Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 61 of 316
Found at i:17977035 original size:41 final size:39
Alignment explanation
Indices: 17976990--17977079 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
17976980 AAAAAATTAT
* *
17976990 TTATATTAAAAAATACTACCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAAT-CGA-AATAAATATAATAAATGTTTTA
* *
17977031 TTATATTAAAAAATGGAAATAAATATAGTAAATGTTTTA
1 TTATATTAAAAAATCGAAATAAATATAATAAATGTTTTA
*
17977070 TTGTATTAAA
1 TTATATTAAA
17977080 TATAATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 29 0.66
40 1 0.02
41 14 0.32
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (39 bp):
TTATATTAAAAAATCGAAATAAATATAATAAATGTTTTA
Found at i:17982347 original size:15 final size:16
Alignment explanation
Indices: 17982327--17982367 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
17982317 GATTTCAATG
*
17982327 ATTAAATGTTTAAAAA
1 ATTAAATGTTAAAAAA
*
17982343 A-TAAATATTAAAAAA
1 ATTAAATGTTAAAAAA
17982358 ATTAAATGTT
1 ATTAAATGTT
17982368 GAATTTAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (16 bp):
ATTAAATGTTAAAAAA
Found at i:17983214 original size:11 final size:11
Alignment explanation
Indices: 17983200--17983251 Score: 77
Period size: 11 Copynumber: 4.7 Consensus size: 11
17983190 TGTTTTCTCT
17983200 CTATTTTGCTA
1 CTATTTTGCTA
17983211 CTATTTTGCTA
1 CTATTTTGCTA
*
17983222 CTATTTTACTA
1 CTATTTTGCTA
* *
17983233 TTATGTTGCTA
1 CTATTTTGCTA
17983244 CTATTTTG
1 CTATTTTG
17983252 TTGTTATTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:17983498 original size:12 final size:12
Alignment explanation
Indices: 17983477--17983510 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17983467 TATATATTTT
*
17983477 AAAATTATATAA
1 AAAATAATATAA
17983489 AAAATAATATAA
1 AAAATAATATAA
*
17983501 AAATTAATAT
1 AAAATAATAT
17983511 GGGTTGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:17986237 original size:29 final size:28
Alignment explanation
Indices: 17986147--17986230 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
17986137 ATGACATGTG
**
17986147 ACAAAAAATGATAAAAA-A-TAAAAATTA
1 ACAAAAAAT-ATAAAAATATTAAATTTTA
* ** *
17986174 ATAAAAGTTATAAAAATATTATATTTTA
1 ACAAAAAATATAAAAATATTAAATTTTA
17986202 ACAAAAAATATAAAAATATTTAAATTTTA
1 ACAAAAAATATAAAAATA-TTAAATTTTA
17986231 TTTAAAATTA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 7 0.16
27 7 0.16
28 21 0.48
29 9 0.20
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
ACAAAAAATATAAAAATATTAAATTTTA
Found at i:17986276 original size:19 final size:19
Alignment explanation
Indices: 17986244--17986295 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
17986234 AAAATTAGAA
* *
17986244 AAAAAATTACAAAAATTGT
1 AAAAAATTATAAAAATCGT
**
17986263 AAAATTTTATAAAAATCGT
1 AAAAAATTATAAAAATCGT
17986282 AAAAAATTATAAAA
1 AAAAAATTATAAAA
17986296 TTTTATAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAAATTATAAAAATCGT
Found at i:17986276 original size:29 final size:29
Alignment explanation
Indices: 17986244--17986304 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
17986234 AAAATTAGAA
*
17986244 AAAAAAT-TACAAAAATTGTAAAATTTTAT
1 AAAAAATCTA-AAAAATTATAAAATTTTAT
17986273 -AAAAATCGTAAAAAATTATAAAATTTTAT
1 AAAAAATC-TAAAAAATTATAAAATTTTAT
17986302 AAA
1 AAA
17986305 TTCATAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 6 0.21
29 18 0.64
30 4 0.14
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAAAATCTAAAAAATTATAAAATTTTAT
Found at i:17986295 original size:9 final size:9
Alignment explanation
Indices: 17986245--17986367 Score: 58
Period size: 9 Copynumber: 13.0 Consensus size: 9
17986235 AAATTAGAAA
*
17986245 AAAAATTAC
1 AAAAATTAT
*
17986254 AAAAATTGT
1 AAAAATTAT
*
17986263 AAAATTTTAT
1 AAAA-ATTAT
17986273 AAAAATCGTA-
1 AAAAAT--TAT
17986283 AAAAATTAT
1 AAAAATTAT
*
17986292 -AAAATTTT
1 AAAAATTAT
*
17986300 ATAAATTCAT
1 AAAAATT-AT
*
17986310 AAGAAAATTAA
1 -A-AAAATTAT
17986321 AAAAATGTA-
1 AAAAAT-TAT
17986330 AAGAAA-TAT
1 AA-AAATTAT
17986339 -AAAATTCAT
1 AAAAATT-AT
17986348 AAAAAGTATAT
1 AAAAA-T-TAT
17986359 AAAAATTAT
1 AAAAATTAT
17986368 TGTACTAAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 32
0.68 0.08 0.25
Matches are distributed among these distances:
7 3 0.03
8 13 0.15
9 29 0.33
10 25 0.28
11 12 0.14
12 6 0.07
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:17986316 original size:29 final size:29
Alignment explanation
Indices: 17986254--17986324 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
17986244 AAAAAATTAC
* *
17986254 AAAAATTGTAAAATTTTATAAAAATCGTA
1 AAAAATTATAAAATTTTATAAAAATCATA
*
17986283 AAAAATTATAAAATTTTAT-AAATTCATA
1 AAAAATTATAAAATTTTATAAAAATCATA
*
17986311 AGAAAATTAAAAAA
1 A-AAAATTATAAAA
17986325 ATGTAAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 8 0.22
29 29 0.78
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAAATTATAAAATTTTATAAAAATCATA
Found at i:17986557 original size:10 final size:10
Alignment explanation
Indices: 17986544--17986660 Score: 77
Period size: 10 Copynumber: 12.3 Consensus size: 10
17986534 TTTTTATGCA
17986544 TTTTATAATT
1 TTTTATAATT
*
17986554 TTTTATGA-T
1 TTTTATAATT
**
17986563 TTTTATAAAA
1 TTTTATAATT
*
17986573 TTTTACAATT
1 TTTTATAATT
*
17986583 TTTTCTAATTT
1 TTTTATAA-TT
*
17986594 TTTTATATTT
1 TTTTATAATT
17986604 TTTTATAA--
1 TTTTATAATT
*
17986612 TTTAATAA-T
1 TTTTATAATT
* **
17986621 TGTTAT-AGC
1 TTTTATAATT
*
17986630 TTTTATTATT
1 TTTTATAATT
17986640 TTTTAT--TT
1 TTTTATAATT
17986648 TTTTATAATT
1 TTTTATAATT
17986658 TTT
1 TTT
17986661 CCCACATGTC
Statistics
Matches: 82, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
8 16 0.20
9 17 0.21
10 41 0.50
11 8 0.10
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:17986557 original size:19 final size:19
Alignment explanation
Indices: 17986533--17986570 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
17986523 TTAAATGACC
17986533 TTTTTTATGCA-TTTTATAA
1 TTTTTTATG-ATTTTTATAA
17986552 TTTTTTATGATTTTTATAA
1 TTTTTTATGATTTTTATAA
17986571 AATTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTTATGATTTTTATAA
Found at i:17986576 original size:19 final size:19
Alignment explanation
Indices: 17986535--17986577 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17986525 AAATGACCTT
**
17986535 TTTTATGCATTTTATAATT
1 TTTTATGCATTTTATAAAA
17986554 TTTTATG-ATTTTTATAAAA
1 TTTTATGCA-TTTTATAAAA
17986573 TTTTA
1 TTTTA
17986578 CAATTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTATGCATTTTATAAAA
Found at i:17986597 original size:21 final size:21
Alignment explanation
Indices: 17986544--17986614 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
17986534 TTTTTATGCA
**
17986544 TTTTATAA-TTTTTTATGA-T
1 TTTTATAATTTTTTTACAATT
**
17986563 TTTTATAA-AATTTTACAATT
1 TTTTATAATTTTTTTACAATT
* * *
17986583 TTTTCTAATTTTTTTATATTT
1 TTTTATAATTTTTTTACAATT
17986604 TTTTATAATTT
1 TTTTATAATTT
17986615 AATAATTGTT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 14 0.35
20 8 0.20
21 18 0.45
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (21 bp):
TTTTATAATTTTTTTACAATT
Found at i:18013031 original size:26 final size:26
Alignment explanation
Indices: 18013002--18013085 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
18012992 TGATACAAAT
18013002 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18013028 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18013054 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18013080 TGATAA
1 TGATAA
18013086 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:18014753 original size:27 final size:27
Alignment explanation
Indices: 18014712--18014833 Score: 181
Period size: 27 Copynumber: 4.5 Consensus size: 27
18014702 GAGGAAGCGT
*
18014712 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
18014739 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
18014766 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
18014793 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
*
18014821 TCTGGTGACTCTG
1 TCTGGTGGCTCTG
18014834 TCTTATTATC
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 74 0.86
28 12 0.14
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:18014797 original size:54 final size:55
Alignment explanation
Indices: 18014712--18014851 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
18014702 GAGGAAGCGT
* * *
18014712 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
18014766 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * **
18014821 TCTGGTGACTCTGTCTTAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
18014852 CAGCTATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 60 0.79
55 16 0.21
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:18014841 original size:27 final size:26
Alignment explanation
Indices: 18014710--18014851 Score: 158
Period size: 27 Copynumber: 5.3 Consensus size: 26
18014700 TGGAGGAAGC
* *
18014710 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
18014737 GATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
18014764 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
18014791 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* * **
18014818 GTATCTGGTGACTCTGTCTTATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
18014845 GTTCTGG
1 GTTCTGG
18014852 CAGCTATGCT
Statistics
Matches: 104, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 6 0.06
27 83 0.80
28 15 0.14
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:18015923 original size:46 final size:45
Alignment explanation
Indices: 18015870--18016042 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
18015860 TTGGGCATCT
* *
18015870 GAACTCGTTGAGTTGAGTTCGAGCTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*** * *
18015916 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
* * *
18015963 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
18016009 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18016043 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 63 0.61
47 32 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:18016022 original size:93 final size:93
Alignment explanation
Indices: 18015863--18016034 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
18015853 AGGATATTTG
* * * * *
18015863 GGCATCTGAACTCGTTGAGTTGAGTTCGAGCTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
18015928 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
18015956 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
18016021 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
18016035 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:18019693 original size:56 final size:54
Alignment explanation
Indices: 18019632--18019741 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 54
18019622 TTTTAGCTAC
*
18019632 TTAAATAAATAGTTAAGAATAAGTTAAGTGGTTGTCCCATAAATTTAATTAAATAA
1 TTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCATAAA--TAATTAAATAA
*
18019688 TTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCGTAAATAATTAAATAA
1 TTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCATAAATAATTAAATAA
18019742 ATTTAATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 11 0.21
56 41 0.79
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (54 bp):
TTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCATAAATAATTAAATAA
Found at i:18019765 original size:56 final size:54
Alignment explanation
Indices: 18019632--18019783 Score: 148
Period size: 56 Copynumber: 2.8 Consensus size: 54
18019622 TTTTAGCTAC
* *
18019632 TTAAATAAATAGTTAAGAATAAGTTAAGTGGTTGTCCCATAAATTTAATTAAATAA
1 TTAAATAAATAGCTAAAAATAAG-TAAGTGGTTGTCCCATAAA-TTAATTAAATAA
* * *
18019688 TTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCGTAAA-TAATTAAATAAA
1 TTAAATAAATAGCTAAAAATAAGT-AAGTGGTTGTCCCATAAATTAATTAAAT-AA
* ** *
18019743 TTTAAT-TTTAGCTAATTAAATAAAT-AGTGGTTGTCCCATAA
1 TTAAATAAATAGCTAA--AAATAAGTAAGTGGTTGTCCCATAA
18019784 GTCAAGTGGT
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
54 30 0.36
55 8 0.10
56 46 0.55
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (54 bp):
TTAAATAAATAGCTAAAAATAAGTAAGTGGTTGTCCCATAAATTAATTAAATAA
Found at i:18030599 original size:29 final size:31
Alignment explanation
Indices: 18030551--18030614 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
18030541 TTTATAGTTA
*
18030551 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
18030582 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
18030611 TTTA
1 TTTA
18030615 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:18030603 original size:8 final size:8
Alignment explanation
Indices: 18030592--18030616 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18030582 TTTAATAAGA
18030592 TATTTTAT
1 TATTTTAT
18030600 TATTTTAT
1 TATTTTAT
18030608 TATTTTAT
1 TATTTTAT
18030616 T
1 T
18030617 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:18031112 original size:99 final size:99
Alignment explanation
Indices: 18030941--18031138 Score: 387
Period size: 99 Copynumber: 2.0 Consensus size: 99
18030931 TATTAGTGAA
18030941 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
1 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
18031006 AATCAATATGTTGCACTAAAATAGTTTTGGACAG
66 AATCAATATGTTGCACTAAAATAGTTTTGGACAG
18031040 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
1 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
*
18031105 AATCAATATGTTGCACTAAAGTAGTTTTGGACAG
66 AATCAATATGTTGCACTAAAATAGTTTTGGACAG
18031139 CAGCAATAGG
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.41, C:0.05, G:0.28, T:0.26
Consensus pattern (99 bp):
GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
AATCAATATGTTGCACTAAAATAGTTTTGGACAG
Found at i:18039237 original size:46 final size:46
Alignment explanation
Indices: 18039184--18039353 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 46
18039174 GGCATCTGAA
18039184 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
1 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
* * **** * * *
18039230 CTCATTGAGTTAAGTCCAAGTTCGGGAGATGTAACTAG-GCAT-T-CGAA
1 CTCATTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCCGAG
* * * *
18039277 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAG
1 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
*
18039323 CTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCATTGAGTTGAGTCCGAGTTCACTTATGG
18039354 GCGGGTTATA
Statistics
Matches: 93, Mismatches: 24, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 55 0.59
47 26 0.28
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
Found at i:18045948 original size:33 final size:33
Alignment explanation
Indices: 18045911--18045976 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
18045901 ATTACATATC
18045911 ATTATATAAAATTATGAGTCCAAAACTTTACTA
1 ATTATATAAAATTATGAGTCCAAAACTTTACTA
18045944 ATTATATAAAATTATGAGTCCAAAACTTTACTA
1 ATTATATAAAATTATGAGTCCAAAACTTTACTA
18045977 TCTTATCCAA
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:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (33 bp):
ATTATATAAAATTATGAGTCCAAAACTTTACTA
Found at i:18050846 original size:6 final size:7
Alignment explanation
Indices: 18050831--18050856 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18050821 CGCTTTGAAA
18050831 TTTTATT
1 TTTTATT
18050838 TTTTATT
1 TTTTATT
18050845 TTTTATT
1 TTTTATT
18050852 TTTTA
1 TTTTA
18050857 AAAGGGAGTG
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:18051875 original size:19 final size:20
Alignment explanation
Indices: 18051842--18051881 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
18051832 ATATATGTAT
18051842 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
18051861 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
18051881 A
1 A
18051882 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:18052175 original size:13 final size:13
Alignment explanation
Indices: 18052143--18052168 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18052133 CTTTTTCTTC
18052143 ATTTTTTTATTTT
1 ATTTTTTTATTTT
18052156 ATTTTTTTATTTT
1 ATTTTTTTATTTT
18052169 TTATTTTGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:18055304 original size:24 final size:21
Alignment explanation
Indices: 18055257--18055308 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
18055247 TCACGGAGTT
18055257 GAAGAAGCTACTTGGAAACTA
1 GAAGAAGCTACTTGGAAACTA
* *
18055278 GAAGAAGCTACTTGGGAACTG
1 GAAGAAGCTACTTGGAAACTA
18055299 GAAGAAGCTA
1 GAAGAAGCTA
18055309 TAAAAGGGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.17
Consensus pattern (21 bp):
GAAGAAGCTACTTGGAAACTA
Found at i:18059071 original size:247 final size:247
Alignment explanation
Indices: 18058635--18059130 Score: 965
Period size: 247 Copynumber: 2.0 Consensus size: 247
18058625 TAACCAAGGT
18058635 TGGTGATCGTGGACTTCGGCGCGGTCTCGTAAACAAGTGTGTATTTCGCACAATTCTAGCTATAG
1 TGGTGATCGTGGACTTCGGCGCGGTCTCGTAAACAAGTGTGTATTTCGCACAATTCTAGCTATAG
18058700 AACGGCAAATGCCGGAATGTCGAAATGCCAGTCACACGGTAATGGAAGCCACACGAGCGTACGAG
66 AACGGCAAATGCCGGAATGTCGAAATGCCAGTCACACGGTAATGGAAGCCACACGAGCGTACGAG
18058765 CGCACATGTGGGAGCTTTGACGTGATGGTTGAGGCCATCATGAGTGCTCTCGTGGGCTTAGACTA
131 CGCACATGTGGGAGCTTTGACGTGATGGTTGAGGCCATCATGAGTGCTCTCGTGGGCTTAGACTA
18058830 CTTTGGGCCATGTGGGCCCAATTGGCCCATAGGCCCAAGTGGATAAATTGTA
196 CTTTGGGCCATGTGGGCCCAATTGGCCCATAGGCCCAAGTGGATAAATTGTA
* *
18058882 TGGTGATCGTGGACTTCGGCGCGTTCTCGTAAACAGGTGTGTATTTCGCACAATTCTAGCTATAG
1 TGGTGATCGTGGACTTCGGCGCGGTCTCGTAAACAAGTGTGTATTTCGCACAATTCTAGCTATAG
18058947 AACGGCAAATGCCGGAATGTCGAAATGCCAGTCACACGGTAATGGAAGCCACACGAGCGTACGAG
66 AACGGCAAATGCCGGAATGTCGAAATGCCAGTCACACGGTAATGGAAGCCACACGAGCGTACGAG
*
18059012 CGCACATGTGGGAGCTTTGACGTGATGGTTGAGGCCATCATGAGTGCTCTCGTGGGCTTAGACTG
131 CGCACATGTGGGAGCTTTGACGTGATGGTTGAGGCCATCATGAGTGCTCTCGTGGGCTTAGACTA
18059077 CTTTGGGCCATGTGGGCCCAATTGGCCCATAGGCCCAAGTGGATAAATTGTA
196 CTTTGGGCCATGTGGGCCCAATTGGCCCATAGGCCCAAGTGGATAAATTGTA
18059129 TG
1 TG
18059131 ATTGTGTAGT
Statistics
Matches: 246, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
247 246 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (247 bp):
TGGTGATCGTGGACTTCGGCGCGGTCTCGTAAACAAGTGTGTATTTCGCACAATTCTAGCTATAG
AACGGCAAATGCCGGAATGTCGAAATGCCAGTCACACGGTAATGGAAGCCACACGAGCGTACGAG
CGCACATGTGGGAGCTTTGACGTGATGGTTGAGGCCATCATGAGTGCTCTCGTGGGCTTAGACTA
CTTTGGGCCATGTGGGCCCAATTGGCCCATAGGCCCAAGTGGATAAATTGTA
Found at i:18059241 original size:27 final size:27
Alignment explanation
Indices: 18059211--18059633 Score: 256
Period size: 27 Copynumber: 15.7 Consensus size: 27
18059201 TATAGGGTAG
* *
18059211 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTATAA
* *
18059238 AATTACT-GAATACCCTT-AGTTTACAA
1 AATTACTAAAATACCCTTGA-TTTATAA
* * *
18059264 AATTACCAAAATACCC-TCAATTAGTAA
1 AATTACTAAAATACCCTTGATTTA-TAA
* * *
18059291 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACTAAAATACCCTTGA-TTTATAA
* * * *
18059318 AATTACCAAAATACCCTCGACTTGTAA
1 AATTACTAAAATACCCTTGATTTATAA
* * * *
18059345 AATTACCAAAATACCCTCGACTTGTAA
1 AATTACTAAAATACCCTTGATTTATAA
* * *
18059372 AATTACCAAAATACCCTTGACTTGTAA
1 AATTACTAAAATACCCTTGATTTATAA
** * *
18059399 AATTA-TCAAAATACCCTCAACTTGTAA
1 AATTACT-AAAATACCCTTGATTTATAA
* * *
18059426 AATTACTCAAATACCCTCGATTT-TTA
1 AATTACTAAAATACCCTTGATTTATAA
* * *
18059452 AATTACCAAAATA-CCTCTAATTTAGAA
1 AATTACTAAAATACCCT-TGATTTATAA
* * * *
18059479 AATTATTGAAATACCCATGATTTAGAA
1 AATTACTAAAATACCCTTGATTTATAA
* *
18059506 AATTA-TAGAAATACCCCTGATTTACAA
1 AATTACTA-AAATACCCTTGATTTATAA
*
18059533 AATTACAAAAATACCCTTGACTTTCA-AA
1 AATTACTAAAATACCCTTGA-TTT-ATAA
* *
18059561 AATTA-TAGAAATACCATTGGTTTGA-AA
1 AATTACTA-AAATACCCTTGATTT-ATAA
* * * *
18059588 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACTAAAATACCCTTGATTTATAA
* * *
18059615 ATTTACCAAAACACCCTTG
1 AATTACTAAAATACCCTTG
18059634 TAGGGTGAAA
Statistics
Matches: 330, Mismatches: 47, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.01
26 44 0.13
27 253 0.77
28 29 0.09
29 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTATAA
Found at i:18059357 original size:81 final size:80
Alignment explanation
Indices: 18059262--18059483 Score: 288
Period size: 81 Copynumber: 2.8 Consensus size: 80
18059252 CTTAGTTTAC
18059262 AAAATTACCAAAATACCCTCAATTAGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTCAATT-GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
*
18059327 AATACCCTCGACTTGT
65 AATACCCTCAACTTGT
* * * *
18059343 AAAATTACCAAAATACCCTCGACTTGTAAAATTACCAAAATA-CCCTTGACTTGTAAAATTATCA
1 AAAATTACCAAAATACCCTC-AATTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
18059407 AAATACCCTCAACTTGT
64 AAATACCCTCAACTTGT
* * * * *
18059424 AAAATTACTC-AAATACCCTCGATTTTTAAATTACCAAAATACCTCTAATTTAG-AAAATTA
1 AAAATTAC-CAAAATACCCTCAATTGTAAAATTACCAAAATACCCCTAGTTT-GTAAAATTA
18059484 TTGAAATACC
Statistics
Matches: 123, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
80 31 0.25
81 88 0.72
82 4 0.03
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTCAATTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCTCAACTTGT
Found at i:18060382 original size:22 final size:22
Alignment explanation
Indices: 18060357--18060410 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
18060347 ATTGCTGTGA
18060357 TGTTTACGGCTATGTGTTGTCC
1 TGTTTACGGCTATGTGTTGTCC
*
18060379 TGTTTACGGTTATGTGTTGTCC
1 TGTTTACGGCTATGTGTTGTCC
* *
18060401 TATCTACGGC
1 TGTTTACGGC
18060411 GTTGAGCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.11, C:0.19, G:0.26, T:0.44
Consensus pattern (22 bp):
TGTTTACGGCTATGTGTTGTCC
Found at i:18063673 original size:46 final size:46
Alignment explanation
Indices: 18063623--18063795 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
18063613 TTGGGCATCT
*
18063623 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* *
18063669 GAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G--TCC
* * *
18063716 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* *
18063762 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18063796 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 9, Indels: 22
0.78 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
45 1 0.01
46 60 0.56
47 26 0.24
48 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:18063775 original size:93 final size:93
Alignment explanation
Indices: 18063616--18063786 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
18063606 AGGATATTTG
* * * *
18063616 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18063681 TTGAGTCCGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTTGAGAGATGTAACTA
* *
18063709 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
18063774 TTGAGTCTGAGTT
66 TTGAGTCCGAGTT
18063787 CACTTATGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTTGAGAGATGTAACTA
Found at i:18067101 original size:15 final size:15
Alignment explanation
Indices: 18067081--18067149 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
18067071 ATATCTTGGG
18067081 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
18067096 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
18067111 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
18067126 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
18067141 TTTCTTTAT
1 TTTCTTTAT
18067150 TCGATTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:18067150 original size:30 final size:30
Alignment explanation
Indices: 18067072--18067151 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
18067062 CATAGTATCA
* * *
18067072 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
18067102 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
18067132 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
18067152 GATTTTCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:18084035 original size:87 final size:87
Alignment explanation
Indices: 18083821--18084483 Score: 641
Period size: 87 Copynumber: 7.7 Consensus size: 87
18083811 CAGCCTGTTA
* * *
18083821 CCCTACTGCTTAAGGGGTTAAGGTCTGT-AATCATCAGCCTGTTACCCTACTACTTAGGGGTTT-
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAAT--TCAGCCTGTTACCCTACTGCTTAGGGGTTTA
* * *
18083884 AGGCTCATCGCTTTTGATCTATTT
64 AGGCTCATCACCTTCGATCTATTT
* * *
18083908 -CCTACTACTTA-GGGGTTAAGAAT-TGTAAATTCAACCTGTTACCCTACTGCTTAAGGGTTTAA
1 CCCTACTGCTTAGGGGGTTAAG-ATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA
*
18083970 GGCTCATCATCTTCGATCTATTT
65 GGCTCATCACCTTCGATCTATTT
* * * * *
18083993 CCCTACTGATTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTATTGCATAGAGGGTTAAA
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG-GGGTTTAA
* *
18084058 GGC-CATAACCTTCGATCT-GTT
65 GGCTCATCACCTTCGATCTATTT
* * * * *
18084079 CACC-ACTGCTTAAGGAGATAAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAA
1 C-CCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA
* * ** * ***
18084143 GGCCCTTCGTCTTTGAT-TGGCT
65 GGCTCATCACCTTCGATCTATTT
* * * ** * * *
18084165 CTACTACTGTTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTACTTAGAGGG-TTA
1 C-CCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG-GGGTTTA
* * ** **
18084229 AGGCCCTTCATTTTCGATCT-GCT
64 AGGCTCATCACCTTCGATCTATTT
* * ** * *
18084252 CCATTACTGCTTAGGGAGACAAGATCTGT-AATTTAGCCTGTTACCCTACTGTTTAGGGGTTTAA
1 CC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA
*
18084316 GG-TCTATGACCTTCGATCTATTT
65 GGCTC-ATCACCTTCGATCTATTT
* *
18084339 CCCTATTGCTTAGGGGGTGAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
* *
18084404 GCTCATCGCCTTCGATCTGTTT
66 GCTCATCACCTTCGATCTATTT
* *
18084426 CCCTACTGCTTAGGGGGTTAAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
18084484 AGATAAGGCT
Statistics
Matches: 485, Mismatches: 72, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
84 27 0.06
85 47 0.10
86 145 0.30
87 250 0.52
88 16 0.03
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (87 bp):
CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
GCTCATCACCTTCGATCTATTT
Found at i:18084141 original size:173 final size:173
Alignment explanation
Indices: 18083821--18084483 Score: 646
Period size: 173 Copynumber: 3.8 Consensus size: 173
18083811 CAGCCTGTTA
* * * * * *
18083821 CCCTACTGCTTAAGGGGTTAAGGTCTGT-AATCATCAGCCTGTTACCCTACTACTTAG-GGGTTT
1 CCCTACTGATTAGGGGGTCAAGATCTGTAAAT--TCAGCCTGTTACCCTACTGCTTAGAGGGTTA
* * * ** * * * * * *
18083884 AGGCTCATCGCTTTTGATCTATTTC-CTACTACTTAGGG-GTTAAGAAT-TGTAAATTCAACCTG
64 AGGC-CATCACCTTCGATCTGCTTCACCACTGCTTAGGGAGATAAG-ATCTATAAATTTAGCCTG
*
18083946 TTACCCTACTGCTTAAGGGTTTAAGGCTCATCATCTTCGATCTATTT
127 TTACCCTACTGCTTAGGGGTTTAAGGCTCATCATCTTCGATCTATTT
* * * *
18083993 CCCTACTGATTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTATTGCATAGAGGGTTAAA
1 CCCTACTGATTAGGGGGTCAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGGTT-AA
* *
18084058 GGCCATAACCTTCGATCTG-TTCACCACTGCTTAAGGAGATAAGATCTATAAATTTAGCCTGTTA
65 GGCCATCACCTTCGATCTGCTTCACCACTGCTTAGGGAGATAAGATCTATAAATTTAGCCTGTTA
* * * * ***
18084122 CCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTTGAT-TGGCT
130 CCCTACTGCTTAGGGGTTTAAGGCTCATCATCTTCGATCTATTT
* * * * * * *
18084165 CTACTACTGTTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTACTTAGAGGGTTAA
1 C-CCTACTGATTAGGGGGTCAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGGTTAA
* ** * ** * *
18084230 GGCCCTTCATTTTCGATCTGCTCCATTACTGCTTAGGGAGACAAGATCTGT-AATTTAGCCTGTT
65 GG-CCATCACCTTCGATCTGCTTCACCACTGCTTAGGGAGATAAGATCTATAAATTTAGCCTGTT
* * *
18084294 ACCCTACTGTTTAGGGGTTTAAGG-TCTATGACCTTCGATCTATTT
129 ACCCTACTGCTTAGGGGTTTAAGGCTC-ATCATCTTCGATCTATTT
* * *
18084339 CCCTATTGCTTAGGGGGTGAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG-GGGTTTAA
1 CCCTACTGATTAGGGGGTCAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGG-TTAA
* * * *
18084403 GGCTCATCGCCTTCGATCTGTTTC-CCTACTGCTTAGGGGGTTAAGATCTATAAATTTAGCCTGT
65 GGC-CATCACCTTCGATCTGCTTCACC-ACTGCTTAGGGAGATAAGATCTATAAATTTAGCCTGT
18084467 TACCCTACTGCTTAGGG
128 TACCCTACTGCTTAGGG
18084484 AGATAAGGCT
Statistics
Matches: 395, Mismatches: 81, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
171 23 0.06
172 65 0.16
173 252 0.64
174 55 0.14
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (173 bp):
CCCTACTGATTAGGGGGTCAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGGTTAAG
GCCATCACCTTCGATCTGCTTCACCACTGCTTAGGGAGATAAGATCTATAAATTTAGCCTGTTAC
CCTACTGCTTAGGGGTTTAAGGCTCATCATCTTCGATCTATTT
Found at i:18084364 original size:260 final size:261
Alignment explanation
Indices: 18083854--18084481 Score: 668
Period size: 260 Copynumber: 2.4 Consensus size: 261
18083844 TCTGTAATCA
* * * * *** *
18083854 TCAGCCTGTTACCCTACTACTTAGGGGTTT-AGGCTCATCGCTTTTGATCTATTTC-CTACTACT
1 TCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGGCTCACTACTGCT
** * * * *
18083917 TAGGG-GTTAAGAAT-TGTAAATTCAACCTGTTACCCTACTGCTTA-AGGGTTTAAGGCTCATCA
66 TAGGGAGACAAG-ATCTATAAATTTAGCCTGTTACCCTACTGCTTAGAGGGTTTAAGGCCCATCA
** * ** * *
18083979 TCTTCGATCTATTTCCCTACTGATTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTATTG
130 TCTTCGATCTAGCTCCCTACTGATTAGGGAGACAAGATCTGTAAATTCAGCCTGTTACCCTACTG
18084044 CATAGAGGGTTAAAGGCCATAACCTTCGATCTGTTCACCACTGCTTAAGGAGATAAGATCTATAA
195 CATAGAGGGTTAAAGGCCATAACCTTCGATCTGTTCACCACTGCTTAAGGAGATAAGATCTATAA
18084109 AT
260 AT
* * * * *
18084111 TTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTTGAT-TGGCTCTACTACTGT
1 TCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGGCTC-ACTACTGC
* *
18084175 TTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTACTTAGAGGG-TTAAGGCCCTTCA
65 TTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGAGGGTTTAAGGCCCATCA
* * * *
18084239 TTTTCGATCT-GCTCCATTACTGCTTAGGGAGACAAGATCTGT-AATTTAGCCTGTTACCCTACT
130 TCTTCGATCTAGCTCC-CTACTGATTAGGGAGACAAGATCTGTAAATTCAGCCTGTTACCCTACT
** * * * * * * *
18084302 GTTTAG-GGGTTTAAGGTCTATGACCTTCGATCTATTTC-CCTATTGCTT-AGGGGGTGAAGATC
194 GCATAGAGGGTTAAAGG-CCATAACCTTCGATCT-GTTCACC-ACTGCTTAAGGAGAT-AAGATC
*
18084364 TGTAAAT
255 TATAAAT
* ** *
18084371 TCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCT
1 TCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGGCTCACTACTGCT
* **
18084436 TAGGGGGTTAAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAG
66 TAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAG
18084482 GGAGATAAGG
Statistics
Matches: 306, Mismatches: 53, Indels: 21
0.81 0.14 0.06
Matches are distributed among these distances:
257 31 0.10
258 23 0.08
259 59 0.19
260 185 0.60
261 8 0.03
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (261 bp):
TCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGGCTCACTACTGCT
TAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGAGGGTTTAAGGCCCATCAT
CTTCGATCTAGCTCCCTACTGATTAGGGAGACAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
ATAGAGGGTTAAAGGCCATAACCTTCGATCTGTTCACCACTGCTTAAGGAGATAAGATCTATAAA
T
Found at i:18084392 original size:43 final size:43
Alignment explanation
Indices: 18083797--18084483 Score: 191
Period size: 44 Copynumber: 15.9 Consensus size: 43
18083787 TTTCAGGGGG
* *
18083797 AAGATTTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGGTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * *
18083840 AAGGTCTGT-AATCATCAGCCTGTTACCCTACTACTTAGGGGTTT
1 AAGATCTGTAAAT--TCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * * * * * * *
18083884 AGGCTCATCGCT--TTTGA-TCTATT-TCCTACTACTTA-GGGGTT
1 AAGATC-T-G-TAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * *
18083925 AAGAAT-TGTAAATTCAACCTGTTACCCTACTGCTTAAGGGTTT
1 AAG-ATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * ** * * * *
18083968 AAGGCTCAT-CATCTTC-GATCTATTTCCCTACTGATTAGGGGGTT
1 AA-GATC-TGTAAATTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
* * * *
18084012 AAGATCTGTAAATTCAGCTTGTTACCCTATTGCATAGAGGGTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* ** * * * * *
18084055 AA-AGGCCATAACCTTC-GATCTGTT-CACC-ACTGCTTAAGGAGAT
1 AAGA-TCTGTAA-ATTCAG-CCTGTTAC-CCTACTGCTTAGGGGGTT
* * *
18084098 AAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
** ** * * * * * **
18084141 AAGGCCCTTCGT-CTTTGATTGGCT-CTA--CTACTGTTTAGGGAGAC
1 AA-GATC-T-GTAAATTCA--GCCTGTTACCCTACTGCTTAGGGGGTT
* * * *
18084185 AAGATCTATAAATTTAGCCTGTTACCCTACTACTTAGAGGGTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
** ** * * * * **
18084228 AAGGCCCT-TCATTTTC-GATCTGCT-CCATTACTGCTTAGGGAGAC
1 AA-GATCTGT-AAATTCAG-CCTGTTACC-CTACTGCTTAGGGGGTT
* * *
18084272 AAGATCTGT-AATTTAGCCTGTTACCCTACTGTTTAGGGGTTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * ** * * * * *
18084314 AAGGTCTATGACCTTC-GATCTATTTCCCTATTGCTTAGGGGGTG
1 AAGATCTGT-AAATTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
*
18084358 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* ** * *
18084401 AAGGCTCATCG--CCTTC-GATCTGTTTCCCTACTGCTTAGGGGGTT
1 AA-GATC-T-GTAAATTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
* *
18084445 AAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
18084484 AGATAAGGCT
Statistics
Matches: 438, Mismatches: 154, Indels: 104
0.63 0.22 0.15
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 7 0.02
41 14 0.03
42 65 0.15
43 161 0.37
44 172 0.39
45 7 0.02
46 6 0.01
47 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (43 bp):
AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
Found at i:18089184 original size:9 final size:10
Alignment explanation
Indices: 18089171--18089216 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
18089161 GGGAAAGTCT
18089171 AATGCAAAT-
1 AATGCAAATG
18089180 AATGC-AATG
1 AATGCAAATG
18089189 CAATGCAAATG
1 -AATGCAAATG
*
18089200 CATG-AAATG
1 AATGCAAATG
18089209 AATGCAAA
1 AATGCAAA
18089217 AGAAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (10 bp):
AATGCAAATG
Found at i:18089195 original size:19 final size:19
Alignment explanation
Indices: 18089171--18089216 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
18089161 GGGAAAGTCT
*
18089171 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
18089189 CAATGCAAATGCATGAAATG
1 -AATGCAAATGAATGAAATG
18089209 AATGCAAA
1 AATGCAAA
18089217 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:18092398 original size:18 final size:18
Alignment explanation
Indices: 18092375--18092411 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
18092365 TCTTATATAT
18092375 ATATTATTAATTAATAAA
1 ATATTATTAATTAATAAA
*
18092393 ATATTATTATTTAATAAA
1 ATATTATTAATTAATAAA
18092411 A
1 A
18092412 AATCATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATTATTAATTAATAAA
Found at i:18092422 original size:18 final size:18
Alignment explanation
Indices: 18092385--18092424 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18092375 ATATTATTAA
* * *
18092385 TTAATAAAATATTATTAT
1 TTAATAAAAAATCATCAT
18092403 TTAATAAAAAATCATCAT
1 TTAATAAAAAATCATCAT
18092421 TTAA
1 TTAA
18092425 CAGCATCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAATAAAAAATCATCAT
Found at i:18096447 original size:6 final size:6
Alignment explanation
Indices: 18096438--18096479 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
18096428 ATAAAATTAT
18096438 ATTTTA ATTTT- -TTTTAA ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTT-A ATTTTA ATTTTA ATTTTA ATTTTA A
18096480 CCTATAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.12
6 25 0.76
7 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:18097133 original size:9 final size:8
Alignment explanation
Indices: 18097112--18097136 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18097102 TATTCTCATC
18097112 ATTTTTAA
1 ATTTTTAA
18097120 ATTTTTAA
1 ATTTTTAA
18097128 ATTTTTAA
1 ATTTTTAA
18097136 A
1 A
18097137 AAATAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTTTAA
Found at i:18097397 original size:11 final size:11
Alignment explanation
Indices: 18097381--18097407 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18097371 CGATTCCACA
18097381 TCATTTCTATC
1 TCATTTCTATC
18097392 TCATTTCTATC
1 TCATTTCTATC
18097403 TCATT
1 TCATT
18097408 CCAATAGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.56
Consensus pattern (11 bp):
TCATTTCTATC
Found at i:18097752 original size:21 final size:20
Alignment explanation
Indices: 18097728--18097792 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
18097718 TAACTAAAAG
18097728 AATATACAAACTAAAGTTGTA
1 AATATACAAACT-AAGTTGTA
*
18097749 AATACAGC-AA-TAAGTTGGTGA
1 AATATA-CAAACTAAGTT-GT-A
*
18097770 AA-ATAAAAACTAAGTTGTA
1 AATATACAAACTAAGTTGTA
18097789 AATA
1 AATA
18097793 CTTGTAACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 13
0.69 0.06 0.25
Matches are distributed among these distances:
19 8 0.23
20 10 0.29
21 16 0.46
22 1 0.03
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.26
Consensus pattern (20 bp):
AATATACAAACTAAGTTGTA
Found at i:18097753 original size:19 final size:18
Alignment explanation
Indices: 18097731--18097793 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 18
18097721 CTAAAAGAAT
18097731 ATACAAACTAAAGTTGTAA
1 ATACAAACT-AAGTTGTAA
18097750 ATACAGCAA-TAAGTTGGTGAAA
1 ATACA--AACTAAGTT-GT--AA
*
18097772 ATAAAAACTAAGTTGTAA
1 ATACAAACTAAGTTGTAA
18097790 ATAC
1 ATAC
18097794 TTGTAACCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
18 5 0.14
19 10 0.28
20 7 0.19
21 8 0.22
22 6 0.17
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (18 bp):
ATACAAACTAAGTTGTAA
Found at i:18101054 original size:2 final size:2
Alignment explanation
Indices: 18101047--18101081 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18101037 ACCCTATTTC
*
18101047 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18101082 AACGTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:18104440 original size:29 final size:30
Alignment explanation
Indices: 18104385--18104446 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
18104375 TGTTTTATTC
* *
18104385 ATATATTTTCTTTTAAATCTATTTATGTAT
1 ATATATTTCCTTTCAAATCTATTTATGTAT
18104415 ATATATTTCCTTTCAAATCTA-TTATGTAT
1 ATATATTTCCTTTCAAATCTATTTATGTAT
18104444 ATA
1 ATA
18104447 GTTTATTCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.32, C:0.10, G:0.03, T:0.55
Consensus pattern (30 bp):
ATATATTTCCTTTCAAATCTATTTATGTAT
Found at i:18108482 original size:19 final size:19
Alignment explanation
Indices: 18108458--18108502 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18108448 ACGCCTTTTT
* *
18108458 TGCATT-CATTTCATGCATC
1 TGCATTACATTACAT-CATA
18108477 TGCATTACATTACATCATA
1 TGCATTACATTACATCATA
18108496 TGCATTA
1 TGCATTA
18108503 AAGTCCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (19 bp):
TGCATTACATTACATCATA
Found at i:18117356 original size:178 final size:177
Alignment explanation
Indices: 18117054--18117562 Score: 577
Period size: 178 Copynumber: 2.9 Consensus size: 177
18117044 TTGTCTCCCT
* * *
18117054 GAGATAGCAGTGGAGCAGATTGAAGACGGTGAATCTTATCTTTCTGAGGTAGTAGGGGAGCAGAT
1 GAGATAGCAGTGGAGCAAATTGAGGACGGTGAATCTTATCTTCCTGAGGTAGTAGGGGAGCAGAT
* * * * * *
18117119 TTTAGTCACCAGCCTTATTTCTCT-AGGGTAGCATGAGAGCAGGCTAAAGATTGTAGTCTTATCT
66 TTTAGCCACCAGCCTTATCTCTCTGA-AGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCT
* *
18117183 TCCTGAGGAAGCAAGGGAGCAAACTGAAGATTGTAGATG-TTGTC-TCGAG
130 TCCTGAGGAAGCAAGGGAGCAGACTGAAGATTGTAGATGATAG-CAT--AG
*
18117232 GAGATAGCAGTGGAGCAAATTGAGGACGGTGAATCTTATCTTCCTGAGGTAGTAGGGGAGTAGAT
1 GAGATAGCAGTGGAGCAAATTGAGGACGGTGAATCTTATCTTCCTGAGGTAGTAGGGGAGCAGAT
* * * * *
18117297 TTTAGCCACCAGTCTTATCTCCCTGAAGTAGTAAGGGAGCAGGTTGAAGATTATAGTCTTATCTT
66 TTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTT
* * *
18117362 CCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGA-GATAGCATTG
131 CCTGAGGAAGCAAGGGAGCAGACTGAAGATTGTAGATGATAGCATAG
* * * * *
18117408 G-G---GCA-T--ATCAAAATT--GG-C---AAATCTTATATTCAC-GAGATAGCAGGGGAGCAG
1 GAGATAGCAGTGGAGC-AAATTGAGGACGGTGAATCTTATCTTC-CTGAGGTAGTAGGGGAGCAG
*
18117459 ATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGTCTTATC
64 ATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATC
* * *
18117524 TTCTTGAGGAAGCAAGGGAGTAGACTGAAGATTGGAGAT
129 TTCCTGAGGAAGCAAGGGAGCAGACTGAAGATTGTAGAT
18117563 CTTATCTCCC
Statistics
Matches: 288, Mismatches: 37, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
164 118 0.41
165 1 0.00
167 1 0.00
168 2 0.01
169 2 0.01
170 5 0.02
171 1 0.00
172 3 0.01
175 1 0.00
176 2 0.01
177 2 0.01
178 149 0.52
179 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (177 bp):
GAGATAGCAGTGGAGCAAATTGAGGACGGTGAATCTTATCTTCCTGAGGTAGTAGGGGAGCAGAT
TTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTT
CCTGAGGAAGCAAGGGAGCAGACTGAAGATTGTAGATGATAGCATAG
Found at i:18117391 original size:44 final size:44
Alignment explanation
Indices: 18117307--18117392 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
18117297 TTTAGCCACC
* ** *
18117307 AGTCTTATCTCCCTGAAGTAGTAAGGGAGCAGGTTGAAGATTAT
1 AGTCTTATCTCCCTGAAGTAGCAAGGGAGCAGACTAAAGATTAT
* *
18117351 AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAAAGATT
1 AGTCTTATCTCCCTGAAGTAGCAAGGGAGCAGACTAAAGATT
18117393 GTAGAGATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTAGCAAGGGAGCAGACTAAAGATTAT
Found at i:18117522 original size:44 final size:45
Alignment explanation
Indices: 18117474--18117576 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 45
18117464 AGCCACCAGC
* *
18117474 CTTATCTCTCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
1 CTTATCTCTCTGAAGAAGCAAGGGAGCAGACTGAAGATTGGAGAT
* *
18117518 CTTATCT-TCTTGAGGAAGCAAGGGAGTAGACTGAAGATTGGAGAT
1 CTTATCTCTC-TGAAGAAGCAAGGGAGCAGACTGAAGATTGGAGAT
*
18117563 CTTATCTCCCTGAA
1 CTTATCTCTCTGAA
18117577 TAATTTGGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.04
44 36 0.72
45 11 0.22
46 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (45 bp):
CTTATCTCTCTGAAGAAGCAAGGGAGCAGACTGAAGATTGGAGAT
Found at i:18117972 original size:13 final size:13
Alignment explanation
Indices: 18117956--18117983 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18117946 ACAAAGGAAT
18117956 AAACCAAATGTAA
1 AAACCAAATGTAA
18117969 AAACCAAATGTAA
1 AAACCAAATGTAA
18117982 AA
1 AA
18117984 TTATAAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (13 bp):
AAACCAAATGTAA
Found at i:18119549 original size:29 final size:30
Alignment explanation
Indices: 18119496--18119556 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
18119486 GTTTTATGCG
* * *
18119496 TATATTTTCTTTTAAATCTATTTATGTATA
1 TATATTTCCTTTCAAATATATTTATGTATA
18119526 TATATTTCCTTTCAAATATA-TTATGTATA
1 TATATTTCCTTTCAAATATATTTATGTATA
18119555 TA
1 TA
18119557 GTTTATTTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (30 bp):
TATATTTCCTTTCAAATATATTTATGTATA
Found at i:18121708 original size:6 final size:6
Alignment explanation
Indices: 18121697--18121731 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
18121687 TTTGAAGTGA
*
18121697 TCATCC TCATCC TCATAC TCATCC TCATCC TCATC
1 TCATCC TCATCC TCATCC TCATCC TCATCC TCATC
18121732 TTATCATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (6 bp):
TCATCC
Found at i:18124227 original size:17 final size:18
Alignment explanation
Indices: 18124195--18124232 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
18124185 GATATGATAC
*
18124195 TAAAATTATTAAAAAAAT
1 TAAAATTATAAAAAAAAT
18124213 TAAAA-TATAAAAAAAAT
1 TAAAATTATAAAAAAAAT
18124230 TAA
1 TAA
18124233 GGAAACATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAATTATAAAAAAAAT
Found at i:18124521 original size:23 final size:21
Alignment explanation
Indices: 18124478--18124522 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
18124468 AAAAGGTATC
18124478 TACAAATTAAATCTCTAAGAT
1 TACAAATTAAATCTCTAAGAT
*
18124499 TACAAGATTATATCTTCTAAGAT
1 TACAA-ATTAAATC-TCTAAGAT
18124522 T
1 T
18124523 GCATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 7 0.33
23 9 0.43
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (21 bp):
TACAAATTAAATCTCTAAGAT
Found at i:18124570 original size:35 final size:37
Alignment explanation
Indices: 18124514--18124604 Score: 150
Period size: 35 Copynumber: 2.5 Consensus size: 37
18124504 GATTATATCT
18124514 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCATA
18124551 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCATA
18124587 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
18124605 TGAAGATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
35 19 0.37
36 16 0.31
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCATA
Found at i:18124579 original size:54 final size:53
Alignment explanation
Indices: 18124502--18124616 Score: 173
Period size: 54 Copynumber: 2.2 Consensus size: 53
18124492 CTAAGATTAC
18124502 AAGATTATATCTTCTAAGATTGCATATCATATCTAAGATTGCA-ATCATATCT
1 AAGATTATATCTTCTAAGATTGCATATCATATCTAAGATTGCATATCATATCT
* *
18124554 AAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTATATC-T-TCTAAGATTGCATATCATATCTAAGATTGCATATCATATCT
18124607 AAGATTATAT
1 AAGATTATAT
18124617 TTCCATATGA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
52 10 0.18
53 10 0.18
54 32 0.56
55 5 0.09
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (53 bp):
AAGATTATATCTTCTAAGATTGCATATCATATCTAAGATTGCATATCATATCT
Found at i:18124612 original size:17 final size:19
Alignment explanation
Indices: 18124514--18124604 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
18124504 GATTATATCT
18124514 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18124533 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
18124551 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
18124568 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18124587 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
18124605 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:18125015 original size:44 final size:45
Alignment explanation
Indices: 18124967--18125079 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 45
18124957 TCTATCTTTG
*
18124967 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT-TCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTATCTCCA
* * * * * *
18125011 ATCTGCTACCCGTCTAATACAAAGATGTCAAATCTGTTATCTCCG
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTATCTCCA
* *
18125056 ATTTGCTCCCCGTCTAATATAGAG
1 ATCTGCTCCCCGTCTAATACAGAG
18125080 GTGTCGAATC
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 33 0.58
45 24 0.42
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTATCTCCA
Found at i:18125090 original size:45 final size:45
Alignment explanation
Indices: 18124967--18125097 Score: 147
Period size: 45 Copynumber: 2.9 Consensus size: 45
18124957 TCTATCTTTG
* * * *
18124967 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT-TCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGATGTCAAATCTGTTATCTCCA
* * *
18125011 ATCTGCTACCCGTCTAATACAAAGATGTCAAATCTGTTATCTCCG
1 ATCTGCTCCCCGTCTAATACAGAGATGTCAAATCTGTTATCTCCA
* * * * *
18125056 ATTTGCTCCCCGTCTAATATAGAGGTGTCGAATCTGTCATCT
1 ATCTGCTCCCCGTCTAATACAGAGATGTCAAATCTGTTATCT
18125098 TGGATCTGCT
Statistics
Matches: 72, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 33 0.46
45 39 0.54
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCCCGTCTAATACAGAGATGTCAAATCTGTTATCTCCA
Found at i:18125352 original size:78 final size:78
Alignment explanation
Indices: 18125218--18125797 Score: 808
Period size: 78 Copynumber: 7.4 Consensus size: 78
18125208 AGATCTGCTA
* *
18125218 ATCTGCTCCCCGTCTAATACATAGATGCCAAATCATCTTGGATCTGCCTCAATGAAGGTCCAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
* *
18125283 TGTTATGTATTTG
66 TGCTATGTCTTTG
*
18125296 ATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT-CAGAT
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-AT
*
18125360 CTGCTGTGT-TTTCG
65 CTGCTATGTCTTT-G
* *
18125374 ATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTTAATGAAGGTCCAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
*
18125439 TGTTATGTCTTTG
66 TGCTATGTCTTTG
* *
18125452 ATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT-TAGAT
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-AT
* * * **
18125516 ATGATGTGTCTCCG
65 CTGCTATGTCTTTG
* * *
18125530 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATTTTGGATCTGCTTCAATGAAGGTCTAATT
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
*
18125595 TGTTATGTCTTTG
66 TGCTATGTCTTTG
* * *
18125608 ATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGTTTCAATAAAGGT-CAGAT
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-AT
* *
18125672 CTGCTGTGTCTTCG
65 CTGCTATGTCTTTG
* *
18125686 ATCTGCTCCCCGTTTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
*
18125751 TGCTATGTCTTCG
66 TGCTATGTCTTTG
* * **
18125764 ATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
18125798 TGTTTCTTTG
Statistics
Matches: 448, Mismatches: 46, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
77 7 0.02
78 433 0.97
79 8 0.02
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (78 bp):
ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
TGCTATGTCTTTG
Found at i:18125444 original size:156 final size:156
Alignment explanation
Indices: 18125121--18125797 Score: 1003
Period size: 156 Copynumber: 4.4 Consensus size: 156
18125111 ATGTAAACAC
** * *
18125121 ATGAAGGT-CAGATCTACTATGTCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
* *
18125185 TTGGATCTGCTTCAATGAAGGTCAGA--T-C--TG-C-T-AATCTGCTCCCCGTCTAATACATAG
65 TTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAG
*
18125242 ATGCCAAATCATCTTGGATCTGCCTCA
130 ATGCCAAATCATCTTGGATCTGCTTCA
* *
18125269 ATGAAGGTCCAATCTGTTATGTATTTGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* *
18125334 TGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTTTTCGATTTGCTCCCCGTCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
*
18125399 TGCCAAATCATCTTGGATCTGCTTTA
131 TGCCAAATCATCTTGGATCTGCTTCA
*
18125425 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * * *
18125490 TGGATCTGCTTCAATGAAGGTTAGATATGATGTGTCTCCGATCTGCTCCCCGTCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
*
18125555 TGCCAAATCATTTTGGATCTGCTTCA
131 TGCCAAATCATCTTGGATCTGCTTCA
* * *
18125581 ATGAAGGTCTAATTTGTTATGTCTTTGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * *
18125646 TGGATCTGTTTCAATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTTTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
18125711 TGCCAAATCATCTTGGATCTGCTTCA
131 TGCCAAATCATCTTGGATCTGCTTCA
* * * * * **
18125737 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
18125798 TGTTTCTTTG
Statistics
Matches: 476, Mismatches: 44, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
148 81 0.17
149 2 0.00
150 1 0.00
151 1 0.00
153 2 0.00
155 1 0.00
156 388 0.82
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (156 bp):
ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
TGCCAAATCATCTTGGATCTGCTTCA
Found at i:18125542 original size:234 final size:231
Alignment explanation
Indices: 18125121--18125797 Score: 915
Period size: 234 Copynumber: 2.9 Consensus size: 231
18125111 ATGTAAACAC
* * *
18125121 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTTTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * *
18125186 TGGATCTGCTTCAATGAAGGTCAGATC---TG-C--TAATCTGCTCCCCGTCTAATACATAGATG
66 TGGATCTGCTTTAATGAAGGTCAGATCTGTTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATG
* * * * *
18125245 CCAAATCATCTTGGATCTGCCTCAATGAAGGTCCAATCTGTTATGTATTTGATCTACTCCCCGTC
131 CCAAATCATCTTGGATCTGCTTCAATGAAGGT-CAATCTGATATGTCTTCGATCTGCTCCCCGTC
18125310 TAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
195 TAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
* *
18125347 ATGAAGGTCAGATCTGCTGTGTTTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTTTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
18125412 TGGATCTGCTTTAATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCTGTCTAATACAGAG
66 TGGATCTGCTTTAATGAAGGT-CAGATCTG-T-TGTCTTTGATCTGCTCCCCGTCTAATACAGAG
* * * *
18125476 ATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTTAGATATGATGTGTCTCCGATCTGCTCCCC
128 ATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCA-ATCTGATATGTCTTCGATCTGCTCCCC
*
18125541 GTCTAATACAGAGATGCCAAATCATTTTGGATCTGCTTCA
192 GTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
* * *
18125581 ATGAAGGTCTA-ATTTGTTATGTCTTT-GATCTACTCCCCGTCTAATACAGAGATGCCAAATCAT
1 ATGAAGGTC-AGATCTGCTATGT-TTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
* * *
18125644 CTTGGATCTG-TTTCAATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTTTAATACAG
64 CTTGGATCTGCTTT-AATGAAGGTCAGATCTG-T-TGTCTTTGATCTGCTCCCCGTCTAATACAG
* *
18125708 AGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCT
126 AGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC-AATCTGATATGTCTTCGATCTGCTCC
* **
18125773 CCGTCGAATATGGAGATGCCAAATC
190 CCGTCTAATACAGAGATGCCAAATC
18125798 TGTTTCTTTG
Statistics
Matches: 397, Mismatches: 39, Indels: 22
0.87 0.09 0.05
Matches are distributed among these distances:
226 83 0.21
227 2 0.01
231 2 0.01
232 1 0.00
233 6 0.02
234 298 0.75
235 5 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (231 bp):
ATGAAGGTCAGATCTGCTATGTTTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTTAATGAAGGTCAGATCTGTTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATG
CCAAATCATCTTGGATCTGCTTCAATGAAGGTCAATCTGATATGTCTTCGATCTGCTCCCCGTCT
AATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
Found at i:18137928 original size:17 final size:17
Alignment explanation
Indices: 18137906--18137964 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
18137896 ATTACAAAAT
18137906 TATATCTTCTAAGATTG
1 TATATCTTCTAAGATTG
18137923 TATATCATATCTAAGATTG
1 TATATC-T-TCTAAGATTG
*
18137942 TATCAT-ATCTAAGATTG
1 TAT-ATCTTCTAAGATTG
*
18137959 CATATC
1 TATATC
18137965 ATTGAAGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 2 0.06
17 18 0.50
18 1 0.03
19 13 0.36
20 2 0.06
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (17 bp):
TATATCTTCTAAGATTG
Found at i:18137937 original size:19 final size:18
Alignment explanation
Indices: 18137913--18137966 Score: 83
Period size: 17 Copynumber: 2.9 Consensus size: 18
18137903 AATTATATCT
18137913 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
18137932 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
18137949 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
18137967 TGAAGATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:18141038 original size:24 final size:24
Alignment explanation
Indices: 18140981--18141026 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
18140971 AAACCAAACT
18140981 AGTTTAATAAATTTGTTTCGTAGA
1 AGTTTAATAAATTTGTTTCGTAGA
18141005 AGTTTAATAAATTTGTTTCGTA
1 AGTTTAATAAATTTGTTTCGTA
18141027 CATTGTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (24 bp):
AGTTTAATAAATTTGTTTCGTAGA
Found at i:18142563 original size:7 final size:7
Alignment explanation
Indices: 18142551--18142605 Score: 85
Period size: 7 Copynumber: 7.9 Consensus size: 7
18142541 TTGAGAACTG
18142551 AAAATTA
1 AAAATTA
18142558 AAAATTA
1 AAAATTA
18142565 AAAATTA
1 AAAATTA
18142572 AAAATTA
1 AAAATTA
*
18142579 AAGATTA
1 AAAATTA
18142586 AAAA-TA
1 AAAATTA
18142592 TAAAATTA
1 -AAAATTA
18142600 AAAATT
1 AAAATT
18142606 GGAGATTGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 2 0.05
7 40 0.91
8 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
AAAATTA
Found at i:18151149 original size:50 final size:49
Alignment explanation
Indices: 18150983--18151205 Score: 269
Period size: 49 Copynumber: 4.6 Consensus size: 49
18150973 AAATGCTGAC
* ** * * * *
18150983 GCCATGTCCC-GAACATGGTCTTACACTGGCTCACAAATC-AAAGTCGAT
1 GCCATGTCCCAG-ACATGGTCTTACACTAGCTTTCATATCTCAGGCCGAT
*
18151031 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCAAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCAGGCCGAT
18151080 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTC-AGGCCGAT
* * * *
18151130 GTCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-ATGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCA-GGCCGAT
18151178 G-CATGTCCCAGACAT-GTCTTACACTAGC
1 GCCATGTCCCAGACATGGTCTTACACTAGC
18151206 ACACATATCA
Statistics
Matches: 159, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
46 12 0.08
47 15 0.09
48 41 0.26
49 50 0.31
50 41 0.26
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCAGGCCGAT
Found at i:18151152 original size:99 final size:96
Alignment explanation
Indices: 18151027--18151205 Score: 270
Period size: 99 Copynumber: 1.8 Consensus size: 96
18151017 AAATCAAAGT
* *
18151027 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCAT-ATCTCAAGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATAT--AGCCGATG-CATGTCCCA
18151091 GACATGGTCTTACACTAGCTTTCATATCTCGAGGC
63 GACAT-GTCTTACACTAGCTTTCATATCTCGAGGC
* * *
18151126 CGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATAGCCGATGCATGTCCCAGAC
18151191 ATGTCTTACACTAGC
66 ATGTCTTACACTAGC
18151206 ACACATATCA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
96 13 0.18
97 14 0.19
98 7 0.09
99 37 0.50
100 3 0.04
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATAGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTTTCATATCTCGAGGC
Found at i:18157554 original size:33 final size:32
Alignment explanation
Indices: 18157442--18157581 Score: 149
Period size: 33 Copynumber: 4.3 Consensus size: 32
18157432 ATGGTAAAAT
** *
18157442 TTGAAAAGGTTAGGTAAACTTTGTGTATACCA
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCA
* * *
18157474 TACGAAAAGGAAAGATATACTTTGTGTATATCA
1 T-TGAAAAGGAAAGGTATACTTTGTGTATACCA
18157507 TATGAAAAGGAAAGGTATACTTTGTGTATACCA
1 T-TGAAAAGGAAAGGTATACTTTGTGTATACCA
* *
18157540 CTTGAAAAGGAAAGGTACACTATATGTGTACA-C-
1 -TTGAAAAGGAAAGGTATACT-T-TGTGTATACCA
18157573 TTGAAAAGG
1 TTGAAAAGG
18157582 TTATGTGCAC
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
32 10 0.11
33 73 0.78
34 3 0.03
35 7 0.08
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.29
Consensus pattern (32 bp):
TTGAAAAGGAAAGGTATACTTTGTGTATACCA
Found at i:18157620 original size:33 final size:32
Alignment explanation
Indices: 18157538--18157657 Score: 123
Period size: 33 Copynumber: 3.7 Consensus size: 32
18157528 TTGTGTATAC
** * *
18157538 CACTTGAAAAGGAAAGGTACACTATATGTGTA
1 CACTTGAAAAGGGTATGTACACTTTATGTGTA
* *
18157570 CACTTGAAAAGGTTATGTGCACTTTATGTGTA
1 CACTTGAAAAGGGTATGTACACTTTATGTGTA
* **
18157602 CAAATTGAAAAGGGTATGTACACTTCGTGTGTA
1 C-ACTTGAAAAGGGTATGTACACTTTATGTGTA
* *
18157635 CCACTTGAAAAGGGAATTTACAC
1 -CACTTGAAAAGGGTATGTACAC
18157658 CTCGGGTGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
32 28 0.38
33 44 0.60
34 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (32 bp):
CACTTGAAAAGGGTATGTACACTTTATGTGTA
Found at i:18157667 original size:33 final size:33
Alignment explanation
Indices: 18157597--18157680 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
18157587 TGCACTTTAT
* * * *
18157597 GTGTACAAATTGAAAAGGGTATGTACACTTCGT
1 GTGTACAACTTGAAAAGGGAATGTACACCTCGG
* *
18157630 GTGTACCACTTGAAAAGGGAATTTACACCTCGG
1 GTGTACAACTTGAAAAGGGAATGTACACCTCGG
*
18157663 GTGTACAACTAGAAAAGG
1 GTGTACAACTTGAAAAGG
18157681 AAAGGTCTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (33 bp):
GTGTACAACTTGAAAAGGGAATGTACACCTCGG
Found at i:18173088 original size:98 final size:98
Alignment explanation
Indices: 18172919--18173116 Score: 351
Period size: 98 Copynumber: 2.0 Consensus size: 98
18172909 TTGTGGGATA
* *
18172919 TGTGGCATACAATAAGAGTATCTCGTATATGTTTTAAGTACTTACTACAAGTGGTATGTTTATAC
1 TGTGGCATACAATAAGAATATCTCGTATATGTTTTAAGTACTTACTACAAGTGGTACGTTTATAC
18172984 TTGTGTGATGAATGTATGCTTTAGTTAATATTT
66 TTGTGTGATGAATGTATGCTTTAGTTAATATTT
* * *
18173017 TGTGGCATATAATAGGAATATTTCGTATATGTTTTAAGTACTTACTACAAGTGGTACGTTTATAC
1 TGTGGCATACAATAAGAATATCTCGTATATGTTTTAAGTACTTACTACAAGTGGTACGTTTATAC
18173082 TTGTGTGATGAATGTATGCTTTAGTTAATATTT
66 TTGTGTGATGAATGTATGCTTTAGTTAATATTT
18173115 TG
1 TG
18173117 CTTGTTCATG
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (98 bp):
TGTGGCATACAATAAGAATATCTCGTATATGTTTTAAGTACTTACTACAAGTGGTACGTTTATAC
TTGTGTGATGAATGTATGCTTTAGTTAATATTT
Found at i:18175050 original size:19 final size:19
Alignment explanation
Indices: 18175026--18175123 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
18175016 AATCTTTAAG
18175026 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18175045 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18175064 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18175081 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18175100 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
18175121 GAT
1 GAT
18175124 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:18175056 original size:36 final size:35
Alignment explanation
Indices: 18175016--18175123 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
18175006 ATGGAAATAT
18175016 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
18175052 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
18175088 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
18175124 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:18180771 original size:10 final size:9
Alignment explanation
Indices: 18180757--18180790 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
18180747 TCTATTTCAA
18180757 AAAAAAAGG
1 AAAAAAAGG
18180766 AAAAAAA-G
1 AAAAAAAGG
18180774 AAAAAAAGAG
1 AAAAAAAG-G
18180784 AAAAAAA
1 AAAAAAA
18180791 TAAAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 7 0.30
10 8 0.35
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:18180779 original size:18 final size:19
Alignment explanation
Indices: 18180756--18180811 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
18180746 TTCTATTTCA
18180756 AAAAAAAAG-GAAAAAAAG
1 AAAAAAAAGAGAAAAAAAG
* *
18180774 AAAAAAAGAGAAAAAAATAAA
1 AAAAAAA-AGAGAAAAA-AAG
18180795 AAGAAAAAAGAGAAAAA
1 AA-AAAAAAGAGAAAAA
18180812 TGGAAAAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 7 0.23
19 2 0.06
20 5 0.16
21 12 0.39
22 5 0.16
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAGAAAAAAAG
Found at i:18180808 original size:9 final size:8
Alignment explanation
Indices: 18180757--18180811 Score: 67
Period size: 9 Copynumber: 6.6 Consensus size: 8
18180747 TCTATTTCAA
18180757 AAAAAAAGG
1 AAAAAAA-G
18180766 AAAAAAAG
1 AAAAAAAG
18180774 AAAAAAAG
1 AAAAAAAG
18180782 AGAAAAAA-
1 A-AAAAAAG
*
18180790 ATAAAAAG
1 AAAAAAAG
18180798 AAAAAAGAG
1 AAAAAA-AG
18180807 AAAAA
1 AAAAA
18180812 TGGAAAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 5 0.12
8 16 0.39
9 20 0.49
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:18180818 original size:23 final size:23
Alignment explanation
Indices: 18180768--18180824 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
18180758 AAAAAAGGAA
*
18180768 AAAAAGAAAAAAAGAGAAAAAAAT
1 AAAAAG-AAAAAAGAGAAAAAAAG
**
18180792 AAAAAGAAAAAAGAGAAAAATGG
1 AAAAAGAAAAAAGAGAAAAAAAG
18180815 AAAAAGAAAA
1 AAAAAGAAAA
18180825 TGGAAATGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.04
Consensus pattern (23 bp):
AAAAAGAAAAAAGAGAAAAAAAG
Found at i:18180821 original size:16 final size:16
Alignment explanation
Indices: 18180758--18180819 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 16
18180748 CTATTTCAAA
18180758 AAAAAAGGAAAAAAAG
1 AAAAAAGGAAAAAAAG
18180774 AAAAAAAGAGAAAAAAA-
1 -AAAAAAG-GAAAAAAAG
*
18180791 TAAAAA-GAAAAAAGAG
1 AAAAAAGGAAAAAA-AG
*
18180807 AAAAATGGAAAAA
1 AAAAAAGGAAAAA
18180820 GAAAATGGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 7 0.18
15 1 0.03
16 9 0.24
17 13 0.34
18 8 0.21
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAAAGGAAAAAAAG
Found at i:18181876 original size:44 final size:44
Alignment explanation
Indices: 18181677--18182170 Score: 371
Period size: 44 Copynumber: 11.2 Consensus size: 44
18181667 CAAAGAAACA
* *
18181677 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGCAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * ***
18181721 AGATCTGACA-CTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTT
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
** * **
18181766 A-ACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
18181809 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
18181852 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * **
18181896 AGATCTGACATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* *
18181941 AGCA--TGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * *
18181984 AGATTTGGCATCCCTGTGTTTATAGAGAACAAATCGAAGATAGA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* ** * * * * * **
18182028 AGATCTGATATTCCTGTGCTTACAGTGAAGC-AGATAGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
*
18182073 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * *
18182116 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAG--ATAGC
*
18182162 TGATTTGGC
1 AGATTTGGC
18182171 TTTCACGGTT
Statistics
Matches: 352, Mismatches: 75, Indels: 44
0.75 0.16 0.09
Matches are distributed among these distances:
42 3 0.01
43 73 0.21
44 228 0.65
45 33 0.09
46 15 0.04
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
Found at i:18181968 original size:175 final size:175
Alignment explanation
Indices: 18181676--18182031 Score: 579
Period size: 175 Copynumber: 2.0 Consensus size: 175
18181666 TCAAAGAAAC
*
18181676 AAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGCAGATAGCAGATCTGACACTCCTGTGCT
1 AAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCT
* *
18181741 TACAGCGAAGCAGATCGAAGATTTTAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAGCAGATCGAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
** * * *
18181806 TTCAGCA-TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAG
131 AGCAG-ATTGGCATCCCTGTGTTTATAGAGAACAAATCGAAGATAG
* * *
18181851 CAGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCT
1 AAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCT
*
18181916 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAGCAGATCGAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
18181981 AGCAGATTTGGCATCCCTGTGTTTATAGAGAACAAATCGAAGATAG
131 AGCAGA-TTGGCATCCCTGTGTTTATAGAGAACAAATCGAAGATAG
18182027 AAGAT
1 AAGAT
18182032 CTGATATTCC
Statistics
Matches: 166, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
174 1 0.01
175 126 0.76
176 39 0.23
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (175 bp):
AAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCT
TACAGCGAAGCAGATCGAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
AGCAGATTGGCATCCCTGTGTTTATAGAGAACAAATCGAAGATAG
Found at i:18181970 original size:132 final size:132
Alignment explanation
Indices: 18181682--18182155 Score: 625
Period size: 132 Copynumber: 3.6 Consensus size: 132
18181672 AAACAAGATT
* * * * * * *
18181682 TGGCATCCCTGTGTTTATAGGGAACAAATCGCAGATAGCAGATCTGACACTCC-TGTGCTTACAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCA-TCCTTGTGTTTATAG
* * *** * * * * * *
18181746 CGAAGCAGATCGAAGATTTTA-A-CATGGCATCCCTGTGTTTATAGGGAA-CA-AGTTGAAGATT
65 GGAA-CAAATCGAAGATAGAAGATC-TGACATTCCTGTGCTTACAGCGAAGCAGA-TAGAAGATT
18181807 TCAGCA
127 TCAGCA
18181813 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGTTTATAGG
* *
18181878 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
66 GAACAAATCGAAGATAGAAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATAGAAGATTTCAG
18181943 CA
131 CA
* * *
18181945 TGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGA
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGTTTATAGG
* *
18182010 GAACAAATCGAAGATAGAAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATAGAAGATTTCAG
66 GAACAAATCGAAGATAGAAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATAGAAGATTTCAG
18182075 CA
131 CA
* * *
18182077 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGCTTACAAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGTTTATAGG
18182142 GAACAAATCGAAGA
66 GAACAAATCGAAGA
18182156 CATAGCTGAT
Statistics
Matches: 307, Mismatches: 31, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
130 15 0.05
131 76 0.25
132 215 0.70
133 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGTTTATAGG
GAACAAATCGAAGATAGAAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATAGAAGATTTCAG
CA
Found at i:18182480 original size:206 final size:206
Alignment explanation
Indices: 18182117--18182850 Score: 1184
Period size: 206 Copynumber: 3.6 Consensus size: 206
18182107 GAAGATAGCA
*
18182117 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
18182181 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * *
18182246 CGTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTGGA-CTTCATATGTTTATACTAAAG
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCT-AACCTTCAGATGTTTATACTGAAG
*
18182310 CAGATCCAAGGT
195 CAGATCCAAGAT
18182322 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
18182387 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGATAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* *
18182452 CGTCTCCATATTCGACGGAGAACAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGT
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
18182517 AGATTCAAGAT
196 AGATCCAAGAT
* * *
18182528 GATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGTTTTCACATGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
18182593 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * *
18182658 CGTCTCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
18182723 AGATCCAAGAT
196 AGATCCAAGAT
* * * ** * * * *
18182734 GGTTTGGTATCCTTGTGATTACAAGGTGCAAATCGAAGACATAGTTAATTTGGTTTTCGCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
18182799 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACA
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACA
18182851 GATCAAAGAT
Statistics
Matches: 492, Mismatches: 35, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
205 62 0.13
206 430 0.87
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGAT
Found at i:18182878 original size:44 final size:45
Alignment explanation
Indices: 18182821--18182912 Score: 123
Period size: 45 Copynumber: 2.1 Consensus size: 45
18182811 AATCTAAGAT
*
18182821 GATTTGGCATCTCTGTATT-GTCAGAAAACAGATCAAAGATAACA
1 GATTTGGCATCTCTGTATTAGACAGAAAACAGATCAAAGATAACA
* ** * *
18182865 GATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACAGAAAACAGATCAAAGATAACA
18182910 GAT
1 GAT
18182913 ATCGCCTTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACAGAAAACAGATCAAAGATAACA
Found at i:18183270 original size:19 final size:19
Alignment explanation
Indices: 18183246--18183343 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
18183236 AATCTTTAAG
18183246 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18183265 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
18183284 GATA--CAATCTTGGATAT
1 GATATGCAATCTTAGATAT
18183301 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
18183320 GATATACAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
18183341 GAT
1 GAT
18183344 CTTGTAATCT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 47 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:18183276 original size:36 final size:35
Alignment explanation
Indices: 18183236--18183321 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 35
18183226 ATGGCAATAT
18183236 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATATGC
*
18183272 AATC-TTAGATATGATACAATCTTGGATATGATATGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATATGC
18183308 AATC-TTAGATATGA
1 AATCTTTAGATATGA
18183322 TATACAATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 36 0.78
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATATGC
Found at i:18183322 original size:36 final size:37
Alignment explanation
Indices: 18183252--18183343 Score: 141
Period size: 36 Copynumber: 2.4 Consensus size: 37
18183242 TAAGGATATG
*
18183252 CAATCTTAGATATGATATGCAATCTTAGATATG-ATA
1 CAATCTTGGATATGATATGCAATCTTAGATATGAATA
18183288 CAATCTTGGATATGATATGCAATCTTAGATATGATATA
1 CAATCTTGGATATGATATGCAATCTTAGATATGA-ATA
18183326 CAATCTTGAAGATATGAT
1 CAATCTTG--GATATGAT
18183344 CTTGTAATCT
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 32 0.63
38 11 0.22
40 8 0.16
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (37 bp):
CAATCTTGGATATGATATGCAATCTTAGATATGAATA
Found at i:18185800 original size:31 final size:31
Alignment explanation
Indices: 18185780--18185851 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
18185770 CATCTACTAC
*
18185780 ATTAGACATTTCATTAAAGTACAGGTATCAA
1 ATTAGACATTTCATTAAAGTACAGCTATCAA
*
18185811 ATTAGACATTTCATTAAAGTACAGGTATCAA
1 ATTAGACATTTCATTAAAGTACAGCTATCAA
18185842 ATGT-GACATT
1 AT-TAGACATT
18185852 ATCTTCTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 39 0.98
32 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (31 bp):
ATTAGACATTTCATTAAAGTACAGCTATCAA
Found at i:18189861 original size:11 final size:10
Alignment explanation
Indices: 18189774--18189857 Score: 63
Period size: 10 Copynumber: 8.7 Consensus size: 10
18189764 TTAATTTTTT
18189774 AAAATT-TTA
1 AAAATTATTA
*
18189783 AAAATTCA-AA
1 AAAATT-ATTA
18189793 AAAATTA-TA
1 AAAATTATTA
*
18189802 AAAACTATTTTA
1 AAAA-T-TATTA
18189814 AAAATT-TT-
1 AAAATTATTA
*
18189822 AAAATCATT-
1 AAAATTATTA
*
18189831 AAAGTTATTA
1 AAAATTATTA
18189841 AAAATTATTA
1 AAAATTATTA
18189851 AAAATTA
1 AAAATTA
18189858 ATTAGATGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.08
9 23 0.38
10 25 0.41
11 2 0.03
12 6 0.10
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (10 bp):
AAAATTATTA
Found at i:18194566 original size:17 final size:17
Alignment explanation
Indices: 18194546--18194598 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
18194536 AAAAAAATTA
18194546 TATACTAAGAAAAAGGG
1 TATACTAAGAAAAAGGG
***
18194563 --TA-TAA-AAAAATTA
1 TATACTAAGAAAAAGGG
18194576 TATACTAAGAAAAAGGG
1 TATACTAAGAAAAAGGG
18194593 TATACT
1 TATACT
18194599 TTAAATGCCA
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 5 0.19
14 3 0.12
15 4 0.15
16 3 0.12
17 11 0.42
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.25
Consensus pattern (17 bp):
TATACTAAGAAAAAGGG
Found at i:18194572 original size:30 final size:30
Alignment explanation
Indices: 18194536--18194596 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
18194526 ATTTGAACGA
18194536 AAAAAAATTATATACTAAGAAAAAGGGTAT
1 AAAAAAATTATATACTAAGAAAAAGGGTAT
18194566 AAAAAAATTATATACTAAGAAAAAGGGTAT
1 AAAAAAATTATATACTAAGAAAAAGGGTAT
18194596 A
1 A
18194597 CTTTAAATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.23
Consensus pattern (30 bp):
AAAAAAATTATATACTAAGAAAAAGGGTAT
Found at i:18199065 original size:22 final size:22
Alignment explanation
Indices: 18199040--18199081 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18199030 ACAAATTCGA
18199040 AAATAAAAAAGAAAAAATAAGT
1 AAATAAAAAAGAAAAAATAAGT
* * *
18199062 AAATAGAAAGGAAATAATAA
1 AAATAAAAAAGAAAAAATAA
18199082 TGATGTAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (22 bp):
AAATAAAAAAGAAAAAATAAGT
Found at i:18199859 original size:22 final size:23
Alignment explanation
Indices: 18199834--18199879 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
18199824 TAATTTTCAA
* *
18199834 AAAAAAT-AATAAAATCTTAAAT
1 AAAAAATGAATAAAAACATAAAT
18199856 -AAAAATGAATAAAAACATAAAT
1 AAAAAATGAATAAAAACATAAAT
18199878 AA
1 AA
18199880 GTAAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
21 6 0.30
22 13 0.65
23 1 0.05
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAAATGAATAAAAACATAAAT
Found at i:18202063 original size:14 final size:14
Alignment explanation
Indices: 18202044--18202072 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18202034 CATCATTCTT
18202044 ATCCCTTTTCAATG
1 ATCCCTTTTCAATG
18202058 ATCCCTTTTCAATG
1 ATCCCTTTTCAATG
18202072 A
1 A
18202073 GAAAATGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.07, T:0.41
Consensus pattern (14 bp):
ATCCCTTTTCAATG
Found at i:18205475 original size:15 final size:16
Alignment explanation
Indices: 18205455--18205487 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18205445 TATCTTTACT
18205455 ATTA-TTTTGATTTTA
1 ATTATTTTTGATTTTA
*
18205470 ATTATTTTTTATTTTA
1 ATTATTTTTGATTTTA
18205486 AT
1 AT
18205488 CAAATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
ATTATTTTTGATTTTA
Found at i:18212032 original size:3 final size:3
Alignment explanation
Indices: 18212024--18212057 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18212014 TTACTATATG
18212024 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18212058 CACATATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18213394 original size:42 final size:45
Alignment explanation
Indices: 18213318--18213404 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 45
18213308 AATGATGAAT
* *
18213318 AATGACATAAATTATAATATACATTAACCTTTCATGC-AAATATA
1 AATGACATAAATTATAACATACATTAACATTTCATGCAAAATATA
* *
18213362 AATGACATAAA-TAT-ACATGCATTAATATTTCATGCAAAATATA
1 AATGACATAAATTATAACATACATTAACATTTCATGCAAAATATA
18213405 TCATAGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 17 0.45
43 10 0.26
44 11 0.29
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (45 bp):
AATGACATAAATTATAACATACATTAACATTTCATGCAAAATATA
Found at i:18213991 original size:21 final size:20
Alignment explanation
Indices: 18213966--18214026 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
18213956 TAATAAAATT
18213966 TATAAACAAAATATATAATAA
1 TATAAACAAAATATATAAT-A
*
18213987 TATAAACAATATGATAGATAATA
1 TATAAACAA-A--ATATATAATA
* *
18214010 TATAAATAATATATATA
1 TATAAACAAAATATATA
18214027 CTATTTACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 6 0.18
21 9 0.27
22 1 0.03
23 9 0.27
24 8 0.24
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAACAAAATATATAATA
Found at i:18233969 original size:44 final size:44
Alignment explanation
Indices: 18233864--18233971 Score: 171
Period size: 44 Copynumber: 2.5 Consensus size: 44
18233854 AAATCTCATT
*
18233864 TCCCTGAAGTAGCAGTGAAGCAAATTGAAGTTGAAGATCTTACC
1 TCCCTGAAGTAGCAGTGGAGCAAATTGAAGTTGAAGATCTTACC
* *
18233908 TCCCTGAAGTAGCAGTGGAGCAGATTGAAGTTGAAGATCTTATC
1 TCCCTGAAGTAGCAGTGGAGCAAATTGAAGTTGAAGATCTTACC
* *
18233952 TCCTTGAAGTTGCAGTGGAG
1 TCCCTGAAGTAGCAGTGGAG
18233972 TAGGTCAGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (44 bp):
TCCCTGAAGTAGCAGTGGAGCAAATTGAAGTTGAAGATCTTACC
Found at i:18235172 original size:130 final size:130
Alignment explanation
Indices: 18234810--18235176 Score: 430
Period size: 130 Copynumber: 2.8 Consensus size: 130
18234800 AGAGCCGAGT
* * * * * *
18234810 GAAATTTTGAAGGGATATTTGATTATTTTAAAC-AATCGAGAAATTGCTACCCAACATGTTAGGG
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAAT-GCGAAATTGCAACCCAACACGTTAGGG
* * * * * * * * *
18234874 CACGATCCCATGAATTGTCAAATACCAGATATCGCCTTCGTTTTAGGGACTTTAAAAGACACGAG
65 CACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCGTTTAAGGGACTTTAAAAGACACGAA
18234939 C
130 C
* * *
18234940 GAAATTTTAAAGTGATATTCGATTATTTCGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
* * * * * * * *
18235005 ACGACTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGATATGAAT
66 ACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCGTTTAAGGGACTTTAAAAGACACGAAC
* * *
18235070 GGAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
* * *
18235135 ACGATTCCGTGAATTGCCGAACATCAAATTTTGTCTTCGTTT
66 ACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCGTTT
18235177 TGAAGAATTT
Statistics
Matches: 198, Mismatches: 38, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
130 195 0.98
131 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (130 bp):
GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
ACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCGTTTAAGGGACTTTAAAAGACACGAAC
Found at i:18235531 original size:21 final size:23
Alignment explanation
Indices: 18235481--18235531 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
18235471 ACGATAATGT
* *
18235481 ACATAGCATGATATAGAATAACG
1 ACATAGCAAGATATAGAATAACA
18235504 A-AT-GCAAGATATA-AA-AACA
1 ACATAGCAAGATATAGAATAACA
18235523 ACATAGCAA
1 ACATAGCAA
18235532 TTAGAAGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 13 0.54
22 2 0.08
23 1 0.04
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.18
Consensus pattern (23 bp):
ACATAGCAAGATATAGAATAACA
Found at i:18238586 original size:44 final size:44
Alignment explanation
Indices: 18238477--18238595 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 44
18238467 AGCCACCAGC
** * * * *
18238477 CTTATCTCCCCGAAGTAGCAATAGAGCAGATTGAAATTGAAGAT
1 CTTATCTCCTTGAAGTAGCAGTGGAGCAGATTGAAGTTGAACAT
18238521 CTTATCTCTCTT-AAGTAGCAGTGGAGCAGATTGAAGTTGAACAT
1 CTTATCTC-CTTGAAGTAGCAGTGGAGCAGATTGAAGTTGAACAT
* *
18238565 CTTATCTCCTTGAAGTTGCAGTGGAGTAGAT
1 CTTATCTCCTTGAAGTAGCAGTGGAGCAGAT
18238596 CAGATATGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
43 3 0.05
44 61 0.94
45 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
CTTATCTCCTTGAAGTAGCAGTGGAGCAGATTGAAGTTGAACAT
Found at i:18238671 original size:44 final size:43
Alignment explanation
Indices: 18238622--18238727 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 43
18238612 TATCTTCTTG
** **
18238622 AAGTTGCAGCGAAGCAGATTGAAGCCACCGGCCTTATCTCCCT
1 AAGTTGCAGCGAAGCAGACGGAAGCCACAAGCCTTATCTCCCT
* * * *
18238665 AAAGTTGCAGCGGAGTAGACGGAAGTCACAAGTCTTATCTCCCT
1 -AAGTTGCAGCGAAGCAGACGGAAGCCACAAGCCTTATCTCCCT
*
18238709 AAGATGCAGCGAAGCAGAC
1 AAGTTGCAGCGAAGCAGAC
18238728 TATAGATAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
43 16 0.31
44 35 0.69
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.19
Consensus pattern (43 bp):
AAGTTGCAGCGAAGCAGACGGAAGCCACAAGCCTTATCTCCCT
Found at i:18240705 original size:3 final size:3
Alignment explanation
Indices: 18240697--18240733 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
18240687 TTACTATATG
18240697 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18240734 CACAGATCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18243858 original size:29 final size:31
Alignment explanation
Indices: 18243796--18243863 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 31
18243786 ATATAATCAC
* *
18243796 AATTCACATC-TTTAAAATTCGAATTTTGGT
1 AATTCATATCTTTTAAAATTCGAATTTTGCT
*
18243826 -ATTCATATCTTTTAAAATT-TAATTTT-CT
1 AATTCATATCTTTTAAAATTCGAATTTTGCT
18243854 AATTC-TATCT
1 AATTCATATCT
18243864 ATTACTTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 6 0.18
29 18 0.55
30 9 0.27
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.50
Consensus pattern (31 bp):
AATTCATATCTTTTAAAATTCGAATTTTGCT
Found at i:18249652 original size:19 final size:20
Alignment explanation
Indices: 18249624--18249662 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
18249614 TCTCATTATT
18249624 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
18249643 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
18249663 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:18249680 original size:25 final size:23
Alignment explanation
Indices: 18249643--18249688 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
18249633 TTTGTTTTAA
*
18249643 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
18249666 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
18249689 GTTAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:18250197 original size:15 final size:16
Alignment explanation
Indices: 18250177--18250209 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
18250167 ATATATATTT
18250177 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
18250192 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
18250209 T
1 T
18250210 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:18250295 original size:22 final size:22
Alignment explanation
Indices: 18250256--18250314 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
18250246 GTTTTAAGAA
*
18250256 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
18250277 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
18250299 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
18250315 AATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:18250331 original size:26 final size:24
Alignment explanation
Indices: 18250285--18250343 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
18250275 ATTTGTTTTA
*
18250285 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
18250309 ATATTTAATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
*
18250335 -TTTTTATTT
1 ATATTTATTT
18250344 AATGAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 8 0.26
26 13 0.42
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:18251047 original size:17 final size:17
Alignment explanation
Indices: 18251025--18251059 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18251015 ACTAAAAACT
18251025 ACAAAAA-AAAAAGTAAA
1 ACAAAAACAAAAA-TAAA
18251042 ACAAAAACAAAAATAAA
1 ACAAAAACAAAAATAAA
18251059 A
1 A
18251060 TAAATGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.83, C:0.09, G:0.03, T:0.06
Consensus pattern (17 bp):
ACAAAAACAAAAATAAA
Found at i:18251074 original size:23 final size:24
Alignment explanation
Indices: 18251019--18251074 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
18251009 TACACCACTA
18251019 AAAACTACAAAAAAAAAAGTAAAAC
1 AAAAC-ACAAAAAAAAAAGTAAAAC
* **
18251044 AAAA-ACAAAAATAAAA-TAAATG
1 AAAACACAAAAAAAAAAGTAAAAC
18251066 AAAACACAA
1 AAAACACAA
18251075 GCCTAAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 8 0.30
23 15 0.56
25 4 0.15
ACGTcount: A:0.77, C:0.11, G:0.04, T:0.09
Consensus pattern (24 bp):
AAAACACAAAAAAAAAAGTAAAAC
Done.