final size:36
Alignment explanation
Indices: 48269512--48269618 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 36
48269502 ATTCCAAAAA
*
48269512 TAATATTATTTTAATTGTTTAATATTAAATTAAATT
1 TAATATTATTTTAATAGTTTAATATTAAATTAAATT
*
48269548 TAATACTTATTTTAATAG--T-AT-TT-TATT-AATT
1 TAATA-TTATTTTAATAGTTTAATATTAAATTAAATT
** * *
48269579 TAATATTAAAGTGATTA-TTTAATATTAAATTAAATT
1 TAATATT-ATTTTAATAGTTTAATATTAAATTAAATT
48269615 TAAT
1 TAAT
48269619 GTTTATCTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
30 2 0.04
31 14 0.25
32 4 0.07
33 4 0.07
34 4 0.07
35 4 0.07
36 13 0.23
37 11 0.20
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATATTATTTTAATAGTTTAATATTAAATTAAATT
Found at i:48274557 original size:14 final size:15
Alignment explanation
Indices: 48274538--48274575 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
48274528 ATAAAAGAAT
48274538 ATTATAATAACA-TA
1 ATTATAATAACATTA
*
48274552 ATTATAATAATATTA
1 ATTATAATAACATTA
48274567 ATTAATAAT
1 ATT-ATAAT
48274576 CATATTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.52
15 5 0.24
16 5 0.24
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTATAATAACATTA
Found at i:48274572 original size:27 final size:25
Alignment explanation
Indices: 48274535--48274598 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
48274525 TAAATAAAAG
48274535 AATATTATAATAA-CATAATTATAAT
1 AATATTATAATAATCAT-ATTATAAT
*
48274560 AATATTAATTAATAATCATATTATAGT
1 AATATT-A-TAATAATCATATTATAAT
*
48274587 AATAATA-AATAA
1 AATATTATAATAA
48274599 ATAAAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
24 5 0.15
25 6 0.18
26 2 0.06
27 18 0.53
28 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (25 bp):
AATATTATAATAATCATATTATAAT
Found at i:48274608 original size:19 final size:19
Alignment explanation
Indices: 48274584--48274622 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
48274574 ATCATATTAT
48274584 AGTAATAATAA-ATAAATAA
1 AGTAAT-ATAAGATAAATAA
*
48274603 AGTAATTTAAGATAAATAA
1 AGTAATATAAGATAAATAA
48274622 A
1 A
48274623 AAATGGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (19 bp):
AGTAATATAAGATAAATAA
Found at i:48274950 original size:4 final size:4
Alignment explanation
Indices: 48274941--48275075 Score: 53
Period size: 4 Copynumber: 33.5 Consensus size: 4
48274931 ATGAAGGAAT
* * * * *
48274941 AATA AATA AATG AATAA AATG ATTAA AATA AA-A AATA AATA AGTG AAT-
1 AATA AATA AATA AAT-A AATA AAT-A AATA AATA AATA AATA AATA AATA
* * * * * * *
48274989 AATA TATA AATA GATA AGTA TATG AGTA AATA AATG AATAA AATA AA-A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AATA
* * * *
48275037 GGACT- AATG AATA AATA AATA AGTA AATA AATG AATA AA
1 --AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
48275076 AGAATAAAAA
Statistics
Matches: 92, Mismatches: 30, Indels: 18
0.66 0.21 0.13
Matches are distributed among these distances:
3 9 0.10
4 74 0.80
5 9 0.10
ACGTcount: A:0.64, C:0.01, G:0.10, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:48275866 original size:14 final size:15
Alignment explanation
Indices: 48275838--48275870 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48275828 ACTCGGTAAC
*
48275838 CTTTTTTGTTGTTTT
1 CTTTTTTCTTGTTTT
48275853 CTTTTTTCTT-TTTT
1 CTTTTTTCTTGTTTT
48275867 CTTT
1 CTTT
48275871 ATATTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (15 bp):
CTTTTTTCTTGTTTT
Found at i:48276476 original size:44 final size:44
Alignment explanation
Indices: 48276408--48276892 Score: 215
Period size: 44 Copynumber: 10.8 Consensus size: 44
48276398 GAACTATAGT
** * *
48276408 TTTAATCTATTCCACTGTAGCTTCAAGGAGATAAGACTTGTAGC
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGC
* *
48276452 TTTAATCTGCTCCACTGCCACTTC-AGGAAGATAAGATTTGCTATGGTAGA
1 TTTAATCTGCTCCACTGCAACTTCAAGG-AGATAAGA----CT-T-GTAGC
* * * * * *
48276502 TTTAATCCGAC-CTACTACAACTT-TA-GAGGTATAGAATT-TAG-
1 TTTAATCTG-CTCCACTGCAACTTCAAGGAGATA-AGACTTGTAGC
* * *
48276543 TTTAAATCTACTCCACTACAACTTCAAGGATATAAGACTTGTAGC
1 TTT-AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGC
* * * *
48276588 TTTAATCTGCTCCACTGCGACTTTAATGAGATAAGATTTTCTATGGTAGT
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGA----CT-T-GTAGC
* * * * *
48276638 TTTAAT-TCGAC-CTACTGCAACTTTAGAGG-TATAGGA-TT-TAGT
1 TTTAATCT-G-CTCCACTGCAACTTCA-AGGAGATAAGACTTGTAGC
* * * * *
48276680 TTTAATCTACTTCACTGCAACTTTAGGGAGATAAGACTTGTAAC
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGC
* * *
48276724 TTTAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAGC
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGC
* * * * * * *
48276768 TTCAACCTGCTCTATTACAACCTT--AGAGAGATAAGA-TTCACTATC
1 TTTAATCTGCTCCACTGCAA-CTTCAAG-GAGATAAGACTT--GTAGC
* * ** * * * * *
48276813 TATAATCTGCCCCTTTGCAACTTTAGGGAGATAAGATTTCTGGC
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGC
* *
48276857 TTTAATTTGCTCCACTGCAACTTCAATGAGATAAGA
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
48276893 TTCGCTACGA
Statistics
Matches: 332, Mismatches: 72, Indels: 74
0.69 0.15 0.15
Matches are distributed among these distances:
41 7 0.02
42 45 0.14
43 15 0.05
44 160 0.48
45 33 0.10
46 3 0.01
48 8 0.02
49 7 0.02
50 50 0.15
51 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGC
Found at i:48276649 original size:136 final size:137
Alignment explanation
Indices: 48276381--48276763 Score: 502
Period size: 136 Copynumber: 2.8 Consensus size: 137
48276371 TAACCCACTG
* * * * * *
48276381 CAACTTTTGGGGTATAAGAACTATAGTTTTAATCTATTCCACTGTAGCTTCAAGGAGATAAGACT
1 CAACTTTAGAGGTAT-AGAA-TTTAGTTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGACT
* *
48276446 TGTAGCTTTAATCTGCTCCACTGCCAC-TTCAGGAAGATAAGATTTGCTATGGTAGATTTAATCC
64 TGTAGCTTTAATCTGCTCCACTGCAACTTTAAGGAAGATAAGATTTGCTATGGTAGATTTAATCC
48276510 GACCTACTA
129 GACCTACTA
* * *
48276519 CAACTTTAGAGGTATAGAATTTAGTTTAAATCTACTCCACTACAACTTCAAGGATATAAGACTTG
1 CAACTTTAGAGGTATAGAATTTAGTTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTG
* * * * *
48276584 TAGCTTTAATCTGCTCCACTGCGACTTTAATG-AGATAAGATTTTCTATGGTAGTTTTAATTCGA
66 TAGCTTTAATCTGCTCCACTGCAACTTTAAGGAAGATAAGATTTGCTATGGTAGATTTAATCCGA
*
48276648 CCTACTG
131 CCTACTA
* * * *
48276655 CAACTTTAGAGGTATAGGATTTAGTTTTAATCTACTTCACTGCAACTTTAGGGAGATAAGACTTG
1 CAACTTTAGAGGTATAGAATTTAGTTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTG
* * * *
48276720 TAACTTTAATCTGCTCCACTGCAAC-TTCAGGGAGATGAGATTTG
66 TAGCTTTAATCTGCTCCACTGCAACTTTAAGGAAGATAAGATTTG
48276764 TAGCTTCAAC
Statistics
Matches: 214, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
135 4 0.02
136 189 0.88
137 8 0.04
138 13 0.06
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (137 bp):
CAACTTTAGAGGTATAGAATTTAGTTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTG
TAGCTTTAATCTGCTCCACTGCAACTTTAAGGAAGATAAGATTTGCTATGGTAGATTTAATCCGA
CCTACTA
Found at i:48278658 original size:20 final size:20
Alignment explanation
Indices: 48278633--48278672 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
48278623 TCTCTTGGCA
48278633 TAACTGATACAATCCCCTTC
1 TAACTGATACAATCCCCTTC
48278653 TAACTGATACAATCCCCTTC
1 TAACTGATACAATCCCCTTC
48278673 CATGGTGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.35, G:0.05, T:0.30
Consensus pattern (20 bp):
TAACTGATACAATCCCCTTC
Found at i:48287196 original size:40 final size:40
Alignment explanation
Indices: 48287140--48287224 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
48287130 TGAAAAATCA
* * *
48287140 GCTATTTATGGCACTTAGTGTACAATTCGACATAGCTTTG
1 GCTATATATGGAACTTAGTGTACAATTCGACATAGCTTCG
*** *
48287180 GCTATATATGGAACTTAGTGTGTTATTCGAGATAGCTTCG
1 GCTATATATGGAACTTAGTGTACAATTCGACATAGCTTCG
48287220 GCTAT
1 GCTAT
48287225 GTACGACACT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (40 bp):
GCTATATATGGAACTTAGTGTACAATTCGACATAGCTTCG
Found at i:48287236 original size:40 final size:40
Alignment explanation
Indices: 48287164--48287241 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
48287154 TTAGTGTACA
* *
48287164 ATTCGACATAGCTTTGGCTATATATGGAACTTAGTGTGTT
1 ATTCGACATAGCTTCGGCTATATATCGAACTTAGTGTGTT
* *
48287204 ATTCGAGATAGCTTCGGCTATGTA-CGACACTTAGTGTG
1 ATTCGACATAGCTTCGGCTATATATCGA-ACTTAGTGTG
48287242 CAAGATACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (40 bp):
ATTCGACATAGCTTCGGCTATATATCGAACTTAGTGTGTT
Found at i:48287361 original size:28 final size:28
Alignment explanation
Indices: 48287231--48287366 Score: 191
Period size: 28 Copynumber: 4.9 Consensus size: 28
48287221 CTATGTACGA
* * *
48287231 CACTTAGTGTGCAAGATACCAAGTGTGG
1 CACTTAGTGTGCGAGATATCGAGTGTGG
* *
48287259 CACTTAGTGTGAGAGATACCGAGTGTGG
1 CACTTAGTGTGCGAGATATCGAGTGTGG
48287287 CACTTAGTGTGCGAGATATCGAGTGTGG
1 CACTTAGTGTGCGAGATATCGAGTGTGG
*
48287315 CACGTAGTGTGCGAGATATCGAGTGTGG
1 CACTTAGTGTGCGAGATATCGAGTGTGG
* * *
48287343 TACTTAGTGTGTGAGATATTGAGT
1 CACTTAGTGTGCGAGATATCGAGT
48287367 ATTCAACAGC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 98 1.00
ACGTcount: A:0.24, C:0.13, G:0.34, T:0.29
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATCGAGTGTGG
Found at i:48293205 original size:30 final size:30
Alignment explanation
Indices: 48293150--48293206 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48293140 TTAATACGAA
48293150 TTTTGGCAAAATTACATTTTGCCCCTAAAC
1 TTTTGGCAAAATTACATTTTGCCCCTAAAC
* *
48293180 TTTT-GCATAATTACACTTTTTCCCCTA
1 TTTTGGCAAAATTACA-TTTTGCCCCTA
48293207 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGGCAAAATTACATTTTGCCCCTAAAC
Found at i:48300458 original size:30 final size:30
Alignment explanation
Indices: 48300415--48300471 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48300405 TTAATATGAA
*
48300415 TTTTGGCAAAATTACATTTTTGCCCCTAAAC
1 TTTTGGCAAAATTACACTTTT-CCCCTAAAC
*
48300446 TTTT-GCATAATTACACTTTTCCCCTA
1 TTTTGGCAAAATTACACTTTTCCCCTA
48300472 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.25
30 14 0.58
31 4 0.17
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGGCAAAATTACACTTTTCCCCTAAAC
Found at i:48306298 original size:909 final size:909
Alignment explanation
Indices: 48304611--48306424 Score: 3173
Period size: 909 Copynumber: 2.0 Consensus size: 909
48304601 CGTAAGCTTA
48304611 TGTTAGAATGGGCCCGCTGGTCAGGTGGATAAGTAGAGTGTTGGTGGGATAGAGGTCCTGTGTTC
1 TGTTAGAATGGGCCCGCTGGTCAGGTGGATAAGTAGAGTGTTGGTGGGATAGAGGTCCTGTGTTC
48304676 GATTCTCTACGTGGGCAAGGGGATAGTATTTTTGTTGCAAGTTTATGTTTTACTGAAAAACTGAG
66 GATTCTCTACGTGGGCAAGGGGATAGTATTTTTGTTGCAAGTTTATGTTTTACTGAAAAACTGAG
*
48304741 TAGTGGGGAGTCGGTGGAGAGAATTAAGGGAATTGGAGTTGGGGTTTACCAAAAAAATATAATTC
131 TAGTAGGGAGTCGGTGGAGAGAATTAAGGGAATTGGAGTTGGGGTTTACCAAAAAAATATAATTC
48304806 TCATTTCTCTGCTTTCTATTTTTACAAAATTCGGTTGTCCCCTTCCTTTTTCCTCTCGACCCTGC
196 TCATTTCTCTGCTTTCTATTTTTACAAAATTCGGTTGTCCCCTTCCTTTTTCCTCTCGACCCTGC
* ** *
48304871 TGCTGAGTTTTCGTACTTTTTCCTGATTACAACCATTTTCTTTTTATCACTTAGTATTTGCAATC
261 TGCTGAGTTTCCCCACTTTTTCCTGATTACAACCATTTTCTTTTTATCACTTAGTATCTGCAATC
48304936 CATCACTTCAGTTCTCTGTTTGCATTCTTGGTAAGTACGGTAGTATAGTATTGAGGAATAATGAA
326 CATCACTTCAGTTCTCTGTTTGCATTCTTGGTAAGTACGGTAGTATAGTATTGAGGAATAATGAA
*
48305001 TCATTGCTTATTGGGTATTGATTGGTGATTAGGAGATATTCAGAGGGCTGGAGATCATTAATTGA
391 TCATTGCTTATTGGGTATTGATTGGTGATTAGGAGATAATCAGAGGGCTGGAGATCATTAATTGA
*
48305066 CATTCTAAGTGTACAAAACCCCGATTGATTCGACTGAAGGTAACGTTTTTGTGAGTTTAGTGTTC
456 CATTCTAAGTGTACAAAACCCCGATTGATTCGACTGAAGGTAACGTTTTTGTGAGTTTAGCGTTC
* *
48305131 AGTCATCTCGTGGGTTTTCGTTTGAGTATAGCCTTAAGTGACTAGTTTGGCGTTATATTGGTTAA
521 AGTCATCTCGTGGGTTTTCGTTTGAGTATAGCCTTAAGTGACTAATTTAGCGTTATATTGGTTAA
** *
48305196 ATAAAGGATCGGGAATGCTTGAGCTCATTTAAGATTTGAATCAATATCAGATGTGTAACCAAAAA
586 ATAAAGGATCGGGAATGCTCAAGCTCATTTAAGATTCGAATCAATATCAGATGTGTAACCAAAAA
* * *
48305261 CACAAAAAATGAGAGCTGTTAAAAGTCAAAACGATTCTGTCGATGCCACTCGAGCGTGTGGTCAC
651 CACAAAAAATGAGAGCTGGTAAAAGTCAAAACGATTCTGTCGACGCCACACGAGCGTGTGGTCAC
* * *
48305326 CCGTGTGGTAAGCCGTGTGGTAGTACACAGACATGTGGGCCCACACGGGTAGGCCACATGGGCAT
716 CCGTGTGCTAAGCCATGTGGTAGTACACAGACATGTGGGCCCACACGGGCAGGCCACATGGGCAT
* * * *
48305391 GTGAGCCCATCTTTCTGGAATAGTTTGTAAGGTTTCACGGGTTGCCTAAGTCGACTATGACCTGC
781 GTGAGCCCATCTTTCTGAAATAGTTTGTAAGGTTGCACGGGTCGCCTAAGTCGACTATGACCTAC
48305456 CGTAGGGTCGGTAAGAATTACTTAGACCCCTGATTCTATAATTTGTTGTGTGATGTATGTATCT
846 CGTAGGGTCGGTAAGAATTACTTAGACCCCTGATTCTATAATTTGTTGTGTGATGTATGTATCT
* *
48305520 TGTTAGAATGGGCCTGCTGGTCTGGTGGATAAGTAGAGTGTTGGTGGGATAGAGGTCCTGTGTTC
1 TGTTAGAATGGGCCCGCTGGTCAGGTGGATAAGTAGAGTGTTGGTGGGATAGAGGTCCTGTGTTC
*
48305585 GATTCTCTACGTGGGCAAGGGGATAGTATTTTTGTTGCAAGTTTGTGTTTTACTGAAAAACTGAG
66 GATTCTCTACGTGGGCAAGGGGATAGTATTTTTGTTGCAAGTTTATGTTTTACTGAAAAACTGAG
* *
48305650 TAGTAGGGAGTGGGTGGAGAGAATTAAGGGAATTGGAGTTGGGGTTTACCAAAAAAATGTAATTC
131 TAGTAGGGAGTCGGTGGAGAGAATTAAGGGAATTGGAGTTGGGGTTTACCAAAAAAATATAATTC
*
48305715 TCATTTCTCTGCTTTCTATTTTTACAAAATTCGGTTGTCCCCTTCCTTTTTCCTCTTGACCCTGC
196 TCATTTCTCTGCTTTCTATTTTTACAAAATTCGGTTGTCCCCTTCCTTTTTCCTCTCGACCCTGC
48305780 TGCTGAGTTTCCCCACTTTTTCCTGATTACAACCATTTTCTTTTTATCACTTAGTATCTGCAATC
261 TGCTGAGTTTCCCCACTTTTTCCTGATTACAACCATTTTCTTTTTATCACTTAGTATCTGCAATC
48305845 CATCACTTCAGTTCTCTGTTTGCATTCTTGGTAAGTACGGTAGTATAGTATTGAGGAATAATGAA
326 CATCACTTCAGTTCTCTGTTTGCATTCTTGGTAAGTACGGTAGTATAGTATTGAGGAATAATGAA
*
48305910 TCATTGCTTATTGGGTATTGATTGGTGATTAGGAGATAATCAGAGGGTTGGAGATCATTAATTGA
391 TCATTGCTTATTGGGTATTGATTGGTGATTAGGAGATAATCAGAGGGCTGGAGATCATTAATTGA
*
48305975 CATTCTAAGTGTACAAAACCCCGATTGATTCGATTGAAGGTAACGTTTTTGTGAGTTTAGCGTTC
456 CATTCTAAGTGTACAAAACCCCGATTGATTCGACTGAAGGTAACGTTTTTGTGAGTTTAGCGTTC
*
48306040 GGTCATCTCGTGGGTTTTCGTTTGAGTATAGCCTTAAGTGACTAATTTAGCGTTATATTGGTTAA
521 AGTCATCTCGTGGGTTTTCGTTTGAGTATAGCCTTAAGTGACTAATTTAGCGTTATATTGGTTAA
* * *
48306105 ATAAAGG-TCCGGGAGTGCTCAAGCTCGTTTAAGCTTCGAATCAATATCAGATGTGTAACCAAAA
586 ATAAAGGAT-CGGGAATGCTCAAGCTCATTTAAGATTCGAATCAATATCAGATGTGTAACCAAAA
* *
48306169 ACACAAAAAATGAGA-ATCGGTAAAAGTCGAAACGATTCTGTCGACGCCACACGAGCGTGTGGTC
650 ACACAAAAAATGAGAGCT-GGTAAAAGTCAAAACGATTCTGTCGACGCCACACGAGCGTGTGGTC
* * * * * * *
48306233 ACCCGTGTGCTAGGCCATGTGGTAGTACGCAGGCGTGTGGGCCCACACTGGCATGCCATATGGGC
714 ACCCGTGTGCTAAGCCATGTGGTAGTACACAGACATGTGGGCCCACACGGGCAGGCCACATGGGC
* *
48306298 ATGTGAGCCCATCTTTCTGAAATAGTTTGTAAGGTTGCACGGGTCGCCTAAGTTGACTATGGCCT
779 ATGTGAGCCCATCTTTCTGAAATAGTTTGTAAGGTTGCACGGGTCGCCTAAGTCGACTATGACCT
* *
48306363 ACCGTAGGGTCGGTAAGCATTACTTAGACCCCTGATTCTTTAATTTGTTGTGTGATGTATGT
844 ACCGTAGGGTCGGTAAGAATTACTTAGACCCCTGATTCTATAATTTGTTGTGTGATGTATGT
48306425 GTTAAACATG
Statistics
Matches: 856, Mismatches: 47, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
908 2 0.00
909 854 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (909 bp):
TGTTAGAATGGGCCCGCTGGTCAGGTGGATAAGTAGAGTGTTGGTGGGATAGAGGTCCTGTGTTC
GATTCTCTACGTGGGCAAGGGGATAGTATTTTTGTTGCAAGTTTATGTTTTACTGAAAAACTGAG
TAGTAGGGAGTCGGTGGAGAGAATTAAGGGAATTGGAGTTGGGGTTTACCAAAAAAATATAATTC
TCATTTCTCTGCTTTCTATTTTTACAAAATTCGGTTGTCCCCTTCCTTTTTCCTCTCGACCCTGC
TGCTGAGTTTCCCCACTTTTTCCTGATTACAACCATTTTCTTTTTATCACTTAGTATCTGCAATC
CATCACTTCAGTTCTCTGTTTGCATTCTTGGTAAGTACGGTAGTATAGTATTGAGGAATAATGAA
TCATTGCTTATTGGGTATTGATTGGTGATTAGGAGATAATCAGAGGGCTGGAGATCATTAATTGA
CATTCTAAGTGTACAAAACCCCGATTGATTCGACTGAAGGTAACGTTTTTGTGAGTTTAGCGTTC
AGTCATCTCGTGGGTTTTCGTTTGAGTATAGCCTTAAGTGACTAATTTAGCGTTATATTGGTTAA
ATAAAGGATCGGGAATGCTCAAGCTCATTTAAGATTCGAATCAATATCAGATGTGTAACCAAAAA
CACAAAAAATGAGAGCTGGTAAAAGTCAAAACGATTCTGTCGACGCCACACGAGCGTGTGGTCAC
CCGTGTGCTAAGCCATGTGGTAGTACACAGACATGTGGGCCCACACGGGCAGGCCACATGGGCAT
GTGAGCCCATCTTTCTGAAATAGTTTGTAAGGTTGCACGGGTCGCCTAAGTCGACTATGACCTAC
CGTAGGGTCGGTAAGAATTACTTAGACCCCTGATTCTATAATTTGTTGTGTGATGTATGTATCT
Found at i:48327458 original size:27 final size:27
Alignment explanation
Indices: 48327428--48327605 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
48327418 ATATTGAGCC
* * *
48327428 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
48327455 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
48327482 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
48327510 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
48327537 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
48327564 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
48327591 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48327606 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:48327521 original size:55 final size:55
Alignment explanation
Indices: 48327428--48327605 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
48327418 ATATTGAGCC
* * *
48327428 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
48327482 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
48327537 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
48327591 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48327606 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:48327567 original size:82 final size:81
Alignment explanation
Indices: 48327449--48327604 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
48327439 TGCTATACAA
* * *
48327449 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
48327514 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
48327531 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
48327595 CACTTAGTGC
65 CACTTAGTGC
48327605 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48335498 original size:27 final size:27
Alignment explanation
Indices: 48335468--48335645 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
48335458 ATATTGAGCC
* * *
48335468 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
48335495 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
48335522 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
48335550 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
48335577 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
48335604 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
48335631 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48335646 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:48335561 original size:55 final size:55
Alignment explanation
Indices: 48335468--48335645 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
48335458 ATATTGAGCC
* * *
48335468 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
48335522 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
48335577 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
48335631 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48335646 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:48335607 original size:82 final size:81
Alignment explanation
Indices: 48335489--48335644 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
48335479 TGCTATACAA
* * *
48335489 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
48335554 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
48335571 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
48335635 CACTTAGTGC
65 CACTTAGTGC
48335645 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48339077 original size:40 final size:40
Alignment explanation
Indices: 48339022--48339123 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
48339012 TGACAAATCA
* *
48339022 GCTATTTATGGCACTTAGTGT-ACGATTCGACATAGCTTCG
1 GCTATATATGACACTTAGTGTGA-GATTCGACATAGCTTCG
*
48339062 GCTATATATGACACTTAGTGTGAGATTCGAGATAGCTTCG
1 GCTATATATGACACTTAGTGTGAGATTCGACATAGCTTCG
* **
48339102 GCTATGTACAACACTTAGTGTG
1 GCTATATATGACACTTAGTGTG
48339124 CGAGATATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 54 0.98
41 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (40 bp):
GCTATATATGACACTTAGTGTGAGATTCGACATAGCTTCG
Found at i:48339156 original size:28 final size:28
Alignment explanation
Indices: 48339113--48339222 Score: 148
Period size: 28 Copynumber: 3.9 Consensus size: 28
48339103 CTATGTACAA
* *
48339113 CACTTAGTGTGCGAGATATTGAGTGTGG
1 CACTTAGTGTGTGAGATATTGAGTATGG
* * * *
48339141 CGCTTAGTGTGTGAGACATCGAGTATGA
1 CACTTAGTGTGTGAGATATTGAGTATGG
48339169 CACTTAGTGTGTGAGATATTGAGTATGG
1 CACTTAGTGTGTGAGATATTGAGTATGG
* *
48339197 TACTTAGTGTGTGATATATTGAGTAT
1 CACTTAGTGTGTGAGATATTGAGTAT
48339223 TCAACAACAT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.35
Consensus pattern (28 bp):
CACTTAGTGTGTGAGATATTGAGTATGG
Found at i:48343362 original size:45 final size:47
Alignment explanation
Indices: 48343157--48343441 Score: 278
Period size: 47 Copynumber: 6.1 Consensus size: 47
48343147 TAGGATTTTA
*** * * *
48343157 GTGATGAATGTGAATGTGTATATATGAGATAGGGCC-AGATGGCCAAT
1 GTGATGAATGTGAGCATGCATATATGTGATAAGGCCGA-ATGGCCAAT
*
48343204 GTGATGAAT-TGATCATGCATATATTGTGATAA-GCCGAAATGGCCAAT
1 GTGATGAATGTGAGCATGCATATA-TGTGATAAGGCCG-AATGGCCAAT
* *
48343251 GTGAT-AATATGAGCATGCATATGTGTGATTAAGGCCGAATGGCCAAT
1 GTGATGAATGTGAGCATGCATATATGTGA-TAAGGCCGAATGGCCAAT
* *
48343298 GTGGTGAATGTGAACATGCATATATGTGATAAGGCCG-A-GG-CAAT
1 GTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAAT
* * *
48343342 GCGAATGAATGTGAGCATGCATATGTGTGATAAGGCCTAATGGCCAAT
1 GTG-ATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAAT
* * * * * * *
48343390 GTGGTGAATATGAAACATGCATATATGTGGTAAAGTCGAATGGCTAAT
1 GTGATGAATGTG-AGCATGCATATATGTGATAAGGCCGAATGGCCAAT
48343438 GTGA
1 GTGA
48343442 AATATGTATG
Statistics
Matches: 198, Mismatches: 28, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
44 6 0.03
45 32 0.16
46 23 0.12
47 75 0.38
48 62 0.31
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
GTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAAT
Found at i:48343408 original size:93 final size:92
Alignment explanation
Indices: 48343195--48343447 Score: 309
Period size: 93 Copynumber: 2.7 Consensus size: 92
48343185 ATAGGGCCAG
* * *
48343195 ATGGCCAATGTGATGAATTGATCATGCATATATTGTGATAAGCCGAAATGGCCAATGTGATAATA
1 ATGGCCAATGTGGTGAATTGAACATGCATATA-TGTGATAAGCCG-AATGGCCAATGCGATAATA
48343260 TGAGCATGCATATGTGTGATTAAGGCCGA
64 TGAGCATGCATATGTGTGATTAAGGCCGA
48343289 ATGGCCAATGTGGTGAATGTGAACATGCATATATGTGATAAGGCCG-A-GG-CAATGCGAATGAA
1 ATGGCCAATGTGGTGAAT-TGAACATGCATATATGTGATAA-GCCGAATGGCCAATGCG-AT-AA
* *
48343351 TGTGAGCATGCATATGTGTGA-TAAGGCCTA
62 TATGAGCATGCATATGTGTGATTAAGGCCGA
* * * *
48343381 ATGGCCAATGTGGTGAATATGAAACATGCATATATGTGGTAAAGTCGAATGGCTAATGTGA-AAT
1 ATGGCCAATGTGGTGAAT-TG-AACATGCATATATGTGAT-AAGCCGAATGGCCAATGCGATAAT
48343445 ATG
63 ATG
48343448 TATGAGATTG
Statistics
Matches: 139, Mismatches: 11, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
91 6 0.04
92 32 0.23
93 48 0.35
94 28 0.20
95 20 0.14
96 5 0.04
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (92 bp):
ATGGCCAATGTGGTGAATTGAACATGCATATATGTGATAAGCCGAATGGCCAATGCGATAATATG
AGCATGCATATGTGTGATTAAGGCCGA
Found at i:48343570 original size:97 final size:94
Alignment explanation
Indices: 48343412--48343592 Score: 283
Period size: 97 Copynumber: 1.9 Consensus size: 94
48343402 AAACATGCAT
* *
48343412 ATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGATTGTATATGTGGTAAAGCCGAA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATTGTATATGTGGTAAAGCCGAA
48343477 TGGCTAATGTGAAATATGTATGAGATATGC
66 TGGCTAATGTGAAA-ATGTATGAGATATGC
*
48343507 ATATGTGGTAAAGCCGAATGTC-AATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATGAGAT-TGTATATGTGGTAAAGCC
*
48343571 GAATGGCTAGTGTGAAAATGTA
63 GAATGGCTAATGTGAAAATGTA
48343593 GGCGCTGTGC
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
94 6 0.08
95 22 0.28
96 17 0.22
97 34 0.43
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (94 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATTGTATATGTGGTAAAGCCGAA
TGGCTAATGTGAAAATGTATGAGATATGC
Found at i:48343608 original size:49 final size:48
Alignment explanation
Indices: 48343411--48343592 Score: 280
Period size: 47 Copynumber: 3.8 Consensus size: 48
48343401 GAAACATGCA
*
48343411 TATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGAT-TG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
48343458 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
48343506 CATATGTGGTAAAGCCGAATGTC-AATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATG
*
48343555 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAA-ATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
48343593 GGCGCTGTGC
Statistics
Matches: 123, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
47 54 0.44
48 26 0.21
49 38 0.31
50 5 0.04
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:48343836 original size:38 final size:37
Alignment explanation
Indices: 48343739--48343844 Score: 176
Period size: 37 Copynumber: 2.8 Consensus size: 37
48343729 AATATATTCC
*
48343739 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
48343776 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
* *
48343813 GGTAAGAACCCGATAACTTCGTGTGGAGATTT
1 GGTAAG-ACCCGATGACTACGTGTGGAGATTT
48343845 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
37 42 0.65
38 23 0.35
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:48351717 original size:12 final size:12
Alignment explanation
Indices: 48351700--48351725 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48351690 CCAAAGCTTT
48351700 TCTTTTCTCTTC
1 TCTTTTCTCTTC
48351712 TCTTTTCTCTTC
1 TCTTTTCTCTTC
48351724 TC
1 TC
48351726 CATAATTCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (12 bp):
TCTTTTCTCTTC
Found at i:48352972 original size:27 final size:27
Alignment explanation
Indices: 48352942--48353060 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
48352932 CCCCAAAATA
48352942 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
48352969 GGTAAAATGACCGTAATTCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * *
48352996 GATAAAATGATCGTAATACCCCTGTAA
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
48353023 GGTAAAATGACCGTAATGTCCCTCTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
48353050 GGTAATATGAC
1 GGTAAAATGAC
48353061 GATTATGCCC
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:48353020 original size:54 final size:55
Alignment explanation
Indices: 48352939--48353060 Score: 178
Period size: 54 Copynumber: 2.3 Consensus size: 55
48352929 AAACCCCAAA
* *
48352939 ATAGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAAT-TCCC-CT
1 ATAGGTAAAATGACCGTAATACCCCTGTAAGGTAAAATGACCGTAATGTCCCTCT
*
48352992 ATAGGATAAAATGATCGTAATACCCCTGTAAGGTAAAATGACCGTAATGTCCCTCT
1 ATAGG-TAAAATGACCGTAATACCCCTGTAAGGTAAAATGACCGTAATGTCCCTCT
*
48353048 AT-GGTAATATGAC
1 ATAGGTAAAATGAC
48353061 GATTATGCCC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
53 5 0.08
54 46 0.75
55 6 0.10
56 4 0.07
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (55 bp):
ATAGGTAAAATGACCGTAATACCCCTGTAAGGTAAAATGACCGTAATGTCCCTCT
Found at i:48371420 original size:14 final size:14
Alignment explanation
Indices: 48371403--48371429 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48371393 AAAGAATATT
48371403 ATAATAATAATAAC
1 ATAATAATAATAAC
48371417 ATAATAATAATAA
1 ATAATAATAATAA
48371430 TAATAATCAT
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:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATAATAAC
Found at i:48371455 original size:3 final size:3
Alignment explanation
Indices: 48371403--48371436 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
48371393 AAAGAATATT
*
48371403 ATA ATA ATA ATA A-C ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
48371437 CATATTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 27 0.96
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:48372093 original size:27 final size:28
Alignment explanation
Indices: 48372061--48372126 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 28
48372051 CAATCTAAAA
*
48372061 GAAAAAATAAAGGAATTCGGACCAGATT
1 GAAAAAATAAAGGAATTAGGACCAGATT
48372089 GAAAAATAATATTAAGGAATTAGGACCAGATT
1 G-AAAA-AATA--AAGGAATTAGGACCAGATT
48372121 GAAAAA
1 GAAAAA
48372127 TAATTAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 1 0.03
29 4 0.12
30 5 0.15
31 4 0.12
32 19 0.58
ACGTcount: A:0.53, C:0.08, G:0.20, T:0.20
Consensus pattern (28 bp):
GAAAAAATAAAGGAATTAGGACCAGATT
Found at i:48372107 original size:32 final size:32
Alignment explanation
Indices: 48372070--48372130 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
48372060 AGAAAAAATA
*
48372070 AAGGAATTCGGACCAGATTGAAAAATAATATT
1 AAGGAATTAGGACCAGATTGAAAAATAATATT
48372102 AAGGAATTAGGACCAGATTGAAAAATAAT
1 AAGGAATTAGGACCAGATTGAAAAATAAT
48372131 TAAAAAGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.23
Consensus pattern (32 bp):
AAGGAATTAGGACCAGATTGAAAAATAATATT
Found at i:48372146 original size:32 final size:32
Alignment explanation
Indices: 48372079--48372146 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
48372069 AAAGGAATTC
* * **
48372079 GGACCAGATTGAAAAATAATATTAAGGAATTA
1 GGACCAGATTGAAAAATAATATAAAAGAAGAA
48372111 GGACCAGATTGAAAAATAAT-TAAAAAGAAGAA
1 GGACCAGATTGAAAAATAATAT-AAAAGAAGAA
48372143 GGAC
1 GGAC
48372147 TGGAGTGACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.53, C:0.07, G:0.21, T:0.19
Consensus pattern (32 bp):
GGACCAGATTGAAAAATAATATAAAAGAAGAA
Found at i:48372734 original size:24 final size:24
Alignment explanation
Indices: 48372690--48372744 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
48372680 ATTTGGTTTT
48372690 TTAAAAAAAATAAAATAACATATC
1 TTAAAAAAAATAAAATAACATATC
* *
48372714 -TAAAATAAAA-AAAAGTCACATTTC
1 TTAAAA-AAAATAAAA-TAACATATC
48372738 TTAAAAA
1 TTAAAAA
48372745 TATCTGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 9 0.35
24 12 0.46
25 5 0.19
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (24 bp):
TTAAAAAAAATAAAATAACATATC
Found at i:48374463 original size:14 final size:15
Alignment explanation
Indices: 48374444--48374472 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48374434 AACTTAATCA
48374444 TCAAG-CATTATTAT
1 TCAAGCCATTATTAT
48374458 TCAAGCCATTATTAT
1 TCAAGCCATTATTAT
48374473 CTTATTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (15 bp):
TCAAGCCATTATTAT
Found at i:48375503 original size:13 final size:13
Alignment explanation
Indices: 48375485--48375513 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
48375475 TTCAATTATT
48375485 TATATTTATCACA
1 TATATTTATCACA
48375498 TATATTTATCACA
1 TATATTTATCACA
48375511 TAT
1 TAT
48375514 CCAACATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (13 bp):
TATATTTATCACA
Found at i:48377117 original size:93 final size:93
Alignment explanation
Indices: 48376985--48377157 Score: 249
Period size: 93 Copynumber: 1.9 Consensus size: 93
48376975 CGCCCATAAG
* * * *
48376985 CGAACTCAGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAAATCGGACTCAACTCA
48377050 ACAAGCTCGGATGCCTAGTTACATCTCT
66 ACAAGCTCGGATGCCTAGTTACATCTCT
* * *
48377078 CGAACTCGGGCTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAAATCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAAATCGGACTCAACTC
* *
48377142 AACGAGTTCGGATGCC
65 AACAAGCTCGGATGCC
48377158 CAAATATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAAATCGGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCT
Found at i:48379579 original size:30 final size:30
Alignment explanation
Indices: 48379535--48379623 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
48379525 CAAAGATAAC
48379535 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
48379564 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
48379594 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
48379624 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:48379583 original size:15 final size:15
Alignment explanation
Indices: 48379535--48379614 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
48379525 CAAAGATAAC
*
48379535 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
48379549 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
48379564 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
48379579 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
48379594 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
48379609 AAGAAA
1 AAGAAA
48379615 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:48379623 original size:15 final size:15
Alignment explanation
Indices: 48379546--48379623 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
48379536 AGAAAACCGA
48379546 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
48379561 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
48379575 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
48379590 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
48379606 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
48379621 ATA
1 ATA
48379624 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:48382663 original size:93 final size:93
Alignment explanation
Indices: 48382551--48382722 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
48382541 GCCCATAAGT
* *
48382551 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48382616 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
48382644 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
48382709 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
48382723 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:48382718 original size:46 final size:46
Alignment explanation
Indices: 48382543--48382718 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
48382533 TGTAACCCGC
* *
48382543 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
48382589 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
48382635 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
48382682 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
48382719 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:48388164 original size:42 final size:44
Alignment explanation
Indices: 48388095--48388208 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 44
48388085 GTAACTAAAC
* * * * *
48388095 ATCGATACCACTGTCCCAGACAAGGTCTAACATG-AAATCAGAT
1 ATCGATGCCAATGTCCCAGACATGGTCTAACATGTAAAACAGAA
* * *
48388138 A-CGATGCCAATGTCCCAAACATGGTCTTACATGTAAAACATAA
1 ATCGATGCCAATGTCCCAGACATGGTCTAACATGTAAAACAGAA
* *
48388181 ATCGATGCCAACGTCCCAGACGTGGTCT
1 ATCGATGCCAATGTCCCAGACATGGTCT
48388209 TACACGGAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 27 0.47
43 8 0.14
44 23 0.40
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (44 bp):
ATCGATGCCAATGTCCCAGACATGGTCTAACATGTAAAACAGAA
Found at i:48393665 original size:40 final size:40
Alignment explanation
Indices: 48393621--48393974 Score: 201
Period size: 40 Copynumber: 9.1 Consensus size: 40
48393611 GTGTTTGGAA
48393621 AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
* ** *
48393661 AAAAATGCCGCTATAGATCAAGCATTAGTAGCGCTTTTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
* * * *
48393701 AAAAATGCCACTATAGACCGAGCATTATC--T--TTTTTA
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
* * * * **
48393737 AAAAATGCCACTATAGGTCAACCATTAGTTGTGCTTTTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
* * * ** * * *
48393777 AAAAATGCCACGA-AAATTAAGCATAACGCCGT-CGTTTT-
1 AAAAATGCCGCTATAGATCGAGCATTA-GCGGTGCTTTTTG
*** * * * * *
48393815 -ATGTTG-AGCTTTAG-T-G-GCATTAGTGGCGCTTTTTT
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
** * * *
48393850 AAAAACACCGCTATAGATTGAGCATTAGCGTTTCTTTTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
* * * * *
48393890 AAAAATGCCGCTCTAGATCGAGCATTGGTGGTGCTTTCTA
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
** * * *
48393930 AAAAACACCGCTATAGGTCGACCATTAGCGGCGCTTTTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
*
48393970 GAAAA
1 AAAAA
48393975 CATCACAAAA
Statistics
Matches: 227, Mismatches: 74, Indels: 26
0.69 0.23 0.08
Matches are distributed among these distances:
33 2 0.01
34 10 0.04
36 31 0.14
37 10 0.04
38 2 0.01
39 14 0.06
40 158 0.70
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (40 bp):
AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
Found at i:48393763 original size:36 final size:36
Alignment explanation
Indices: 48393695--48393763 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
48393685 TTAGTAGCGC
* * *
48393695 TTTTTGAAAAATGCCACTATAGACCGAGCATTATCT
1 TTTTTAAAAAATGCCACTATAGACCAACCATTATCT
**
48393731 TTTTTAAAAAATGCCACTATAGGTCAACCATTA
1 TTTTTAAAAAATGCCACTATAGACCAACCATTA
48393764 GTTGTGCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (36 bp):
TTTTTAAAAAATGCCACTATAGACCAACCATTATCT
Found at i:48393763 original size:76 final size:78
Alignment explanation
Indices: 48393621--48393787 Score: 221
Period size: 76 Copynumber: 2.1 Consensus size: 78
48393611 GTGTTTGGAA
* * * * *
48393621 AAAAATGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTGAAAAATGCCGCTATAGATCAAGCAT
1 AAAAATGCCACTATAGACCGAGCATTAGC-GT-CTTTTTAAAAAATGCCACTATAGATCAACCAT
48393686 TAGTAGCGCTTTTTG
64 TAGTAGCGCTTTTTG
* *
48393701 AAAAATGCCACTATAGACCGAGCATTATC-T-TTTTTAAAAAATGCCACTATAGGTCAACCATTA
1 AAAAATGCCACTATAGACCGAGCATTAGCGTCTTTTTAAAAAATGCCACTATAGATCAACCATTA
* *
48393764 GTTGTGCTTTTTG
66 GTAGCGCTTTTTG
48393777 AAAAATGCCAC
1 AAAAATGCCAC
48393788 GAAAATTAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
76 51 0.65
78 1 0.01
80 26 0.33
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (78 bp):
AAAAATGCCACTATAGACCGAGCATTAGCGTCTTTTTAAAAAATGCCACTATAGATCAACCATTA
GTAGCGCTTTTTG
Found at i:48394060 original size:116 final size:114
Alignment explanation
Indices: 48393911--48394147 Score: 264
Period size: 116 Copynumber: 2.1 Consensus size: 114
48393901 TCTAGATCGA
* * * * *
48393911 GCATTGGTGGTGCTTTCTAAAAAACACCGCTATAGGTCGACCATTAGCGGCGCTTTTTGGAAAAC
1 GCATTAGTGGTGCTTTCTAAAAAACACCACTATAGATCAACCATTAGCGGCACTTTTT-GAAAA-
* *
48393976 ATCAC-AAAAAAAATTAAGCACA-ACGCCGTCATTTTATGTTGA-GTTTTAGTG
64 A-CACTAAAAAAAATTAAGCA-AGACGCCGTCATTTTATATTGATG-TATAGTG
* * ** *
48394027 GCATTAGTGGTGCTTTTTGAAAAAGGCCACTATAGATCAAGCATTAGCGGCACTTTTTGAAAAAC
1 GCATTAGTGGTGCTTTCTAAAAAACACCACTATAGATCAACCATTAGCGGCACTTTTTGAAAAAC
** * *
48394092 ACTGCAAAAAATTCAGTAAGACGCCGTCATTTTATATTGATGTATAGTG
66 ACTAAAAAAAATTAAGCAAGACGCCGTCATTTTATATTGATGTATAGTG
48394141 GCATTAG
1 GCATTAG
48394148 CAACACTTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
113 4 0.04
114 44 0.43
115 6 0.06
116 48 0.47
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (114 bp):
GCATTAGTGGTGCTTTCTAAAAAACACCACTATAGATCAACCATTAGCGGCACTTTTTGAAAAAC
ACTAAAAAAAATTAAGCAAGACGCCGTCATTTTATATTGATGTATAGTG
Found at i:48394501 original size:14 final size:14
Alignment explanation
Indices: 48394482--48394516 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
48394472 TATAGTTTCG
*
48394482 GGTTTAGGGTATAT
1 GGTTTAGGGTATAA
*
48394496 GGTTTAGGGTTTAA
1 GGTTTAGGGTATAA
48394510 GGTTTAG
1 GGTTTAG
48394517 AAGTTACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (14 bp):
GGTTTAGGGTATAA
Found at i:48394569 original size:7 final size:7
Alignment explanation
Indices: 48394548--48394689 Score: 108
Period size: 7 Copynumber: 20.1 Consensus size: 7
48394538 AGGATTATGA
48394548 GTTTAGG
1 GTTTAGG
* *
48394555 GATTATG
1 GTTTAGG
*
48394562 GTTTATG
1 GTTTAGG
*
48394569 GTTTATG
1 GTTTAGG
*
48394576 GTTTATG
1 GTTTAGG
48394583 GTTTAAGG
1 GTTT-AGG
*
48394591 G-TTGGG
1 GTTTAGG
*
48394597 GTTTAAG
1 GTTTAGG
48394604 GTTTA-G
1 GTTTAGG
48394610 GTGTTAGG
1 GT-TTAGG
*
48394618 GGTTAGG
1 GTTTAGG
*
48394625 GGTTAGG
1 GTTTAGG
*
48394632 GGTTAGAG
1 GTTTAG-G
*
48394640 GTTTAAG
1 GTTTAGG
48394647 GTTTAGG
1 GTTTAGG
48394654 GTTTAGG
1 GTTTAGG
*
48394661 GTTTATG
1 GTTTAGG
* *
48394668 TTTTATG
1 GTTTAGG
*
48394675 ATTTAGG
1 GTTTAGG
48394682 GTTTAGG
1 GTTTAGG
48394689 G
1 G
48394690 GATAAGGGAT
Statistics
Matches: 114, Mismatches: 16, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
6 6 0.05
7 98 0.86
8 10 0.09
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:48394581 original size:21 final size:21
Alignment explanation
Indices: 48394482--48394686 Score: 121
Period size: 21 Copynumber: 9.6 Consensus size: 21
48394472 TATAGTTTCG
* *
48394482 GGTTTAGGGTATATGGTTTAG
1 GGTTTAGGGTTTATGGTTTAT
*
48394503 GGTTTAAGGTTTA-GAAGTTACTAT
1 GGTTTAGGGTTTATG--GTT--TAT
* * * *
48394527 --TTTAAGGCTTAAGGATTAT
1 GGTTTAGGGTTTATGGTTTAT
*
48394546 GAGTTTAGGGATTATGGTTTAT
1 G-GTTTAGGGTTTATGGTTTAT
* *
48394568 GGTTTATGGTTTATGGTTTAA
1 GGTTTAGGGTTTATGGTTTAT
* * *
48394589 GGGTTGGGGTTTAAGGTTTA-
1 GGTTTAGGGTTTATGGTTTAT
* * * *
48394609 GGTGTTAGGGGTTAGGGGTTAG
1 GGT-TTAGGGTTTATGGTTTAT
* * *
48394631 GGGTTAGAGGTTTAAGGTTTAG
1 GGTTTAG-GGTTTATGGTTTAT
*
48394653 GGTTTAGGGTTTATGTTTTAT
1 GGTTTAGGGTTTATGGTTTAT
*
48394674 GATTTAGGGTTTA
1 GGTTTAGGGTTTA
48394687 GGGGATAAGG
Statistics
Matches: 143, Mismatches: 30, Indels: 22
0.73 0.15 0.11
Matches are distributed among these distances:
19 3 0.02
20 3 0.02
21 86 0.60
22 48 0.34
23 1 0.01
24 2 0.01
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.43
Consensus pattern (21 bp):
GGTTTAGGGTTTATGGTTTAT
Found at i:48394681 original size:57 final size:57
Alignment explanation
Indices: 48394582--48394716 Score: 137
Period size: 57 Copynumber: 2.4 Consensus size: 57
48394572 TATGGTTTAT
* * * * *
48394582 GGTTTAAGGGTTGGGGTTTAAGGTTTAGGTGTTAGGGGTTAGGGGTTAGGGG-TTAG
1 GGTTTAAGGTTTAGGGTTTAGGGTTTAGGTGTTAGGAGTTAGGGGTTAGGGGATAAG
* * * * *
48394638 AGGTTTAAGGTTTAGGGTTTAGGGTTTATGTTTTATGATTTAGGGTTTAGGGGATAAG
1 -GGTTTAAGGTTTAGGGTTTAGGGTTTAGGTGTTAGGAGTTAGGGGTTAGGGGATAAG
* * *
48394696 GGATAAAGGTTTAAGGTTTAG
1 GGTTTAAGGTTTAGGGTTTAG
48394717 ATTAATTAGT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.39
Consensus pattern (57 bp):
GGTTTAAGGTTTAGGGTTTAGGGTTTAGGTGTTAGGAGTTAGGGGTTAGGGGATAAG
Found at i:48395217 original size:18 final size:18
Alignment explanation
Indices: 48395191--48395227 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48395181 ATTTCTCTCC
*
48395191 TCCCAATTCCCTTTTCTT
1 TCCCAATTCCCTGTTCTT
*
48395209 TCCCTATTCCCTGTTCTT
1 TCCCAATTCCCTGTTCTT
48395227 T
1 T
48395228 TTCAACCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.38, G:0.03, T:0.51
Consensus pattern (18 bp):
TCCCAATTCCCTGTTCTT
Found at i:48400398 original size:39 final size:39
Alignment explanation
Indices: 48400201--48400416 Score: 211
Period size: 40 Copynumber: 5.4 Consensus size: 39
48400191 GCTGTCCGGC
* * * * * **
48400201 TAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGAC
1 TAAGTCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGT
* *
48400241 TAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-ATCCGGGT
* * *
48400281 TAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGT
1 TAAGTCCCGAAGG-CATTGTGCGAGTTACTAAATCCGGGT
*
48400321 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGCATT-GTGCGAGTTACTAAATCCGGGT
* * *
48400361 TAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGC
1 TAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGT
*
48400400 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
48400417 TGAACGAGGA
Statistics
Matches: 147, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 38 0.26
40 99 0.67
41 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGT
Found at i:48400436 original size:79 final size:80
Alignment explanation
Indices: 48400274--48400451 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
48400264 AGATACAAGT
* * * *
48400274 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
48400339 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
48400354 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
48400418 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
48400433 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
48400452 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:48404578 original size:59 final size:57
Alignment explanation
Indices: 48404474--48404651 Score: 232
Period size: 59 Copynumber: 3.0 Consensus size: 57
48404464 TTGATACGTA
* *
48404474 ATACATGCTAGGGTTC-GGTGCTTTTGAGTAGCCCTGTTGATAGGCATGTGATTGTGTG
1 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCC-GTTGAGAGGCATGTGATT-TGTG
* *
48404532 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCTCATTGAGAGGCATGTGAATTTATG
1 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCC-CGTTGAGAGGCATGTG-ATTTGTG
* * *
48404591 GTACATGCTAGGGTCTGAGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTCTGTG
1 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAG-CCCGTTGAGAGGCATGTGATT-TGTG
48404650 AT
1 AT
48404652 CTGTGGCCCT
Statistics
Matches: 105, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
58 18 0.17
59 81 0.77
60 6 0.06
ACGTcount: A:0.19, C:0.15, G:0.32, T:0.34
Consensus pattern (57 bp):
ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCGTTGAGAGGCATGTGATTTGTG
Found at i:48404875 original size:24 final size:24
Alignment explanation
Indices: 48404826--48404877 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
48404816 TTATGGAACG
*
48404826 TATGTATGCATGTGCTTTTGTATA
1 TATGTATGCATGTGCTTATGTATA
* *
48404850 TATGTATGGATGTG-TTCATGTGTA
1 TATGTATGCATGTGCTT-ATGTATA
48404874 TATG
1 TATG
48404878 GGTATGAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.21, C:0.06, G:0.25, T:0.48
Consensus pattern (24 bp):
TATGTATGCATGTGCTTATGTATA
Found at i:48413585 original size:25 final size:25
Alignment explanation
Indices: 48413557--48413604 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
48413547 AACCACCTAC
48413557 CAATGATACATATCCCTATCACATT
1 CAATGATACATATCCCTATCACATT
48413582 CAATGATACATATCCCTATCACA
1 CAATGATACATATCCCTATCACA
48413605 AATTTTCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.29, G:0.04, T:0.29
Consensus pattern (25 bp):
CAATGATACATATCCCTATCACATT
Found at i:48414148 original size:36 final size:36
Alignment explanation
Indices: 48414107--48414183 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
48414097 TCATGATTCA
*
48414107 CATATGTATATATCATATCTCATTCTCATAGCAATT
1 CATATGTATATATCAGATCTCATTCTCATAGCAATT
48414143 CATATGTATATATCAGATCTCATTCTCATAGCAATT
1 CATATGTATATATCAGATCTCATTCTCATAGCAATT
48414179 CATAT
1 CATAT
48414184 ACATGTACTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.40
Consensus pattern (36 bp):
CATATGTATATATCAGATCTCATTCTCATAGCAATT
Found at i:48428370 original size:9 final size:9
Alignment explanation
Indices: 48428356--48428412 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
48428346 TGACATGCAC
48428356 ATGATATGT
1 ATGATATGT
*
48428365 ATGATATGCAC
1 ATGATATG--T
48428376 ATGATATGT
1 ATGATATGT
* *
48428385 ACGATATGCAC
1 ATGATATG--T
48428396 ATGATATGT
1 ATGATATGT
48428405 ATGATATG
1 ATGATATG
48428413 CACATGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:48428373 original size:20 final size:20
Alignment explanation
Indices: 48428344--48428420 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
48428334 ACAATATTGA
*
48428344 TATGACATGCACATGATATG
1 TATGATATGCACATGATATG
48428364 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
48428384 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
48428404 TATGATATGCACATGAT
1 TATGATATGCACATGAT
48428421 GTATTCATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:48428381 original size:11 final size:11
Alignment explanation
Indices: 48428345--48428420 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
48428335 CAATATTGAT
*
48428345 ATGACATGCAC
1 ATGATATGCAC
*
48428356 ATGATATG--T
1 ATGATATGCAC
48428365 ATGATATGCAC
1 ATGATATGCAC
*
48428376 ATGATATGTAC
1 ATGATATGCAC
48428387 --GATATGCAC
1 ATGATATGCAC
*
48428396 ATGATATG--T
1 ATGATATGCAC
48428405 ATGATATGCAC
1 ATGATATGCAC
48428416 ATGAT
1 ATGAT
48428421 GTATTCATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
9 24 0.46
11 28 0.54
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:48429546 original size:5 final size:5
Alignment explanation
Indices: 48429536--48429560 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48429526 CTTTTCGAAA
48429536 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
48429561 TTACCAAGAA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:48436435 original size:9 final size:9
Alignment explanation
Indices: 48436421--48436477 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
48436411 TGACATGCAC
48436421 ATGATATGT
1 ATGATATGT
*
48436430 ATGATATGCAC
1 ATGATATG--T
48436441 ATGATATGT
1 ATGATATGT
* *
48436450 ACGATATGCAC
1 ATGATATG--T
48436461 ATGATATGT
1 ATGATATGT
48436470 ATGATATG
1 ATGATATG
48436478 CACATGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:48436438 original size:20 final size:20
Alignment explanation
Indices: 48436409--48436485 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
48436399 ACAATATTGA
*
48436409 TATGACATGCACATGATATG
1 TATGATATGCACATGATATG
48436429 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
48436449 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
48436469 TATGATATGCACATGAT
1 TATGATATGCACATGAT
48436486 GTATTCATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:48436446 original size:11 final size:11
Alignment explanation
Indices: 48436410--48436485 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
48436400 CAATATTGAT
*
48436410 ATGACATGCAC
1 ATGATATGCAC
*
48436421 ATGATATG--T
1 ATGATATGCAC
48436430 ATGATATGCAC
1 ATGATATGCAC
*
48436441 ATGATATGTAC
1 ATGATATGCAC
48436452 --GATATGCAC
1 ATGATATGCAC
*
48436461 ATGATATG--T
1 ATGATATGCAC
48436470 ATGATATGCAC
1 ATGATATGCAC
48436481 ATGAT
1 ATGAT
48436486 GTATTCATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
9 24 0.46
11 28 0.54
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:48436626 original size:25 final size:26
Alignment explanation
Indices: 48436535--48436645 Score: 156
Period size: 26 Copynumber: 4.3 Consensus size: 26
48436525 GTGGAAGTGC
48436535 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
48436561 AAAAGGGCTTATGCACCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
48436587 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
48436613 -AAAGGGCTTTTGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
48436636 AAAAGAGGCT
1 AAAAG-GGCT
48436646 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
24 7 0.09
25 21 0.28
26 48 0.63
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:48437273 original size:18 final size:18
Alignment explanation
Indices: 48437250--48437284 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48437240 ACTTAGGACG
*
48437250 TGTTTTCAAAACGACACT
1 TGTTTTCAAAACAACACT
*
48437268 TGTTTTCCAAACAACAC
1 TGTTTTCAAAACAACAC
48437285 AACGTTACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (18 bp):
TGTTTTCAAAACAACACT
Found at i:48443940 original size:83 final size:84
Alignment explanation
Indices: 48443798--48443992 Score: 245
Period size: 83 Copynumber: 2.3 Consensus size: 84
48443788 TAATTTTTTG
** * * * *
48443798 TGTAAGATGATATCTTGTATATGACATCGTTATGAGATTTCGTGTAAGACCATGTCTGGGAC-A-
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCGTGTAAGACCATGTCTGGG-CTAT
*
48443861 TGGCATCAATATGAGAATT-G
65 TGGCATCAATATGAG-ATTAA
*
48443881 TGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTCGTGTAAGACCATAG-CTGGGCTAT
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCGTGTAAGACCAT-GTCTGGGCTAT
*
48443945 TGGCATCGATATGAGATTACA
65 TGGCATCAATATGAGATTA-A
48443966 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
48443993 TTGTATGGTA
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
82 1 0.01
83 55 0.57
84 15 0.15
85 26 0.27
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (84 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGCTATT
GGCATCAATATGAGATTAA
Found at i:48443957 original size:43 final size:42
Alignment explanation
Indices: 48443816--48443992 Score: 223
Period size: 42 Copynumber: 4.2 Consensus size: 42
48443806 GATATCTTGT
* *
48443816 ATATGACATCGTTATGAGATTTCGTGTAAGACCAT-GTCTGGG
1 ATATGGCATCGATATGAGATTTCGTGTAAGACCATAG-CTGGG
* * * **
48443858 ACATGGCATCAATATGAGAATT-GTGTAAGACCATATTTGGG
1 ATATGGCATCGATATGAGATTTCGTGTAAGACCATAGCTGGG
48443899 ATATGGCATCGATATGAGATTTCGTGTAAGACCATAGCTGGG
1 ATATGGCATCGATATGAGATTTCGTGTAAGACCATAGCTGGG
* * * *
48443941 CTATTGGCATCGATATGAGATTACATGTAAGACCATATCTGGG
1 ATA-TGGCATCGATATGAGATTTCGTGTAAGACCATAGCTGGG
48443984 ATATGGCAT
1 ATATGGCAT
48443993 TTGTATGGTA
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
41 35 0.30
42 42 0.37
43 38 0.33
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
ATATGGCATCGATATGAGATTTCGTGTAAGACCATAGCTGGG
Found at i:48447891 original size:30 final size:30
Alignment explanation
Indices: 48447857--48447916 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48447847 CTTTAATACG
48447857 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
48447887 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
48447917 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:48449993 original size:15 final size:15
Alignment explanation
Indices: 48449964--48450002 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
48449954 AACAAAGAAG
48449964 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
48449980 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
48449995 CCATGATA
1 CCAAGATA
48450003 CGAAAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:48463276 original size:13 final size:13
Alignment explanation
Indices: 48463258--48463286 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
48463248 AGGACACGGC
48463258 CTTGGCCATGTGA
1 CTTGGCCATGTGA
48463271 CTTGGCCATGTGA
1 CTTGGCCATGTGA
48463284 CTT
1 CTT
48463287 CAAATTGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.24, G:0.28, T:0.34
Consensus pattern (13 bp):
CTTGGCCATGTGA
Found at i:48468584 original size:56 final size:58
Alignment explanation
Indices: 48468453--48468597 Score: 154
Period size: 56 Copynumber: 2.5 Consensus size: 58
48468443 CATTAACCTT
* * * * * * *
48468453 GTTATATAAAGGATTTAGCCTAGATTGGTAATCTTAATATAATACCTCTTGAGTATAC
1 GTTATATAAAGGATTTAGCCTGGACTAGTAACCCTAATATAATACCTCTTAAGCATAC
* * *
48468511 GTTATGAT-CAGGGTTTAGCTTGGACTAGTAACCCTAAT-TAA-A-CTCTTTAAGCATAC
1 GTTAT-ATAAAGGATTTAGCCTGGACTAGTAACCCTAATATAATACCTC-TTAAGCATAC
48468567 GTTATATAAAGGATTTAGCCTGGACTAGTAA
1 GTTATATAAAGGATTTAGCCTGGACTAGTAA
48468598 TCCTGTTATA
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
55 5 0.07
56 34 0.48
57 3 0.04
58 27 0.38
59 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (58 bp):
GTTATATAAAGGATTTAGCCTGGACTAGTAACCCTAATATAATACCTCTTAAGCATAC
Found at i:48475020 original size:56 final size:58
Alignment explanation
Indices: 48474889--48475033 Score: 154
Period size: 56 Copynumber: 2.5 Consensus size: 58
48474879 CATTAACCTT
* * * * * * *
48474889 GTTATATAAAGGATTTAGCCTAGATTGGTAATCTTAATATAATACCTCTTGAGTATAC
1 GTTATATAAAGGATTTAGCCTGGACTAGTAACCCTAATATAATACCTCTTAAGCATAC
* * *
48474947 GTTATGAT-CAGGGTTTAGCTTGGACTAGTAACCCTAAT-TAA-A-CTCTTTAAGCATAC
1 GTTAT-ATAAAGGATTTAGCCTGGACTAGTAACCCTAATATAATACCTC-TTAAGCATAC
48475003 GTTATATAAAGGATTTAGCCTGGACTAGTAA
1 GTTATATAAAGGATTTAGCCTGGACTAGTAA
48475034 TCCTGTTATA
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
55 5 0.07
56 34 0.48
57 3 0.04
58 27 0.38
59 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (58 bp):
GTTATATAAAGGATTTAGCCTGGACTAGTAACCCTAATATAATACCTCTTAAGCATAC
Found at i:48479834 original size:44 final size:43
Alignment explanation
Indices: 48479720--48479843 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
48479710 ATCGAGATGT
* * *
48479720 GATTACATGTAAGACCATGTCTGGGACATTGACATTGTATTCA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTCA
* *
48479763 GATTACGTGTAAGACCATGGCTAGGACATTGGCATCGTATT-A
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTCA
* * *
48479805 TGATTTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCG
1 -GA-TTACGTGTAAGACCATGTCTGGGACATTGGCATCG
48479844 ATATGTATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 38 0.55
44 30 0.43
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTCA
Found at i:48490807 original size:27 final size:27
Alignment explanation
Indices: 48490766--48490819 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
48490756 GAATCGGTTC
* *
48490766 TTCTTCGTATATCATATCGGGCTTAAG
1 TTCTTAGTATATCATATCAGGCTTAAG
*
48490793 TTCTTAGTATGTCATATCAGGCTTAAG
1 TTCTTAGTATATCATATCAGGCTTAAG
48490820 CTCAATCTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (27 bp):
TTCTTAGTATATCATATCAGGCTTAAG
Found at i:48500094 original size:48 final size:48
Alignment explanation
Indices: 48500038--48500255 Score: 242
Period size: 48 Copynumber: 4.5 Consensus size: 48
48500028 ATTGCCAATT
* * * *
48500038 CCATGTCCCAGACATAGTCTTACACTGGCTCACAAGTCGATGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACAACTCAATGCCGATG
* * * ***
48500086 CCATGTCCCAGACATGGTCTCACACTAGCTCTCATCTCAATATTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACAACTCAATGCCGATG
** * *
48500134 CCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAATGTCAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACAACTCAATGCCGATG
* * *
48500182 CCATGTCCCAGACATGGTCTTACACTGGCTCTCACACT--GTGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACA-ACTCAAT-GCCGATG
*
48500230 CCATATCCCAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
48500256 CGCACACATA
Statistics
Matches: 144, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
47 1 0.01
48 142 0.99
49 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCACAACTCAATGCCGATG
Found at i:48500207 original size:96 final size:96
Alignment explanation
Indices: 48500038--48500269 Score: 286
Period size: 96 Copynumber: 2.4 Consensus size: 96
48500028 ATTGCCAATT
* * * * *
48500038 CCATGTCCCAGACATAGTCTTACACTGGCTCACAAGTCGATGCCGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAATGCCAATGCCATGTCCCAGACATGG
* **
48500103 TCTCACACTAGCTCTCATCTCAAT-ATTGATG
66 TCTCACACTAGCTCTCA-CACAATGACCGATG
*
48500134 CCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAATGTCAATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAATGCCAATGCCATGTCCCAGACATGG
* * ** *
48500199 TCTTACACTGGCTCTCACACTGTGGCCGATG
66 TCTCACACTAGCTCTCACACAATGACCGATG
* * * *
48500230 CCATATCCCAGACATGGTCTTACACTCGCACACATATCAA
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAA
48500270 CCAAATGTGC
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
95 3 0.03
96 114 0.97
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.25
Consensus pattern (96 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAATGCCAATGCCATGTCCCAGACATGG
TCTCACACTAGCTCTCACACAATGACCGATG
Found at i:48505607 original size:23 final size:23
Alignment explanation
Indices: 48505581--48505626 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
48505571 CACACAGAGT
48505581 AAGCTAACTTAGCTTAGTAAGCC
1 AAGCTAACTTAGCTTAGTAAGCC
48505604 AAGCTAACTTAGCTTAGTAAGCC
1 AAGCTAACTTAGCTTAGTAAGCC
48505627 TTAAGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (23 bp):
AAGCTAACTTAGCTTAGTAAGCC
Found at i:48506840 original size:15 final size:15
Alignment explanation
Indices: 48506817--48506846 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48506807 ATAAATATTC
48506817 TAATACAAAACATAT
1 TAATACAAAACATAT
*
48506832 TAATCCAAAACATAT
1 TAATACAAAACATAT
48506847 CTTTCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:48510780 original size:23 final size:23
Alignment explanation
Indices: 48510754--48511019 Score: 333
Period size: 23 Copynumber: 11.6 Consensus size: 23
48510744 TAATATAACT
**
48510754 GAAGCTACCACTGTAACGTAGCC
1 GAAGCTACCACTGTATTGTAGCC
48510777 GAAGCTACCACTGTATTGTAGCC
1 GAAGCTACCACTGTATTGTAGCC
* *
48510800 AAAGCTACCACTGTATTGTAGCT
1 GAAGCTACCACTGTATTGTAGCC
* * *
48510823 GAAGCCACCAC-GGAGATGTAGCC
1 GAAGCTACCACTGTA-TTGTAGCC
48510846 GAAGCTACCACTGTATTGTAGCC
1 GAAGCTACCACTGTATTGTAGCC
48510869 GAAGCTACCACTAAG-A-TGTAGCC
1 GAAGCTACCACT--GTATTGTAGCC
*
48510892 AAAGCTACCACTGTATTGTAGCC
1 GAAGCTACCACTGTATTGTAGCC
* *
48510915 GAAGCTACCACTG-AGATGTAGTC
1 GAAGCTACCACTGTA-TTGTAGCC
* * *
48510938 GAAGCTACCACTATATTTTAGCT
1 GAAGCTACCACTGTATTGTAGCC
* *
48510961 AAAGCTACCACTATATTGTAGCC
1 GAAGCTACCACTGTATTGTAGCC
48510984 GAAGCTACCACTGTATTGTAGCC
1 GAAGCTACCACTGTATTGTAGCC
48511007 GAAGCTACCACTG
1 GAAGCTACCACTG
48511020 AGATGTAGCC
Statistics
Matches: 209, Mismatches: 26, Indels: 16
0.83 0.10 0.06
Matches are distributed among these distances:
21 1 0.00
22 4 0.02
23 199 0.95
24 4 0.02
25 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
GAAGCTACCACTGTATTGTAGCC
Found at i:48510911 original size:92 final size:92
Alignment explanation
Indices: 48510754--48511031 Score: 400
Period size: 92 Copynumber: 3.0 Consensus size: 92
48510744 TAATATAACT
**
48510754 GAAGCTACCACTGTAACGTAGCCGAAGCTACCACT--GTATTGTAGCCAAAGCTACCACTGTATT
1 GAAGCTACCACTGTATTGTAGCCGAAGCTACCACTAAG-A-TGTAGCCAAAGCTACCACTGTATT
* * *
48510817 GTAGCTGAAGCCACCACGGAGATGTAGCC
64 GTAGCCGAAGCTACCACTGAGATGTAGCC
48510846 GAAGCTACCACTGTATTGTAGCCGAAGCTACCACTAAGATGTAGCCAAAGCTACCACTGTATTGT
1 GAAGCTACCACTGTATTGTAGCCGAAGCTACCACTAAGATGTAGCCAAAGCTACCACTGTATTGT
*
48510911 AGCCGAAGCTACCACTGAGATGTAGTC
66 AGCCGAAGCTACCACTGAGATGTAGCC
* * ** * *
48510938 GAAGCTACCACTATATTTTAGCTAAAGCTACCACTATA-TTGTAGCCGAAGCTACCACTGTATTG
1 GAAGCTACCACTGTATTGTAGCCGAAGCTACCACTA-AGATGTAGCCAAAGCTACCACTGTATTG
48511002 TAGCCGAAGCTACCACTGAGATGTAGCC
65 TAGCCGAAGCTACCACTGAGATGTAGCC
48511030 GA
1 GA
48511032 TAGATTCCTA
Statistics
Matches: 170, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
92 167 0.98
93 2 0.01
94 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (92 bp):
GAAGCTACCACTGTATTGTAGCCGAAGCTACCACTAAGATGTAGCCAAAGCTACCACTGTATTGT
AGCCGAAGCTACCACTGAGATGTAGCC
Found at i:48515096 original size:28 final size:28
Alignment explanation
Indices: 48515059--48515165 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
48515049 GCAATCAAAT
*
48515059 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
48515087 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
48515115 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
48515143 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
48515166 CGAATGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:48517181 original size:28 final size:28
Alignment explanation
Indices: 48517146--48517300 Score: 157
Period size: 28 Copynumber: 5.5 Consensus size: 28
48517136 GTGAACATAG
*
48517146 GCACTGTGTGTGTGAGTTCCGTAATCGA
1 GCACTGTGTGTGCGAGTTCCGTAATCGA
* * * ** *
48517174 GCATTGTGTGTGCGAGATCAGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAATCGA
*
48517202 GGCACTGTGTGTGCGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAATCGA
* * ** *
48517231 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAATCGA
* *
48517259 GGCACTGTGTGTGCGAGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAATCGA
48517288 GCACTGTGTGTGC
1 GCACTGTGTGTGC
48517301 AAGATCGGTT
Statistics
Matches: 98, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
28 56 0.57
29 42 0.43
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.30
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAATCGA
Found at i:48517213 original size:29 final size:29
Alignment explanation
Indices: 48517178--48517275 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 29
48517168 AATCGAGCAT
48517178 TGTGTGTGCGAGATCAGTTGTTGAGGCAC
1 TGTGTGTGCGAGATCAGTTGTTGAGGCAC
* * ****
48517207 TGTGTGTGCGAGTTCCGTAACCGA-GCAC
1 TGTGTGTGCGAGATCAGTTGTTGAGGCAC
*
48517235 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGATCAGTTGTTGAGGCAC
48517264 TGTGTGTGCGAG
1 TGTGTGTGCGAG
48517276 TTCCGTAACC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 22 0.39
29 34 0.61
ACGTcount: A:0.15, C:0.16, G:0.39, T:0.30
Consensus pattern (29 bp):
TGTGTGTGCGAGATCAGTTGTTGAGGCAC
Found at i:48517213 original size:57 final size:57
Alignment explanation
Indices: 48517144--48517330 Score: 293
Period size: 57 Copynumber: 3.2 Consensus size: 57
48517134 AAGTGAACAT
* * * *
48517144 AGGCACTGTGTGTGTGAGTTCCGTAATCGAGCATTGTGTGTGCGAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
48517201 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
48517258 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
48517315 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
48517331 AAATGAGATC
Statistics
Matches: 121, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
57 114 0.94
59 7 0.06
ACGTcount: A:0.18, C:0.17, G:0.36, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:48522295 original size:28 final size:28
Alignment explanation
Indices: 48522258--48522364 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
48522248 GCAATCAAAT
*
48522258 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
48522286 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
48522314 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
48522342 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
48522365 CGAATGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:48524654 original size:48 final size:46
Alignment explanation
Indices: 48524583--48524803 Score: 176
Period size: 48 Copynumber: 4.6 Consensus size: 46
48524573 GGGTAAATTA
* *
48524583 TCGATGCCATGTTCTAGACATGGTCTTACACTGGCTCACAAGTCGAGG
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAA-T-GAGG
* * * *
48524631 TCGATGCCATGTCCCAGACATGGTTTTACACTAGATCTCATAACT-ATG
1 TCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCACAA-TGAGG
* * * *
48524679 CCTATGCCATGTTCCCA-ACATGGTCTTACACTGGATCTCATAATGTGG
1 TCGATGCCATG-TCCCAGACATGGTCTTACACTGG--CTCACAATGAGG
* * * * *
48524727 CCGATGTCATGTCCCAGACATGGTCTTACATTGGCTCTCACACTGTGG
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCACAATGAGG
* * *
48524775 TCAATGCCATGTCCCAAACATGGTTTTAC
1 TCGATGCCATGTCCCAGACATGGTCTTAC
48524804 CCTAGCACAT
Statistics
Matches: 142, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
47 7 0.05
48 122 0.86
49 6 0.04
50 7 0.05
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (46 bp):
TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAATGAGG
Found at i:48524795 original size:96 final size:96
Alignment explanation
Indices: 48524586--48524803 Score: 228
Period size: 96 Copynumber: 2.3 Consensus size: 96
48524576 TAAATTATCG
* * * *
48524586 ATGCCATGTTCTAGACATGGTCTTACACTGGCTCACAAGTCGAGGTCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAAGTCGAGGCCGATGCCATGTCCCAGACA
* *
48524651 TGGTTTTACACTAGATCTCATAACTATGCCT
66 TGGTCTTACACTAGATCTCATAACTATGCCA
* * *
48524682 ATGCCATGTTCCC-AACATGGTCTTACACTGGATCTCATAA-T-GTGGCCGATGTCATGTCCCAG
1 ATGCCATG-TCCCAAACATGGTCTTACACTGG--CTCACAAGTCGAGGCCGATGCCATGTCCCAG
* * * * * *
48524744 ACATGGTCTTACATTGGCTCTCA-CACTGTGGTCA
63 ACATGGTCTTACACTAGATCTCATAACTAT-GCCA
*
48524778 ATGCCATGTCCCAAACATGGTTTTAC
1 ATGCCATGTCCCAAACATGGTCTTAC
48524804 CCTAGCACAT
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
95 8 0.08
96 84 0.83
97 3 0.03
98 6 0.06
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAAGTCGAGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGATCTCATAACTATGCCA
Found at i:48538745 original size:19 final size:17
Alignment explanation
Indices: 48538730--48538820 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 17
48538720 ATTTTTATAG
48538730 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
48538747 TTTAATACTT--ATGTTAA
1 TTTAATA-TTAAAT-TTAA
* **
48538764 --TAGTATTTTA-TTAA
1 TTTAATATTAAATTTAA
*
48538778 TTTAATATTAAATTGATTA
1 TTTAATATTAAATT--TAA
*
48538797 TCTTAATATTAAATTAAA
1 T-TTAATATTAAATTTAA
48538815 TTTAAT
1 TTTAAT
48538821 GTTTATGTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 6 0.11
15 4 0.07
16 10 0.18
17 17 0.30
18 4 0.07
19 3 0.05
20 13 0.23
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:48538876 original size:12 final size:12
Alignment explanation
Indices: 48538852--48538883 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
48538842 TCTATTATTT
48538852 TATTAAGATTTAA
1 TATTAA-ATTTAA
48538865 TATTAAATTTAA
1 TATTAAATTTAA
48538877 TATTAAA
1 TATTAAA
48538884 AAGATTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
TATTAAATTTAA
Found at i:48543226 original size:40 final size:39
Alignment explanation
Indices: 48543170--48543433 Score: 379
Period size: 40 Copynumber: 6.6 Consensus size: 39
48543160 TGGATGATAA
* *
48543170 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA-T
48543210 CCGGGCTAAGCTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATAT
48543250 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
48543289 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTATAT
* *
48543329 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48543369 CCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATAT
48543409 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGT-CCGAAGGCATTTG
48543434 AGCAAGTAGT
Statistics
Matches: 208, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
38 1 0.00
39 38 0.18
40 166 0.80
41 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48543384 original size:119 final size:120
Alignment explanation
Indices: 48543166--48543433 Score: 443
Period size: 119 Copynumber: 2.2 Consensus size: 120
48543156 TATTTGGATG
*
48543166 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCTCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCTCCGAAGGCA
* *
48543231 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTTGTGCGAGTTACTATATCCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
* *
48543286 AT-ACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGAC-CCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CTCCGAAGG
*
48543348 CATTTGTGTGAGTTACTATATCCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
64 CATTTGTGCGAGTTACTATATCCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
48543405 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
48543434 AGCAAGTAGT
Statistics
Matches: 138, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
118 2 0.01
119 108 0.78
120 28 0.20
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCTCCGAAGGCA
TTTGTGCGAGTTACTATATCCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
Found at i:48543732 original size:22 final size:21
Alignment explanation
Indices: 48543690--48543733 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
48543680 AGAATGTGCA
48543690 TATATGAAGTTATCCATTTAGC
1 TATATGAAGTTATCCA-TTAGC
48543712 TATATGAATGTTATACC-TTAGC
1 TATATGAA-GTTAT-CCATTAGC
48543734 CGAAACTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (21 bp):
TATATGAAGTTATCCATTAGC
Found at i:48551287 original size:40 final size:39
Alignment explanation
Indices: 48551228--48551491 Score: 370
Period size: 40 Copynumber: 6.6 Consensus size: 39
48551218 TGGATGATAA
* *
48551228 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA-T
*
48551268 CCGAGCTAAGCTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATAT
*
48551308 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
*
48551347 CCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTATAT
*
48551387 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48551427 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATAT
48551467 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGT-CCGAAGGCATTTG
48551492 AGCAAGTAGT
Statistics
Matches: 208, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
38 2 0.01
39 37 0.18
40 165 0.79
41 4 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48551442 original size:119 final size:120
Alignment explanation
Indices: 48551224--48551498 Score: 448
Period size: 119 Copynumber: 2.3 Consensus size: 120
48551214 TATTTGGATG
*
48551224 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGAGCTAAGCTCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAATTCCGAGCTAAGCTCCGAAGGCA
*
48551289 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
66 TTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACT
* * *
48551344 AT-ACCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACT-ATATCCGGGCTAAGAC-CCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAAT-TCCGAGCTAAG-CTCCGAAGG
*
48551406 CATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
64 CATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACT
*
48551463 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT
48551499 AGTTATATTC
Statistics
Matches: 144, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
118 2 0.01
119 108 0.75
120 34 0.24
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAATTCCGAGCTAAGCTCCGAAGGCA
TTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACT
Found at i:48556734 original size:25 final size:24
Alignment explanation
Indices: 48556698--48556750 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
48556688 CACAAATGTA
*
48556698 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCATGATAT-G
* *
48556723 GCTCTTTGTGAGCTTCATGATATG
1 GCTCTTTATGAGCGTCATGATATG
48556747 GCTC
1 GCTC
48556751 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCATGATATG
Found at i:48558535 original size:46 final size:44
Alignment explanation
Indices: 48558485--48558607 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 44
48558475 GACAAGAGCT
*
48558485 AGTGTAAGACATGTCTGAGACATGTATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGAGACATGCATCGG-CTACGAGATGT--GCC
* * *
48558531 AGTGTAAGACATGTATGGGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGTGCC
48558575 AGTGTAAGACCATGTCT-AGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGA-GACAT-GCATCGGC
48558608 ATTATGCCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 11 0.16
45 13 0.19
46 43 0.64
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGTGCC
Found at i:48562580 original size:22 final size:23
Alignment explanation
Indices: 48562538--48562581 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
48562528 TAAATCATAA
*
48562538 AAATAAAATTAATTATTATGTAGG
1 AAATAAAA-TAATTATAATGTAGG
48562562 AAATAAAA-AATTATAATGTA
1 AAATAAAATAATTATAATGTA
48562582 TAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
24 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (23 bp):
AAATAAAATAATTATAATGTAGG
Found at i:48562919 original size:52 final size:52
Alignment explanation
Indices: 48562841--48562944 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
48562831 TTTGATGGAA
48562841 AAGGTGAAAAGGAATCAAAGATATAATTGACTGCCACTCGCAAAAGACTATC
1 AAGGTGAAAAGGAATCAAAGATATAATTGACTGCCACTCGCAAAAGACTATC
* * *
48562893 AAGGTGAAAAGGAATCAAAGATATAATTGACTTCTACTTGCAAAAGACTATC
1 AAGGTGAAAAGGAATCAAAGATATAATTGACTGCCACTCGCAAAAGACTATC
48562945 TTTTGATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.22
Consensus pattern (52 bp):
AAGGTGAAAAGGAATCAAAGATATAATTGACTGCCACTCGCAAAAGACTATC
Found at i:48570238 original size:37 final size:37
Alignment explanation
Indices: 48570185--48570287 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
48570175 CGAATAGTCC
*
48570185 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
48570222 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
48570259 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
48570288 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:48570514 original size:48 final size:48
Alignment explanation
Indices: 48570460--48570825 Score: 660
Period size: 48 Copynumber: 7.6 Consensus size: 48
48570450 GCCGAATCAC
*
48570460 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
48570508 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
48570556 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
48570604 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
48570652 TTGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
48570700 TTGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
48570748 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
48570796 TAGCCATTCGGCTTTACCACACATATATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
48570826 TTATCTTGTA
Statistics
Matches: 309, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 309 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:48574397 original size:28 final size:28
Alignment explanation
Indices: 48574355--48574423 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
48574345 GACTGATTTC
*
48574355 GCACACATAGCGCTCGATTGAAGAACTT
1 GCACACATAGTGCTCGATTGAAGAACTT
48574383 GCACACATAGTGCTCGATTGAAGAACTT
1 GCACACATAGTGCTCGATTGAAGAACTT
*
48574411 GCACACACAGTGC
1 GCACACATAGTGC
48574424 CTCATAATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (28 bp):
GCACACATAGTGCTCGATTGAAGAACTT
Found at i:48574510 original size:40 final size:40
Alignment explanation
Indices: 48574455--48574549 Score: 181
Period size: 40 Copynumber: 2.4 Consensus size: 40
48574445 CCTTTGAGGT
48574455 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48574495 TTAGTCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
48574535 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
48574550 AACTCTCAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
Found at i:48575882 original size:37 final size:37
Alignment explanation
Indices: 48575825--48575927 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
48575815 CGAATAGTCG
* * *
48575825 CCACACGTAGTTATCAGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
48575862 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
48575899 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
48575928 ATACATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:48576154 original size:48 final size:48
Alignment explanation
Indices: 48576100--48576460 Score: 641
Period size: 48 Copynumber: 7.5 Consensus size: 48
48576090 GCCGAATCAC
*
48576100 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
48576148 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * *
48576196 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATAGTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
48576244 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
48576292 TTGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
48576340 TAGCCATTCGGCTTTACCACATATACATATCTAATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
48576388 TGGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
48576436 TTGCCATTCGGCTTTACCACATATA
1 TAGCCATTCGGCTTTACCACATATA
48576461 TATTTATCTT
Statistics
Matches: 300, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 300 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:48579018 original size:42 final size:44
Alignment explanation
Indices: 48578936--48579078 Score: 129
Period size: 43 Copynumber: 3.3 Consensus size: 44
48578926 CCCAAACTTG
* * * *
48578936 GTCTTACATGTAATCAAATATCGATGCCACTATCCTAGACA-GA
1 GTCTTACACGAAATCAAACATCGATGCCACTATCCCAGACATGA
*
48578979 GTCTTACACGAAATCAAACA-CGATGCCGA-TGTCCCAGACATGA
1 GTCTTACACGAAATCAAACATCGATGCC-ACTATCCCAGACATGA
* *
48579022 -TCTTACACGTAAATCTCAA-ATCGATGCCAAC-ATCCCAGACGTG-
1 GTCTTACACG-AAATC-AAACATCGATGCC-ACTATCCCAGACATGA
*
48579065 GTCGTACACGAAAT
1 GTCTTACACGAAAT
48579079 TACATATCAG
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
42 25 0.30
43 30 0.36
44 28 0.34
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (44 bp):
GTCTTACACGAAATCAAACATCGATGCCACTATCCCAGACATGA
Found at i:48579060 original size:44 final size:41
Alignment explanation
Indices: 48578955--48579079 Score: 110
Period size: 44 Copynumber: 2.9 Consensus size: 41
48578945 GTAATCAAAT
*
48578955 ATCGATGCCACTATCCTAGACA-GAGTCTTACACGAAA-TCAA
1 ATCGATGCCAC-ATCCCAGACATGA-TCTTACACGAAATTCAA
* **
48578996 ACACGATGCCGATGTCCCAGACATGATCTTACACGTAAATCTCAA
1 A-TCGATGCC-ACATCCCAGACATGATCTTACACG-AAAT-TCAA
* * *
48579041 ATCGATGCCAACATCCCAGACGTGGTCGTACACGAAATT
1 ATCGATGCC-ACATCCCAGACATGATCTTACACGAAATT
48579080 ACATATCAGA
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.37
43 10 0.15
44 26 0.39
45 5 0.07
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (41 bp):
ATCGATGCCACATCCCAGACATGATCTTACACGAAATTCAA
Found at i:48587672 original size:47 final size:47
Alignment explanation
Indices: 48587554--48587778 Score: 183
Period size: 47 Copynumber: 4.8 Consensus size: 47
48587544 TCACTTATGT
* ** **
48587554 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCGCATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTAAGATGA
* * *
48587600 GAGCCAGTCTAAGACCACGTCTGGGACATGGCATCGACATTAAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTAAGATGA
* * * * *
48587648 GGGCTAGTGTAAGA-CATGTTTGGGACAT-GTATCGGCTAAGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTA-AGATGA
* * * * *
48587694 TAG-TCAGTGTAAGACCATGTTTGGGACATGGCATCAACTTGAGCT-A
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACTTAAGATGA
* *
48587740 TGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGAC
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
48587779 ACTTAACCCA
Statistics
Matches: 141, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
45 3 0.02
46 35 0.25
47 76 0.54
48 27 0.19
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAAGATGA
Found at i:48587719 original size:94 final size:94
Alignment explanation
Indices: 48587556--48587776 Score: 236
Period size: 94 Copynumber: 2.3 Consensus size: 94
48587546 ACTTATGTGA
* *
48587556 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGCATTATGAGAGCCAGTCTAAGACCACGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAGCATGATGAGAGCCAGTCTAAGACCACGTC
48587621 TGGGACATGGCATCGACATTAAGATGAGG
66 TGGGACATGGCATCGACATTAAGATGAGG
* * * * * *
48587650 GCTAGTGTAAGACATGTTTGGGACATGTATCGGCTAAG-A-GATGATAGTCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC--AGCATGATGAGAGCCAGTCTAAGACCACG
* * *
48587713 TTTGGGACATGGCATCAAC-TTGAGCTATGA--
64 TCTGGGACATGGCATCGACATTAAG--ATGAGG
* *
48587743 GCCAGTGTAAAACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
48587777 ACACTTAACC
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
93 14 0.13
94 81 0.76
95 10 0.09
96 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAGCATGATGAGAGCCAGTCTAAGACCACGTC
TGGGACATGGCATCGACATTAAGATGAGG
Found at i:48590258 original size:40 final size:40
Alignment explanation
Indices: 48590117--48590294 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
48590107 ATGTCCGGCA
* * * * *
48590117 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGC
* *
48590157 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGAGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
* * *
48590197 T-AGGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
48590236 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGC
*
48590276 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTG
48590295 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.28
40 74 0.63
41 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
Done.