Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 56 of 427
Found at i:13622325 original size:10 final size:10
Alignment explanation
Indices: 13622312--13622351 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
13622302 CGACGATCAC
*
13622312 CGACCATCGA
1 CGACCACCGA
13622322 CGACCACCGA
1 CGACCACCGA
*
13622332 CGATCACCGA
1 CGACCACCGA
*
13622342 CGATCACCGA
1 CGACCACCGA
13622352 ACACCTCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.30, C:0.42, G:0.20, T:0.07
Consensus pattern (10 bp):
CGACCACCGA
Found at i:13622356 original size:27 final size:27
Alignment explanation
Indices: 13622302--13622356 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
13622292 GTTACTCCGG
*
13622302 CGACGATCACCGACCATCGACGACCAC
1 CGACGATCACCGACCATCGACGAACAC
*
13622329 CGACGATCACCGACGATC-ACCGAACAC
1 CGACGATCACCGACCATCGA-CGAACAC
13622356 C
1 C
13622357 TCCAAACACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.31, C:0.44, G:0.18, T:0.07
Consensus pattern (27 bp):
CGACGATCACCGACCATCGACGAACAC
Found at i:13624534 original size:31 final size:32
Alignment explanation
Indices: 13624472--13624531 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
13624462 ATCGCGACAA
* * *
13624472 TTTTAAATTTTTTCTGTTAATTTTTACTTTAT
1 TTTTAAATTTATTCTGTAAATATTTACTTTAT
13624504 TTTTAAA-TTATTCTGTAAATATTT-CTTT
1 TTTTAAATTTATTCTGTAAATATTTACTTT
13624532 TATAATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.16
31 14 0.56
32 7 0.28
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (32 bp):
TTTTAAATTTATTCTGTAAATATTTACTTTAT
Found at i:13625662 original size:56 final size:53
Alignment explanation
Indices: 13625487--13625684 Score: 197
Period size: 49 Copynumber: 3.8 Consensus size: 53
13625477 TAATACTAAG
* * * * * * * *
13625487 TCTGGTGCTGGCCATTAACAAGCCAGCTCTAATTTTTTTTTAAATACTGGTAC
1 TCTGGTGCCGACCATTGACAGGCCAGCACCAATTTTTTTTTAAAAACTCGTAC
13625540 TCTGGTGCCGACCATTGACAGGCCAGCACC---TTTTTTTT-AAAACTCGTAC
1 TCTGGTGCCGACCATTGACAGGCCAGCACCAATTTTTTTTTAAAAACTCGTAC
* *
13625589 TTTGGTGCCGACTATTGACAGGCCAGCACCAAAATTTTTTTTTTAAAAACTCGTAC
1 TCTGGTGCCGACCATTGACAGGCCAGCACC--AA-TTTTTTTTTAAAAACTCGTAC
* * * * **
13625645 TCTGGTGCTGGCCATTGACAGACCAGAATTAATTTTTTTT
1 TCTGGTGCCGACCATTGACAGGCCAGCACCAATTTTTTTT
13625685 AAATACTGAT
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
49 37 0.31
50 8 0.07
53 32 0.27
54 2 0.02
55 8 0.07
56 33 0.28
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (53 bp):
TCTGGTGCCGACCATTGACAGGCCAGCACCAATTTTTTTTTAAAAACTCGTAC
Found at i:13627747 original size:33 final size:31
Alignment explanation
Indices: 13627702--13627773 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 31
13627692 AATAATTTAC
13627702 TTTTCTAGTGTTTGG-ATGA-TTCTGTATAAAATA
1 TTTTCT-GTGTTTGGCA-GATTTCT-TA-AAAATA
13627735 TTTTCTGTTGTTTGGCAGATTTCTTAAAAATA
1 TTTTCTG-TGTTTGGCAGATTTCTTAAAAATA
13627767 TTTTCTG
1 TTTTCTG
13627774 AAAAAGTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
32 14 0.39
33 17 0.47
34 5 0.14
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.51
Consensus pattern (31 bp):
TTTTCTGTGTTTGGCAGATTTCTTAAAAATA
Found at i:13627824 original size:16 final size:17
Alignment explanation
Indices: 13627790--13627832 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
13627780 TTGTTTTTAC
13627790 ATATATTAATAAATTTTT
1 ATATATTAATAAA-TTTT
13627808 ATATATTAATAAA-TTT
1 ATATATTAATAAATTTT
*
13627824 ATATTTTAA
1 ATATATTAA
13627833 ATTGTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 11 0.46
18 13 0.54
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATATTAATAAATTTT
Found at i:13632838 original size:140 final size:140
Alignment explanation
Indices: 13632679--13632957 Score: 531
Period size: 140 Copynumber: 2.0 Consensus size: 140
13632669 TCTTAGCCCT
* *
13632679 TTTACAATGTGTTAAAATATGCTAAGCGATTACAATAAACTGTCAATTCTTTGTATAGACATTTC
1 TTTACAATGTGATAAAATATACTAAGCGATTACAATAAACTGTCAATTCTTTGTATAGACATTTC
*
13632744 TCTCTCCACATAGAACTTCTTAAATTAAATTTGATAGGTCCATTAAGAATAATAGGCTTGGCGCA
66 TCTCTCCACATAGAACTTCTTAAACTAAATTTGATAGGTCCATTAAGAATAATAGGCTTGGCGCA
13632809 CCATTATTCC
131 CCATTATTCC
13632819 TTTACAATGTGATAAAATATACTAAGCGATTACAATAAACTGTCAATTCTTTGTATAGACATTTC
1 TTTACAATGTGATAAAATATACTAAGCGATTACAATAAACTGTCAATTCTTTGTATAGACATTTC
13632884 TCTCTCCACATAGAACTTCTTAAACTAAATTTGATAGGTCCATTAAGAATAATAGGCTTGGCGCA
66 TCTCTCCACATAGAACTTCTTAAACTAAATTTGATAGGTCCATTAAGAATAATAGGCTTGGCGCA
13632949 CCATTATTC
131 CCATTATTC
13632958 GCATACTTAA
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 136 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (140 bp):
TTTACAATGTGATAAAATATACTAAGCGATTACAATAAACTGTCAATTCTTTGTATAGACATTTC
TCTCTCCACATAGAACTTCTTAAACTAAATTTGATAGGTCCATTAAGAATAATAGGCTTGGCGCA
CCATTATTCC
Found at i:13639101 original size:75 final size:74
Alignment explanation
Indices: 13639003--13639251 Score: 338
Period size: 75 Copynumber: 3.3 Consensus size: 74
13638993 TCGTCGAAAT
* *
13639003 ACCCTGACTAGCA-CTGGGCGCAAACACCATTGGTTTATCCAACTAGAGTTGGGCTCACATTCAA
1 ACCC-GACTAG-AGCTGGGCGCAAACA-TATTGGTTTATCCAACTAGAGCTGGGCTCACATTCAA
*
13639067 TATCATCGGCTA
63 TATCGTCGGCTA
* * * *
13639079 ACCCAACTAGAGCTGGGTGCAAAGATTTTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATAT
1 ACCCGACTAGAGCTGGGCGCAAACATATTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATAT
*
13639144 CGTCAGCTA
66 CGTCGGCTA
* * *
13639153 ACCCGACTAGTGCTGGGTGCAAACATTGTTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATA
1 ACCCGACTAGAGCTGGGCGCAAACA-TATTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATA
*
13639218 TCGCCGGCTA
65 TCGTCGGCTA
*
13639228 ACCCGACTAGCGCTGGGCGCAAAC
1 ACCCGACTAGAGCTGGGCGCAAAC
13639252 TCCTCTGCGA
Statistics
Matches: 155, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
74 67 0.43
75 84 0.54
76 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (74 bp):
ACCCGACTAGAGCTGGGCGCAAACATATTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATAT
CGTCGGCTA
Found at i:13639120 original size:74 final size:75
Alignment explanation
Indices: 13639032--13639251 Score: 352
Period size: 74 Copynumber: 2.9 Consensus size: 75
13639022 GCAAACACCA
* * *
13639032 TTGGTTTATCCAACTAGAGTTGGGCTCACATTCAATATCATCGGCTAACCCAACTAGAGCTGGGT
1 TTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATATCGTCGGCTAACCCGACTAGAGCTGGGT
*
13639097 GCAAAGATT-
66 GCAAACATTG
* *
13639106 TTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATATCGTCAGCTAACCCGACTAGTGCTGGGT
1 TTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATATCGTCGGCTAACCCGACTAGAGCTGGGT
13639171 GCAAACATTG
66 GCAAACATTG
* * *
13639181 TTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATATCGCCGGCTAACCCGACTAGCGCTGGGC
1 TTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATATCGTCGGCTAACCCGACTAGAGCTGGGT
13639246 GCAAAC
66 GCAAAC
13639252 TCCTCTGCGA
Statistics
Matches: 135, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
74 68 0.50
75 67 0.50
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (75 bp):
TTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATATCGTCGGCTAACCCGACTAGAGCTGGGT
GCAAACATTG
Found at i:13639204 original size:35 final size:35
Alignment explanation
Indices: 13639081--13639204 Score: 99
Period size: 35 Copynumber: 3.4 Consensus size: 35
13639071 ATCGGCTAAC
*
13639081 CCAACTAGAGCTGGGTGCAAAGATT-TTGGTTTAT
1 CCAACTAGAGCTGGGTGCAAACATTGTTGGTTTAT
* ** * * *
13639115 CCAACTAGAGCTGGGCT-CACATTCAATATCGTCAGCTAAC
1 CCAACTAGAGCTGGG-TGCA-A-AC-AT-T-GTTGGTTTAT
* *
13639155 CCGACTAGTGCTGGGTGCAAACATTGTTGGTTTAT
1 CCAACTAGAGCTGGGTGCAAACATTGTTGGTTTAT
13639190 CCAACTAGAGCTGGG
1 CCAACTAGAGCTGGG
13639205 CTCACATTCA
Statistics
Matches: 65, Mismatches: 17, Indels: 15
0.67 0.18 0.15
Matches are distributed among these distances:
34 17 0.26
35 20 0.31
36 1 0.02
37 4 0.06
38 2 0.03
39 2 0.03
40 19 0.29
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (35 bp):
CCAACTAGAGCTGGGTGCAAACATTGTTGGTTTAT
Found at i:13640105 original size:30 final size:30
Alignment explanation
Indices: 13640041--13640107 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
13640031 GTGTCTCAGT
* *
13640041 CGTGTGTGACACACGGCCTAGCGACATAGT
1 CGTGTGTGACACACGGCCTAACGACATAGC
*
13640071 CGTGTGTGACACACGGCCTAACTACAT-GAC
1 CGTGTGTGACACACGGCCTAACGACATAG-C
13640101 CGTGTGT
1 CGTGTGT
13640108 CTCTTGTAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 1 0.03
30 32 0.97
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.22
Consensus pattern (30 bp):
CGTGTGTGACACACGGCCTAACGACATAGC
Found at i:13650736 original size:24 final size:24
Alignment explanation
Indices: 13650690--13650736 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
13650680 AAAGTCAAAT
**
13650690 ATATTATACTAATAAATGTTAAAA
1 ATATTATACTAATAAATACTAAAA
* *
13650714 ATATTATACTCATTAATACTAAA
1 ATATTATACTAATAAATACTAAA
13650737 TCTTCTAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATTATACTAATAAATACTAAAA
Found at i:13652032 original size:24 final size:24
Alignment explanation
Indices: 13651986--13652032 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
13651976 AAAGTCAAAT
* **
13651986 ATATTATGCTAATAAATGTTAAAC
1 ATATTATACTAATAAATACTAAAC
*
13652010 ATATTATACTCATAAATACTAAA
1 ATATTATACTAATAAATACTAAA
13652033 TCTTCTAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (24 bp):
ATATTATACTAATAAATACTAAAC
Found at i:13664145 original size:15 final size:16
Alignment explanation
Indices: 13664118--13664148 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13664108 ATTAAGACTT
13664118 TAAATTATAAATTTAA
1 TAAATTATAAATTTAA
13664134 TAAATT-TAAATTTAA
1 TAAATTATAAATTTAA
13664149 ATTGTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAATTATAAATTTAA
Found at i:13664488 original size:25 final size:25
Alignment explanation
Indices: 13664437--13664488 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
13664427 CTCTTAACGT
*
13664437 TTTCCCATCACAGCACAAATTATCC
1 TTTCCCATCACAGAACAAATTATCC
* *
13664462 TTTCCCCTCACATAACACAATTA-CC
1 TTTCCCATCACAGAACA-AATTATCC
13664487 TT
1 TT
13664489 CATTATTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.31, C:0.37, G:0.02, T:0.31
Consensus pattern (25 bp):
TTTCCCATCACAGAACAAATTATCC
Found at i:13665155 original size:41 final size:39
Alignment explanation
Indices: 13665094--13665186 Score: 118
Period size: 39 Copynumber: 2.3 Consensus size: 39
13665084 AAACAGGTTT
*
13665094 TTAGCGGCG-TTTGTATAAAAAACGCCACTAAAGAATGAGCA
1 TTAGCGGCGCTTTG-A-AAAAAACGCCACTAAA-AACGAGCA
*
13665135 TTAGCGGCGCTTCTG-AAAAAACGCCGCTAAAAACGAGCA
1 TTAGCGGCGCTT-TGAAAAAAACGCCACTAAAAACGAGCA
13665174 TTAGCGGCGCTTT
1 TTAGCGGCGCTTT
13665187 TTGAAAAACG
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
38 1 0.02
39 19 0.40
40 15 0.31
41 9 0.19
42 2 0.04
43 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (39 bp):
TTAGCGGCGCTTTGAAAAAAACGCCACTAAAAACGAGCA
Found at i:13665165 original size:40 final size:40
Alignment explanation
Indices: 13665110--13665240 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 40
13665100 GCGTTTGTAT
* *
13665110 AAAAAACGCCACTAAAGAATGAGCATTAGCGGCGCTTCTG
1 AAAAAACGCCGCTAAAGAATGAGCATTAGCGGCGCTTTTG
*
13665150 AAAAAACGCCGCTAAA-AACGAGCATTAGCGGCGCTTTTTG
1 AAAAAACGCCGCTAAAGAATGAGCATTAGCGGCGC-TTTTG
* * * * *
13665190 -AAAAACGCCGCTATAAG-TTCACCTTTAGCGGCGCTTTTA
1 AAAAAACGCCGCTA-AAGAATGAGCATTAGCGGCGCTTTTG
13665229 AAAAAACGCCGC
1 AAAAAACGCCGC
13665241 AAAACTTATG
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
39 34 0.44
40 44 0.56
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAGAATGAGCATTAGCGGCGCTTTTG
Found at i:13665366 original size:103 final size:103
Alignment explanation
Indices: 13665176--13665370 Score: 225
Period size: 103 Copynumber: 1.9 Consensus size: 103
13665166 AACGAGCATT
* * *
13665176 AGCGGCGCTTTTTGAAAAACGCCGCTATAAGTTCACCTTTAGCGGCGCTTTTAAAAAAACGCCGC
1 AGCGGCGCTTTTTGAAAAACGCCGCTATAAGATCAACTATAGCGGCGCTTTTAAAAAAACGCCGC
* ** *
13665241 AAAACTTATGCTCAATGCCATCGTTTTAACTGAGCTTC
66 AAAAATTATGCAAAACGCCATCGTTTTAACTGAGCTTC
* * * * *
13665279 AGCGGCGCTTTTTTAAAAACGCCGCTA-AAGATCAAGTAATAGCGGC-TTTTTCACAAAACGCCG
1 AGCGGCGCTTTTTGAAAAACGCCGCTATAAGATCAACT-ATAGCGGCGCTTTTAAAAAAACGCCG
*
13665342 CAAAAGAATTTTGCAAAACG-CATCGTTTT
65 C-AAA-AATTATGCAAAACGCCATCGTTTT
13665371 GTATTGAGCT
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
102 22 0.29
103 45 0.59
104 9 0.12
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (103 bp):
AGCGGCGCTTTTTGAAAAACGCCGCTATAAGATCAACTATAGCGGCGCTTTTAAAAAAACGCCGC
AAAAATTATGCAAAACGCCATCGTTTTAACTGAGCTTC
Found at i:13665445 original size:40 final size:38
Alignment explanation
Indices: 13665389--13665495 Score: 115
Period size: 40 Copynumber: 2.7 Consensus size: 38
13665379 CTTTTAGTGG
13665389 CTTTAGCGGCGTTTTTTAAGAAACGCCGCTATAGGTACAC
1 CTTTAGCGGCG-TTTTTAA-AAACGCCGCTATAGGTACAC
* * * * *
13665429 CTTTAGCGACGCTTTTTTAAAAACACTGCTATATGTATAC
1 CTTTAGCG--GCGTTTTTAAAAACGCCGCTATAGGTACAC
13665469 CTTTAGCGGCGTTTTTCAAAAAACGCC
1 CTTTAGCGGCGTTTTT--AAAAACGCC
13665496 ACAAAAGAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
38 7 0.13
40 39 0.71
41 7 0.13
42 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (38 bp):
CTTTAGCGGCGTTTTTAAAAACGCCGCTATAGGTACAC
Found at i:13665589 original size:39 final size:39
Alignment explanation
Indices: 13665545--13665651 Score: 135
Period size: 39 Copynumber: 2.7 Consensus size: 39
13665535 CTTTTAGTGG
13665545 CTTTAGCGGCGCTTTTTAAAAACGCCGCTATAGGCACAC
1 CTTTAGCGGCGCTTTTTAAAAACGCCGCTATAGGCACAC
* * * * *
13665584 CTTTAGCAGCGCTTTTTTAAAATGCCGCTATATGTACAC
1 CTTTAGCGGCGCTTTTTAAAAACGCCGCTATAGGCACAC
*
13665623 CTTTAGCGGCG-TTTGTTGAAAATCGCCGC
1 CTTTAGCGGCGCTTT-TT-AAAAACGCCGC
13665652 AAAAGAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
38 3 0.05
39 46 0.81
40 8 0.14
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTTAAAAACGCCGCTATAGGCACAC
Found at i:13665670 original size:154 final size:153
Alignment explanation
Indices: 13665318--13665725 Score: 590
Period size: 154 Copynumber: 2.6 Consensus size: 153
13665308 GATCAAGTAA
* *
13665318 TAGCGGC-TTTTTCACAAAACGCCGCAAAAGAATTTTGCAAAACGCATCGTTTTGTATTGAGCTT
1 TAGCGGCGTTTTTCA-AAAACGCCGCAAAAGAATTTTGCAAAACACATCATTTTGTATTGAGCTT
* *
13665382 TTAGTGGCTTTAGCGGCGTTTTTTAAGAAACGCCGCTATAGGTACACCTTTAGCGACGCTTTTTT
65 TTAGTGGCTTTAGCGGCGCTTTTTAA-AAACGCCGCTATAGGCACACCTTTAGCGACGCTTTTTT
*
13665447 AAAAACACTGCTATATGTATACCTT
129 AAAAACACTGCTATATGTACACCTT
* * *
13665472 TAGCGGCGTTTTTCAAAAAACGCCACAAAAGAATTTTGCAAAACACTATCTTTTTGTATTAAGCT
1 TAGCGGCGTTTTTC-AAAAACGCCGCAAAAGAATTTTGCAAAACAC-ATCATTTTGTATTGAGCT
13665537 TTTAGTGGCTTTAGCGGCGCTTTTTAAAAACGCCGCTATAGGCACACCTTTAGC-AGCGCTTTTT
64 TTTAGTGGCTTTAGCGGCGCTTTTTAAAAACGCCGCTATAGGCACACCTTTAGCGA-CGCTTTTT
*
13665601 TAAAATGC-C-GCTATATGTACACCTT
128 TAAAA-ACACTGCTATATGTACACCTT
* * *
13665626 TAGCGGCGTTTGTTGAAAATCGCCGCAAAAGAATTTTGCAAAACACCGTCATTTTGTATTGAGCT
1 TAGCGGCGTTT-TTCAAAAACGCCGCAAAAGAATTTTGCAAAACA-CATCATTTTGTATTGAGCT
*
13665691 TTTAGTGGCTTTAGCGGCACTTTTTGAAAAACGCC
64 TTTAGTGGCTTTAGCGGCGCTTTTT-AAAAACGCC
13665726 ACAAAATATA
Statistics
Matches: 231, Mismatches: 15, Indels: 15
0.89 0.06 0.06
Matches are distributed among these distances:
154 101 0.44
155 86 0.37
156 44 0.19
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (153 bp):
TAGCGGCGTTTTTCAAAAACGCCGCAAAAGAATTTTGCAAAACACATCATTTTGTATTGAGCTTT
TAGTGGCTTTAGCGGCGCTTTTTAAAAACGCCGCTATAGGCACACCTTTAGCGACGCTTTTTTAA
AAACACTGCTATATGTACACCTT
Found at i:13666045 original size:15 final size:15
Alignment explanation
Indices: 13666022--13666067 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
13666012 ATGGTTAGGG
*
13666022 TTTAGGGTTTATGGT
1 TTTATGGTTTATGGT
13666037 TTTATGGTTTAT-GT
1 TTTATGGTTTATGGT
* *
13666051 TTTATGATTTAGGGT
1 TTTATGGTTTATGGT
13666066 TT
1 TT
13666068 ATAGGGATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (15 bp):
TTTATGGTTTATGGT
Found at i:13666068 original size:14 final size:14
Alignment explanation
Indices: 13666012--13666069 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
13666002 GTTGGGGTCA
13666012 ATGG-TTAGGGTTT
1 ATGGTTTAGGGTTT
* *
13666025 AGGGTTTATGGTTTT
1 ATGGTTTA-GGGTTT
* *
13666040 ATGGTTTATGTTTT
1 ATGGTTTAGGGTTT
*
13666054 ATGATTTAGGGTTT
1 ATGGTTTAGGGTTT
13666068 AT
1 AT
13666070 AGGGATACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 3 0.08
14 21 0.58
15 12 0.33
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.53
Consensus pattern (14 bp):
ATGGTTTAGGGTTT
Found at i:13666480 original size:21 final size:21
Alignment explanation
Indices: 13666456--13666502 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
13666446 TTAGGGTGTA
* **
13666456 GGTTTATTATCTATTATTTAG
1 GGTTTATGATCTAGGATTTAG
13666477 GGTTTATGATCTAGGATTTAG
1 GGTTTATGATCTAGGATTTAG
13666498 GGTTT
1 GGTTT
13666503 GGTGTTTGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.04, G:0.23, T:0.51
Consensus pattern (21 bp):
GGTTTATGATCTAGGATTTAG
Found at i:13676754 original size:1 final size:1
Alignment explanation
Indices: 13676748--13676772 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
13676738 TCTTTAAACC
13676748 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
13676773 GGTTCTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13694131 original size:8 final size:8
Alignment explanation
Indices: 13694118--13694147 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
13694108 ATTATTCACT
13694118 ATATTTTA
1 ATATTTTA
13694126 ATATTTTA
1 ATATTTTA
13694134 ATATTTTA
1 ATATTTTA
13694142 ATATTT
1 ATATTT
13694148 CCTTCGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
ATATTTTA
Found at i:13700067 original size:42 final size:41
Alignment explanation
Indices: 13699937--13700067 Score: 104
Period size: 42 Copynumber: 3.1 Consensus size: 41
13699927 ATGAGTTTCA
* * * *
13699937 GTTCAACCCTAATAGGTTTCC-ATTCAGC-TTTATTGAGCTTTT
1 GTTCAACCCTTAT-GGGTTCCTGTTCAGCATTTA-CGAGC-TTT
* ** *
13699979 GTTTAACCCTTATGGGTTTTTGTTCAGCTTTTACGAGCTTT
1 GTTCAACCCTTATGGGTTCCTGTTCAGCATTTACGAGCTTT
* * *
13700020 CGTTCAACCCTTATGGGTTCCTGTTTAGCATTTATGTGCTTCT
1 -GTTCAACCCTTATGGGTTCCTGTTCAGCATTTACGAGCTT-T
13700063 GTTCA
1 GTTCA
13700068 GCCTTCGGGC
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
41 7 0.10
42 59 0.83
43 5 0.07
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.45
Consensus pattern (41 bp):
GTTCAACCCTTATGGGTTCCTGTTCAGCATTTACGAGCTTT
Found at i:13702449 original size:2 final size:2
Alignment explanation
Indices: 13702442--13702483 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13702432 TTAGGCAGCT
13702442 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13702484 GCCTATAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13704598 original size:2 final size:2
Alignment explanation
Indices: 13704591--13704615 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13704581 AATTATAAAC
13704591 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13704616 ATTTGAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13713353 original size:156 final size:156
Alignment explanation
Indices: 13713069--13713535 Score: 832
Period size: 156 Copynumber: 3.0 Consensus size: 156
13713059 TTCTCTTAGT
* *
13713069 AGCTTTCTGCTTTAAAAGAAAAGATAAACTTAGTTTGGGTTATCTGACAGATTAAAAGTACTCCA
1 AGCTTTCTGCTTTAAAAGAAAAGGTAAACTTAGTTTGGGTTATCTGACAGATTAAAAGTAGTCCA
* *
13713134 AATGATACGGAAGAATCGGTCCCTGATAATTCTCTTTCTCGAACTGCTTCATCTGATGACAAGGT
66 AAGGATACGGAAGAATCGGTCCCTGATAATTCTCTTTCTCGAACTGCTTCATGTGATGACAAGGT
13713199 AGGTCAAATATTTCCAAGTAGCTTTC
131 AGGTCAAATATTTCCAAGTAGCTTTC
13713225 AGCTTTCTGCTTTAAAAGAAAAGGTAAACTTAGTTTGGGTTATCTGACAGATTAAAAGTAGTCCA
1 AGCTTTCTGCTTTAAAAGAAAAGGTAAACTTAGTTTGGGTTATCTGACAGATTAAAAGTAGTCCA
* *
13713290 AAGGATACAGAAGAATCGGTCCCTGACAATTCTCTTTCTCGAACTGCTTCATGTGATGACAAGGT
66 AAGGATACGGAAGAATCGGTCCCTGATAATTCTCTTTCTCGAACTGCTTCATGTGATGACAAGGT
13713355 AGGTCAAATATTTCCAAGTAGCTTTC
131 AGGTCAAATATTTCCAAGTAGCTTTC
* *
13713381 AGCTTTATGCTTTAAAAGAAAAGGTAAACTTAGATTGGGTTATCTGACAGATTAAAAGTAGTCCA
1 AGCTTTCTGCTTTAAAAGAAAAGGTAAACTTAGTTTGGGTTATCTGACAGATTAAAAGTAGTCCA
13713446 AAGGATACGGAAGAATCGGTCCCTGATAATTCTCTTTCTCGAACTGCTTCATGTGAT---AAGGT
66 AAGGATACGGAAGAATCGGTCCCTGATAATTCTCTTTCTCGAACTGCTTCATGTGATGACAAGGT
*
13713508 AGGTCAAATATTTCCAAGTAGTTTTC
131 AGGTCAAATATTTCCAAGTAGCTTTC
13713534 AG
1 AG
13713536 TTATTGCTTC
Statistics
Matches: 300, Mismatches: 11, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
153 32 0.11
156 268 0.89
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (156 bp):
AGCTTTCTGCTTTAAAAGAAAAGGTAAACTTAGTTTGGGTTATCTGACAGATTAAAAGTAGTCCA
AAGGATACGGAAGAATCGGTCCCTGATAATTCTCTTTCTCGAACTGCTTCATGTGATGACAAGGT
AGGTCAAATATTTCCAAGTAGCTTTC
Found at i:13724127 original size:19 final size:19
Alignment explanation
Indices: 13724087--13724128 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13724077 CACTGATAAT
*
13724087 ATATTATATATACAATATA
1 ATATTATATATACAATACA
*
13724106 ATATTATATTATA-TATACA
1 ATATTATA-TATACAATACA
13724125 ATAT
1 ATAT
13724129 ACGGTGACGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATTATATATACAATACA
Found at i:13725577 original size:2 final size:2
Alignment explanation
Indices: 13725564--13725595 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13725554 TGCTGCTTTA
*
13725564 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13725596 TTTTTTTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13727850 original size:14 final size:14
Alignment explanation
Indices: 13727803--13727855 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
13727793 TTTTGCTTGA
13727803 TCAAAATTAATTTT
1 TCAAAATTAATTTT
*
13727817 CTCAAATCACTAAGATTTT
1 -TCAAA--A-TTA-ATTTT
13727836 TCAAAATTAATTTT
1 TCAAAATTAATTTT
13727850 TCAAAA
1 TCAAAA
13727856 AAATTCTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 11 0.34
15 7 0.22
16 1 0.03
17 1 0.03
18 7 0.22
19 5 0.16
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.42
Consensus pattern (14 bp):
TCAAAATTAATTTT
Found at i:13731128 original size:29 final size:31
Alignment explanation
Indices: 13731081--13731139 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
13731071 TGACTTCTTA
*
13731081 TTTATATTTTTTCACATTT-G-CCCTAAACT
1 TTTATATTTTTACACATTTAGTCCCTAAACT
13731110 TTTATATTTTATACA-ATTTAGTCCCTAAAC
1 TTTATATTTT-TACACATTTAGTCCCTAAAC
13731140 CCAAAACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 14 0.54
30 4 0.15
31 8 0.31
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.49
Consensus pattern (31 bp):
TTTATATTTTTACACATTTAGTCCCTAAACT
Found at i:13732581 original size:29 final size:30
Alignment explanation
Indices: 13732543--13732600 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
13732533 TTTCATATTG
13732543 CTTCAAGATTTAAGGAACTT-AAGATCGAGC
1 CTTCAAGATTTAAGGAA-TTCAAGATCGAGC
13732573 CTTC-AGATTTAAGGAATTCAAGATCGAG
1 CTTCAAGATTTAAGGAATTCAAGATCGAG
13732601 TTTTCTAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 2 0.07
29 21 0.78
30 4 0.15
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (30 bp):
CTTCAAGATTTAAGGAATTCAAGATCGAGC
Found at i:13735269 original size:20 final size:19
Alignment explanation
Indices: 13735223--13735269 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
13735213 AGTTTGAACG
13735223 AACTT-AATTTGAATATCA
1 AACTTAAATTTGAATATCA
13735241 AACTCTAAATTTCGAATACTC-
1 AACT-TAAATTT-GAATA-TCA
13735262 AACTTAAA
1 AACTTAAA
13735270 CTCCAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.16
19 1 0.04
20 9 0.36
21 9 0.36
22 2 0.08
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (19 bp):
AACTTAAATTTGAATATCA
Found at i:13735618 original size:2 final size:2
Alignment explanation
Indices: 13735611--13735659 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
13735601 TTATCTTACT
13735611 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13735653 TA T- TA TA
1 TA TA TA TA
13735660 AGACAATGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13738411 original size:38 final size:38
Alignment explanation
Indices: 13738264--13738410 Score: 204
Period size: 38 Copynumber: 3.8 Consensus size: 38
13738254 TAAAGTATGA
* * *
13738264 TTTTAATTAATAATAAAACAAAATGGTATGAGGAAGTAG
1 TTTTAATTAACAATAAAACAAAATAGCATG-GGAAGTAG
*
13738303 TTTTAATTAACAATAAAACAAAATAGTATGGGAAGTAG
1 TTTTAATTAACAATAAAACAAAATAGCATGGGAAGTAG
* *
13738341 TTTTAATTAACAATAAAACAAAATAGCATGGGGAGTGG
1 TTTTAATTAACAATAAAACAAAATAGCATGGGAAGTAG
* * *
13738379 TTTTGATTAATAATAAAACAAAGTAGCATGGG
1 TTTTAATTAACAATAAAACAAAATAGCATGGG
13738411 GGAGTGGAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 72 0.72
39 28 0.28
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.29
Consensus pattern (38 bp):
TTTTAATTAACAATAAAACAAAATAGCATGGGAAGTAG
Found at i:13742819 original size:73 final size:73
Alignment explanation
Indices: 13742688--13742835 Score: 188
Period size: 73 Copynumber: 2.0 Consensus size: 73
13742678 AAAGTAGAAA
* *
13742688 TTGAAAAACAAAAATTGAAAATTCCTTAGCGTGCCCTGAGGCTCAACTCACTTATCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATTCCTCAGCGTGCCCTGAGGCTCAACTCACCTATCGCAATATGA
*
13742753 GTTGATTT
66 ATTGATTT
* * * * * * * * *
13742761 TTGACAAACAAAATTTGGAATTTCCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAGTATGA
1 TTGAAAAACAAAAATTGAAAATTCCTCAGCGTGCCCTGAGGCTCAACTCACCTATCGCAATATGA
13742826 ATTGATTT
66 ATTGATTT
13742834 TT
1 TT
13742836 TTTGAAAACA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (73 bp):
TTGAAAAACAAAAATTGAAAATTCCTCAGCGTGCCCTGAGGCTCAACTCACCTATCGCAATATGA
ATTGATTT
Found at i:13742855 original size:14 final size:14
Alignment explanation
Indices: 13742836--13742871 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
13742826 ATTGATTTTT
13742836 TTTGAAAACAGAAA
1 TTTGAAAACAGAAA
13742850 TTTGAAAAACAGAAA
1 TTTG-AAAACAGAAA
13742865 -TTGAAAA
1 TTTGAAAA
13742872 TTCCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 7 0.33
15 10 0.48
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (14 bp):
TTTGAAAACAGAAA
Found at i:13742858 original size:15 final size:15
Alignment explanation
Indices: 13742836--13742871 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
13742826 ATTGATTTTT
13742836 TTTG-AAAACAGAAA
1 TTTGAAAAACAGAAA
13742850 TTTGAAAAACAGAAA
1 TTTGAAAAACAGAAA
13742865 -TTGAAAA
1 TTTGAAAA
13742872 TTCCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (15 bp):
TTTGAAAAACAGAAA
Found at i:13743086 original size:89 final size:89
Alignment explanation
Indices: 13742784--13743198 Score: 526
Period size: 89 Copynumber: 4.6 Consensus size: 89
13742774 TTTGGAATTT
* * * * *
13742784 CCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAGTATGAATTGATTTTTTTTGAAAACAGA-
1 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAA-ATAT
* * *
13742848 AATTTGAAAAACAGAAATTGAAAATT
64 AAATTAAAAAACAGAAATTGAAAATA
* *
13742874 CCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAAAATATA
1 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAATATA
*
13742939 AATTAAAAAAAAACAAAAATTGAAAATA
65 AATT---AAAAAACAGAAATTGAAAATA
* * *
13742967 TCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAATATAA
1 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAA
*
13743032 ATTAAAAAATAGAAATTGAAAATA
66 ATTAAAAAACAGAAATTGAAAATA
* * ** *
13743056 CCTCAGCGTGTCCTAAGGCTCAACTGACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAA
1 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAA
*
13743121 ATTGAAAAACAGAAATTGAAATTATA
66 ATTAAAAAACAGAAATTGAAA--ATA
* * * *
13743147 CCTTAGCGTGCCCTGAGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTT
1 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
13743199 GACAAACAAA
Statistics
Matches: 285, Mismatches: 34, Indels: 11
0.86 0.10 0.03
Matches are distributed among these distances:
89 97 0.34
90 58 0.20
91 49 0.17
92 21 0.07
93 60 0.21
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (89 bp):
CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAA
ATTAAAAAACAGAAATTGAAAATA
Found at i:13743091 original size:182 final size:179
Alignment explanation
Indices: 13742766--13743290 Score: 552
Period size: 182 Copynumber: 3.0 Consensus size: 179
13742756 GATTTTTGAC
* * * * * * *
13742766 AAACAAAATTTGGAAT-TTCCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAGTATGAATTG
1 AAACAAAAATTGAAATATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTG
* * * *
13742830 ATTTTTTTTGAAAACAGAAATTTGAAAAACAGAAATTGAAAATTCCTCAGCGTGCCCTGAGGCTC
66 A-TTTTTTTGAAAACAGAAAATTAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTC
* * *
13742895 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAAAATATAAATTAAAAAA
130 AACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAATT---AAA
*
13742949 AAACAAAAATTGAAA-ATATCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTG
1 AAACAAAAATTGAAATATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTG
* * *
13743013 ATTTTTTTGAAAA-ATATAAATTAAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTC
66 ATTTTTTTGAAAACAGA-AAATTAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTC
* * *
13743077 AACTGACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAA
130 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAA
* * * * *
13743127 AAACAGAAATTGAAATTATACCTTAGCGTGCCCTGAGGCTCAACTCACTTCTCGTAATATGAGTT
1 AAACAAAAATTGAAA-TATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTT
* * ** *
13743192 GA--TTTTTG---AC--------AAACAA-A-AAA-TGAAATTACCTCAGCGTTTCCTGAGGCTC
65 GATTTTTTTGAAAACAGAAAATTAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTC
*
13743241 AACTCACCTCTCGCAATATGAGTTGATTTTCTTG-AAAACAGAAA-TAAA
130 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAA
13743289 AA
1 AA
13743291 CATCAAAATA
Statistics
Matches: 302, Mismatches: 35, Indels: 31
0.82 0.10 0.08
Matches are distributed among these distances:
162 5 0.02
163 9 0.03
164 58 0.19
165 3 0.01
166 1 0.00
167 5 0.02
175 1 0.00
178 22 0.07
180 45 0.15
181 20 0.07
182 77 0.25
183 56 0.19
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (179 bp):
AAACAAAAATTGAAATATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTG
ATTTTTTTGAAAACAGAAAATTAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAA
Found at i:13743127 original size:14 final size:14
Alignment explanation
Indices: 13743108--13743141 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13743098 GTTGATTTTT
*
13743108 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
13743122 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
13743136 TTGAAA
1 TTGAAA
13743142 TTATACCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:13743253 original size:73 final size:75
Alignment explanation
Indices: 13743122--13743270 Score: 212
Period size: 73 Copynumber: 2.0 Consensus size: 75
13743112 AAAGCAGAAA
* * * * *
13743122 TTGAAAAACAGAAATTGAAATTATACCTTAGCGTGCCCTGAGGCTCAACTCACTTCTCGTAATAT
1 TTGAAAAACAAAAAATGAAATTATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
13743187 GAGTTGATTT
66 GAGTTGATTT
* **
13743197 TTGACAAACAAAAAATGAAA-T-TACCTCAGCGTTTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAAAAAATGAAATTATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
13743260 GAGTTGATTT
66 GAGTTGATTT
13743270 T
1 T
13743271 CTTGAAAACA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
73 48 0.73
74 1 0.02
75 17 0.26
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAAAAAATGAAATTATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTT
Found at i:13755537 original size:28 final size:29
Alignment explanation
Indices: 13755506--13755571 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
13755496 AATAATAGGT
13755506 ATAATAATAAATAAAATGATGTACG-AA-A
1 ATAATAATAAATAAAAT-ATGTACGCAAGA
* *
13755534 ATAATACTATATATAAAATATGTATGCAAGA
1 ATAATA--ATAAATAAAATATGTACGCAAGA
13755565 ATAATAA
1 ATAATAA
13755572 AATATATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
28 6 0.19
29 7 0.22
30 12 0.38
31 7 0.22
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.29
Consensus pattern (29 bp):
ATAATAATAAATAAAATATGTACGCAAGA
Found at i:13755577 original size:31 final size:30
Alignment explanation
Indices: 13755506--13755578 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
13755496 AATAATAGGT
*
13755506 ATAATAATAAATAAAATGATGTACGAAAATA
1 ATAA-AATATATAAAATGATGTACGAAAATA
** *
13755537 ATACTATATATAAAAT-ATGTATGCAAGAATA
1 ATAAAATATATAAAATGATGTACG-AA-AATA
13755568 ATAAAATATAT
1 ATAAAATATAT
13755579 GTACTAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 6 0.18
30 12 0.35
31 16 0.47
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (30 bp):
ATAAAATATATAAAATGATGTACGAAAATA
Found at i:13756165 original size:18 final size:18
Alignment explanation
Indices: 13756144--13756200 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
13756134 ATTAAATACA
13756144 CATACATATATAAAAGAT
1 CATACATATATAAAAGAT
* *
13756162 CATACACTA-AT--TACA-
1 CATACA-TATATAAAAGAT
13756177 CATACATATATAAAAGAT
1 CATACATATATAAAAGAT
13756195 CATACA
1 CATACA
13756201 CTAATACATA
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
14 2 0.07
15 8 0.27
16 2 0.07
17 2 0.07
18 14 0.47
19 2 0.07
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.26
Consensus pattern (18 bp):
CATACATATATAAAAGAT
Found at i:13756178 original size:33 final size:33
Alignment explanation
Indices: 13756140--13756205 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
13756130 GTATATTAAA
13756140 TACACATACATATATAAAAGATCATACACTAAT
1 TACACATACATATATAAAAGATCATACACTAAT
13756173 TACACATACATATATAAAAGATCATACACTAAT
1 TACACATACATATATAAAAGATCATACACTAAT
13756206 ACATAATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (33 bp):
TACACATACATATATAAAAGATCATACACTAAT
Found at i:13757849 original size:39 final size:39
Alignment explanation
Indices: 13757795--13757872 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
13757785 AATAAAAATA
*
13757795 CGATTGTAGGACAATAACAGGAATAACCAGATTTCAAAG
1 CGATTGTAAGACAATAACAGGAATAACCAGATTTCAAAG
13757834 CGATTGTAAGACAATAACAGGAATAACCAGATTTCAAAG
1 CGATTGTAAGACAATAACAGGAATAACCAGATTTCAAAG
13757873 GCATGGAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (39 bp):
CGATTGTAAGACAATAACAGGAATAACCAGATTTCAAAG
Found at i:13765268 original size:34 final size:34
Alignment explanation
Indices: 13765224--13765288 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
13765214 CTCTCCATCG
*
13765224 AATCATGTAAAAAGATTTCGAATGGATTATGCTT
1 AATCAAGTAAAAAGATTTCGAATGGATTATGCTT
* *
13765258 AATCAAGTAAAAAGATTTTGAATTGATTATG
1 AATCAAGTAAAAAGATTTCGAATGGATTATG
13765289 TTGAGGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (34 bp):
AATCAAGTAAAAAGATTTCGAATGGATTATGCTT
Found at i:13769759 original size:50 final size:50
Alignment explanation
Indices: 13769684--13769860 Score: 248
Period size: 50 Copynumber: 3.5 Consensus size: 50
13769674 CCATGGAAAC
13769684 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
13769734 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
13769784 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
13769834 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
13769861 CTGATCAGTG
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
50 88 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:13770046 original size:31 final size:31
Alignment explanation
Indices: 13769838--13770039 Score: 314
Period size: 31 Copynumber: 6.5 Consensus size: 31
13769828 AAATGACAAC
13769838 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
13769869 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
13769900 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
13769931 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
13769962 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
13769993 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
13770024 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
13770040 TGGCTACAAG
Statistics
Matches: 157, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 157 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:13770057 original size:7 final size:7
Alignment explanation
Indices: 13770045--13770073 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
13770035 AGCTTTGGCT
13770045 ACAAGTG
1 ACAAGTG
13770052 ACAAGTG
1 ACAAGTG
13770059 ACAAGTG
1 ACAAGTG
13770066 ACAAGTG
1 ACAAGTG
13770073 A
1 A
13770074 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:13770144 original size:46 final size:48
Alignment explanation
Indices: 13770077--13770201 Score: 166
Period size: 46 Copynumber: 2.7 Consensus size: 48
13770067 CAAGTGATTT
* *
13770077 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATAT-TG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGACTA
* *
13770123 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGACTA
* * *
13770171 C-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
13770202 TTATGTAAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 38 0.55
47 28 0.41
48 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGACTA
Found at i:13775040 original size:185 final size:182
Alignment explanation
Indices: 13774722--13775054 Score: 506
Period size: 185 Copynumber: 1.8 Consensus size: 182
13774712 AGCTAATCTG
* * * *
13774722 TTCAGATTTCAATCTAACTGAAACACTTAAAATCTTTTAATTAACTTGAAAAAAAATATTTTATC
1 TTCAGATTGCAATCTAACTCAAACACTGAAAACCTTTTAATTAACTTGAAAAAAAATATTTTATC
* * * *
13774787 TGATTTATCAAAAACACTATCAATTTTTTTATAAAAAGATTAAATTAATTTTTTGTTGAGGGCTT
66 TGATTTATCAAAAACACTATCAATTTTTTTAAAAAAAGATTAAACTAAATTTTTGTTAAGGGCTT
13774852 TTTATTATTTTATTTTTCCTCCCTTTGTTGTCCCTTTCACTTCCCCTCTCCA
131 TTTATTATTTTATTTTTCCTCCCTTTGTTGTCCCTTTCACTTCCCCTCTCCA
* * *
13774904 TTCATATTGCAATCTAATTCAAACACTGAAAACCTTTTGATTAACTTGAATAAAAAAATATTTTA
1 TTCAGATTGCAATCTAACTCAAACACTGAAAACCTTTTAATTAACTTG-A-AAAAAAATATTTTA
*
13774969 TTTGATTTATCAAGAAA-ACTATCAATTTTTTTTAAAAAAAGATTAAACTAAATTTTTGTTAAGG
64 TCTGATTTATCAA-AAACACTATCAA-TTTTTTTAAAAAAAGATTAAACTAAATTTTTGTTAAGG
*
13775033 GCTTTTTATTATTTTCTTTTTC
127 GCTTTTTATTATTTTATTTTTC
13775055 ATTCTTTTTC
Statistics
Matches: 134, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
182 41 0.31
183 1 0.01
184 34 0.25
185 58 0.43
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (182 bp):
TTCAGATTGCAATCTAACTCAAACACTGAAAACCTTTTAATTAACTTGAAAAAAAATATTTTATC
TGATTTATCAAAAACACTATCAATTTTTTTAAAAAAAGATTAAACTAAATTTTTGTTAAGGGCTT
TTTATTATTTTATTTTTCCTCCCTTTGTTGTCCCTTTCACTTCCCCTCTCCA
Found at i:13778196 original size:22 final size:21
Alignment explanation
Indices: 13778152--13778193 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13778142 TTCAAATTAC
13778152 ACAAAAAGTATTGATACCTTT
1 ACAAAAAGTATTGATACCTTT
*
13778173 ACAAAAAGTATTGATAGCTTT
1 ACAAAAAGTATTGATACCTTT
13778194 TACCAGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (21 bp):
ACAAAAAGTATTGATACCTTT
Found at i:13779136 original size:126 final size:126
Alignment explanation
Indices: 13778911--13779140 Score: 340
Period size: 126 Copynumber: 1.8 Consensus size: 126
13778901 GCCCAAACTA
* * *
13778911 TGTGGCTCTTGACATGGCCGTGTGGCTACTTCACACACTCATGTAATTGCTTCACATGCCCTTGT
1 TGTGGCTCTTGACATGGCCGTGTGGCTACTCCACACACTCATGTAACTGCTTCACATGCCCATGT
* *
13778976 ATATAGACCATGTAACTCATTGTGCCTGTGTAATATAAATTCACGCGACCATGTCGCACCG
66 ATATAGACCATGTAACTCACTGTGCCCGTGTAATATAAATTCACGCGACCATGTCGCACCG
* * *
13779037 TGTGGCTCTTGACGTGGCCGTGTGGCTGCTCCACACAC-CTATGTGACTGCTTCACATGCCCATG
1 TGTGGCTCTTGACATGGCCGTGTGGCTACTCCACACACTC-ATGTAACTGCTTCACATGCCCATG
13779101 TACGTA-AG-CCATGTAACTCACTGTGCCCGTGTAATATAAA
65 TA--TATAGACCATGTAACTCACTGTGCCCGTGTAATATAAA
13779141 GTCATACGGC
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
125 1 0.01
126 88 0.95
127 2 0.02
128 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (126 bp):
TGTGGCTCTTGACATGGCCGTGTGGCTACTCCACACACTCATGTAACTGCTTCACATGCCCATGT
ATATAGACCATGTAACTCACTGTGCCCGTGTAATATAAATTCACGCGACCATGTCGCACCG
Found at i:13783745 original size:14 final size:16
Alignment explanation
Indices: 13783670--13783764 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 16
13783660 TATAATAATA
13783670 TATTATTTTATT-TA-
1 TATTATTTTATTATAT
13783684 TATTATTTGTAACATTATAT
1 TATTATTT-T---ATTATAT
*
13783704 ATATAAATTTTATTATATGT
1 -TAT-TATTTTATTATA--T
13783724 TATATATTTTTATTATAT
1 TAT-TA-TTTTATTATAT
13783742 TATTGATTTTATTATAT
1 TATT-ATTTTATTATAT
*
13783759 TTTTAT
1 TATTAT
13783765 ATGTAAAATA
Statistics
Matches: 66, Mismatches: 3, Indels: 22
0.73 0.03 0.24
Matches are distributed among these distances:
14 8 0.12
15 1 0.02
16 2 0.03
17 15 0.23
18 14 0.21
19 7 0.11
20 11 0.17
21 4 0.06
22 4 0.06
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (16 bp):
TATTATTTTATTATAT
Found at i:13786986 original size:19 final size:19
Alignment explanation
Indices: 13786962--13787007 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
13786952 TGGAGTTCGA
13786962 GAAGAAGATAGCAAAGCTC
1 GAAGAAGATAGCAAAGCTC
13786981 GAAGAAGATAGCAAAGCTC
1 GAAGAAGATAGCAAAGCTC
13787000 GAAGAAGA
1 GAAGAAGA
13787008 AAAGATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.50, C:0.13, G:0.28, T:0.09
Consensus pattern (19 bp):
GAAGAAGATAGCAAAGCTC
Found at i:13796125 original size:176 final size:175
Alignment explanation
Indices: 13795899--13796273 Score: 549
Period size: 176 Copynumber: 2.1 Consensus size: 175
13795889 CGACGAGAAG
* * * *
13795899 CAAATTGAAGACATAGCAGATCTGACTTTTAGATGTTTTCACATCAAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATTTGACTTTTAGATGTTCTCACACCAAAGCAGATCCAAGATAACA
* * *
13795964 GATCTGGCATCTCCATTT-TGACGGAGAGCAG-GTACATAGCAGGTCTAACCTTCAGAT-GTTTA
66 GATCTGGCATCTCCATTTCT-ACGGAGAGCAGAG-ACATAGCAGATCTAACATTCAGATAATTT-
* *
13796026 TACTGAAGCAGATCAAAAATGATTTGGGCATTCTTGTGTTTACAAGGAA
128 TACTGAAGCAGATCAAAAATGATTT-GGCATCCTTGTGTTCACAAGGAA
*
13796075 CAAATCGAAGACATAGCAGATTTGACTTTTGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATTTGACTTTTAGATGTTCTCACACCAAAGCAGATCCAAGATAACA
*
13796140 GATCTGGCATCTCTATTTCTACGGAGAGCAGAGACATAGCAGATCTAACATTCAGATAATTTTAC
66 GATCTGGCATCTCCATTTCTACGGAGAGCAGAGACATAGCAGATCTAACATTCAGATAATTTTAC
* * *
13796205 TGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAG
131 TGAAGCAGATCAAAAATGATTTGGCATCCTTGTGTTCACAAGGAA
* *
13796250 CAAATCGAAGACACAACAGATTTG
1 CAAATCGAAGACATAGCAGATTTG
13796274 GATTTCACGT
Statistics
Matches: 180, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
175 42 0.23
176 133 0.74
177 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (175 bp):
CAAATCGAAGACATAGCAGATTTGACTTTTAGATGTTCTCACACCAAAGCAGATCCAAGATAACA
GATCTGGCATCTCCATTTCTACGGAGAGCAGAGACATAGCAGATCTAACATTCAGATAATTTTAC
TGAAGCAGATCAAAAATGATTTGGCATCCTTGTGTTCACAAGGAA
Found at i:13798050 original size:44 final size:45
Alignment explanation
Indices: 13797984--13798069 Score: 104
Period size: 43 Copynumber: 1.9 Consensus size: 45
13797974 ATTTGTAACA
* ** *
13797984 TTATATATATAAATTTTATGTTATGTTATATATTTTTATTATATTT
1 TTATATATATAAATATTATGTTACATTAT-TATTATTATTATATTT
*
13798030 TTATATGTA-AAATATT-TGTTACATTATTATTATTATTATA
1 TTATATATATAAATATTATGTTACATTATTATTATTATTATA
13798070 CACATTTCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 12 0.34
44 9 0.26
45 6 0.17
46 8 0.23
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (45 bp):
TTATATATATAAATATTATGTTACATTATTATTATTATTATATTT
Found at i:13811986 original size:20 final size:19
Alignment explanation
Indices: 13811946--13811996 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
13811936 TAGTTTTGAA
* *
13811946 ATTTTTA-AAAAAATTATT
1 ATTTTTATAAAAAATAAAT
13811964 ATTTTTATAAAATAATAAAT
1 ATTTTTATAAAA-AATAAAT
13811984 ATTATTT-TAAAAA
1 ATT-TTTATAAAAA
13811997 TATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 7 0.25
19 5 0.18
20 13 0.46
21 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTTATAAAAAATAAAT
Found at i:13814952 original size:22 final size:22
Alignment explanation
Indices: 13814927--13814972 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
13814917 ATATTTTATT
13814927 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATATA
* *
13814949 TAAATATTAATATAAGAGTATA
1 TAAATATTAATATAAAAATATA
13814971 TA
1 TA
13814973 TTTCAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:13816911 original size:22 final size:20
Alignment explanation
Indices: 13816886--13816940 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
13816876 AGATATTTGT
13816886 AAATTTAATATATTATAATATA
1 AAATTTAATATA-TAT-ATATA
13816908 AAATCTTAAGTATATATATATA
1 AAAT-TTAA-TATATATATATA
*
13816930 TAATTATAATA
1 AAATT-TAATA
13816941 AAACAAGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 3 0.10
22 15 0.52
23 7 0.24
24 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AAATTTAATATATATATATA
Found at i:13816921 original size:24 final size:22
Alignment explanation
Indices: 13816886--13816932 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 22
13816876 AGATATTTGT
13816886 AAATTTAATATAT-TATAATATA
1 AAATTTAATATATATAT-ATATA
13816908 AAATCTTAAGTATATATATATATA
1 AAAT-TTAA-TATATATATATATA
13816932 A
1 A
13816933 TTATAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.18
23 4 0.18
24 11 0.50
25 3 0.14
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
AAATTTAATATATATATATATA
Found at i:13817016 original size:12 final size:13
Alignment explanation
Indices: 13816984--13817025 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
13816974 CAAATGAAAC
13816984 AAAAAGAAAGGAAG
1 AAAAAGAAA-GAAG
13816998 AAAAAGAAA-AAG
1 AAAAAGAAAGAAG
*
13817010 GAAAAGAAAGAAG
1 AAAAAGAAAGAAG
13817023 AAA
1 AAA
13817026 CGTAAGGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.44
13 5 0.20
14 9 0.36
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAAG
Found at i:13824351 original size:2 final size:2
Alignment explanation
Indices: 13824304--13824343 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13824294 AATTGAATTG
13824304 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13824344 GAATATATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13825811 original size:20 final size:19
Alignment explanation
Indices: 13825759--13825812 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
13825749 ATTGATTTAC
*
13825759 TTATTATT-TTATATTATT
1 TTATTATTATTAAATTATT
* *
13825777 TTTTTATTCAATAAATTATT
1 TTATTATT-ATTAAATTATT
13825797 TTGATTATTATTAAAT
1 TT-ATTATTATTAAAT
13825813 AAATTTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 7 0.25
20 16 0.57
21 5 0.18
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATTATTATTAAATTATT
Found at i:13826260 original size:28 final size:28
Alignment explanation
Indices: 13826206--13826260 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
13826196 CCTTAAATTT
* *
13826206 AAAATTTAATTAAATTATATTTTTAATA
1 AAAAATTAATTAAATTATATTTATAATA
13826234 AAAAATTAATTAAATCTATA-TTATAAT
1 AAAAATTAATTAAAT-TATATTTATAAT
13826261 TTAAGTGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAAATTAATTAAATTATATTTATAATA
Found at i:13826824 original size:15 final size:15
Alignment explanation
Indices: 13826804--13826837 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13826794 TCATTTGGGT
*
13826804 TTTTAATATATAATA
1 TTTTAATAAATAATA
*
13826819 TTTTAATAAATCATA
1 TTTTAATAAATAATA
13826834 TTTT
1 TTTT
13826838 GTAGGCAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTAATAAATAATA
Found at i:13832226 original size:29 final size:29
Alignment explanation
Indices: 13832184--13832240 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
13832174 ATCTACTAAA
13832184 AATGAACACAATTATTCATTACATATTAG
1 AATGAACACAATTATTCATTACATATTAG
13832213 AATGAACACAATTATTCATTACATATTA
1 AATGAACACAATTATTCATTACATATTA
13832241 CTAATCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (29 bp):
AATGAACACAATTATTCATTACATATTAG
Found at i:13832327 original size:31 final size:29
Alignment explanation
Indices: 13832291--13832369 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 29
13832281 ATCCCAAAAT
13832291 TATACATGAACTTTGATTCAATG-TGCAATT-
1 TATACATGAACTTTGATT---TGATGCAATTA
*
13832321 TAATACATGAACTTTAATTTGATGCAATTA
1 T-ATACATGAACTTTGATTTGATGCAATTA
13832351 TATACATGAAACTTTGATT
1 TATACATG-AACTTTGATT
13832370 GTGGTTCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 2 0.05
29 14 0.33
30 11 0.26
31 16 0.37
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (29 bp):
TATACATGAACTTTGATTTGATGCAATTA
Found at i:13832347 original size:29 final size:29
Alignment explanation
Indices: 13832291--13832402 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 29
13832281 ATCCCAAAAT
*
13832291 TATACATGAACTTTGATTCAATGTGCAATT-
1 TATACATGAACTTTAATT--ATGTGCAATTA
13832321 TAATACATGAACTTTAATT-TGATGCAATTA
1 T-ATACATGAACTTTAATTATG-TGCAATTA
* * *
13832351 TATACATGAAACTTTGATTGTGGTTCAAATATA
1 TATACATG-AACTTTAATTAT-GTGC-AAT-TA
*
13832384 TATATATGAAACTTTAATT
1 TATACATG-AACTTTAATT
13832403 TTGATTCAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
28 2 0.03
29 14 0.20
30 11 0.16
31 19 0.28
32 4 0.06
33 19 0.28
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.41
Consensus pattern (29 bp):
TATACATGAACTTTAATTATGTGCAATTA
Found at i:13832411 original size:33 final size:32
Alignment explanation
Indices: 13832323--13832411 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 32
13832313 GTGCAATTTA
*
13832323 ATACATG-AACTTTAA-TTTGATGC-AATTAT
1 ATACATGAAACTTTAATTTTGATTCAAATTAT
* * *
13832352 ATACATGAAACTTTGATTGTGGTTCAAATATAT
1 ATACATGAAACTTTAATTTTGATTCAAAT-TAT
*
13832385 ATATATGAAACTTTAATTTTGATTCAA
1 ATACATGAAACTTTAATTTTGATTCAA
13832412 TCATGCACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 7 0.15
30 7 0.15
31 5 0.10
32 3 0.06
33 26 0.54
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (32 bp):
ATACATGAAACTTTAATTTTGATTCAAATTAT
Found at i:13833178 original size:7 final size:7
Alignment explanation
Indices: 13833166--13833191 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13833156 ACTAGTGATT
13833166 TTCAATA
1 TTCAATA
13833173 TTCAATA
1 TTCAATA
13833180 TTCAATA
1 TTCAATA
13833187 TTCAA
1 TTCAA
13833192 GATAATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (7 bp):
TTCAATA
Found at i:13848149 original size:5 final size:5
Alignment explanation
Indices: 13848139--13848177 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
13848129 ACTTAGGATG
* *
13848139 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
13848178 GCTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:13848564 original size:24 final size:25
Alignment explanation
Indices: 13848517--13848564 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13848507 TTGGCCCTCT
* * *
13848517 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTCCCCGTTATATAGCTCTTG
13848542 CGAGCTCCCCGTTA-ATAGCTCTT
1 CGAGCTCCCCGTTATATAGCTCTT
13848565 CGAAGCATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.15, C:0.29, G:0.21, T:0.35
Consensus pattern (25 bp):
CGAGCTCCCCGTTATATAGCTCTTG
Found at i:13848790 original size:24 final size:25
Alignment explanation
Indices: 13848748--13848794 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
13848738 TGGCTATCTG
*
13848748 GAGCTTCCCGATTAATGGCTCTTCA
1 GAGCTACCCGATTAATGGCTCTTCA
*
13848773 GAGCTACCC-ATTATTGGCTCTT
1 GAGCTACCCGATTAATGGCTCTT
13848795 ATGATCTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (25 bp):
GAGCTACCCGATTAATGGCTCTTCA
Found at i:13850470 original size:74 final size:74
Alignment explanation
Indices: 13850385--13850532 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
13850375 TTTCTCTTCA
13850385 AAATAGACTCATTATGAATTCTAAAAATATAAATCATAACTCATAAATATTTTTTTACAATTTTA
1 AAATAGACTCATTATGAATTCTAAAAATATAAATCATAACTCATAAATATTTTTTTACAATTTTA
13850450 AATGATTTT
66 AATGATTTT
13850459 AAATAGACTCATTATGAATTCTAAAAATATAAATCATAACTCATAAATATTTTTTTACAATTTTA
1 AAATAGACTCATTATGAATTCTAAAAATATAAATCATAACTCATAAATATTTTTTTACAATTTTA
13850524 AATGATTTT
66 AATGATTTT
13850533 CTCAAATAAG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (74 bp):
AAATAGACTCATTATGAATTCTAAAAATATAAATCATAACTCATAAATATTTTTTTACAATTTTA
AATGATTTT
Found at i:13851335 original size:99 final size:96
Alignment explanation
Indices: 13851167--13851342 Score: 266
Period size: 99 Copynumber: 1.8 Consensus size: 96
13851157 TAATGTCGAT
*
13851167 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAAACATGG
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAAACATGG
13851232 TTTTACACTGACTATCGAAATCAAGGCTGAC
66 TTTTACACTGACTATCGAAATCAAGGCTGAC
* *
13851263 GCCATGTCCCAGAGATGGTCTTACACTAGCTC-TCACAT-ATCTGTGCCGATGCCATGTCCCAAA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATCA--AGT--CGATGCCATGTCCCAAA
13851326 CATGGTTTTACACTGAC
61 CATGGTTTTACACTGAC
13851343 ACATCTTGTA
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
95 3 0.04
96 33 0.46
97 2 0.03
99 34 0.47
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAAACATGG
TTTTACACTGACTATCGAAATCAAGGCTGAC
Found at i:13851393 original size:46 final size:49
Alignment explanation
Indices: 13851163--13851481 Score: 217
Period size: 46 Copynumber: 6.7 Consensus size: 49
13851153 GGTATAATGT
* * * *
13851163 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CATC-CAT-CAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTACATCTC-TGTAGGC
* * ** *
13851210 CGATGCCATGTCCCAAACATGGTTTTACACT-GACTATCGAAATC--AAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTA-C-ATCTCTGTAGGC
* * * *
13851259 TGACGCCATGTCCCAGAGATGGTCTTACACTAGCTCTCACATATCTGT--GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG--CT-ACATCTCTGTAGGC
* *
13851309 CGATGCCATGTCCCAAACATGGTTTTACACT-GAC-ACATCT-TGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTACATCTCTGTAGGC
13851355 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACATCTC-G-AGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC-TACATCTCTGTAGGC
* * * * ** *
13851401 CGATG-CATGTCTCAAACAT-GTCTTACACTAGC-ACTTGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTACATCTCTGTAGGC
*
13851447 CGATGCCATGTCCCAGACATGGTCTTACAGTAGCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCT
13851482 CACAATAACC
Statistics
Matches: 218, Mismatches: 33, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
44 15 0.07
45 18 0.08
46 60 0.28
47 43 0.20
48 13 0.06
49 30 0.14
50 34 0.16
51 4 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTACATCTCTGTAGGC
Found at i:13859835 original size:5 final size:5
Alignment explanation
Indices: 13859825--13859863 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
13859815 TCCTAGGATG
* *
13859825 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
13859864 GCTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:13870226 original size:71 final size:71
Alignment explanation
Indices: 13870110--13870254 Score: 290
Period size: 71 Copynumber: 2.0 Consensus size: 71
13870100 TTTATGATAA
13870110 CAAAAGTGAAATTTCACCATTGTAATAGCCTATATCTTTATAATTTTTAAAAAATTAAAATATTT
1 CAAAAGTGAAATTTCACCATTGTAATAGCCTATATCTTTATAATTTTTAAAAAATTAAAATATTT
13870175 TTTTCT
66 TTTTCT
13870181 CAAAAGTGAAATTTCACCATTGTAATAGCCTATATCTTTATAATTTTTAAAAAATTAAAATATTT
1 CAAAAGTGAAATTTCACCATTGTAATAGCCTATATCTTTATAATTTTTAAAAAATTAAAATATTT
13870246 TTTTCT
66 TTTTCT
13870252 CAA
1 CAA
13870255 TGGGCAAAGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.43
Consensus pattern (71 bp):
CAAAAGTGAAATTTCACCATTGTAATAGCCTATATCTTTATAATTTTTAAAAAATTAAAATATTT
TTTTCT
Found at i:13873102 original size:7 final size:7
Alignment explanation
Indices: 13873092--13873144 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
13873082 AATTAAGTTT
13873092 AATTAAA
1 AATTAAA
13873099 AATTAAA
1 AATTAAA
13873106 AATT--A
1 AATTAAA
*
13873111 AATTAAC
1 AATTAAA
13873118 AA--AAA
1 AATTAAA
13873123 AATATAAA
1 AAT-TAAA
*
13873131 CATTAAA
1 AATTAAA
13873138 AATTAAA
1 AATTAAA
13873145 TTTATCCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
5 9 0.24
7 23 0.62
8 5 0.14
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (7 bp):
AATTAAA
Found at i:13873111 original size:14 final size:14
Alignment explanation
Indices: 13873092--13873144 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 14
13873082 AATTAAGTTT
13873092 AATTAAAAATTAAA
1 AATTAAAAATTAAA
*
13873106 AATT--AAATTAAC
1 AATTAAAAATTAAA
13873118 AA--AAAAATATAAA
1 AATTAAAAAT-TAAA
*
13873131 CATTAAAAATTAAA
1 AATTAAAAATTAAA
13873145 TTTATCCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
12 13 0.42
13 4 0.13
14 8 0.26
15 6 0.19
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (14 bp):
AATTAAAAATTAAA
Found at i:13873251 original size:39 final size:39
Alignment explanation
Indices: 13873208--13873283 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
13873198 TAATACTACT
13873208 ATCTATTAACTCTTATAAAAAGAATCCCTAAGAATTAAA
1 ATCTATTAACTCTTATAAAAAGAATCCCTAAGAATTAAA
13873247 ATCTATTAACTCTTATAAAAAGAATCCCTAAGAATTA
1 ATCTATTAACTCTTATAAAAAGAATCCCTAAGAATTA
13873284 TAAAGGTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (39 bp):
ATCTATTAACTCTTATAAAAAGAATCCCTAAGAATTAAA
Found at i:13877174 original size:17 final size:17
Alignment explanation
Indices: 13877143--13877217 Score: 68
Period size: 17 Copynumber: 4.5 Consensus size: 17
13877133 TTTTTACAAA
*
13877143 TAAAAATAGATTAAATTT
1 TAAAAATA-AATAAATTT
13877161 TAAAAA-AATATAAA---
1 TAAAAATAA-ATAAATTT
* *
13877175 TAAAAATCAATAAATAT
1 TAAAAATAAATAAATTT
13877192 TAAAAATAAATAAATTTT
1 TAAAAATAAATAAA-TTT
13877210 TAAAAATA
1 TAAAAATA
13877218 TAAACTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
14 11 0.23
15 1 0.02
16 1 0.02
17 18 0.38
18 16 0.34
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (17 bp):
TAAAAATAAATAAATTT
Found at i:13877195 original size:31 final size:32
Alignment explanation
Indices: 13877140--13877206 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 32
13877130 ATATTTTTAC
*
13877140 AAATAAAAATAGATTAAATTTTAAAAA-AATAT
1 AAATAAAAATAGATTAAATATTAAAAATAA-AT
13877172 AAATAAAAATCA-A-TAAATATTAAAAATAAAT
1 AAATAAAAAT-AGATTAAATATTAAAAATAAAT
13877203 AAAT
1 AAAT
13877207 TTTTAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 18 0.56
32 13 0.41
33 1 0.03
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (32 bp):
AAATAAAAATAGATTAAATATTAAAAATAAAT
Found at i:13880271 original size:15 final size:15
Alignment explanation
Indices: 13880247--13880292 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
13880237 ATATAAATAG
*
13880247 AAATAAAAATATAAT
1 AAATAGAAATATAAT
13880262 AAATAGAAATATAAT
1 AAATAGAAATATAAT
13880277 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
13880293 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:13880280 original size:23 final size:23
Alignment explanation
Indices: 13880214--13880280 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
13880204 TATAAGAAAA
*
13880214 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
13880234 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
13880257 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
13880280 A
1 A
13880281 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:13880295 original size:44 final size:44
Alignment explanation
Indices: 13880241--13880327 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
13880231 ATTAGTATAT
13880241 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
13880285 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
13880328 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:13880312 original size:15 final size:14
Alignment explanation
Indices: 13880239--13880355 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
13880229 ATATTAGTAT
*
13880239 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
13880252 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
13880268 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
13880282 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
13880297 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
13880312 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
13880326 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
13880341 ATAAATACAAATAG
1 ATAAATAAAAATAG
13880355 A
1 A
13880356 AACATAATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 22 0.27
15 35 0.43
16 6 0.07
17 7 0.09
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:13881381 original size:44 final size:45
Alignment explanation
Indices: 13881312--13881410 Score: 148
Period size: 44 Copynumber: 2.2 Consensus size: 45
13881302 TGAAACTTAA
* * *
13881312 AGGG-GATAAAATCTGGTAATCTTCAGTCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGGTAATCTTCAGCCTGCTCCACTACTACTT
*
13881356 AGGGAGATAAGATCT-GTAATTTTCAGCCTGCTCCACTACTACTT
1 AGGGAGATAAGATCTGGTAATCTTCAGCCTGCTCCACTACTACTT
13881400 AGGGAGATAAG
1 AGGGAGATAAG
13881411 GCTTGTAACA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 41 0.82
45 9 0.18
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (45 bp):
AGGGAGATAAGATCTGGTAATCTTCAGCCTGCTCCACTACTACTT
Found at i:13883038 original size:88 final size:88
Alignment explanation
Indices: 13882878--13883414 Score: 744
Period size: 88 Copynumber: 6.1 Consensus size: 88
13882868 GTTTCCCTAT
* * * *
13882878 TGCTTAGGGAGATAAGATTTGTAATTTT-AGCCTGTTTCCCCACTGCTTAGGGGGATAAGGCTCA
1 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
*
13882942 CCGGCTTCGATCTGCTCCACTAC
66 CCGTCTTCGATCTGCTCCACTAC
*
13882965 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
1 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
* *
13883030 CTGTCTTCGATCTGCTCCACTTC
66 CCGTCTTCGATCTGCTCCACTAC
* * *
13883053 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTACCCTACTGCCTAGGGAGTTAAGGCTCA
1 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
*
13883118 CCATCTTCGATCTGCTCCACTAC
66 CCGTCTTCGATCTGCTCCACTAC
*
13883141 TGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
1 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
*
13883206 CCATCTTCGATCTGCTCCACTAC
66 CCGTCTTCGATCTGCTCCACTAC
* * *
13883229 TACTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCG
1 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
* * *
13883294 CTGTCTTCGATCTGTTCCATTAC
66 CCGTCTTCGATCTGCTCCACTAC
* * * * *
13883317 TGTTTAGGG-G---AGATCT-TTATTTTCCAGCCTATTACCCTACTGCTTAAGGGGTTAAGGCTT
1 TGCTTAGGGAGATAAGATCTGTAATTTT-CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTC
*** *
13883377 GTTGTCTTCGATCTGCTCCACTAT
65 ACCGTCTTCGATCTGCTCCACTAC
*
13883401 TGTTTAGGGGAGAT
1 TGCTTA-GGGAGAT
13883415 CTGTATTTTT
Statistics
Matches: 406, Mismatches: 38, Indels: 11
0.89 0.08 0.02
Matches are distributed among these distances:
83 6 0.01
84 64 0.16
85 3 0.01
86 1 0.00
87 28 0.07
88 304 0.75
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (88 bp):
TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
CCGTCTTCGATCTGCTCCACTAC
Found at i:13883273 original size:44 final size:42
Alignment explanation
Indices: 13882830--13883281 Score: 229
Period size: 44 Copynumber: 10.3 Consensus size: 42
13882820 ATTTGCTCTG
* * *
13882830 CTACTACTTAGGAAGATAAGATCTATAATTTTCAGCTTGTTTCC
1 CTACTGCTTAGGGAGATAAGATCT-TAATTTTCAGCCTG-TTCC
* *
13882874 CTATTGCTTAGGGAGATAAGATTTGTAATTTT-AGCCTGTTTCC
1 CTACTGCTTAGGGAGATAAGATCT-TAATTTTCAGCCTG-TTCC
* * * * *** * *
13882917 CCACTGCTTAGGGGGATAAG-GCTCACCGGCTTC-GATCTGCTCC
1 CTACTGCTTAGGGAGATAAGATCTTA--ATTTTCAG-CCTGTTCC
*
13882960 ACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCT-TAATTTTCAGCCTGTT-CC
* * * * * * *
13883005 CTACTGCTTAGGGGGTTAAG-GCTCACTGTCTTC-GATCTGCTCC
1 CTACTGCTTAGGGAGATAAGATCTTAAT-T-TTCAG-CCTGTTCC
* *
13883048 ACTTCTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTACC
1 -CTACTGCTTAGGGAGATAAGATCT-TAATTTTCAGCCTGTT-CC
* * * * * * *
13883093 CTACTGCCTAGGGAGTTAAG-GCTCACCATCTTC-GATCTGCTCC
1 CTACTGCTTAGGGAGATAAGATCTTA--ATTTTCAG-CCTGTTCC
13883136 ACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCT-TAATTTTCAGCCTGTT-CC
* * * * * * *
13883181 CTACTGCTTAGGGGGTTAAG-GCTCACCATCTTC-GATCTGCTCC
1 CTACTGCTTAGGGAGATAAGATCTTA--ATTTTCAG-CCTGTTCC
*
13883224 ACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCT-TAATTTTCAGCCTGTT-CC
*
13883269 CTACTACTTAGGG
1 CTACTGCTTAGGG
13883282 GGTTAAGGCT
Statistics
Matches: 300, Mismatches: 75, Indels: 66
0.68 0.17 0.15
Matches are distributed among these distances:
41 1 0.00
42 5 0.02
43 49 0.16
44 219 0.73
45 21 0.07
46 5 0.02
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (42 bp):
CTACTGCTTAGGGAGATAAGATCTTAATTTTCAGCCTGTTCC
Found at i:13883710 original size:179 final size:178
Alignment explanation
Indices: 13883411--13883779 Score: 594
Period size: 179 Copynumber: 2.1 Consensus size: 178
13883401 TGTTTAGGGG
* * * *
13883411 AGATCTGTATTTTTCAGTCTGCTCCATAACTGATACATGGAGATAAGACTGCAATTTTCAACCTG
1 AGATCTGTAATTCTCAGTCTGCTCCATAACCGATACATGGAGATAAGACTGCAATTTTCAACATG
* * *
13883476 CTCTCTTGCTACCTTAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCTGATACATGGAG
66 CTATCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCTGATACATGGAG
** *
13883541 ATATGACTCGCCATTTTCGATCTGCTCTATAGCCGATACATGGAGATA
131 ATAAAACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATA
* * *
13883589 AGATCTGTAATTCTCAGTCTGCTCCATAGCCGATACATGGAGATAATACCTGTAATTTTCAACAT
1 AGATCTGTAATTCTCAGTCTGCTCCATAACCGATACATGGAGATAAGA-CTGCAATTTTCAACAT
13883654 GCTATCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCTGATACATGGA
65 GCTATCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCTGATACATGGA
* *
13883719 GATAAAACTCTCCATTTTCGATTTGCTCCATAGCCGATACATGGAGATA
130 GATAAAACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATA
13883768 AGATCTGTAATT
1 AGATCTGTAATT
13883780 TTTAGTCTAC
Statistics
Matches: 175, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
178 43 0.25
179 132 0.75
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (178 bp):
AGATCTGTAATTCTCAGTCTGCTCCATAACCGATACATGGAGATAAGACTGCAATTTTCAACATG
CTATCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCTGATACATGGAG
ATAAAACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATA
Found at i:13883736 original size:89 final size:88
Alignment explanation
Indices: 13883428--13883737 Score: 292
Period size: 89 Copynumber: 3.5 Consensus size: 88
13883418 TATTTTTCAG
* *
13883428 TCTGCTCCATAACTGATACATGGAGATAAGACT-GCAATTTTCAACCTGCTCTCTTGCTACCTTA
1 TCTGCTCCATAGCTGATACATGGAGATAAGACTCGCAATTTTCAA-CTGCTCTCTTGCTACCTCA
*
13883492 GAGAGATAAGGTTGGTGGCTAAAA
65 GAGAGATAAGGCTGGTGGCTAAAA
* * * * * *
13883516 TCTGCTCCATAGCTGATACATGGAGATATGACTCGCCATTTTCGATCTGCTCTATAGC--CGATA
1 TCTGCTCCATAGCTGATACATGGAGATAAGACTCGCAATTTTC-AACTGCTCTCTTGCTAC-CT-
* ** * *
13883579 CATG-GAGATAAGATCT-GTAATTCT-CAG
63 CA-GAGAGATAAG-GCTGGT--GGCTAAAA
* * * *
13883606 TCTGCTCCATAGCCGATACATGGAGATAATAC-CTGTAATTTTCAACATGCTATCTTGCTACCTC
1 TCTGCTCCATAGCTGATACATGGAGATAAGACTC-GCAATTTTCAAC-TGCTCTCTTGCTACCTC
13883670 AGAGAGATAAGGCTGGTGGCTAAAA
64 AGAGAGATAAGGCTGGTGGCTAAAA
* * *
13883695 TCTGCTCCATAGCTGATACATGGAGATAAAACTCTCCATTTTC
1 TCTGCTCCATAGCTGATACATGGAGATAAGACTCGCAATTTTC
13883738 GATTTGCTCC
Statistics
Matches: 172, Mismatches: 34, Indels: 31
0.73 0.14 0.13
Matches are distributed among these distances:
87 1 0.01
88 34 0.20
89 72 0.42
90 61 0.35
91 3 0.02
92 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (88 bp):
TCTGCTCCATAGCTGATACATGGAGATAAGACTCGCAATTTTCAACTGCTCTCTTGCTACCTCAG
AGAGATAAGGCTGGTGGCTAAAA
Found at i:13883781 original size:45 final size:45
Alignment explanation
Indices: 13883514--13883781 Score: 176
Period size: 45 Copynumber: 6.0 Consensus size: 45
13883504 TGGTGGCTAA
* * **
13883514 AATCTGCTCCATAGCTGATACATGGAGATATGA-CTCGCCATTTTC
1 AATCTGCTCCATAGCCGATACATGGAGATAAGATCT-GTAATTTTC
* * *
13883559 GATCTGCTCTATAGCCGATACATGGAGATAAGATCTGTAATTCTC
1 AATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTC
* * *
13883604 AGTCTGCTCCATAGCCGATACATGGAGATAATACCTGTAATTTTC
1 AATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTC
* * * * *** **
13883649 AA-CATGCT--AT--CTTGCTACCTCAGAGAGATAAG-GCTGGT-GGCTAA
1 AATC-TGCTCCATAGC-CGATACAT--G-GAGATAAGATCT-GTAATTTTC
* * **
13883693 AATCTGCTCCATAGCTGATACATGGAGATAAAACTCT-CCATTTTC
1 AATCTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTAATTTTC
* *
13883738 GATTTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTT
1 AATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTT
13883782 TAGTCTACTT
Statistics
Matches: 167, Mismatches: 40, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
41 1 0.01
42 5 0.03
43 2 0.01
44 21 0.13
45 125 0.75
46 6 0.04
47 6 0.04
48 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (45 bp):
AATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTC
Found at i:13883800 original size:134 final size:134
Alignment explanation
Indices: 13883560--13883813 Score: 320
Period size: 134 Copynumber: 1.9 Consensus size: 134
13883550 GCCATTTTCG
* * *
13883560 ATCTGCTCTATAGCCGATACATGGAGATAAGATCTGTAATTCTCAGTCTGCTCCATAGCCGATAC
1 ATCTGCTCCATAGCCGATACATGGAGATAAAATCTGCAATTCTCAGTCTGCTCCATAGCCGATAC
* *
13883625 ATGGAGATAATACCTGTAATTTTCAACATGCTATCTTGCTACCTCA-GAGAGATAAGGCTGGTGG
66 ATGGAGATAAGACCTGTAATTTTCAACATACTATCTTGCTACCTCAGGA-AGATAAGGCTGGTGG
13883689 CTAAA
130 CTAAA
* * * *
13883694 ATCTGCTCCATAGCTGATACATGGAGATAAAACTCT-CCATTTTC-GATTTGCTCCATAGCCGAT
1 ATCTGCTCCATAGCCGATACATGGAGATAAAA-TCTGCAATTCTCAG-TCTGCTCCATAGCCGAT
* * *
13883757 ACATGGAGATAAGATCTGTAATTTTTAGTC-TACT-TCCTTGCTACCTCAGGAAGATAA
64 ACATGGAGATAAGACCTGTAATTTTCA-ACATACTAT-CTTGCTACCTCAGGAAGATAA
13883814 AACCTGTAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
133 2 0.02
134 95 0.92
135 6 0.06
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (134 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAAATCTGCAATTCTCAGTCTGCTCCATAGCCGATAC
ATGGAGATAAGACCTGTAATTTTCAACATACTATCTTGCTACCTCAGGAAGATAAGGCTGGTGGC
TAAA
Found at i:13889829 original size:21 final size:23
Alignment explanation
Indices: 13889782--13889835 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
13889772 TATTAAAGAT
**
13889782 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
13889805 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
13889826 AAAAT-ATATA
1 AAAATAATATA
13889836 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:13889960 original size:4 final size:4
Alignment explanation
Indices: 13889951--13889979 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
13889941 AAAAAATGTA
13889951 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
13889980 GAATGTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:13890076 original size:15 final size:17
Alignment explanation
Indices: 13890058--13890097 Score: 66
Period size: 15 Copynumber: 2.5 Consensus size: 17
13890048 ATAGAAATGA
13890058 AAATATAATAA-A-TAG
1 AAATATAATAATAGTAG
13890073 AAATATAATAATAGTAG
1 AAATATAATAATAGTAG
13890090 AAATATAA
1 AAATATAA
13890098 ATAGATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 11 0.48
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (17 bp):
AAATATAATAATAGTAG
Found at i:13890117 original size:15 final size:14
Alignment explanation
Indices: 13890044--13890130 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
13890034 ATATTAGTAT
*
13890044 ATAAATAGAAAT-G
1 ATAAATAAAAATAG
*
13890057 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
13890073 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
13890087 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
13890102 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
13890117 ATAAATAATAATAG
1 ATAAATAAAAATAG
13890131 TATTAGAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 20 0.33
15 33 0.55
16 4 0.07
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:13890587 original size:35 final size:31
Alignment explanation
Indices: 13890526--13890591 Score: 87
Period size: 35 Copynumber: 2.0 Consensus size: 31
13890516 CTCAAGTAAT
*
13890526 TGAAAAAGAAAAGAAAATAATTCAATTCCAA
1 TGAAAAAGAAAAGAAAATAATCCAATTCCAA
13890557 TGAAAATAGGAAAAGAGAGAATAATCCAATTCCAA
1 TGAAAA-A-GAAAAGA-A-AATAATCCAATTCCAA
13890592 ATTGAAGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 6 0.20
32 1 0.03
33 7 0.23
34 1 0.03
35 15 0.50
ACGTcount: A:0.58, C:0.11, G:0.14, T:0.18
Consensus pattern (31 bp):
TGAAAAAGAAAAGAAAATAATCCAATTCCAA
Found at i:13895166 original size:49 final size:49
Alignment explanation
Indices: 13895107--13895235 Score: 170
Period size: 49 Copynumber: 2.6 Consensus size: 49
13895097 ATCAAAGTCA
* *
13895107 ATGCCATGTCCCAAACAGGTCTTACATTGACTTTCATATATCAAG-GCCG
1 ATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATC-AGTGCCG
** * * * *
13895156 ATGCTGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCG
1 ATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCAGTGCCG
13895205 ATGCCATGTCCCAAACAGGTCTTACACTGAC
1 ATGCCATGTCCCAAACAGGTCTTACACTGAC
13895236 ACACAACAAG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 2 0.03
49 65 0.97
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCAGTGCCG
Found at i:13900371 original size:20 final size:20
Alignment explanation
Indices: 13900346--13900390 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
13900336 GAATTTTCAA
13900346 TATTTTTATTTTTATAAAAT
1 TATTTTTATTTTTATAAAAT
13900366 TATTTTTATTTTTATAAAAT
1 TATTTTTATTTTTATAAAAT
13900386 TATTT
1 TATTT
13900391 AGGTAGTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTTTATTTTTATAAAAT
Found at i:13901362 original size:45 final size:45
Alignment explanation
Indices: 13901289--13901398 Score: 175
Period size: 45 Copynumber: 2.4 Consensus size: 45
13901279 TCCCCTTAAG
13901289 TATTGGTAGAAGTCTGATAATTGGCTTGGAATTCTCTCTAACTTACTTC
1 TATTGGTAGAA--CT-A-AATTGGCTTGGAATTCTCTCTAACTTACTTC
*
13901338 TATTGGTAGAACTAAATTGGCTTGGAATTCTCTCTGACTTACTTC
1 TATTGGTAGAACTAAATTGGCTTGGAATTCTCTCTAACTTACTTC
13901383 TATTGGTAGAACTAAA
1 TATTGGTAGAACTAAA
13901399 CCCAAGTATC
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
45 46 0.77
46 1 0.02
47 2 0.03
49 11 0.18
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (45 bp):
TATTGGTAGAACTAAATTGGCTTGGAATTCTCTCTAACTTACTTC
Found at i:13910376 original size:13 final size:13
Alignment explanation
Indices: 13910354--13910410 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
13910344 TGAATGAATG
13910354 GAAATGATTATAT
1 GAAATGATTATAT
* * *
13910367 GTATTGATTATAC
1 GAAATGATTATAT
13910380 GAAATGATTATAT
1 GAAATGATTATAT
13910393 GGAAATAGA-TATAT
1 -GAAAT-GATTATAT
13910407 GAAA
1 GAAA
13910411 GGGAAATTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
13 24 0.67
14 10 0.28
15 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.18, T:0.35
Consensus pattern (13 bp):
GAAATGATTATAT
Found at i:13916289 original size:34 final size:34
Alignment explanation
Indices: 13916246--13916313 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
13916236 GGTAAGATTA
13916246 ATTAGACTTGTTAGGTCTTTTGCTTCTATTTTAT
1 ATTAGACTTGTTAGGTCTTTTGCTTCTATTTTAT
*
13916280 ATTAGACTTGTTGGGTCTTTTGCTTCTATTTTAT
1 ATTAGACTTGTTAGGTCTTTTGCTTCTATTTTAT
13916314 GTAATGAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (34 bp):
ATTAGACTTGTTAGGTCTTTTGCTTCTATTTTAT
Found at i:13917516 original size:22 final size:22
Alignment explanation
Indices: 13917491--13917535 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13917481 GGACTTAATT
**
13917491 GATATAATTTTAATAATTTAAA
1 GATATAATTAGAATAATTTAAA
*
13917513 GATATAATTAGAATGATTTAAA
1 GATATAATTAGAATAATTTAAA
13917535 G
1 G
13917536 TTTAAGGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (22 bp):
GATATAATTAGAATAATTTAAA
Found at i:13923559 original size:29 final size:28
Alignment explanation
Indices: 13923523--13923627 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 28
13923513 AATAATCGAT
*
13923523 CTCGCACACTTAGTGCCATGTGATTTAAG
1 CTCGCACACTTAGTGCCAT-TAATTTAAG
*
13923552 CTCGCACACATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCAT-TAATTTAAG
* *
13923581 TTCGCACACTTAGTGCCA-TACCTTTCAAG
1 CTCGCACACTTAGTGCCATTA-ATTT-AAG
*
13923610 CCCGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
13923628 ATCTTGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 2 0.03
28 3 0.05
29 61 0.92
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (28 bp):
CTCGCACACTTAGTGCCATTAATTTAAG
Found at i:13930203 original size:2 final size:2
Alignment explanation
Indices: 13930196--13930226 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13930186 TTTCCCCCTT
13930196 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13930227 TTTTTTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13931670 original size:29 final size:29
Alignment explanation
Indices: 13931636--13931737 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
13931626 AATCGATCTT
* * *
13931636 GCACACTTAGTGCGATGTGATTTAAGCTC
1 GCACACTTAGTGCCATATAATTTAAGCTC
* * *
13931665 GCACACATAGTGCCATATAATTTAAGTTT
1 GCACACTTAGTGCCATATAATTTAAGCTC
** *
13931694 GCACACTTAGTGCCATA-CCTTTCAAGCCC
1 GCACACTTAGTGCCATATAATTT-AAGCTC
13931723 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
13931738 ATCTTGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 57 0.95
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATATAATTTAAGCTC
Found at i:13938788 original size:10 final size:10
Alignment explanation
Indices: 13938773--13938932 Score: 51
Period size: 10 Copynumber: 15.4 Consensus size: 10
13938763 ACACATGACA
13938773 AAAAAATTAT
1 AAAAAATTAT
13938783 AAAAAATAAATAT
1 AAAAAAT---TAT
13938796 CAATAAAAGTTAT
1 -AA-AAAA-TTAT
13938809 AAAAAATTAT
1 AAAAAATTAT
* *
13938819 TAAAATTTAAT
1 AAAAAATT-AT
13938830 AAAAAA-TAT
1 AAAAAATTAT
**
13938839 TTAAAATT-T
1 AAAAAATTAT
* *
13938848 ACTAAACATTAG
1 A--AAAAATTAT
* *
13938860 AATAAATACAT
1 AAAAAAT-TAT
* *
13938871 AAAAACAGTAG
1 AAAAA-ATTAT
*
13938882 AAAATA-TA-
1 AAAAAATTAT
13938890 AAAAAATTAT
1 AAAAAATTAT
**
13938900 AAAATTTTAT
1 AAAAAATTAT
* *
13938910 -AAATATCAT
1 AAAAAATTAT
13938919 AAAAAATTAT
1 AAAAAATTAT
13938929 AAAA
1 AAAA
13938933 TGCATAAAAA
Statistics
Matches: 108, Mismatches: 26, Indels: 32
0.65 0.16 0.19
Matches are distributed among these distances:
8 5 0.05
9 18 0.17
10 43 0.40
11 25 0.23
12 4 0.04
13 6 0.06
14 2 0.02
15 4 0.04
16 1 0.01
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:13938832 original size:21 final size:21
Alignment explanation
Indices: 13938799--13938853 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
13938789 TAAATATCAA
*
13938799 TAAAAGTT-ATAAAAAAT-TAT
1 TAAAATTTAATAAAAAATAT-T
13938819 TAAAATTTAATAAAAAATATT
1 TAAAATTTAATAAAAAATATT
*
13938840 TAAAATTTACTAAA
1 TAAAATTTAATAAA
13938854 CATTAGAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 7 0.23
21 23 0.74
22 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAATTTAATAAAAAATATT
Found at i:13938833 original size:20 final size:21
Alignment explanation
Indices: 13938810--13938858 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
13938800 AAAAGTTATA
13938810 AAAAATTA-TTAAAATTTAAT
1 AAAAATTATTTAAAATTTAAT
* *
13938830 AAAAAATATTTAAAATTTACT
1 AAAAATTATTTAAAATTTAAT
*
13938851 AAACATTA
1 AAAAATTA
13938859 GAATAAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATTATTTAAAATTTAAT
Found at i:13938922 original size:19 final size:19
Alignment explanation
Indices: 13938906--13938942 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13938896 TTATAAAATT
13938906 TTATAAATAT-CATAAAAAA
1 TTATAAA-ATGCATAAAAAA
13938925 TTATAAAATGCATAAAAA
1 TTATAAAATGCATAAAAA
13938943 TACCCATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
TTATAAAATGCATAAAAAA
Found at i:13939181 original size:10 final size:10
Alignment explanation
Indices: 13939168--13939240 Score: 55
Period size: 10 Copynumber: 7.5 Consensus size: 10
13939158 CTTTATAAAA
13939168 TTTTATATAT
1 TTTTATATAT
*
13939178 TTTTCTATAT
1 TTTTATATAT
*
13939188 TTCTATATA-
1 TTTTATATAT
13939197 TTTTATA-AT
1 TTTTATATAT
**
13939206 GTTTTA-CGAT
1 -TTTTATATAT
13939216 TTTTATAATAT
1 TTTTAT-ATAT
*
13939227 TTTTCTA-AT
1 TTTTATATAT
13939236 TTTTA
1 TTTTA
13939241 ATAAAAACAA
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
8 1 0.02
9 17 0.35
10 24 0.49
11 7 0.14
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTATATAT
Found at i:13939238 original size:19 final size:19
Alignment explanation
Indices: 13939196--13939243 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
13939186 ATTTCTATAT
*
13939196 ATTTTATAATGTTTTACGA
1 ATTTTATAATATTTTACGA
* * *
13939215 TTTTTATAATATTTTTCTA
1 ATTTTATAATATTTTACGA
13939234 ATTTT-TAATA
1 ATTTTATAATA
13939244 AAAACAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTTATAATATTTTACGA
Done.