Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 327 of 373
Found at i:109930254 original size:107 final size:107
Alignment explanation
Indices: 109930154--109930347 Score: 289
Period size: 107 Copynumber: 1.8 Consensus size: 107
109930144 CCCGATTTAC
* * * *
109930154 AAAATTATCGAAACACCCCTATAGGGTAAAATTATCGAAATACCCTTATAGGGTAGAATTATCAA
1 AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
*
109930219 AATACCCCTATAGGGTAGAATTATTTAAATACCCCGTAGGGT
66 AATACCCCTATAGGGTAAAATTATTTAAATACCCCGTAGGGT
* * * * * *
109930261 AGAATTACCGAAATACCCCTGTAGGATAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGA
1 AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
109930326 AATACCCCTATAGGGTAAAATT
66 AATACCCCTATAGGGTAAAATT
109930348 CCCGAGATAC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
107 76 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (107 bp):
AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
AATACCCCTATAGGGTAAAATTATTTAAATACCCCGTAGGGT
Found at i:109930278 original size:80 final size:81
Alignment explanation
Indices: 109930162--109930375 Score: 259
Period size: 80 Copynumber: 2.7 Consensus size: 81
109930152 ACAAAATTAT
* * *
109930162 CGAAACACCCCTATAGGGTAAAATTATCGAAATACCCTTATAGGGTAGAATTATCAAAATACCCC
1 CGAAATACCCCTATAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTATCAAAATACCCC
* *
109930227 TATAGGGTAGAATTAT
66 TATAGGGTAGAAATAC
** * * * * * *
109930243 TTAAATACCCC-GTAGGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTATCGAAATACCCT
1 CGAAATACCCCTATAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTATCAAAATACCCC
*
109930307 TGTAGGGTAGAAATAC
66 TATAGGGTAGAAATAC
* * * *
109930323 CGAAATACCCCTATAGGGTAAAATTCCCGAGATACCCTTGTGGGGTAAAATTA
1 CGAAATACCCCTATAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTA
109930376 CCATTTTGCC
Statistics
Matches: 108, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
80 67 0.62
81 41 0.38
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
CGAAATACCCCTATAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTATCAAAATACCCC
TATAGGGTAGAAATAC
Found at i:109930358 original size:107 final size:108
Alignment explanation
Indices: 109930154--109930377 Score: 279
Period size: 107 Copynumber: 2.1 Consensus size: 108
109930144 CCCGATTTAC
* * * *
109930154 AAAATTATCGAAACACCCCTATAGGGTAAAATTATCGAAATACCCTTATAGGGTAGAATTATCAA
1 AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
* ***
109930219 AATACCCCTATAGGGTAGAATTATTTAAATACCC-CGTAGGGT
66 AATACCCCTATAGGGTAAAATTACCGAAATACCCTCGTAGGGT
* * * * * *
109930261 AGAATTACCGAAATACCCCTGTAGGATAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGA
1 AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
* * * *
109930326 AATACCCCTATAGGGTAAAATTCCCGAGATACCCTTGTGGGGT
66 AATACCCCTATAGGGTAAAATTACCGAAATACCCTCGTAGGGT
109930369 AAAATTACC
1 AAAATTACC
109930378 ATTTTGCCCC
Statistics
Matches: 97, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
107 83 0.86
108 14 0.14
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (108 bp):
AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
AATACCCCTATAGGGTAAAATTACCGAAATACCCTCGTAGGGT
Found at i:109936201 original size:27 final size:27
Alignment explanation
Indices: 109936165--109936441 Score: 301
Period size: 27 Copynumber: 10.3 Consensus size: 27
109936155 TTAGTTTACC
* *
109936165 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
109936192 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
*
109936219 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
109936246 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
109936273 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
109936300 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
109936327 AAATTACCGAAATA-CCTCCGATTTGCA
1 AAATTACCAAAATACCCT-CGATTTGTA
** *
109936354 AAATTACTGAAATACCC-CAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
109936380 AAATTACTAAAATACCTTCAACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
109936407 AAATTACCAAAGTACCCCCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
109936434 AAATTACC
1 AAATTACC
109936442 GTTTTACCCT
Statistics
Matches: 220, Mismatches: 24, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
26 27 0.12
27 190 0.86
28 3 0.01
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:109936891 original size:33 final size:32
Alignment explanation
Indices: 109936842--109936905 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
109936832 CTCGTTGCAA
* *
109936842 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
109936875 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
109936906 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:109946270 original size:39 final size:40
Alignment explanation
Indices: 109946169--109946313 Score: 238
Period size: 40 Copynumber: 3.6 Consensus size: 40
109946159 GCCATTCGTT
* ** *
109946169 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAGTTCGCC
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
109946209 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
109946249 CAAATG-CTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
109946288 CAAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
109946314 ATTATCATCC
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 38 0.39
40 60 0.61
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:109955405 original size:29 final size:29
Alignment explanation
Indices: 109955372--109955445 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
109955362 GTTGTGAGAT
* *
109955372 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
109955401 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
109955430 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
109955446 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:109957659 original size:40 final size:39
Alignment explanation
Indices: 109957491--109957655 Score: 206
Period size: 40 Copynumber: 4.1 Consensus size: 39
109957481 CGGGCTTTAA
* **
109957491 CCGGATATAGCCACTCGTTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
109957531 CCAGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
* *
109957571 CCGGATATAGTGACTCGCACAAATGCCTTTGGCACTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
*
109957611 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
109957651 CCGGA
1 CCGGA
109957656 ATTATCATCC
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.02
40 106 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:109967376 original size:20 final size:20
Alignment explanation
Indices: 109967351--109967400 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
109967341 ATAGGGAAAT
109967351 ATCGATACCTGATTATCAGG
1 ATCGATACCTGATTATCAGG
109967371 ATCGATACCTGATTATCAGG
1 ATCGATACCTGATTATCAGG
*
109967391 ATTGATACCT
1 ATCGATACCT
109967401 ATGAACATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (20 bp):
ATCGATACCTGATTATCAGG
Found at i:109970029 original size:48 final size:48
Alignment explanation
Indices: 109969971--109970067 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
109969961 ATCCGGCATC
109969971 AGCCCCAAAATCACTTATGTTTGACCCACCCTAGTAACTTGATGACAT
1 AGCCCCAAAATCACTTATGTTTGACCCACCCTAGTAACTTGATGACAT
* * *
109970019 AGCCCTAAAATCACTTATGTTTGATCCACCTTAGTAACTTGATGACAT
1 AGCCCCAAAATCACTTATGTTTGACCCACCCTAGTAACTTGATGACAT
109970067 A
1 A
109970068 CCTACCTGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (48 bp):
AGCCCCAAAATCACTTATGTTTGACCCACCCTAGTAACTTGATGACAT
Found at i:109978642 original size:43 final size:42
Alignment explanation
Indices: 109978594--109978681 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
109978584 ACATGGGATT
*
109978594 TCATATCAATGCTAATAGCCCAGCTATGGTCTTACACGAAATC
1 TCATATCAATG-TAATAGCCCAGATATGGTCTTACACGAAATC
* * * *
109978637 TCATATCGATGTCATATCTCAGATATGGTCTTACACGAAATC
1 TCATATCAATGTAATAGCCCAGATATGGTCTTACACGAAATC
109978679 TCA
1 TCA
109978682 ACTAACCCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 30 0.75
43 10 0.25
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (42 bp):
TCATATCAATGTAATAGCCCAGATATGGTCTTACACGAAATC
Found at i:109986492 original size:18 final size:21
Alignment explanation
Indices: 109986469--109986506 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
109986459 TATTTCATTG
109986469 TTTTT-ATTT-TT-ATTTTTT
1 TTTTTAATTTCTTCATTTTTT
109986487 TTTTTAATTTCTTCATTTTT
1 TTTTTAATTTCTTCATTTTT
109986507 CTTATTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 2 0.12
21 6 0.35
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTAATTTCTTCATTTTTT
Found at i:109987599 original size:13 final size:13
Alignment explanation
Indices: 109987581--109987611 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
109987571 CTATTTGTCC
109987581 TTATTTATTTTAT
1 TTATTTATTTTAT
109987594 TTATTTATTTTAT
1 TTATTTATTTTAT
109987607 TTATT
1 TTATT
109987612 ATTCATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTATTTTAT
Found at i:109987670 original size:24 final size:25
Alignment explanation
Indices: 109987640--109987689 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
109987630 GAAATGTATA
109987640 TTTAAAATGTTT-TATA-ATATATTT
1 TTTAAAAT-TTTATATATATATATTT
109987664 TTTAAAATTTTATATATATATATTT
1 TTTAAAATTTTATATATATATATTT
109987689 T
1 T
109987690 AAATTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 3 0.12
24 12 0.50
25 9 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAAAATTTTATATATATATATTT
Found at i:109987689 original size:23 final size:24
Alignment explanation
Indices: 109987636--109987692 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
109987626 ATTTGAAATG
109987636 TATA-TTTAAAATGTTTTATAATA
1 TATATTTTAAAATGTTTTATAATA
*
109987659 TATTTTTTAAAA--TTTTATATATA
1 TATATTTTAAAATGTTTTATA-ATA
109987682 TATATTTTAAA
1 TATATTTTAAA
109987693 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 7 0.23
23 16 0.53
24 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TATATTTTAAAATGTTTTATAATA
Found at i:109987694 original size:22 final size:22
Alignment explanation
Indices: 109987623--109987692 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
109987613 TTCATTTTAA
* *
109987623 AAAATTTGA-AATGTATA-TTT
1 AAAATTTTATAATATATATTTT
*
109987643 AAAATGTTTTATAATATATTTTTT
1 AAAA--TTTTATAATATATATTTT
109987667 AAAATTTTATATATATATATTTT
1 AAAATTTTATA-ATATATATTTT
109987690 AAA
1 AAA
109987693 TTATTTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.10
22 11 0.27
23 19 0.46
24 7 0.17
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
AAAATTTTATAATATATATTTT
Found at i:109987708 original size:20 final size:20
Alignment explanation
Indices: 109987685--109987741 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
109987675 ATATATATAT
109987685 ATTTTAAATTATTTTTTAAA
1 ATTTTAAATTATTTTTTAAA
109987705 ATTTTAAA-T-TTTTTT-AA
1 ATTTTAAATTATTTTTTAAA
*
109987722 ATATTAAATATATTTTTTAA
1 ATTTTAAAT-TATTTTTTAA
109987742 TAATATCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 9 0.28
18 6 0.19
19 2 0.06
20 14 0.44
21 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTAAATTATTTTTTAAA
Found at i:109987717 original size:17 final size:17
Alignment explanation
Indices: 109987695--109987730 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
109987685 ATTTTAAATT
*
109987695 ATTTTTTAAAATTTTAA
1 ATTTTTTAAAATATTAA
*
109987712 ATTTTTTTAAATATTAA
1 ATTTTTTAAAATATTAA
109987729 AT
1 AT
109987731 ATATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTTTAAAATATTAA
Found at i:109987743 original size:19 final size:18
Alignment explanation
Indices: 109987688--109987743 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
109987678 TATATATATT
*
109987688 TTAAATTATTTTTTAAAATT
1 TTAAATTATTTTTT--AATA
*
109987708 TTAAATT-TTTTTAAATA
1 TTAAATTATTTTTTAATA
109987725 TTAAATATATTTTTTAATA
1 TTAAAT-TATTTTTTAATA
109987744 ATATCAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 9 0.29
18 1 0.03
19 14 0.45
20 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATTATTTTTTAATA
Found at i:109987768 original size:39 final size:39
Alignment explanation
Indices: 109987639--109987773 Score: 95
Period size: 37 Copynumber: 3.5 Consensus size: 39
109987629 TGAAATGTAT
* **
109987639 ATTTAAAATGTTTTATAATATATTTTTTAAAAT-T-TTAT-
1 ATTT-AAATATTTTA-AATATATTTTTTAAAATATCAAATC
* * * * *
109987677 ATATATATATTTTAAAT-TATTTTTTAAAATTTTAAATTT
1 ATTTAAATATTTTAAATATATTTTTTAAAATATCAAA-TC
*
109987716 TTTTAAATA--TTAAATATATTTTTTAATAATATCAAA-C
1 ATTTAAATATTTTAAATATATTTTTTAA-AATATCAAATC
*
109987753 ATTTAAATATTTTAAAGATAT
1 ATTTAAATATTTTAAATATAT
109987774 GACCTTTCAA
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
35 13 0.17
36 4 0.05
37 23 0.30
38 14 0.18
39 22 0.29
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (39 bp):
ATTTAAATATTTTAAATATATTTTTTAAAATATCAAATC
Found at i:109987835 original size:16 final size:16
Alignment explanation
Indices: 109987796--109987844 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
109987786 TTATTATTAG
109987796 TTTTATAATATTTTAAA
1 TTTTA-AATATTTTAAA
*
109987813 -TGT--ATATTTTAAA
1 TTTTAAATATTTTAAA
*
109987826 TTTTAAATATTTTTAA
1 TTTTAAATATTTTAAA
109987842 TTT
1 TTT
109987845 ATTTTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
16 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTAAATATTTTAAA
Found at i:109987835 original size:29 final size:29
Alignment explanation
Indices: 109987782--109987857 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
109987772 ATGACCTTTC
* *
109987782 AAATTTATTAT-TAGTTTTATAATATTTT
1 AAATTTATTTTATAATTTTATAATATTTT
109987810 AAATGTATATTTTA-AATTTTA-AATATTTT
1 AAAT-T-TATTTTATAATTTTATAATATTTT
*
109987839 TAATTTATTTTATAATTTT
1 AAATTTATTTTATAATTTT
109987858 TTAAATTATG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
27 7 0.17
28 11 0.27
29 12 0.29
30 11 0.27
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (29 bp):
AAATTTATTTTATAATTTTATAATATTTT
Found at i:109987848 original size:20 final size:22
Alignment explanation
Indices: 109987825--109987886 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 22
109987815 TATATTTTAA
109987825 ATTTTAAATATTTTTAATT-T-
1 ATTTTAAATATTTTTAATTATG
109987845 ATTTTATAAT-TTTTTAAATTATG
1 ATTTTA-AATATTTTT-AATTATG
109987868 ATTTTTAAATTATTTTTAA
1 A-TTTTAAA-TATTTTTAA
109987887 AGATATTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
20 11 0.31
21 7 0.20
22 1 0.03
23 3 0.09
24 8 0.23
25 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTAAATATTTTTAATTATG
Found at i:109987858 original size:29 final size:30
Alignment explanation
Indices: 109987796--109987863 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
109987786 TTATTATTAG
109987796 TTTTATAATATTTTAAATGTATATTTTAAA-
1 TTTTA-AATATTTTAAATGTATATTTTAAAT
*
109987826 TTTTAAATATTTTTAAT-T-TATTTTATAATT
1 TTTTAAATATTTTAAATGTATATTTTA-AA-T
109987856 TTTTAAAT
1 TTTTAAAT
109987864 TATGATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 7 0.21
28 3 0.09
29 11 0.32
30 13 0.38
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTTAAATATTTTAAATGTATATTTTAAAT
Found at i:109987887 original size:11 final size:11
Alignment explanation
Indices: 109987826--109987887 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 11
109987816 ATATTTTAAA
109987826 TTTTAAA-TAT
1 TTTTAAATTAT
*
109987836 TTTTAATTTA-
1 TTTTAAATTAT
109987846 TTTTATAA-T-T
1 TTTTA-AATTAT
109987856 TTTTAAATTATGAT
1 TTTTAAA-T-T-AT
109987870 TTTTAAATTAT
1 TTTTAAATTAT
109987881 TTTTAAA
1 TTTTAAA
109987888 GATATTCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
9 2 0.05
10 17 0.40
11 12 0.29
12 2 0.05
13 1 0.02
14 8 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TTTTAAATTAT
Found at i:109988039 original size:15 final size:17
Alignment explanation
Indices: 109988003--109988039 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
109987993 TTATTTGTTA
109988003 AAAAATATGACTATATT
1 AAAAATATGACTATATT
*
109988020 TAAAATAT-AC-ATATT
1 AAAAATATGACTATATT
109988035 AAAAA
1 AAAAA
109988040 ATAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.50
16 2 0.11
17 7 0.39
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAAATATGACTATATT
Found at i:109989268 original size:44 final size:44
Alignment explanation
Indices: 109989217--109989300 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
109989207 TATGAGGCAA
* * *
109989217 CTGAACTCATTGAATTGTTTCGAGTTCATTATGGACGCGAGCAT
1 CTGAACTCATTGAATTGGTCCGAGTTCATAATGGACGCGAGCAT
* *
109989261 CTGAACTCGTTGAATTGGTCCGAGTTCATAATGGATGCGA
1 CTGAACTCATTGAATTGGTCCGAGTTCATAATGGACGCGA
109989301 TATATGTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
CTGAACTCATTGAATTGGTCCGAGTTCATAATGGACGCGAGCAT
Found at i:110000477 original size:56 final size:59
Alignment explanation
Indices: 110000354--110000478 Score: 141
Period size: 58 Copynumber: 2.2 Consensus size: 59
110000344 ACTTAATCAC
* *
110000354 TTTAATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAACATTA
1 TTTAATATTAAATTAATAAAATACTTATCAAGATAAATATAAGATTAAATTTAACATTA
** * * * * *
110000413 AAT-CTATTAAATTAATAAAATATTTATCTATA-AAATA-AATATTAAATTTAA-ATTA
1 TTTAATATTAAATTAATAAAATACTTATCAAGATAAATATAAGATTAAATTTAACATTA
110000468 TTTAATATTAA
1 TTTAATATTAA
110000479 GATAATCACA
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
55 5 0.09
56 18 0.34
57 5 0.09
58 24 0.45
59 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (59 bp):
TTTAATATTAAATTAATAAAATACTTATCAAGATAAATATAAGATTAAATTTAACATTA
Found at i:110001007 original size:19 final size:19
Alignment explanation
Indices: 110000969--110001008 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
110000959 AAAATATCAT
*
110000969 ATTAATTTTAATTAATTTG
1 ATTAATTTTAATTAACTTG
* *
110000988 ATTAATTTTATTTTACTTG
1 ATTAATTTTAATTAACTTG
110001007 AT
1 AT
110001009 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTAACTTG
Found at i:110003498 original size:15 final size:15
Alignment explanation
Indices: 110003476--110003513 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
110003466 TTTCAAATGA
110003476 TTTT-ATTTCTCCAT
1 TTTTCATTTCTCCAT
*
110003490 TTTTCATTT-TTCAT
1 TTTTCATTTCTCCAT
110003504 TTTTCATTTC
1 TTTTCATTTC
110003514 GGAGAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTCATTTCTCCAT
Found at i:110003506 original size:6 final size:7
Alignment explanation
Indices: 110003487--110003512 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
110003477 TTTATTTCTC
110003487 CATTTTT
1 CATTTTT
110003494 CATTTTT
1 CATTTTT
110003501 CATTTTT
1 CATTTTT
110003508 CATTT
1 CATTT
110003513 CGGAGAAAAT
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:0.15, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:110004880 original size:26 final size:28
Alignment explanation
Indices: 110004837--110004892 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 28
110004827 AAGATTGTTA
*
110004837 AAACTCTTCTAAAAGAAAACTTAAAGAG
1 AAACTCTTCTAAAAGAAAACTCAAAGAG
110004865 AAACT-TT-TAAAAGAAAACTCAAAGAG
1 AAACTCTTCTAAAAGAAAACTCAAAGAG
110004891 AA
1 AA
110004893 TTTTATTAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 20 0.74
27 2 0.07
28 5 0.19
ACGTcount: A:0.57, C:0.12, G:0.11, T:0.20
Consensus pattern (28 bp):
AAACTCTTCTAAAAGAAAACTCAAAGAG
Found at i:110007001 original size:47 final size:46
Alignment explanation
Indices: 110006889--110007159 Score: 266
Period size: 47 Copynumber: 5.8 Consensus size: 46
110006879 GATTACTTGT
* * * *
110006889 GTGCCAGTGTAAGACATGTCTGGGACATGCAT-TA-GCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACG-TAGA-GATGA
*
110006935 GTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACGTAGAGATGA
* *
110006983 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACGTAGA-GATGA
*
110007030 -TAGCCAGTGTAAGACATGTCTGGGACATGCATCGAC-TA-AGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGACGTAGAGATG-A
* * * *
110007074 GTGCTAGTGTAAGACATGTCTAGGACATGCATCAGCACGTATATATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-G-ACGTAGAGATGA
* * *
110007122 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGAC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
110007160 AACTTATCCC
Statistics
Matches: 195, Mismatches: 15, Indels: 28
0.82 0.06 0.12
Matches are distributed among these distances:
43 1 0.01
44 31 0.16
45 3 0.02
46 29 0.15
47 67 0.34
48 39 0.20
49 19 0.10
50 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACGTAGAGATGA
Found at i:110007054 original size:94 final size:92
Alignment explanation
Indices: 110006889--110007159 Score: 336
Period size: 94 Copynumber: 2.9 Consensus size: 92
110006879 GATTACTTGT
*
110006889 GTGCCAGTGTAAGACATGTCTGGGACATGCATTAGCCAC-ATTATGAGT-GCCAGTGTAAGACCA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCA-CCACGATTATGA-TAGCCAGTGTAAGACCA
*
110006952 TGTTTGGGACATGGCATCGACGT-AGAGATGA
64 TGTCTGGGACATGGCATCGAC-TAAGAG-T-A
* *
110006983 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATGATGATAGCCAGTGTAAGA-CAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-ACCACGATTATGATAGCCAGTGTAAGACCAT
*
110007047 GTCTGGGACAT-GCATCGACTAAGAGTT
65 GTCTGGGACATGGCATCGACTAAGAGTA
* * * * *
110007074 GTGCTAGTGTAAGACATGTCTAGGACATGCATCAGCACGTATATATGAGAGCTAGTGTAAGACCA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCACCACG-AT-TATGATAGCCAGTGTAAGACCA
*
110007139 TGTCTAGGACATGGCATCGAC
64 TGTCTGGGACATGGCATCGAC
110007160 AACTTATCCC
Statistics
Matches: 156, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
90 4 0.03
91 33 0.21
92 18 0.12
93 25 0.16
94 57 0.37
95 19 0.12
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (92 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCACCACGATTATGATAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGACTAAGAGTA
Found at i:110007156 original size:141 final size:139
Alignment explanation
Indices: 110006891--110007159 Score: 332
Period size: 141 Copynumber: 1.9 Consensus size: 139
110006881 TTACTTGTGT
* *
110006891 GCCAGTGTAAGACATGTCTGGGACATGCATTAGCCACATTATGAGTGCCAGTGTAAGACCATGTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATTA-CCACA-TAAGAGTGCCAGTGTAAGACCATGTC
* * *
110006956 TGGGACATGGCATCGACGTAGAGATGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCT
64 TAGGACATGGCATCGACGTAGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCT
110007021 CGATGATGATA
129 CGATGATGATA
* *
110007032 GCCAGTGTAAGACATGTCTGGGACATGCA-T-CGAC-TAAGAGTTGTGCTAGTGTAAGA-CATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATTACCACATAAGA---GTGCCAGTGTAAGACCATGT
* * *
110007093 CTAGGACAT-GCATCAGCACGTATATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC
63 CTAGGACATGGCATC-G-ACGTAGAGATGAGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATC
110007157 GAC
124 GAC
110007160 AACTTATCCC
Statistics
Matches: 111, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
136 4 0.04
137 5 0.05
138 16 0.14
139 35 0.32
140 14 0.13
141 37 0.33
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (139 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATTACCACATAAGAGTGCCAGTGTAAGACCATGTCTA
GGACATGGCATCGACGTAGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCTCG
ATGATGATA
Found at i:110008785 original size:35 final size:35
Alignment explanation
Indices: 110008739--110008812 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
110008729 GTTGTATACT
110008739 CTTTATGATGGCTTAGTTGTGATCTTTTAAGAAGG
1 CTTTATGATGGCTTAGTTGTGATCTTTTAAGAAGG
* *
110008774 CTTTATGATGGCTTATTTGTGATCTTTTAGGAAGG
1 CTTTATGATGGCTTAGTTGTGATCTTTTAAGAAGG
110008809 CTTT
1 CTTT
110008813 GATTATATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.20, C:0.09, G:0.24, T:0.46
Consensus pattern (35 bp):
CTTTATGATGGCTTAGTTGTGATCTTTTAAGAAGG
Found at i:110009665 original size:22 final size:23
Alignment explanation
Indices: 110009640--110009682 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
110009630 TGGAATAATT
110009640 ACTTGCTT-AGCTAAATTAGTTA
1 ACTTGCTTCAGCTAAATTAGTTA
* *
110009662 ACTTGGTTCAGCTCAATTAGT
1 ACTTGCTTCAGCTAAATTAGT
110009683 CCATGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (23 bp):
ACTTGCTTCAGCTAAATTAGTTA
Found at i:110010043 original size:54 final size:53
Alignment explanation
Indices: 110009985--110010088 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 53
110009975 GCTTGTAGGT
* **
110009985 GACTATTTAGTTGGAATCAATTATGTACAA-GGGCTGTTACAAAGTAATAAATGC
1 GACTATTCAGTTGGAATCAATTACATACAAGGGGCTGTTAC-AA-TAATAAATGC
**
110010039 GACTATTCAGTTGGAATCGGTTACATACAAGGGGCTGTTACAATAATAAA
1 GACTATTCAGTTGGAATCAATTACATACAAGGGGCTGTTACAATAATAAA
110010089 AGGAGAGCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
53 7 0.16
54 27 0.61
55 10 0.23
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (53 bp):
GACTATTCAGTTGGAATCAATTACATACAAGGGGCTGTTACAATAATAAATGC
Found at i:110011817 original size:31 final size:31
Alignment explanation
Indices: 110011782--110011849 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
110011772 TTTTGTTTTG
*
110011782 GTCACTGAACTATTCGAAAGTTTTCACTTAA
1 GTCACTGAACTATTCAAAAGTTTTCACTTAA
* * * * *
110011813 GTCACAGAGCTATTCAAAATTTTTTATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCACTTAA
110011844 GTCACT
1 GTCACT
110011850 AGGTTGTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTCACTTAA
Found at i:110015901 original size:8 final size:8
Alignment explanation
Indices: 110015888--110015918 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
110015878 AACTCAAAGG
110015888 AAAAAATAA
1 AAAAAAT-A
110015897 AAAAAATA
1 AAAAAATA
110015905 AAAAAATA
1 AAAAAATA
110015913 AAAAAA
1 AAAAAA
110015919 ACTGTTGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:110015902 original size:9 final size:9
Alignment explanation
Indices: 110015888--110015919 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
110015878 AACTCAAAGG
110015888 AAAAAATAA
1 AAAAAATAA
110015897 AAAAAAT-A
1 AAAAAATAA
110015905 AAAAAATAA
1 AAAAAATAA
110015914 AAAAAA
1 AAAAAA
110015920 CTGTTGCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAATAA
Found at i:110016104 original size:18 final size:18
Alignment explanation
Indices: 110016072--110016114 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
110016062 CTAATTCTTT
*
110016072 AAACTAAATATTAAAA-A
1 AAACTAAATAATAAAATA
110016089 AAACTGAAATAATAAAATA
1 AAACT-AAATAATAAAATA
110016108 AAA-TAAA
1 AAACTAAA
110016115 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (18 bp):
AAACTAAATAATAAAATA
Found at i:110019124 original size:282 final size:282
Alignment explanation
Indices: 110018620--110020001 Score: 1801
Period size: 282 Copynumber: 4.9 Consensus size: 282
110018610 CATTGTTTAC
* * * * ** * * * *
110018620 ACCTGAAGAATGCGGCAGCTTAGCTGGATCAGATTCCCGG-CCTTGTTGGACAGCATTATGTA-A
1 ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATT-TCGGAAGTTGTCGAACAGCTTTATCTATA
* * *** *
110018683 TTCCTTCAGAGATCTTGCCTCCACAACAGGTAATTTTGATTTGTTATCTGTGTCATCCTGTG--G
65 -TCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGAT-CTG-GCAG
* * * * * *
110018746 TTCCACAATCATACTTGGAACAATTACTTCCTCAACATCAGCTCCTTCATGCAGTTGCTTAAAAG
127 TTTCTCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAG
*
110018811 CCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAATCTCAGTCTTC
192 CCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAGTCTCAGTCTTC
*
110018876 ATATCTTTTGATGGTTCATTCCTTGA
257 ATATCTTTTGATGATTCATTCCTTGA
* * * *
110018902 ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTCGGAAGTTGTTGAATAGCTTTGTCTATGT
1 ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATAT
*
110018967 CCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGGTCTGGCAGTTTC
66 CCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTC
* *
110019032 TCAATCATACTCGGAACAATTACTTCCTCAATGTCAACTCCTTCATAAAGTTGCTTAAAAGCCAA
131 TCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAA
* * * ** **
110019097 ATCAATATCTTCGGCTGGTCTTGCTTCAAAAACTGGCAGCACCACATTAGTCTTGGTCTTCGCAT
196 ATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAGTCTCAGTCTTCATAT
*
110019162 CTTTTGATGATTCAATCCTTGA
261 CTTTTGATGATTCATTCCTTGA
* ** * * * *
110019184 GCCTGAAGAA--T---A--T--GCTGGATTAGATTTCACAAGTTGTTGAATAGCTTTGTCTAAAT
1 ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATAT
* *
110019240 CCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTATCTCCAAGATCTGGCAGTTTC
66 CCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTC
* * **
110019305 TCAATCATACTCGGAACAATTACTTCCTCGACATTGACTCCTTCATGAAGTTGCTTAAAAGCCAA
131 TCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAA
* * * * *
110019370 ATCAATATCTTCTGCTGACCTTGTTTCAAGAACTGGAAGCACCACATTAGTCTCAGT-ATCGTTA
196 ATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAGTCTCAGTCTTC-ATA
* *
110019434 TCTGTTAATGATTCATTCCTT-A
260 TCTTTTGATGATTCATTCCTTGA
* *
110019456 AGCCTGAAGAATGTGGCGGCTCAGCTGGATTAGA-TTCTGGAAGTTGTCGAACAGCTTTATGTAT
1 A-CCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTC-GGAAGTTGTCGAACAGCTTTATCTAT
*
110019520 ATCCTCCAGAGATCTTGCCTCGACAATAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTT
64 ATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTT
* *
110019585 TCTCGATCATACTTGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCC
129 TCTCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCC
* * * *
110019650 AAATCAATATCTTCAGCTGATCTTGGTTCAAGAA-TAGGCAGCACCACATTAGTCTCAGTTTTCG
194 AAATCAATATCTTCTGCTGATCTTGCTTCAAGAACT-GGCAGCACCACATTAGTCTCAGTCTTCA
110019714 TATCTTTTGATGATTCATTCCTTGA
258 TATCTTTTGATGATTCATTCCTTGA
* * * *
110019739 GCCTGAAGAATGTGGCGGCTCAGCTGGATTAGATTCCGGAAGTTGTCGAACAGCTTTATGTATAT
1 ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATAT
* * *
110019804 CCTCCAGAGACCTTGCCTCGAAAACAGGTAATTTTGATTTGTTACCTCCATGATCTGGCAGTTTC
66 CCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTC
** * * *
110019869 TTGATCATACTCGGAACAGTTACTTCCTCAACGTCGACTCCTTCATGAAGTTGCTTAAAAGTCAA
131 TCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAA
* ** *
110019934 ATAAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACTGCATTAGTCTTC-GCCTTCATA
196 ATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAGTC-TCAGTCTTCATA
110019998 TCTT
260 TCTT
110020002 CCTGTAACAA
Statistics
Matches: 968, Mismatches: 110, Indels: 44
0.86 0.10 0.04
Matches are distributed among these distances:
272 3 0.00
273 237 0.24
275 2 0.00
277 1 0.00
280 3 0.00
281 10 0.01
282 704 0.73
283 8 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (282 bp):
ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATAT
CCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTC
TCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAA
ATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAGTCTCAGTCTTCATAT
CTTTTGATGATTCATTCCTTGA
Found at i:110019692 original size:555 final size:558
Alignment explanation
Indices: 110018669--110019986 Score: 1839
Period size: 555 Copynumber: 2.4 Consensus size: 558
110018659 GCCTTGTTGG
* * * * * **
110018669 ACAGCATTATGTAATTCCTTCAGAGATCTTGCCTCCACAACAGGTAATTTTGATTTGTTATCTGT
1 ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTATCTCC
* * * * * *
110018734 GTCATCCTGTG--GTTCCACAATCATACTTGGAACAATTACTTCCTCAACA-TCAGCTCCTTCAT
66 ATGAT-CTG-GCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGA-CTCCTTCAT
*
110018796 GCAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACA
128 GAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACA
* * * * *
110018861 TTAATCTCAGTCTTCATATCTTTTGATGGTTCATTCCTTGAACCTGAAGAATGTGGCAGCTCAGC
193 TTAGTCTCAGTCATCATATCTGTTAATGATTCATTCCTTGAACCTGAAGAATGTGGCAGCTCAGC
* * * *
110018926 TGGATTAGATTTCGGAAGTTGTTGAATAGCTTTGTCTATGTCCTCCAGAGATCTTGCCTCGACAA
258 TGGATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATATCCTCCAGAGATCTTGCCTCGACAA
*
110018991 CAGGTAATTTTGATTTGTTATCTCCATGGTCTGGCAGTTTCTCAATCATACTCGGAACAATTACT
323 CAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACT
* * *
110019056 TCCTCAATGTCAACTCCTTCATAAAGTTGCTTAAAAGCCAAATCAATATCTTCGGCTGGTCTTGC
388 TCCTCAACGTCAACTCCTTCATAAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGC
**
110019121 TTCAAAAACTGGCAGCACCACATTAGTCTTGGTCTTCGCATCTTTTGATGATTCAATCCTTGAGC
453 TTCAAAAACTGGCAGCACCACATTAGTCTCAGTCTTCGCATCTTTTGATGATTCAATCCTTGAGC
* *
110019186 CTGAAGAA-T-AT-GCTGGATTAGATTTCACAAGTTGTTGA
518 CTGAAGAAGTGATAGCTGGATTAGATTCCACAAGTTGTCGA
* *
110019224 ATAGCTTTGTCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTATCTCC
1 ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTATCTCC
* *
110019289 AAGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCGACATTGACTCCTTCATGAA
66 ATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGACTCCTTCATGAA
* * *
110019354 GTTGCTTAAAAGCCAAATCAATATCTTCTGCTGACCTTGTTTCAAGAACTGGAAGCACCACATTA
131 GTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTA
* *
110019419 GTCTCAGT-ATCGTTATCTGTTAATGATTCATTCCTT-AAGCCTGAAGAATGTGGCGGCTCAGCT
196 GTCTCAGTCATC-ATATCTGTTAATGATTCATTCCTTGAA-CCTGAAGAATGTGGCAGCTCAGCT
*
110019482 GGATTAGA-TTCTGGAAGTTGTCGAACAGCTTTATGTATATCCTCCAGAGATCTTGCCTCGACAA
259 GGATTAGATTTC-GGAAGTTGTCGAACAGCTTTATCTATATCCTCCAGAGATCTTGCCTCGACAA
* * *
110019546 TAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCGATCATACTTGGAACAATTACT
323 CAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACT
* *
110019611 TCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGG
388 TCCTCAACGTCAACTCCTTCATAAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGC
* * * *
110019676 TTCAAGAA-TAGGCAGCACCACATTAGTCTCAGTTTTCGTATCTTTTGATGATTCATTCCTTGAG
453 TTCAAAAACT-GGCAGCACCACATTAGTCTCAGTCTTCGCATCTTTTGATGATTCAATCCTTGAG
* **
110019740 CCTGAAGAATGTGGCGGCTCAGCTGGATTAGATTCCGGAAGTTGTCGA
517 CCTGAAGAA-GT----GAT-AGCTGGATTAGATTCCACAAGTTGTCGA
* * * *
110019788 ACAGCTTTATGTATATCCTCCAGAGACCTTGCCTCGAA-AACAGGTAATTTTGATTTGTTACCTC
1 ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTC-AACAACAGGTAATTTTGATTTGTTATCTC
** * * *
110019852 CATGATCTGGCAGTTTCTTGATCATACTCGGAACAGTTACTTCCTCAACGTCGACTCCTTCATGA
65 CATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGACTCCTTCATGA
* * **
110019917 AGTTGCTTAAAAGTCAAATAAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACTGCATT
130 AGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATT
110019982 AGTCT
195 AGTCT
110019987 TCGCCTTCAT
Statistics
Matches: 673, Mismatches: 73, Indels: 25
0.87 0.09 0.03
Matches are distributed among these distances:
553 1 0.00
554 11 0.02
555 456 0.68
556 2 0.00
557 1 0.00
562 1 0.00
564 199 0.30
565 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (558 bp):
ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTATCTCC
ATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGACTCCTTCATGAA
GTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTA
GTCTCAGTCATCATATCTGTTAATGATTCATTCCTTGAACCTGAAGAATGTGGCAGCTCAGCTGG
ATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATATCCTCCAGAGATCTTGCCTCGACAACAG
GTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCC
TCAACGTCAACTCCTTCATAAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGCTTC
AAAAACTGGCAGCACCACATTAGTCTCAGTCTTCGCATCTTTTGATGATTCAATCCTTGAGCCTG
AAGAAGTGATAGCTGGATTAGATTCCACAAGTTGTCGA
Found at i:110029128 original size:46 final size:47
Alignment explanation
Indices: 110029056--110029194 Score: 147
Period size: 46 Copynumber: 3.0 Consensus size: 47
110029046 GACAGGACAG
* * *
110029056 GACAGAAATGAGCCATGTAAGTCCATATCAG-ATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGAATATATGGCATTGGA
*
110029102 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGA-ATATATGGCATTGGA
* * ** * * * *
110029150 GACAAGAATAATTCATGTAAGTCCATGTC-GAAGACATGGCATTGG
1 GACAGGAATGAGCCATGTAAGCCCATATCAGAATATATGGCATTGG
110029195 CAGGATATTG
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
46 40 0.51
47 2 0.03
48 36 0.46
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (47 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAGAATATATGGCATTGGA
Found at i:110029167 original size:48 final size:46
Alignment explanation
Indices: 110029066--110029175 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 46
110029056 GACAGAAATG
* * *
110029066 AGCCATGTAAGTCCATATCAGATATATGGCTTTGGAGACAGGAATG
1 AGCCATGTAAGTCCATATCAGATATATGGCATTGGAGACAAGAATA
* *
110029112 AGCCATGTAAGCCCATATTAGATATATATGGCATTGGAGACAAGAATA
1 AGCCATGTAAGTCCATATCAG--ATATATGGCATTGGAGACAAGAATA
**
110029160 ATTCATGTAAGTCCAT
1 AGCCATGTAAGTCCAT
110029176 GTCGAAGACA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
46 19 0.35
48 35 0.65
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (46 bp):
AGCCATGTAAGTCCATATCAGATATATGGCATTGGAGACAAGAATA
Found at i:110033466 original size:46 final size:47
Alignment explanation
Indices: 110033394--110033532 Score: 147
Period size: 46 Copynumber: 3.0 Consensus size: 47
110033384 GACAGGACAG
* * *
110033394 GACAGAAATGAGCCATGTAAGTCCATATCAG-ATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGAATATATGGCATTGGA
*
110033440 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGA-ATATATGGCATTGGA
* * ** * * * *
110033488 GACAAGAATAATTCATGTAAGTCCATGTC-GAAGACATGGCATTGG
1 GACAGGAATGAGCCATGTAAGCCCATATCAGAATATATGGCATTGG
110033533 CAGGATATTG
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
46 40 0.51
47 2 0.03
48 36 0.46
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (47 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAGAATATATGGCATTGGA
Found at i:110033505 original size:48 final size:46
Alignment explanation
Indices: 110033404--110033513 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 46
110033394 GACAGAAATG
* * *
110033404 AGCCATGTAAGTCCATATCAGATATATGGCTTTGGAGACAGGAATG
1 AGCCATGTAAGTCCATATCAGATATATGGCATTGGAGACAAGAATA
* *
110033450 AGCCATGTAAGCCCATATTAGATATATATGGCATTGGAGACAAGAATA
1 AGCCATGTAAGTCCATATCAG--ATATATGGCATTGGAGACAAGAATA
**
110033498 ATTCATGTAAGTCCAT
1 AGCCATGTAAGTCCAT
110033514 GTCGAAGACA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
46 19 0.35
48 35 0.65
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (46 bp):
AGCCATGTAAGTCCATATCAGATATATGGCATTGGAGACAAGAATA
Found at i:110038329 original size:45 final size:44
Alignment explanation
Indices: 110038264--110038348 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 44
110038254 CATCAAATAC
* * *
110038264 TATTAAAATAACTTACACTAATTAGAGTTTTAAGTGGGAAACTAA
1 TATTAAAATAACCTACACTAATCAGAG-TTTAAGTGAGAAACTAA
*
110038309 TATTAAAATAACCTATACTAATCAGAGTTTAAGTGAGAAA
1 TATTAAAATAACCTACACTAATCAGAGTTTAAGTGAGAAA
110038349 TTAGAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 12 0.33
45 24 0.67
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (44 bp):
TATTAAAATAACCTACACTAATCAGAGTTTAAGTGAGAAACTAA
Found at i:110050367 original size:32 final size:31
Alignment explanation
Indices: 110050322--110050385 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
110050312 AGTTATTAAT
*
110050322 ATTTTAAAATATATAGAATAAAAA-ATTATAA
1 ATTTTAAAATATATACAATAAAAATA-TATAA
*
110050353 ATTTATAAAATATATACAATTAAAATATATAA
1 ATTT-TAAAATATATACAATAAAAATATATAA
110050385 A
1 A
110050386 AATCCTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 4 0.14
32 24 0.83
33 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (31 bp):
ATTTTAAAATATATACAATAAAAATATATAA
Found at i:110050368 original size:9 final size:9
Alignment explanation
Indices: 110050326--110050437 Score: 51
Period size: 9 Copynumber: 12.8 Consensus size: 9
110050316 ATTAATATTT
110050326 TAAAATATA
1 TAAAATATA
*
110050335 TAGAATA-A
1 TAAAATATA
110050343 -AAAAT-TA
1 TAAAATATA
*
110050350 T-AAATTTA
1 TAAAATATA
110050358 TAAAATATA
1 TAAAATATA
*
110050367 T-ACA-AT-
1 TAAAATATA
110050373 TAAAATATA
1 TAAAATATA
*
110050382 TAAAA-ATCC
1 TAAAATAT-A
* *
110050391 TATAATATTT
1 TAAAATA-TA
110050401 TGAAAATATA
1 T-AAAATATA
*
110050411 TAAAATTTA
1 TAAAATATA
*
110050420 CAATAATATA
1 TAA-AATATA
110050430 TATAAATA
1 TA-AAATA
110050438 AAAACATTTT
Statistics
Matches: 76, Mismatches: 14, Indels: 25
0.66 0.12 0.22
Matches are distributed among these distances:
6 1 0.01
7 13 0.17
8 10 0.13
9 31 0.41
10 14 0.18
11 7 0.09
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (9 bp):
TAAAATATA
Found at i:110055790 original size:71 final size:72
Alignment explanation
Indices: 110055673--110055814 Score: 252
Period size: 71 Copynumber: 2.0 Consensus size: 72
110055663 TTCGCCTTTG
*
110055673 AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCGATTTAAA-TGGTACGTAAAATCA
1 AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCAATTTAAACT-GTACGTAAAATCA
110055737 TAAGAGGA
65 TAAGAGGA
110055745 AATTAAATATACTTTATTT-AAAATTGGATTTTGATCTCTCAATTTAAACTGTACGTAAAATCAT
1 AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCAATTTAAACTGTACGTAAAATCAT
110055809 AAGAGG
66 AAGAGG
110055815 CAACCATGTT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
71 48 0.71
72 20 0.29
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (72 bp):
AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCAATTTAAACTGTACGTAAAATCAT
AAGAGGA
Found at i:110059370 original size:48 final size:48
Alignment explanation
Indices: 110059249--110059371 Score: 201
Period size: 48 Copynumber: 2.6 Consensus size: 48
110059239 ATGTGTGCTA
* *
110059249 GTATAAGACCATGTCCGAGACATGACATCGGCACTAACATGAAACCTC
1 GTATAAGACCATGTCCGAGACATGGCATCGACACTAACATGAAACCTC
*
110059297 GTATAAGACCATGTCCGGGACATGGCATCGACACTAACATGAAACCTC
1 GTATAAGACCATGTCCGAGACATGGCATCGACACTAACATGAAACCTC
* *
110059345 GTATAAGACCATATCCGAGATATGGCA
1 GTATAAGACCATGTCCGAGACATGGCA
110059372 ACGATATGTG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (48 bp):
GTATAAGACCATGTCCGAGACATGGCATCGACACTAACATGAAACCTC
Found at i:110060943 original size:46 final size:45
Alignment explanation
Indices: 110060876--110061128 Score: 214
Period size: 46 Copynumber: 5.6 Consensus size: 45
110060866 AGATTTGTGT
*
110060876 GCCAGTGTAAAACATGTCT-GGACATGCATCGGCCACATTATGAT-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTA-GATGA
110060921 GCCAGTGTAAGACCATGTCT-GGACATGGCATCGG--CATTGAGATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-AGATGA
* * * *
110060966 GGGCTAGTGTAAGACATGCCTGGGACATGCATCAGCCACAGTATGA-GA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTA-GATGA
* * * *
110061014 GCCAGTGTAAGACATGTCTGGGACATGCGTCGG-CTATGAGATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGATGA
* ** * *
110061058 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATGATTACATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CCATTAGATGA
* * *
110061104 GTCAATGTAAGACCTGTCTGGGACA
1 GCCAGTGTAAGACATGTCTGGGACA
110061129 CGGCATCGAC
Statistics
Matches: 171, Mismatches: 23, Indels: 27
0.77 0.10 0.12
Matches are distributed among these distances:
43 2 0.01
44 41 0.24
45 14 0.08
46 82 0.48
47 24 0.14
48 3 0.02
49 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGATGA
Found at i:110060995 original size:93 final size:90
Alignment explanation
Indices: 110060879--110061091 Score: 297
Period size: 93 Copynumber: 2.3 Consensus size: 90
110060869 TTTGTGTGCC
* * *
110060879 AGTGTAAAACATGTCT-GGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCT-G
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGA-CATGTCTGG
110060942 GACATGGCATCGGC-ATTGAGATGAGGGCT
65 GACAT-GCATCGGCTA-TGAGAT--GGGCT
* *
110060971 AGTGTAAGACATGCCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
* *
110061036 ACATGCGTCGGCTATGAGATGTGCT
66 ACATGCATCGGCTATGAGATGGGCT
110061061 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
110061092 ATGATTACAT
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
90 33 0.30
92 34 0.31
93 42 0.39
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCTATGAGATGGGCT
Found at i:110061113 original size:90 final size:89
Alignment explanation
Indices: 110060873--110061136 Score: 261
Period size: 90 Copynumber: 2.9 Consensus size: 89
110060863 ATAAGATTTG
* *
110060873 TGTGCCAGTGTAAAACATGTCT-GGACATGCATCGGCCACATT-ATGATAGCCAGTGTAAGACCA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CACATTAATG-T-GCCAGTGTAAGA-CA
110060936 TGTCT-GGACATGGCATCGGCATTGAGA
62 TGTCTGGGACATGGCATCGGCATTGAGA
* * * * *
110060963 TGAGGGCTAGTGTAAGACATGCCTGGGACATGCATCAGCCACAGT-ATGAGAGCCAGTGTAAGAC
1 T--GTGCTAGTGTAAGACATGTCTGGGACATGCATC-GGCACATTAAT--GTGCCAGTGTAAGAC
*
110061027 ATGTCTGGGACAT-GCGTCGGC-TATGAGA
61 ATGTCTGGGACATGGCATCGGCAT-TGAGA
* * * *
110061055 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATGATTACATGTGTCAATGTAAGACCTG
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCA-CATTA-ATGTGCCAGTGTAAGACATG
*
110061120 TCTGGGACACGGCATCG
64 TCTGGGACATGGCATCG
110061137 ACACAGATGG
Statistics
Matches: 143, Mismatches: 19, Indels: 23
0.77 0.10 0.12
Matches are distributed among these distances:
89 3 0.02
90 57 0.40
91 6 0.04
92 39 0.27
93 36 0.25
94 1 0.01
95 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (89 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACATTAATGTGCCAGTGTAAGACATGTC
TGGGACATGGCATCGGCATTGAGA
Found at i:110064505 original size:48 final size:48
Alignment explanation
Indices: 110064434--110064541 Score: 175
Period size: 48 Copynumber: 2.2 Consensus size: 48
110064424 ATGTGTGCTA
*
110064434 GTATAAGACCATGTTCGGGACATGGCATTGGA-ATTAACATGAAACCTC
1 GTATAAGACCATGTTCGGGACATGGCA-TGGACACTAACATGAAACCTC
110064482 GTATAAGACCATG-TCTGGGACATGGCATGGACACTAACATGAAACCTC
1 GTATAAGACCATGTTC-GGGACATGGCATGGACACTAACATGAAACCTC
110064530 GTATAAGACCAT
1 GTATAAGACCAT
110064542 ATCCGGGATA
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
47 6 0.11
48 51 0.89
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (48 bp):
GTATAAGACCATGTTCGGGACATGGCATGGACACTAACATGAAACCTC
Found at i:110067908 original size:27 final size:27
Alignment explanation
Indices: 110067878--110068055 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
110067868 ATATTGAGCC
* * *
110067878 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
110067905 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
110067932 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
110067960 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
110067987 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
110068014 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
110068041 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
110068056 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:110067971 original size:55 final size:55
Alignment explanation
Indices: 110067878--110068055 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
110067868 ATATTGAGCC
* * *
110067878 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
110067932 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
110067987 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
110068041 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
110068056 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:110068017 original size:82 final size:81
Alignment explanation
Indices: 110067899--110068054 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
110067889 TGCTATACAA
* * *
110067899 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
110067964 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
110067981 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
110068045 CACTTAGTGC
65 CACTTAGTGC
110068055 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:110072538 original size:29 final size:28
Alignment explanation
Indices: 110072483--110072593 Score: 132
Period size: 29 Copynumber: 3.9 Consensus size: 28
110072473 GTAAGCATGA
* * *
110072483 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
110072511 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
110072540 ATATATAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
110072569 ATATGAATATGATTGGGCATAATGG
1 ATATAAATGTGATTGGGCCTAATGG
110072594 ATCAGATACA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 23 0.32
29 49 0.68
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:110076970 original size:32 final size:32
Alignment explanation
Indices: 110076934--110076994 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
110076924 ATGAATCGGC
*
110076934 AAAAGCCAAAATGCTAAAATGCCGAAAAGTCG
1 AAAAGCCAAAATGCCAAAATGCCGAAAAGTCG
* *
110076966 AAAAGTCGAAATGCCAAAATGCCGAAAAG
1 AAAAGCCAAAATGCCAAAATGCCGAAAAG
110076995 CCAAAAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.51, C:0.18, G:0.20, T:0.11
Consensus pattern (32 bp):
AAAAGCCAAAATGCCAAAATGCCGAAAAGTCG
Found at i:110076991 original size:16 final size:15
Alignment explanation
Indices: 110076933--110077001 Score: 59
Period size: 16 Copynumber: 4.4 Consensus size: 15
110076923 AATGAATCGG
110076933 CAAAAGCC-AAAATGC
1 CAAAAGCCGAAAA-GC
*
110076948 TAAAATGCCGAAAAGTC
1 CAAAA-GCCGAAAAG-C
* * *
110076965 GAAAAGTCGAAATGC
1 CAAAAGCCGAAAAGC
110076980 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
110076996 CAAAAG
1 CAAAAG
110077002 TTGGGCTACG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
15 10 0.23
16 24 0.56
17 9 0.21
ACGTcount: A:0.51, C:0.20, G:0.19, T:0.10
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:110077129 original size:19 final size:19
Alignment explanation
Indices: 110077107--110077162 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
110077097 AGAATTGGCC
* *
110077107 AAATGGGTCGGAATGGGCT
1 AAATGGGCCGAAATGGGCT
*
110077126 AAATAGGCCGAAATGGGCT
1 AAATGGGCCGAAATGGGCT
*
110077145 AAATGGGCC-AGATGGGCT
1 AAATGGGCCGAAATGGGCT
110077163 GTTGGGCCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 8 0.25
19 24 0.75
ACGTcount: A:0.30, C:0.14, G:0.38, T:0.18
Consensus pattern (19 bp):
AAATGGGCCGAAATGGGCT
Found at i:110077275 original size:29 final size:29
Alignment explanation
Indices: 110077243--110077349 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
110077233 ATAATATGAT
*
110077243 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
* * **
110077272 TTGGGCCTAGTGGGCCATAAGAATTTGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
* * *
110077301 CTGGGCC-AGATGGGCCATTTGAGTAAG-A
1 TTGGGCCTA-ATGGGCCATATGAATAAGAA
*
110077329 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
110077350 CATGTAAGTA
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 18 0.29
29 44 0.71
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATAAGAA
Found at i:110081361 original size:19 final size:18
Alignment explanation
Indices: 110081339--110081375 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
110081329 AGAATTGGTC
110081339 AAATGGGCCGGAATGGGCT
1 AAATGGGCC-GAATGGGCT
*
110081358 AAATGGGCCTAATGGGCT
1 AAATGGGCCGAATGGGCT
110081376 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.16, G:0.38, T:0.19
Consensus pattern (18 bp):
AAATGGGCCGAATGGGCT
Found at i:110117424 original size:28 final size:28
Alignment explanation
Indices: 110117384--110117438 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
110117374 TTGAGTCTGA
*
110117384 TGGGCCATATGAATGTGATTAGGCCTAC
1 TGGGCCATATGAATGAGATTAGGCCTAC
* *
110117412 TGGGCCATGTGAATGAGATTGGGCCTA
1 TGGGCCATATGAATGAGATTAGGCCTA
110117439 AAGGGGCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (28 bp):
TGGGCCATATGAATGAGATTAGGCCTAC
Found at i:110117454 original size:29 final size:28
Alignment explanation
Indices: 110117385--110117454 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
110117375 TGAGTCTGAT
* **
110117385 GGGCCATATGAATGTGATTAGGCCTACT
1 GGGCCATATGAATGAGATTAGGCCTAAG
* *
110117413 GGGCCATGTGAATGAGATTGGGCCTAAAG
1 GGGCCATATGAATGAGATTAGGCCT-AAG
*
110117442 GGGCCAAATGAAT
1 GGGCCATATGAAT
110117455 AAGTGTGGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 22 0.65
29 12 0.35
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.23
Consensus pattern (28 bp):
GGGCCATATGAATGAGATTAGGCCTAAG
Found at i:110117785 original size:27 final size:27
Alignment explanation
Indices: 110117755--110118228 Score: 279
Period size: 27 Copynumber: 17.6 Consensus size: 27
110117745 TAATAAAGTG
110117755 AAATTACCGAAATACCCCTAGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* *
110117782 AAATTACCGAAATACCCCCAATTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* * *
110117809 AAATTATCGAAGTACCCCCAGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* * * **
110117836 AAACTATCGAAATGCCCCCGGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
** * **
110117863 AAATTACTAAAATA-CCCTCGATTTAAA
1 AAATTACCGAAATACCCCTAG-TTTGTA
* * *
110117890 AAATTACTGAAATA-CCTTTGATTTGTA
1 AAATTACCGAAATACCCCTAG-TTTGTA
** **
110117917 AAATTACCGAAGCACCCCCGGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* *
110117944 AAATTACTGAAATACCCC-CGATTTGTA
1 AAATTACCGAAATACCCCTAG-TTTGTA
* *
110117971 AAATTACCGAAGTACCCCCAGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* *
110117998 AAATTACCGAAATA-CCTTCAATTTGTA
1 AAATTACCGAAATACCCCT-AGTTTGTA
* * * *
110118025 AAATTATCGAAATA-CTCTCGATTTGCA
1 AAATTACCGAAATACCCCTAG-TTTGTA
* * *
110118052 AAATTACTGAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* * * *
110118079 AAATTATCGAAATA-CCCTCGATGGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* ** *
110118105 GAATTATTGAAATA-CCCTCAATTTGTA
1 AAATTACCGAAATACCCCT-AGTTTGTA
** *
110118132 AAATTA-TTAAA-ACACCCTCGATTTGTA
1 AAATTACCGAAATAC-CCCTAG-TTTGTA
** * *
110118159 AAATTATTGAAACACCCC-CGATTTGTA
1 AAATTACCGAAATACCCCTAG-TTTGTA
* * *
110118186 AAATTATC-AATATA-CCCTTGTAGTGTA
1 AAATTACCGAA-ATACCCCTAGT-TTGTA
*
110118213 AAATTACTGAAATACC
1 AAATTACCGAAATACC
110118229 TTTGTAGTGT
Statistics
Matches: 352, Mismatches: 77, Indels: 35
0.76 0.17 0.08
Matches are distributed among these distances:
25 1 0.00
26 40 0.11
27 293 0.83
28 16 0.05
29 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCCTAGTTTGTA
Found at i:110117837 original size:54 final size:53
Alignment explanation
Indices: 110117755--110118228 Score: 414
Period size: 54 Copynumber: 8.8 Consensus size: 53
110117745 TAATAAAGTG
* * *
110117755 AAATTACCGAAATACCCCTAGTTTGTAAAATTACCGAAATACCCCCAATTTGTA
1 AAATTATCGAAATACCCC-CGTTTGTAAAATTACTGAAATACCCCCAATTTGTA
* * * **
110117809 AAATTATCGAAGTACCCCCAGTTTGTAAAACTA-TCGAAATGCCCCCGGTTTGTA
1 AAATTATCGAAATACCCCC-GTTTGTAAAATTACT-GAAATACCCCCAATTTGTA
* * ** ****
110117863 AAATTA-CTAAAATACCCTCGATTTAAAAAATTACTGAAATACCTTTGATTTGTA
1 AAATTATC-GAAATACCCCCG-TTTGTAAAATTACTGAAATACCCCCAATTTGTA
* ** *
110117917 AAATTACCGAAGCACCCCCGGTTTGTAAAATTACTGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCCC-GTTTGTAAAATTACTGAAATACCCCCAATTTGTA
* * * **
110117971 AAATTACCGAAGTACCCCCAGTTTGTAAAATTACCGAAATACCTTCAATTTGTA
1 AAATTATCGAAATACCCCC-GTTTGTAAAATTACTGAAATACCCCCAATTTGTA
* * * **
110118025 AAATTATCGAAATACTCTCGATTTGCAAAATTACTGAAATACCCTTAATTTGTA
1 AAATTATCGAAATACCCCCG-TTTGTAAAATTACTGAAATACCCCCAATTTGTA
* * * * * *
110118079 AAATTATCGAAATACCCTCGATGGTAGAATTATTGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCCCGTTTGTAAAATTACTGAAATACCCCCAATTTGTA
** * * * * *
110118132 AAATTATTAAAACACCCTCGATTTGTAAAATTATTGAAACACCCCCGATTTGTA
1 AAATTATCGAAATACCCCCG-TTTGTAAAATTACTGAAATACCCCCAATTTGTA
** *
110118186 AAATTATC-AATATACCCTTGTAGTGTAAAATTACTGAAATACC
1 AAATTATCGAA-ATACCCCCGT-TTGTAAAATTACTGAAATACC
110118229 TTTGTAGTGT
Statistics
Matches: 345, Mismatches: 64, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
53 50 0.14
54 292 0.85
55 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (53 bp):
AAATTATCGAAATACCCCCGTTTGTAAAATTACTGAAATACCCCCAATTTGTA
Found at i:110117915 original size:81 final size:80
Alignment explanation
Indices: 110117755--110118228 Score: 409
Period size: 81 Copynumber: 5.9 Consensus size: 80
110117745 TAATAAAGTG
* ** * * *
110117755 AAATTACCGAAATACCCCTAGTTTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTA-TCGA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTA-TGAAATACCCTCGATTTGTAAAATTACT-GA
* **
110117819 AGTACCC-CCAGTTTGTA
64 AATACCCTTGA-TTTGTA
* * * **
110117836 AAACTATCGAAATGCCCCCGGTTTGTAAAATTACTAAAATACCCTCGATTTAAAAAATTACTGAA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTA-TGAAATACCCTCGATTTGTAAAATTACTGAA
*
110117901 ATACCTTTGATTTGTA
65 ATACCCTTGATTTGTA
* ** * *
110117917 AAATTACCGAAGCACCCCCGGTTTGTAAAATTACTGAAATACCCCCGATTTGTAAAATTACCGAA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTA-TGAAATACCCTCGATTTGTAAAATTACTGAA
* **
110117982 GTACCC-CCAGTTTGTA
65 ATACCCTTGA-TTTGTA
* ** ** * *
110117998 AAATTACCGAAATACCTTCAATTTGTAAAATTATCGAAATACTCTCGATTTGCAAAATTACTGAA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTAT-GAAATACCCTCGATTTGTAAAATTACTGAA
*
110118063 ATACCCTTAATTTGTA
65 ATACCCTTGATTTGTA
* * * * * * *
110118079 AAATTATCGAAATACCCTC-GATGGTAGAATTATTGAAATACCCTCAATTTGTAAAATTATTAAA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTA-TGAAATACCCTCGATTTGTAAAATTACTGAA
* *
110118143 ACACCCTCGATTTGTA
65 ATACCCTTGATTTGTA
* * * * * *
110118159 AAATTATTGAAACACCCCCGATTTGTAAAATTATCAATATACCCTTG-TAGTGTAAAATTACTGA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTATGAA-ATACCCTCGAT-TTGTAAAATTACTGA
110118223 AATACC
64 AATACC
110118229 TTTGTAGTGT
Statistics
Matches: 314, Mismatches: 70, Indels: 18
0.78 0.17 0.04
Matches are distributed among these distances:
80 69 0.22
81 242 0.77
82 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (80 bp):
AAATTATCGAAATACCCCCGGTTTGTAAAATTATGAAATACCCTCGATTTGTAAAATTACTGAAA
TACCCTTGATTTGTA
Found at i:110118233 original size:27 final size:27
Alignment explanation
Indices: 110118182--110118243 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
110118172 ACCCCCGATT
110118182 TGTAAAATTATCAATATACCCTTGTAG
1 TGTAAAATTATCAATATACCCTTGTAG
* *
110118209 TGTAAAATTACTGAA-ATACCTTTGTAG
1 TGTAAAATTA-TCAATATACCCTTGTAG
110118236 TGTAAAAT
1 TGTAAAAT
110118244 GACCGACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 29 0.91
28 3 0.09
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (27 bp):
TGTAAAATTATCAATATACCCTTGTAG
Found at i:110118254 original size:27 final size:27
Alignment explanation
Indices: 110118197--110118273 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
110118187 AATTATCAAT
* *
110118197 ATACCCTTGTAGTGTAAAATTACTGAA
1 ATACCCTTGTAGTGTAAAATGACCGAA
* *
110118224 ATACCTTTGTAGTGTAAAATGACCGAC
1 ATACCCTTGTAGTGTAAAATGACCGAA
* * *
110118251 ATACCCCTGCAGGGTAAAATGAC
1 ATACCCTTGTAGTGTAAAATGAC
110118274 TGTTTTGCCC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
ATACCCTTGTAGTGTAAAATGACCGAA
Found at i:110118462 original size:120 final size:120
Alignment explanation
Indices: 110118248--110118488 Score: 473
Period size: 120 Copynumber: 2.0 Consensus size: 120
110118238 TAAAATGACC
110118248 GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
1 GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
*
110118313 AATTTGACTGATTTGATTATGAATGTATGACTACGTTTTAATTGACTTGACTGTG
66 AATTTGACTGATTTGATTATGAATATATGACTACGTTTTAATTGACTTGACTGTG
110118368 GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
1 GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
110118433 AATTTGACTGATTTGATTATGAATATATGACTACGTTTTAATTGACTTGACTGTG
66 AATTTGACTGATTTGATTATGAATATATGACTACGTTTTAATTGACTTGACTGTG
110118488 G
1 G
110118489 TTGTATGACT
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (120 bp):
GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
AATTTGACTGATTTGATTATGAATATATGACTACGTTTTAATTGACTTGACTGTG
Found at i:110120296 original size:32 final size:32
Alignment explanation
Indices: 110120255--110120320 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
110120245 TTCCTAAGGT
110120255 TCAACAGGGATTTCACATTTGACGAATCATCG
1 TCAACAGGGATTTCACATTTGACGAATCATCG
110120287 TCAACAGGGATTTCACATTTGACGAATCATCG
1 TCAACAGGGATTTCACATTTGACGAATCATCG
110120319 TC
1 TC
110120321 GAATGTATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (32 bp):
TCAACAGGGATTTCACATTTGACGAATCATCG
Found at i:110123517 original size:44 final size:42
Alignment explanation
Indices: 110123391--110123543 Score: 141
Period size: 44 Copynumber: 3.6 Consensus size: 42
110123381 GTATCAGATG
* * *
110123391 TGGTCTTACA-TGTAATCACATATCGATGCCACTATCCTAGACA
1 TGGTCTTACACT-AAATCACATATCGATGCCAC-GTCCCAGACA
* * * *
110123434 GGGTCTTACAC-AAA-CTCATATACGATGCTGATGTCCCAGACA
1 TGGTCTTACACTAAATCACATAT-CGATGC-CACGTCCCAGACA
* *
110123476 TGGTCTTACACGTAAATCACAAATCGATGCCAACGTCCCAGACG
1 TGGTCTTACAC-TAAATCACATATCGATGCC-ACGTCCCAGACA
*
110123520 TGGTCTTACACAAAATCACATATC
1 TGGTCTTACACTAAATCACATATC
110123544 AAAATCCTAT
Statistics
Matches: 88, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
41 6 0.07
42 26 0.30
43 21 0.24
44 30 0.34
45 5 0.06
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
TGGTCTTACACTAAATCACATATCGATGCCACGTCCCAGACA
Found at i:110126834 original size:40 final size:40
Alignment explanation
Indices: 110126758--110126834 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
110126748 AATTACTCCC
* * * ** *
110126758 TGAATTGTACATACGTGCTCCTATTTGTACTTCGGTACCT
1 TGAATTGCACATAAGTGCCCCTATTTACACTCCGGTACCT
*
110126798 TGAATTGCACATAAGTGCCCCTGTTTACACTCCGGTA
1 TGAATTGCACATAAGTGCCCCTATTTACACTCCGGTA
110126835 ACTTTAACTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (40 bp):
TGAATTGCACATAAGTGCCCCTATTTACACTCCGGTACCT
Found at i:110128336 original size:37 final size:37
Alignment explanation
Indices: 110128286--110128362 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
110128276 ACAAATACAG
*
110128286 AGGAGCATTCTTACGCACTAATGAATAGAGAGCACTA
1 AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
110128323 AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
1 AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
110128360 AGG
1 AGG
110128363 TGTTATACTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (37 bp):
AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
Found at i:110128378 original size:22 final size:22
Alignment explanation
Indices: 110128350--110128412 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
110128340 CTAATGAACA
* * *
110128350 GAGAGCACTAAGGTGTTATACT
1 GAGAGCACTAAGGTGCTAAACG
*
110128372 GAGAGCA-TGAATGTGCTAAACG
1 GAGAGCACT-AAGGTGCTAAACG
*
110128394 GAGAGCACTAATGTGCTAA
1 GAGAGCACTAAGGTGCTAA
110128413 CAATCGAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (22 bp):
GAGAGCACTAAGGTGCTAAACG
Found at i:110129748 original size:28 final size:29
Alignment explanation
Indices: 110129708--110129820 Score: 104
Period size: 29 Copynumber: 4.0 Consensus size: 29
110129698 CATGTATCTA
* * *
110129708 GCCCATTAAGCCC-AATCATATTCATATG
1 GCCCATTAGGCCCAAATCACATTTATATG
* * *
110129736 GCCCGTTAGGCCCAAATCACCTGTATATG
1 GCCCATTAGGCCCAAATCACATTTATATG
* *
110129765 GTCAATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATTTATATG
** * *
110129794 GCCTGTTAGGCCC-AGTCATATTTATAT
1 GCCCATTAGGCCCAAATCACATTTATAT
110129821 TCATGCTCAC
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 23 0.34
29 45 0.66
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATTTATATG
Found at i:110130044 original size:8 final size:8
Alignment explanation
Indices: 110130031--110130073 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
110130021 GTAGCCAAAC
110130031 TTTCGGCT
1 TTTCGGCT
*
110130039 TTTCGGCA
1 TTTCGGCT
*
110130047 TTTCAGCT
1 TTTCGGCT
*
110130055 TTTCGGCA
1 TTTCGGCT
110130063 TTTCGGCT
1 TTTCGGCT
110130071 TTT
1 TTT
110130074 ACCGATTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.07, C:0.23, G:0.21, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:110130055 original size:16 final size:16
Alignment explanation
Indices: 110130031--110130073 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
110130021 GTAGCCAAAC
110130031 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
110130047 TTTCAGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
110130063 TTTCGGCTTTT
1 TTTCGGCTTTT
110130074 ACCGATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.07, C:0.23, G:0.21, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:110134271 original size:29 final size:29
Alignment explanation
Indices: 110134185--110134294 Score: 125
Period size: 29 Copynumber: 3.9 Consensus size: 29
110134175 AAATTAACAT
* * *
110134185 ACATGTATCTAGCCCATTAAGCCC-AATC
1 ACATGTATATGGCCCATTAGGCCCAAATC
* **
110134213 ATATCCATATGGCCCATT-GGCCCAAATC
1 ACATGTATATGGCCCATTAGGCCCAAATC
*
110134241 ACCTGTATATGGCCCATTAGGCCCAAATC
1 ACATGTATATGGCCCATTAGGCCCAAATC
* *
110134270 ACATTTATATGGCCCGTTAGGCCCA
1 ACATGTATATGGCCCATTAGGCCCA
110134295 GTCACATTCA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
27 4 0.06
28 31 0.46
29 32 0.48
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATGTATATGGCCCATTAGGCCCAAATC
Found at i:110134550 original size:16 final size:16
Alignment explanation
Indices: 110134531--110134575 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
110134521 AGCTTTTCAA
110134531 CATTTCGACTTTTCGG
1 CATTTCGACTTTTCGG
*
110134547 CATTTC-AGTTTTTCGG
1 CATTTCGA-CTTTTCGG
*
110134563 CATTTCGGCTTTT
1 CATTTCGACTTTT
110134576 ACCGATTCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.11, C:0.22, G:0.18, T:0.49
Consensus pattern (16 bp):
CATTTCGACTTTTCGG
Found at i:110139597 original size:25 final size:25
Alignment explanation
Indices: 110139566--110139649 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 25
110139556 TTTCTCATCG
*
110139566 AAATTTTGCTCCAATAAAATTTTGA
1 AAATTTTACTCCAATAAAATTTTGA
** * *
110139591 TGATTTTACCCCCGATAAAATTTTGA
1 AAATTTTA-CTCCAATAAAATTTTGA
110139617 AAATTTTACTCCAAGTAAAATTTTGA
1 AAATTTTACTCCAA-TAAAATTTTGA
110139643 GAAATTT
1 -AAATTT
110139650 CATTCAATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
25 9 0.19
26 32 0.68
27 6 0.13
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (25 bp):
AAATTTTACTCCAATAAAATTTTGA
Found at i:110139809 original size:18 final size:18
Alignment explanation
Indices: 110139783--110139818 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
110139773 GGATTGCAAG
*
110139783 TTTCAATTTTCATTTTCA
1 TTTCAATTTCCATTTTCA
*
110139801 TTTCCATTTCCATTTTCA
1 TTTCAATTTCCATTTTCA
110139819 ATTTTGGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTCAATTTCCATTTTCA
Found at i:110143590 original size:8 final size:10
Alignment explanation
Indices: 110143523--110143601 Score: 56
Period size: 10 Copynumber: 7.7 Consensus size: 10
110143513 CCCAGTTCTA
*
110143523 AAAAATAAAT
1 AAAAATATAT
110143533 AAATAAATATAT
1 -AA-AAATATAT
* *
110143545 GAAAATACAT
1 AAAAATATAT
*
110143555 AAATAT-TAT
1 AAAAATATAT
110143564 ACAAAATATAAT
1 A-AAAATAT-AT
110143576 AATAAAT-T-T
1 AA-AAATATAT
110143585 AAAAATATAT
1 AAAAATATAT
110143595 AAAAATA
1 AAAAATA
110143602 AAATTTGATT
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
8 4 0.07
9 7 0.13
10 23 0.43
11 6 0.11
12 14 0.26
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (10 bp):
AAAAATATAT
Found at i:110143933 original size:27 final size:24
Alignment explanation
Indices: 110143863--110143935 Score: 67
Period size: 27 Copynumber: 2.8 Consensus size: 24
110143853 ATATAAAATT
110143863 AAATTTTATTATTATCT-TTTTTTA
1 AAATTTTATTATTAT-TATTTTTTA
* *
110143887 AAATAGTTATGTATTTTTATATATTTTA
1 AAAT-TTTAT-TATTATTAT-T-TTTTA
110143915 AAATTTTATATATTATTATTT
1 AAATTTTAT-TATTATTATTT
110143936 CTTGTCAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
24 4 0.10
25 6 0.15
26 7 0.18
27 13 0.33
28 9 0.23
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (24 bp):
AAATTTTATTATTATTATTTTTTA
Found at i:110145038 original size:37 final size:36
Alignment explanation
Indices: 110144987--110145062 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
110144977 ATTCCAAAAA
*
110144987 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
110145023 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
110145060 TAA
1 TAA
110145063 AGTGATTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:110146009 original size:19 final size:19
Alignment explanation
Indices: 110145987--110146025 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
110145977 ATCTATATGT
*
110145987 TTTATAATTAT-TTATAATA
1 TTTAT-ATTATGTAATAATA
110146006 TTTATATTATGTAATAATA
1 TTTATATTATGTAATAATA
110146025 T
1 T
110146026 AATTATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTATATTATGTAATAATA
Found at i:110152815 original size:11 final size:11
Alignment explanation
Indices: 110152740--110152815 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
110152730 ATTCTAAAAA
*
110152740 TAATATTATTT
1 TAATATTAATT
110152751 TAATAGTTTAATAT
1 TAATA--TTAAT-T
110152765 TAA-ATTAAATT
1 TAATATT-AATT
*
110152776 TAATATTTATCT
1 TAATATTAAT-T
*
110152788 TAATAGT-ATT
1 TAATATTAATT
110152798 T--TATTAATT
1 TAATATTAATT
110152807 TAATATTAA
1 TAATATTAA
110152816 AGTAATTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 13 0.25
13 5 0.10
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:110152876 original size:68 final size:68
Alignment explanation
Indices: 110152758--110152884 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
110152748 TTTTAATAGT
** * *
110152758 TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTAATT
1 TTAATATTAAATTAAATTTAATATAGATCTTAATAGTATTTAATAAATTTAATATTAAAGTAATT
110152823 ATC
66 ATC
* *
110152826 TTAATATTAAATTAAATTTAATATAGA-CATT-CTATTATTTAATAAGATTTAATATTAAA
1 TTAATATTAAATTAAATTTAATATAGATC-TTAATAGTATTTAATAA-ATTTAATATTAAA
110152885 TTTAATCTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
67 11 0.22
68 40 0.78
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (68 bp):
TTAATATTAAATTAAATTTAATATAGATCTTAATAGTATTTAATAAATTTAATATTAAAGTAATT
ATC
Found at i:110154040 original size:22 final size:22
Alignment explanation
Indices: 110154015--110154101 Score: 111
Period size: 22 Copynumber: 4.0 Consensus size: 22
110154005 CACTAAGTCA
* *
110154015 ACAGGGCGGCTCAACACCGTAG
1 ACAGGACGGCTCAACGCCGTAG
*
110154037 ACAGGACGGCTCAACGCCATAG
1 ACAGGACGGCTCAACGCCGTAG
*
110154059 ACAGGACGGCTCAACGCTGTAG
1 ACAGGACGGCTCAACGCCGTAG
* * *
110154081 ACAGGATGGCTAAAGGCCGTA
1 ACAGGACGGCTCAACGCCGTA
110154102 AATATCGCAG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.30, C:0.28, G:0.31, T:0.11
Consensus pattern (22 bp):
ACAGGACGGCTCAACGCCGTAG
Found at i:110156176 original size:14 final size:14
Alignment explanation
Indices: 110156159--110156186 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
110156149 AAGTTAAAAT
110156159 GTTTTTCATGCTCA
1 GTTTTTCATGCTCA
110156173 GTTTTTCATGCTCA
1 GTTTTTCATGCTCA
110156187 AAGTGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTTTTTCATGCTCA
Found at i:110159862 original size:6 final size:6
Alignment explanation
Indices: 110159844--110159893 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
110159834 TGCAAATGAA
* * * *
110159844 TCATTT CTCATTT TCATTT TCATTT CCATTT CCATTT CCATTT CCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
110159893 T
1 T
110159894 TTGGGAAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (6 bp):
TCATTT
Found at i:110159868 original size:12 final size:12
Alignment explanation
Indices: 110159844--110159893 Score: 64
Period size: 12 Copynumber: 4.1 Consensus size: 12
110159834 TGCAAATGAA
110159844 TCATTTCTCATTT
1 TCATTTC-CATTT
*
110159857 TCATTTTCATTT
1 TCATTTCCATTT
*
110159869 CCATTTCCATTT
1 TCATTTCCATTT
*
110159881 CCATTTCCATTT
1 TCATTTCCATTT
110159893 T
1 T
110159894 TTGGGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
12 27 0.82
13 6 0.18
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:110159879 original size:18 final size:18
Alignment explanation
Indices: 110159844--110159892 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
110159834 TGCAAATGAA
*
110159844 TCATTTCTCATTTTCATTT
1 TCATTTC-CATTTCCATTT
110159863 TCATTTCCATTTCCATTT
1 TCATTTCCATTTCCATTT
*
110159881 CCATTTCCATTT
1 TCATTTCCATTT
110159893 TTTGGGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.57
Consensus pattern (18 bp):
TCATTTCCATTTCCATTT
Found at i:110161799 original size:45 final size:46
Alignment explanation
Indices: 110161723--110161818 Score: 133
Period size: 45 Copynumber: 2.1 Consensus size: 46
110161713 TATGTTGAGC
*
110161723 TACTAAATAGTTAATTAAATTACATAGTATTTATTA-TTACTTATTTA
1 TACTAAATA-TTAACTAAATTACATAGTATTTATTATTTA-TTATTTA
* *
110161770 TACTAAAT-TTAACTAATTTACATATTATTTATTATTTATTATTTA
1 TACTAAATATTAACTAAATTACATAGTATTTATTATTTATTATTTA
110161815 TACT
1 TACT
110161819 TGGTCAATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
45 34 0.76
46 3 0.07
47 8 0.18
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (46 bp):
TACTAAATATTAACTAAATTACATAGTATTTATTATTTATTATTTA
Found at i:110162261 original size:31 final size:31
Alignment explanation
Indices: 110162226--110162286 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
110162216 TTACTACCTT
110162226 AGTAATTATATTACTATCCACTCACTCTGTA
1 AGTAATTATATTACTATCCACTCACTCTGTA
110162257 AGTAATTATATTACTATCCACTCACTCTGT
1 AGTAATTATATTACTATCCACTCACTCTGT
110162287 GGTGCCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (31 bp):
AGTAATTATATTACTATCCACTCACTCTGTA
Found at i:110163151 original size:16 final size:16
Alignment explanation
Indices: 110163130--110163163 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
110163120 CTCTGAATAT
110163130 TAAAAAAACAAAATTA
1 TAAAAAAACAAAATTA
**
110163146 TAAAAAAATTAAATTA
1 TAAAAAAACAAAATTA
110163162 TA
1 TA
110163164 TAATGCGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAAAACAAAATTA
Found at i:110167052 original size:22 final size:22
Alignment explanation
Indices: 110167024--110167068 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
110167014 TTGCTTCCTG
110167024 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
110167046 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
110167068 T
1 T
110167069 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:110170832 original size:22 final size:22
Alignment explanation
Indices: 110170804--110170848 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
110170794 AGGGGGAGTG
110170804 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
110170826 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
110170848 T
1 T
110170849 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:110180925 original size:10 final size:10
Alignment explanation
Indices: 110180898--110180967 Score: 106
Period size: 10 Copynumber: 7.0 Consensus size: 10
110180888 TTAAATTTTA
110180898 AAAGATAAAT
1 AAAGATAAAT
*
110180908 GCAA-ATAAAT
1 -AAAGATAAAT
110180918 AAAGATAAAT
1 AAAGATAAAT
110180928 AAAGATAAAT
1 AAAGATAAAT
110180938 AAAGATAAAT
1 AAAGATAAAT
110180948 AAAGATAAAT
1 AAAGATAAAT
*
110180958 AAAAATAAAT
1 AAAGATAAAT
110180968 CCTAAAATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
9 2 0.04
10 51 0.93
11 2 0.04
ACGTcount: A:0.70, C:0.01, G:0.09, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:110181003 original size:13 final size:14
Alignment explanation
Indices: 110180987--110181019 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
110180977 TAAATCTAAG
*
110180987 TAATTATCCTTA-A
1 TAATTATCCTAATA
110181000 TAATTATCCTAATA
1 TAATTATCCTAATA
110181014 TAATTA
1 TAATTA
110181020 AACATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTATCCTAATA
Found at i:110182395 original size:21 final size:20
Alignment explanation
Indices: 110182370--110182408 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
110182360 AAACTTGTAT
110182370 ATCTATCAAAAAACATTCATA
1 ATCTATCAAAAAAC-TTCATA
*
110182391 ATCTATCAAGAAACTTCA
1 ATCTATCAAAAAACTTCA
110182409 AAAACATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCTATCAAAAAACTTCATA
Found at i:110187658 original size:23 final size:23
Alignment explanation
Indices: 110187628--110187673 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
110187618 ATCGGGAGAA
110187628 AACGAAAGTTGTCGACTAGTAGC
1 AACGAAAGTTGTCGACTAGTAGC
110187651 AACGAAAGTTGTCGACTAGTAGC
1 AACGAAAGTTGTCGACTAGTAGC
110187674 CCCGTCCCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (23 bp):
AACGAAAGTTGTCGACTAGTAGC
Found at i:110209259 original size:40 final size:40
Alignment explanation
Indices: 110209207--110209330 Score: 178
Period size: 40 Copynumber: 3.1 Consensus size: 40
110209197 TGTATCTGGG
* *
110209207 CTTAAAGACCCGCAGGCTATATGTTGGAATTATATCCGGG
1 CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
*
110209247 CTTAAAGACCCGCAGGCTATATGCTGGAATTATACCCGGA
1 CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
** * *
110209287 CTT-AAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGA
1 CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
110209326 CTTAA
1 CTTAA
110209331 GGTCCGCAGG
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 35 0.46
40 41 0.54
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
Found at i:110209311 original size:39 final size:39
Alignment explanation
Indices: 110209216--110209340 Score: 178
Period size: 39 Copynumber: 3.2 Consensus size: 39
110209206 GCTTAAAGAC
* * * **
110209216 CCGCAGGCTATATGTTGGAATTATATCCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGT
*
110209256 CCGCAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
*
110209295 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
110209334 CCGCAGG
1 CCGCAGG
110209341 ATACGCGCTG
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 47 0.60
40 31 0.40
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:110209351 original size:39 final size:39
Alignment explanation
Indices: 110209269--110209353 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
110209259 CAGGCTATAT
* * * *
110209269 GCTGGAATTATACCCGGACTTAAGGTCCGCAGGCTATGT
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
110209308 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
110209347 GCTGGAA
1 GCTGGAA
110209354 ATATGTCCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (39 bp):
GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
Found at i:110218063 original size:51 final size:51
Alignment explanation
Indices: 110217987--110218084 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
110217977 GATTGGATTG
110217987 TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAAATTT
1 TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAAATTT
* *
110218038 TTATGGTTCATAAATCTAAGTTTAGCCCTTTGTAAGAGTATTTGAAA
1 TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAA
110218085 TCGATTCTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (51 bp):
TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAAATTT
Found at i:110226396 original size:64 final size:64
Alignment explanation
Indices: 110226322--110226450 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
110226312 TATTGAAATG
110226322 TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
1 TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
110226386 TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
1 TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
110226450 T
1 T
110226451 CTTTTTCTAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.27
Consensus pattern (64 bp):
TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
Found at i:110226423 original size:34 final size:34
Alignment explanation
Indices: 110226322--110226424 Score: 81
Period size: 34 Copynumber: 3.1 Consensus size: 34
110226312 TATTGAAATG
110226322 TGATGAAGTAAATAATAGTATGAAAATCAGGAGA
1 TGATGAAGTAAATAATAGTATGAAAATCAGGAGA
*** * * * * * *
110226356 TGATGGCTTGAATTGACACTTTCAAAA-C---A-A
1 TGATGAAGT-AAATAATAGTATGAAAATCAGGAGA
110226386 TGATGAAGTAAATAATAGTATGAAAATCAGGAGA
1 TGATGAAGTAAATAATAGTATGAAAATCAGGAGA
110226420 TGATG
1 TGATG
110226425 GCTTGAATTG
Statistics
Matches: 45, Mismatches: 18, Indels: 12
0.60 0.24 0.16
Matches are distributed among these distances:
29 11 0.24
30 8 0.18
31 1 0.02
33 1 0.02
34 13 0.29
35 11 0.24
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (34 bp):
TGATGAAGTAAATAATAGTATGAAAATCAGGAGA
Found at i:110228074 original size:15 final size:15
Alignment explanation
Indices: 110228050--110228093 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
110228040 TGGATCCTAC
110228050 CCTCCACAAGGATAT
1 CCTCCACAAGGATAT
*
110228065 CCTCCTCAAGGATAT
1 CCTCCACAAGGATAT
*
110228080 CCCCCACAAGGATA
1 CCTCCACAAGGATA
110228094 CCCACCGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.32, C:0.36, G:0.14, T:0.18
Consensus pattern (15 bp):
CCTCCACAAGGATAT
Found at i:110228150 original size:33 final size:33
Alignment explanation
Indices: 110228113--110228180 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
110228103 TGGATATCCT
*
110228113 CCACCAGC-GGGATATCCTCCACATGGCGGATAC
1 CCACCAGCAGGG-TATCCTCCACATGGAGGATAC
* *
110228146 CCACCTGCAGGGTATCCTCCTCATGGAGGATAC
1 CCACCAGCAGGGTATCCTCCACATGGAGGATAC
110228179 CC
1 CC
110228181 TCATCCACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.22, C:0.37, G:0.24, T:0.18
Consensus pattern (33 bp):
CCACCAGCAGGGTATCCTCCACATGGAGGATAC
Found at i:110228426 original size:21 final size:21
Alignment explanation
Indices: 110228389--110228429 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
110228379 TCTTTACGGG
110228389 GCTCACCATTTGTCACATGGA
1 GCTCACCATTTGTCACATGGA
*
110228410 GCTCATCATCTTG-CACATGG
1 GCTCACCAT-TTGTCACATGG
110228430 GGGATACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (21 bp):
GCTCACCATTTGTCACATGGA
Found at i:110228475 original size:15 final size:15
Alignment explanation
Indices: 110228449--110228490 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
110228439 TGGCCATGGT
*
110228449 CACGGAAAATTTAAA
1 CACGGGAAATTTAAA
* *
110228464 CATGGGAAATTTAAG
1 CACGGGAAATTTAAA
110228479 CACGGGAAATTT
1 CACGGGAAATTT
110228491 GGGAAGCGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (15 bp):
CACGGGAAATTTAAA
Found at i:110230291 original size:28 final size:28
Alignment explanation
Indices: 110230256--110230333 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
110230246 TTAATTTATG
*
110230256 TTTAGATAATAATGTTTAAATTTTAA-AA
1 TTTAGATAATAA-ATTTAAATTTTAATAA
* *
110230284 TTTAGATAATAAATTTCAATTTTAATAT
1 TTTAGATAATAAATTTAAATTTTAATAA
110230312 TTTAGATAATAAATTATAAATT
1 TTTAGATAATAAATT-TAAATT
110230334 AATTTAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 11 0.25
28 28 0.64
29 5 0.11
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (28 bp):
TTTAGATAATAAATTTAAATTTTAATAA
Found at i:110230780 original size:21 final size:21
Alignment explanation
Indices: 110230736--110230780 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
110230726 AAAATTTTTA
*
110230736 AAATATGTATTATATTCTAAT
1 AAATATGTATTATATCCTAAT
*
110230757 AAAT-TGTATTATACTCCTATT
1 AAATATGTATTATA-TCCTAAT
110230778 AAA
1 AAA
110230781 GATCCGAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (21 bp):
AAATATGTATTATATCCTAAT
Found at i:110231632 original size:23 final size:21
Alignment explanation
Indices: 110231599--110231648 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
110231589 GACCAATAAG
*
110231599 TTTCAAATCATTTTAAA-ACCA
1 TTTCAAATCA-TTTAAACACAA
110231620 TTTCAAAGCTCATTTAAACACAA
1 TTTCAAA--TCATTTAAACACAA
110231643 TTTCAA
1 TTTCAA
110231649 TCCATACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 6 0.24
23 12 0.48
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (21 bp):
TTTCAAATCATTTAAACACAA
Found at i:110232304 original size:23 final size:23
Alignment explanation
Indices: 110232278--110232324 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
110232268 AATAAAGTAT
110232278 ATGCTATTTTAATATCAAAATTA
1 ATGCTATTTTAATATCAAAATTA
110232301 ATGCTATTTTAATATCAAAATTA
1 ATGCTATTTTAATATCAAAATTA
110232324 A
1 A
110232325 GTTAAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
ATGCTATTTTAATATCAAAATTA
Done.