Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 144 of 153
Found at i:45032204 original size:22 final size:21
Alignment explanation
Indices: 45032147--45032208 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 21
45032137 TTTTTATGTT
* *
45032147 TTATATATACTATTTTATTATA
1 TTAT-TATATTATATTATTATA
45032169 -TATTATATTATATTA-TAT-
1 TTATTATATTATATTATTATA
*
45032187 TAATTATATTATATTATTATA
1 TTATTATATTATATTATTATA
45032208 T
1 T
45032209 CTTAAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 17 0.50
20 13 0.38
21 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTATATTATATTATTATA
Found at i:45032457 original size:16 final size:16
Alignment explanation
Indices: 45032436--45032470 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45032426 AGACGAAAAA
* *
45032436 AAAGAAAGGAAAGGGG
1 AAAGAAAAGAAAAGGG
45032452 AAAGAAAAGAAAAGGG
1 AAAGAAAAGAAAAGGG
45032468 AAA
1 AAA
45032471 AACTAGGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGAAAAGGG
Found at i:45033434 original size:27 final size:28
Alignment explanation
Indices: 45033376--45033434 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
45033366 ATCTAATTCC
**
45033376 TTATTGGTGTGTTTGGGAGGATATGATA
1 TTATTGGTGTGTTAAGGAGGATATGATA
* *
45033404 -TATTGGTGTGTTAATGAGGAT-TTATA
1 TTATTGGTGTGTTAAGGAGGATATGATA
45033430 TTATT
1 TTATT
45033435 TCAAGTGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (28 bp):
TTATTGGTGTGTTAAGGAGGATATGATA
Found at i:45036850 original size:23 final size:22
Alignment explanation
Indices: 45036807--45036850 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
45036797 TTCTAAGTCG
45036807 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
45036830 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
45036851 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:45055796 original size:44 final size:45
Alignment explanation
Indices: 45055674--45055802 Score: 122
Period size: 44 Copynumber: 2.9 Consensus size: 45
45055664 GTTGGAAATT
*
45055674 ACAAGTCTTATCTCCCT-AAG-CAGTAGTGGAGCAGACAGAAGAAA
1 ACAAGTCTTATCTCCCTGAAGTCA-CAGTGGAGCAGACAGAAGAAA
* * ** * **
45055718 TCAA-TCCTATCTCCCTGAAGTTGCAGCGGAGCAGATTG-AGAAA
1 ACAAGTCTTATCTCCCTGAAGTCACAGTGGAGCAGACAGAAGAAA
* * *
45055761 ACAAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTGAAG
1 ACAAGTCTTATCTCCCTGAAGTCACAGTGGAGCAGACAGAAG
45055803 CAGAAATCTC
Statistics
Matches: 65, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
43 19 0.29
44 44 0.68
45 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (45 bp):
ACAAGTCTTATCTCCCTGAAGTCACAGTGGAGCAGACAGAAGAAA
Found at i:45056063 original size:142 final size:142
Alignment explanation
Indices: 45055793--45056097 Score: 477
Period size: 142 Copynumber: 2.2 Consensus size: 142
45055783 CACAGTGGGG
* *
45055793 CAGACTGAAG-CAGAAATCTCATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
* * *
45055857 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTCATCTCTCCGAAGTTATAGTAG
66 ATCTCCCTGAGATTACAGTGCAGCGGATTAAAACAAAGGACCTCATCTCTCCGAAGTTACAGTAG
45055922 AGTAGATCGCAT
131 AGTAGATCGCAT
* * *
45055934 CAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACCGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
* * * *
45055999 ATCTCCCTGAGATTACAGTGCAGTGGATTAAAATAAAGGACCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGCAGCGGATTAAAACAAAGGACCTCATCTCTCCGAAGTTACAGTAG
*
45056064 AGTAGATTGCAT
131 AGTAGATCGCAT
*
45056076 CAGATTGAAGCCAGGAATCTTA
1 CAGATTGAAGCCAGAAATCTTA
45056098 CTTCCCCAAG
Statistics
Matches: 149, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
141 9 0.06
142 140 0.94
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGCAGCGGATTAAAACAAAGGACCTCATCTCTCCGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:45056573 original size:15 final size:15
Alignment explanation
Indices: 45056555--45056595 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
45056545 ACAGCTTTAA
45056555 CCCAAACCCAACTAG
1 CCCAAACCCAACTAG
45056570 CCCAAACCCAACTAG
1 CCCAAACCCAACTAG
*
45056585 CCTAAACCCAA
1 CCCAAACCCAA
45056596 AACCAAGCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.41, C:0.46, G:0.05, T:0.07
Consensus pattern (15 bp):
CCCAAACCCAACTAG
Found at i:45057563 original size:39 final size:39
Alignment explanation
Indices: 45057519--45057596 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
45057509 AGTCCTCCAA
*
45057519 GGTTAAAATGGATTTCGATTTAATACAAATTTAGATTTT
1 GGTTAAAACGGATTTCGATTTAATACAAATTTAGATTTT
*
45057558 GGTTAAAACGGATTTCGATTTAATACAAATTTATATTTT
1 GGTTAAAACGGATTTCGATTTAATACAAATTTAGATTTT
45057597 TTTTTACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (39 bp):
GGTTAAAACGGATTTCGATTTAATACAAATTTAGATTTT
Found at i:45058275 original size:44 final size:45
Alignment explanation
Indices: 45058153--45058281 Score: 122
Period size: 44 Copynumber: 2.9 Consensus size: 45
45058143 GTTGGAAATT
*
45058153 ACAAGTCTTATCTCCCT-AAG-CAGTAGTGGAGCAGACAGAAGAAA
1 ACAAGTCTTATCTCCCTGAAGTCA-CAGTGGAGCAGACAGAAGAAA
* * ** * **
45058197 TCAA-TCCTATCTCCCTGAAGTTGCAGCGGAGCAGATTG-AGAAA
1 ACAAGTCTTATCTCCCTGAAGTCACAGTGGAGCAGACAGAAGAAA
* * *
45058240 ACAAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTGAAG
1 ACAAGTCTTATCTCCCTGAAGTCACAGTGGAGCAGACAGAAG
45058282 CAGAAATCTC
Statistics
Matches: 65, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
43 19 0.29
44 44 0.68
45 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (45 bp):
ACAAGTCTTATCTCCCTGAAGTCACAGTGGAGCAGACAGAAGAAA
Found at i:45058344 original size:44 final size:44
Alignment explanation
Indices: 45058292--45058495 Score: 124
Period size: 44 Copynumber: 4.4 Consensus size: 44
45058282 CAGAAATCTC
45058292 ATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
1 ATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
* *** * * * *
45058336 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAG-GAT-CT
1 ATCTCCCTGAGATTACAGCGGAATAGATTGAAGC-TAGTAATCCT
* * * * * * *
45058379 CATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTT
1 -ATCTCCCTG-AG--AT--TACAG-CG---GAAT-AGATTGAAGCTAGTAATCCT
* * *
45058434 ATCTCCTTGAGATTACCGCGGAGTAGATTGAAGCTAGTAATCCT
1 ATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
45058478 ATCTCCCTGAGATTACAG
1 ATCTCCCTGAGATTACAG
45058496 TGCAGTGGAT
Statistics
Matches: 114, Mismatches: 32, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
43 2 0.02
44 71 0.62
45 6 0.05
47 2 0.02
48 1 0.01
49 7 0.06
50 1 0.01
51 2 0.02
53 5 0.04
54 16 0.14
55 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
ATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
Found at i:45058542 original size:142 final size:142
Alignment explanation
Indices: 45058272--45058576 Score: 486
Period size: 142 Copynumber: 2.2 Consensus size: 142
45058262 CACAGTGGGG
* *
45058272 CAGACTGAAG-CAGAAATCTCATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
* * *
45058336 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTCATCTCTCTGAAGTTATAGTAG
66 ATCTCCCTGAGATTACAGTGCAGCGGATTAAAACAAAGGACCTCATCTCTCTGAAGTTACAGTAG
45058401 AGTAGATCGCAT
131 AGTAGATCGCAT
* * *
45058413 CAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACCGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
* * *
45058478 ATCTCCCTGAGATTACAGTGCAGTGGATTAAAATAAAGGACCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGCAGCGGATTAAAACAAAGGACCTCATCTCTCTGAAGTTACAGTAG
*
45058543 AGTAGATTGCAT
131 AGTAGATCGCAT
*
45058555 CAGATTGAAGCCAGGAATCTTA
1 CAGATTGAAGCCAGAAATCTTA
45058577 CTTCCCCAAG
Statistics
Matches: 150, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
141 9 0.06
142 141 0.94
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAATAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGCAGCGGATTAAAACAAAGGACCTCATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:45059052 original size:15 final size:15
Alignment explanation
Indices: 45059034--45059074 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
45059024 ACAGCTTTAA
45059034 CCCAAACCCAACTAG
1 CCCAAACCCAACTAG
45059049 CCCAAACCCAACTAG
1 CCCAAACCCAACTAG
*
45059064 CCTAAACCCAA
1 CCCAAACCCAA
45059075 AACCAAGCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.41, C:0.46, G:0.05, T:0.07
Consensus pattern (15 bp):
CCCAAACCCAACTAG
Found at i:45060042 original size:39 final size:39
Alignment explanation
Indices: 45059998--45060075 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
45059988 AGTCCTCCAA
*
45059998 GGTTAAAATGGATTTCGATTTAATACAAATTTAGATTTT
1 GGTTAAAACGGATTTCGATTTAATACAAATTTAGATTTT
*
45060037 GGTTAAAACGGATTTCGATTTAATACAAATTTATATTTT
1 GGTTAAAACGGATTTCGATTTAATACAAATTTAGATTTT
45060076 TTTTTACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (39 bp):
GGTTAAAACGGATTTCGATTTAATACAAATTTAGATTTT
Found at i:45060528 original size:19 final size:19
Alignment explanation
Indices: 45060504--45060540 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
45060494 TTTTAATTGT
45060504 TATCAATATGT-TTTAAAAG
1 TATCAATAT-TATTTAAAAG
45060523 TATCAATATTATTTAAAA
1 TATCAATATTATTTAAAA
45060541 AATACATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (19 bp):
TATCAATATTATTTAAAAG
Found at i:45061777 original size:51 final size:49
Alignment explanation
Indices: 45061604--45061948 Score: 359
Period size: 51 Copynumber: 6.8 Consensus size: 49
45061594 ACTTTTATCA
* *
45061604 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTT
* * * * *
45061653 TTATGGTTCACGTAGTAGCCTTTACATAGTACTACACATGTGATCAAGTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTT
* *
45061703 TTACGGTTCACGTAGTAGCCTTCACCTAGTACTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TT
* * * * *
45061755 TTTGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATAATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AGTT
* * *
45061805 TATCGATTCACGTAGTAGCCTTCACATAGTACTACACACATGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TT
* * * * *
45061857 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA--AGTT
* * *
45061907 TATCGATACATGTAGTAGCCTTCACACAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
45061949 TTCATCGATA
Statistics
Matches: 246, Mismatches: 40, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
49 2 0.01
50 89 0.36
51 147 0.60
52 8 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (49 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTT
Found at i:45061838 original size:102 final size:102
Alignment explanation
Indices: 45061605--45061948 Score: 480
Period size: 102 Copynumber: 3.4 Consensus size: 102
45061595 CTTTTATCAT
* * *
45061605 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTATGGTTCACGTAG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-TGGTACACATAG
* * * *
45061668 TAGCCTTTACATAGTACTACACATGTGATCA-AGTTT-
65 TAGCCTTCACTTAGTACTACACATGTGACCATAATTTA
* * *
45061704 TACGGTTCACGTAGTAGCCTTCACCTAGTACTACACACGTGACCAAAGCTTTTTGGTACACATAG
1 T-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTTGGTACACATAG
45061769 TAGCCTTCACTTAGTACTACACATGTGACCATAATTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATAATTTA
* * * * *
45061807 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACATGACCAAAGCTTCTCGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTTGGTACACATAGT
*
45061872 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATAATTTA
* *
45061909 TCGATACATGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
45061949 TTCATCGATA
Statistics
Matches: 219, Mismatches: 21, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
99 1 0.00
100 38 0.17
101 41 0.19
102 138 0.63
103 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTTGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATAATTTA
Found at i:45068674 original size:13 final size:14
Alignment explanation
Indices: 45068658--45068702 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
45068648 GGGGGTAGGA
45068658 ATCTGTATATCTG-
1 ATCTGTATATCTGT
*
45068671 ATCTGCATATCTGT
1 ATCTGTATATCTGT
*
45068685 AACTGT-TATCTGT
1 ATCTGTATATCTGT
45068698 ATCTG
1 ATCTG
45068703 AAATGGACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 23 0.85
14 4 0.15
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (14 bp):
ATCTGTATATCTGT
Found at i:45074665 original size:27 final size:27
Alignment explanation
Indices: 45074625--45074779 Score: 159
Period size: 27 Copynumber: 5.7 Consensus size: 27
45074615 GATAGGTTAA
*
45074625 AAAATTACC-AAATTACCCCCAAAGGGT
1 AAAATGACCGAAA-TACCCCCAAAGGGT
* * *
45074652 AAAATGATCGAATTACCCTCAAAGGGT
1 AAAATGACCGAAATACCCCCAAAGGGT
* * *
45074679 AAAATGACCGAATTACCCTCGAAGGGT
1 AAAATGACCGAAATACCCCCAAAGGGT
* * * *
45074706 AAAATGACCAAAATACCACCTAAGGAT
1 AAAATGACCGAAATACCCCCAAAGGGT
* * *
45074733 AAAATAATCGAAATACCTCCAAAGGGT
1 AAAATGACCGAAATACCCCCAAAGGGT
*
45074760 AAAATGGCCGAAATACCCCC
1 AAAATGACCGAAATACCCCC
45074780 GTAGGATAAA
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 103 0.98
28 2 0.02
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.17
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCAAAGGGT
Found at i:45074760 original size:81 final size:81
Alignment explanation
Indices: 45074625--45074777 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
45074615 GATAGGTTAA
* * * * * *
45074625 AAAATTACCAAATTACCCCCAAAGGGTAAAATGATCGAATTACCCTCAAAGGGTAAAATGACCGA
1 AAAATGACCAAAATACCACCAAAGGATAAAATAATCGAAATACCCTCAAAGGGTAAAATGACCGA
*
45074690 ATTACCCTCGAAGGGT
66 AATACCCTCGAAGGGT
* *
45074706 AAAATGACCAAAATACCACCTAAGGATAAAATAATCGAAATA-CCTCCAAAGGGTAAAATGGCCG
1 AAAATGACCAAAATACCACCAAAGGATAAAATAATCGAAATACCCT-CAAAGGGTAAAATGACCG
45074770 AAATACCC
65 AAATACCC
45074778 CCGTAGGATA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 3 0.05
81 59 0.95
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (81 bp):
AAAATGACCAAAATACCACCAAAGGATAAAATAATCGAAATACCCTCAAAGGGTAAAATGACCGA
AATACCCTCGAAGGGT
Found at i:45076860 original size:24 final size:24
Alignment explanation
Indices: 45076812--45076858 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
45076802 ATTGGTCATA
*
45076812 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
45076836 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
45076859 GGGATTATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:45077577 original size:54 final size:54
Alignment explanation
Indices: 45077519--45077645 Score: 152
Period size: 54 Copynumber: 2.4 Consensus size: 54
45077509 ATGACTTAAT
* ** *
45077519 TACCCTCGAAGGGTAAAATGA-CCAAATTA-CCTCCGAAGGGTAAAATGAAC-AAAA
1 TACCCCCGAAGGGTAAAATGATCCAAA-TACCCT-AAAAAGGTAAAAT-AACTAAAA
* *
45077573 TACCCCCGAAGGGTAAAATGATCGAAATACCCTAAAAAGGTAAAATAACTGAAA
1 TACCCCCGAAGGGTAAAATGATCCAAATACCCTAAAAAGGTAAAATAACTAAAA
45077627 TACCCCCGAAGGGTAAAAT
1 TACCCCCGAAGGGTAAAAT
45077646 AAGTGTTATA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
53 3 0.05
54 54 0.84
55 7 0.11
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (54 bp):
TACCCCCGAAGGGTAAAATGATCCAAATACCCTAAAAAGGTAAAATAACTAAAA
Found at i:45077646 original size:27 final size:26
Alignment explanation
Indices: 45077519--45077647 Score: 132
Period size: 27 Copynumber: 4.8 Consensus size: 26
45077509 ATGACTTAAT
* * *
45077519 TACCCTCGAAGGGTAAAATGACCAAA
1 TACCCCCGAAGGGTAAAATAACGAAA
* *
45077545 TTACCTCCGAAGGGTAAAATGAACAAAA
1 -TACCCCCGAAGGGTAAAAT-AACGAAA
*
45077573 TACCCCCGAAGGGTAAAATGATCGAAA
1 TACCCCCGAAGGGTAAAAT-AACGAAA
*** *
45077600 TACCCTAAAAAGGTAAAATAACTGAAA
1 TACCCCCGAAGGGTAAAATAAC-GAAA
45077627 TACCCCCGAAGGGTAAAATAA
1 TACCCCCGAAGGGTAAAATAA
45077648 GTGTTATATC
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.02
27 77 0.92
28 5 0.06
ACGTcount: A:0.46, C:0.20, G:0.18, T:0.16
Consensus pattern (26 bp):
TACCCCCGAAGGGTAAAATAACGAAA
Found at i:45077720 original size:16 final size:16
Alignment explanation
Indices: 45077692--45077733 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
45077682 ACTGATTTGC
45077692 TCTATGA-TGTATATA
1 TCTATGACTGTATATA
45077707 TCTATGACTGTATATA
1 TCTATGACTGTATATA
45077723 TCTATGACTGT
1 TCTATGACTGT
45077734 TACTGAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 7 0.27
16 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (16 bp):
TCTATGACTGTATATA
Found at i:45078043 original size:28 final size:29
Alignment explanation
Indices: 45077999--45078064 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 29
45077989 ACTGCATTGT
*
45077999 ACTGTAACTG-AATTGGGCTAAGGCCCAC
1 ACTGTTACTGTAATTGGGCTAAGGCCCAC
45078027 ACTGTTACTGTAA-TGGGCTAAGGCCCAC
1 ACTGTTACTGTAATTGGGCTAAGGCCCAC
45078055 ACTG-TACTGT
1 ACTGTTACTGT
45078065 TACTGCATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 6 0.17
28 28 0.78
29 2 0.06
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (29 bp):
ACTGTTACTGTAATTGGGCTAAGGCCCAC
Found at i:45078067 original size:33 final size:31
Alignment explanation
Indices: 45077996--45078069 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 31
45077986 ATTACTGCAT
*
45077996 TGTACTGTAACTGAATTGGGCTAAGGCCCAC
1 TGTACTGTTACTGAATTGGGCTAAGGCCCAC
45078027 ---ACTGTTACTGTAA-TGGGCTAAGGCCCACAC
1 TGTACTGTTACTG-AATTGGGCTAAGG-CC-CAC
45078057 TGTACTGTTACTG
1 TGTACTGTTACTG
45078070 CATGTTGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
28 19 0.53
29 4 0.11
30 3 0.08
33 10 0.28
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (31 bp):
TGTACTGTTACTGAATTGGGCTAAGGCCCAC
Found at i:45079696 original size:24 final size:24
Alignment explanation
Indices: 45079648--45079694 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
45079638 CCTAGTCATA
*
45079648 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
45079672 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
45079695 GGGATTAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:45080360 original size:27 final size:27
Alignment explanation
Indices: 45080320--45080378 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
45080310 GAGAGGTCAA
** *
45080320 AAAATGACTGAATTACCCTCGAAGGGT
1 AAAATGACCAAATTACCCCCGAAGGGT
45080347 AAAATGACCAAATTACCCCCGAAGGGT
1 AAAATGACCAAATTACCCCCGAAGGGT
45080374 AAAAT
1 AAAAT
45080379 AACTATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (27 bp):
AAAATGACCAAATTACCCCCGAAGGGT
Found at i:45080760 original size:28 final size:27
Alignment explanation
Indices: 45080720--45080781 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 27
45080710 CATTGTACTA
*
45080720 TTACTGTATTGGGCTAAGGCCCACACT
1 TTACTGTAATGGGCTAAGGCCCACACT
*
45080747 GTTACTGTAATGGGCTGAGGCCCACACT
1 -TTACTGTAATGGGCTAAGGCCCACACT
45080775 TTACTGT
1 TTACTGT
45080782 TACTGTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 7 0.22
28 25 0.78
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (27 bp):
TTACTGTAATGGGCTAAGGCCCACACT
Found at i:45083082 original size:27 final size:27
Alignment explanation
Indices: 45083044--45083156 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
45083034 GATAGGTCGA
*
45083044 AAAATGATTGAATTACCCCCGAAGGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
*
45083071 AAAATGACTGAATTACCCCTGAAGGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
* * **
45083098 TAAGTGACTGAATTACCTTCGAAGGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
* * * *
45083125 AAAATGACCGAAATACCCCTGAAAGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
45083152 AAAAT
1 AAAAT
45083157 ACCCCAAAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (27 bp):
AAAATGACTGAATTACCCCCGAAGGGT
Found at i:45083298 original size:27 final size:26
Alignment explanation
Indices: 45083263--45083314 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
45083253 ATATACTGCA
*
45083263 TGGTGGCTTTGCCACATATACTGTTAT
1 TGGTAGCTTTGCCACAT-TACTGTTAT
* *
45083290 TGGTAGCTTTGCTACATTATTGTTA
1 TGGTAGCTTTGCCACATTACTGTTA
45083315 CTGACAGCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.44
Consensus pattern (26 bp):
TGGTAGCTTTGCCACATTACTGTTAT
Found at i:45086476 original size:8 final size:8
Alignment explanation
Indices: 45086463--45086491 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
45086453 TTTTAAATGA
45086463 TATTTTAT
1 TATTTTAT
45086471 TATTTTAT
1 TATTTTAT
45086479 TATTTTAT
1 TATTTTAT
45086487 TATTT
1 TATTT
45086492 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:45095188 original size:20 final size:19
Alignment explanation
Indices: 45095163--45095207 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
45095153 TATTGGATTT
* *
45095163 AAAAAAAATAAGAAATTCGA
1 AAAAAAAATAAAAAAATC-A
*
45095183 AAAAAAATTAAAAAAATCA
1 AAAAAAAATAAAAAAATCA
45095202 AAAAAA
1 AAAAAA
45095208 TTTTTGTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAAAAAATAAAAAAATCA
Found at i:45095204 original size:19 final size:19
Alignment explanation
Indices: 45095163--45095207 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
45095153 TATTGGATTT
* *
45095163 AAAAAAAATAAGAAATTCG
1 AAAAAAAATAAAAAAATCG
45095182 AAAAAAAATTAAAAAAATC-
1 AAAAAAAA-TAAAAAAATCG
45095201 AAAAAAA
1 AAAAAAA
45095208 TTTTTGTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAAAAAATAAAAAAATCG
Found at i:45095265 original size:110 final size:110
Alignment explanation
Indices: 45095082--45095317 Score: 472
Period size: 110 Copynumber: 2.1 Consensus size: 110
45095072 AAAAAAGTAA
45095082 AAAAAAATCAAAAAAATTTTTGTTGGAATTTAATTTAATTTTTTTTCTTCCTTGTATTTAGTTTA
1 AAAAAAATCAAAAAAATTTTTGTTGGAATTTAATTTAATTTTTTTTCTTCCTTGTATTTAGTTTA
45095147 CTATTGTATTGGATTTAAAAAAAATAAGAAATTCGAAAAAAAATT
66 CTATTGTATTGGATTTAAAAAAAATAAGAAATTCGAAAAAAAATT
45095192 AAAAAAATCAAAAAAATTTTTGTTGGAATTTAATTTAATTTTTTTTCTTCCTTGTATTTAGTTTA
1 AAAAAAATCAAAAAAATTTTTGTTGGAATTTAATTTAATTTTTTTTCTTCCTTGTATTTAGTTTA
45095257 CTATTGTATTGGATTTAAAAAAAATAAGAAATTCGAAAAAAAATT
66 CTATTGTATTGGATTTAAAAAAAATAAGAAATTCGAAAAAAAATT
45095302 AAAAAAATCAAAAAAA
1 AAAAAAATCAAAAAAA
45095318 AAGTGACAAA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 126 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (110 bp):
AAAAAAATCAAAAAAATTTTTGTTGGAATTTAATTTAATTTTTTTTCTTCCTTGTATTTAGTTTA
CTATTGTATTGGATTTAAAAAAAATAAGAAATTCGAAAAAAAATT
Found at i:45095297 original size:19 final size:19
Alignment explanation
Indices: 45095273--45095318 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
45095263 TATTGGATTT
* *
45095273 AAAAAAAA-TAAGAAATTC
1 AAAAAAAATTAAAAAAATC
45095291 GAAAAAAAATTAAAAAAATC
1 -AAAAAAAATTAAAAAAATC
45095311 AAAAAAAA
1 AAAAAAAA
45095319 AGTGACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAAAAAATTAAAAAAATC
Found at i:45095298 original size:20 final size:19
Alignment explanation
Indices: 45095273--45095319 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
45095263 TATTGGATTT
* *
45095273 AAAAAAAATAAGAAATTCGA
1 AAAAAAAATAAAAAAATC-A
*
45095293 AAAAAAATTAAAAAAATCA
1 AAAAAAAATAAAAAAATCA
45095312 AAAAAAAA
1 AAAAAAAA
45095320 GTGACAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAAAAAATAAAAAAATCA
Found at i:45095700 original size:113 final size:110
Alignment explanation
Indices: 45095499--45095721 Score: 340
Period size: 113 Copynumber: 2.0 Consensus size: 110
45095489 GACATTATCC
45095499 CTTGTAACCCATTTTGAAACCGACCCTCAAACAGCAAATTAAGTCTATCGAGACAAATCACGAAA
1 CTTGTAACCCATTTTGAAACCGACCCTCAAACAGCAAATTAAGTCTATCGAGACAAATCACGAAA
*
45095564 TTGAGAGCAGAGGTCGAGTGGTAAAAGGCAAGAGTGAAATACATCAAA
66 TTGAGAGCAGAGGTCGAGAGGTAAAAGGC-A-AGT-AAATACATCAAA
* * * *
45095612 CTTGTAACCTATTTTGAAACCGACCCTCAAGCAGCAAATTAAGTCTATCGAGACGAATTACGAAA
1 CTTGTAACCCATTTTGAAACCGACCCTCAAACAGCAAATTAAGTCTATCGAGACAAATCACGAAA
* *
45095677 TTGTGAG-ACGAGGTCGAGAGGTAAAAGGCACGTAAATACATCAAA
66 TTGAGAGCA-GAGGTCGAGAGGTAAAAGGCAAGTAAATACATCAAA
45095722 AGAAAAAGCC
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
110 12 0.12
111 2 0.02
112 2 0.02
113 86 0.84
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (110 bp):
CTTGTAACCCATTTTGAAACCGACCCTCAAACAGCAAATTAAGTCTATCGAGACAAATCACGAAA
TTGAGAGCAGAGGTCGAGAGGTAAAAGGCAAGTAAATACATCAAA
Found at i:45096364 original size:18 final size:18
Alignment explanation
Indices: 45096343--45096377 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45096333 AGAAAAGAAA
45096343 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
45096361 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
45096378 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:45100567 original size:28 final size:28
Alignment explanation
Indices: 45100526--45100614 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
45100516 CTATTTAGTA
* *
45100526 ACAG-AACAGTGTGGGCCTTAACCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
45100553 ACAGTAATAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
45100581 ACAGTAACAATGTGGGCCTTAGCTCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
45100609 ACAGTA
1 ACAGTA
45100615 TCGGTACAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 4 0.07
28 52 0.93
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:45100998 original size:27 final size:27
Alignment explanation
Indices: 45100977--45101388 Score: 363
Period size: 27 Copynumber: 15.3 Consensus size: 27
45100967 AGGGGTGTAA
45100977 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
45101004 CGGTCATTTTACTCTATGGGGGTATATT
1 CAGTCATTTTACCCTATGGGGGTAT-TT
* *
45101032 -GGTCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
45101058 CATTCATTCTACCCTAT-GGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
45101084 -TGATCATTTTGCCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* *
45101111 CAGTCATTCTACCCTAT-GGGGCATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * * ** *
45101137 CGGTCATTCTACCCTATAGGCATACTT
1 CAGTCATTTTACCCTATGGGGGTATTT
**
45101164 C-GATCATTTTACCCTATAAGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
** **
45101191 TGGTCATTTTACCCTATAAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
45101218 -TGTTCATTTTACGCTATGGAGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
*
45101245 CAGTTATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
45101272 C-GATCATTTTACCCTATAGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* * * **
45101299 CGGTTATTTTATCCTATGAAGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * * *
45101326 CGGTCATTTTATCCTGTGGGGGTATTA
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
45101353 CGGTCATTTTACCTTATTGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
45101380 C-GATCATTT
1 CAG-TCATTT
45101389 ATCGACCTCT
Statistics
Matches: 320, Mismatches: 52, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
26 51 0.16
27 263 0.82
28 6 0.02
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:45101026 original size:54 final size:54
Alignment explanation
Indices: 45100979--45101388 Score: 434
Period size: 54 Copynumber: 7.6 Consensus size: 54
45100969 GGGTGTAACA
* *
45100979 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACTCTATGGGGGTATATT-G
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTAT-TTCG
* * *
45101033 GTCATTTTACCCTATAGGGGTATTTC-ATTCATTCTACCCTAT-GGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTCG
* * * *
45101086 ATCATTTTGCCCTATGGGGGTATTTC-AGTCATTCTACCCTAT-GGGGCATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTCG
* * ** * ** *
45101139 GTCATTCTACCCTATAGGCATACTTCGATCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
** * * * * *
45101193 GTCATTTTACCCTATAAGGGTATTTTGTTCATTTTACGCTATGGAGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* *
45101247 GTTATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * ** * * * *
45101301 GTTATTTTATCCTATGAAGGTATTTCGGTCATTTTATCCTGTGGGGGTATTACG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* *
45101355 GTCATTTTACCTTATTGGGGTATTTCGATCATTT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTT
45101389 ATCGACCTCT
Statistics
Matches: 294, Mismatches: 58, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
52 2 0.01
53 87 0.30
54 205 0.70
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
Found at i:45101268 original size:81 final size:81
Alignment explanation
Indices: 45100980--45101388 Score: 461
Period size: 81 Copynumber: 5.1 Consensus size: 81
45100970 GGTGTAACAG
* *
45100980 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACTCTATGGGGGTATATT-GGTCATTTTACC
1 TCATTTTACCCTATGGAGGTATTTCGGTCATTTTACCCTATGGGGGTAT-TTCGGTCATTTTACC
*
45101044 CTATAGGGGTATTTCAT
65 CTATAGGGGTATTTCGT
* * * * * *
45101061 TCATTCTACCCTATGG-GGTATTTTGATCATTTTGCCCTATGGGGGTATTTCAGTCATTCTACCC
1 TCATTTTACCCTATGGAGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCC
* *
45101125 TAT-GGGGCATTTCGG
66 TATAGGGGTATTTCGT
* * * ** *
45101140 TCATTCTACCCTAT--AGGCATACTTCGATCATTTTACCCTATAAGGGTATTTTGGTCATTTTAC
1 TCATTTTACCCTATGGAGG--TATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTAC
* *
45101203 CCTATAAGGGTATTTTGT
64 CCTATAGGGGTATTTCGT
* * * *
45101221 TCATTTTACGCTATGGAGGTATTTCAGTTATTTTACCCTATGGGGGTATTTCGATCATTTTACCC
1 TCATTTTACCCTATGGAGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCC
45101286 TATAGGGGTATTTCGGT
66 TATAGGGGTATTTC-GT
* * * * * *
45101303 T-ATTTTATCCTATGAAGGTATTTCGGTCATTTTATCCTGTGGGGGTATTACGGTCATTTTACCT
1 TCATTTTACCCTATGGAGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCC
* *
45101367 TATTGGGGTATTTCGA
66 TATAGGGGTATTTCGT
45101383 TCATTT
1 TCATTT
45101389 ATCGACCTCT
Statistics
Matches: 273, Mismatches: 46, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
78 2 0.01
79 25 0.09
80 85 0.31
81 155 0.57
82 3 0.01
83 3 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATGGAGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCC
TATAGGGGTATTTCGT
Found at i:45107936 original size:34 final size:34
Alignment explanation
Indices: 45107895--45107961 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
45107885 TAAGGAAACT
45107895 CAACCAAAGTAACATACCTTTCCCAATTCAATAC
1 CAACCAAAGTAACATACCTTTCCCAATTCAATAC
*
45107929 CAACCAAAGTAACATACCTTTTCCAATTCAATA
1 CAACCAAAGTAACATACCTTTCCCAATTCAATA
45107962 ATCAATTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.42, C:0.30, G:0.03, T:0.25
Consensus pattern (34 bp):
CAACCAAAGTAACATACCTTTCCCAATTCAATAC
Found at i:45115345 original size:50 final size:50
Alignment explanation
Indices: 45115225--45115551 Score: 351
Period size: 50 Copynumber: 6.6 Consensus size: 50
45115215 CAATCACGTA
* * * * *
45115225 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTG-AG--CCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCA-TG
* * *
45115273 TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATTAGAAGTCTCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCATG
* *
45115323 TAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCATG
* * **
45115373 TAAGACCATGTCTGGGACATGGCTTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCATG
* * * * * *
45115423 TAAAACCATGTCTGGGATATGGCATAGGCACCGATATGAGAACTCTCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCATG
* * * * *
45115473 TAAGACCATATCTGGGATATGGCATTGGCA--GTGCAGGA-AACATCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAG-ATGAGAA-GTCCCATG
*
45115522 TAAGACCATGTCTGGGACATGGCTTTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
45115552 TGTTATTATC
Statistics
Matches: 236, Mismatches: 38, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
48 36 0.15
49 38 0.16
50 160 0.68
51 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCATG
Found at i:45115495 original size:150 final size:148
Alignment explanation
Indices: 45115272--45115551 Score: 400
Period size: 150 Copynumber: 1.9 Consensus size: 148
45115262 GTGAGCCAGT
* * * * * *
45115272 GTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATTAGAAGTCTCATGTAAGACCATGTCTG
1 GTAAAACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAACTCTCATGTAAGACCATATCTG
* **
45115337 GGACATGGCATTGGCA-CCAAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGG
66 GGACATGGCATTGGCAGCC-AG--GAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGG
45115401 CACCGAGATGAGAGGTCCCCC
128 CACCGAGATGAGAGGTCCCCC
* *
45115422 GTAAAACCATGTCTGGGATATGGCATAGGCACCGATATGAGAACTCTCATGTAAGACCATATCTG
1 GTAAAACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAACTCTCATGTAAGACCATATCTG
* *
45115487 GGATATGGCATTGGCAGTGCAGGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
66 GGACATGGCATTGGCAG-CCAGGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
45115552 TGTTATTATC
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
149 40 0.35
150 72 0.63
151 2 0.02
152 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (148 bp):
GTAAAACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAACTCTCATGTAAGACCATATCTG
GGACATGGCATTGGCAGCCAGGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAC
CGAGATGAGAGGTCCCCC
Found at i:45116512 original size:25 final size:25
Alignment explanation
Indices: 45116454--45116501 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
45116444 GGAGTTTAGC
*
45116454 ATGCTCTCTGATTATTAGCACATCG
1 ATGCTCTCTAATTATTAGCACATCG
*
45116479 GTGCTCTCTAATTATTAGCACAT
1 ATGCTCTCTAATTATTAGCACAT
45116502 TTATGTTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (25 bp):
ATGCTCTCTAATTATTAGCACATCG
Found at i:45119392 original size:32 final size:32
Alignment explanation
Indices: 45119346--45119427 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
45119336 GCTGTGATGC
* * *
45119346 TACTGATGGCTTTGTGTCGATCATATTACCGT
1 TACTAATGGCTTTGTGCCGATCATATTACCAT
45119378 TACTAATGGCTTTGTGCCGATCATATTACCAT
1 TACTAATGGCTTTGTGCCGATCATATTACCAT
45119410 TACTAATGG-TTGTGTGCC
1 TACTAATGGCTT-TGTGCC
45119428 AATCTTATCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 2 0.04
32 44 0.96
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (32 bp):
TACTAATGGCTTTGTGCCGATCATATTACCAT
Found at i:45125479 original size:27 final size:27
Alignment explanation
Indices: 45125441--45125649 Score: 213
Period size: 27 Copynumber: 7.7 Consensus size: 27
45125431 AATATTTGTT
** *
45125441 AAATGA-CTGAAATACATTCGATGGATA
1 AAATGATC-GAAATACCCTCGATGGGTA
* *
45125468 AAATTATCGAAATACCCTCGACGGGTA
1 AAATGATCGAAATACCCTCGATGGGTA
* * * * *
45125495 AACTAACCAAAATACTCTCGATGGGTA
1 AAATGATCGAAATACCCTCGATGGGTA
* * * *
45125522 AAATTACCAAAATACCCTCGATGGGAA
1 AAATGATCGAAATACCCTCGATGGGTA
*
45125549 AAATGATCGAAATACCCTCAATGGGTA
1 AAATGATCGAAATACCCTCGATGGGTA
* * *
45125576 AAATCATTGAAATACCCTCAATGGGTA
1 AAATGATCGAAATACCCTCGATGGGTA
* *
45125603 AAATGATTGAAATACCCTCAATGGGTA
1 AAATGATCGAAATACCCTCGATGGGTA
*
45125630 AAATGACCGAAATACCCTCG
1 AAATGATCGAAATACCCTCG
45125650 TAAGGTAAAA
Statistics
Matches: 155, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 154 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (27 bp):
AAATGATCGAAATACCCTCGATGGGTA
Found at i:45125656 original size:27 final size:27
Alignment explanation
Indices: 45125466--45125836 Score: 113
Period size: 27 Copynumber: 13.7 Consensus size: 27
45125456 ATTCGATGGA
* * *
45125466 TAAAATTATCGAAATACCCTCG-ACGGG
1 TAAAATGACCGAAATACCCTCGTA-AGG
* * * * *
45125493 TAAACTAACCAAAATACTCTCG-ATGGG
1 TAAAATGACCGAAATACCCTCGTA-AGG
* * *
45125520 TAAAATTACCAAAATACCCTCG-ATGGG
1 TAAAATGACCGAAATACCCTCGTA-AGG
* *
45125547 AAAAATGATCGAAATACCCTC--AATGGG
1 TAAAATGACCGAAATACCCTCGTAA--GG
* **
45125574 TAAAATCATTGAAATACCCTC--AATGGG
1 TAAAATGACCGAAATACCCTCGTAA--GG
**
45125601 TAAAATGATTGAAATACCCTC--AATGGG
1 TAAAATGACCGAAATACCCTCGTAA--GG
45125628 TAAAATGACCGAAATACCCTCGTAAGG
1 TAAAATGACCGAAATACCCTCGTAAGG
* ** * * * *
45125655 TAAAATTATTGTAATGCCCTTGTAAAG
1 TAAAATGACCGAAATACCCTCGTAAGG
** * *
45125682 TAAAATGATTGTAATACCC-CTATAAGG
1 TAAAATGACCGAAATACCCTC-GTAAGG
* * *
45125709 TAAAATGACCGAAAAACCC-CATAGGG
1 TAAAATGACCGAAATACCCTCGTAAGG
* * *
45125735 TAAAATAACC-ATAATGCCC-CTGTAGGG
1 TAAAATGACCGA-AATACCCTC-GTAAGG
* * * * *
45125762 TAAAAAGACCGTAATACCCCCCATAGGG
1 TAAAATGACCGAAATA-CCCTCGTAAGG
* *
45125790 TTAAATGATCGAAATATCCCT-GTAAGG
1 TAAAATGACCGAAATA-CCCTCGTAAGG
* * *
45125817 TAAAATAACCGTAATGCCCT
1 TAAAATGACCGAAATACCCT
45125837 TATAGGGTAA
Statistics
Matches: 275, Mismatches: 59, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
25 1 0.00
26 25 0.09
27 223 0.81
28 23 0.08
29 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGTAAGG
Found at i:45125657 original size:54 final size:53
Alignment explanation
Indices: 45125441--45125674 Score: 182
Period size: 54 Copynumber: 4.3 Consensus size: 53
45125431 AATATTTGTT
* ** * * * * *
45125441 AAATGACTGAAATACATTCGATGGATAAAATTATCGAAATACCCTCGACGGGTA
1 AAATGATTGAAATACCCTCAATGGGTAAAATCACCGAAATACCCTCGA-AGGTA
* * *** * * * * * *
45125495 AACTAACCAAAATACTCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGAA
1 AAATGATTGAAATACCCTCAATGGGTAAAATCACCGAAATACCCTCGA-AGGTA
* **
45125549 AAATGATCGAAATACCCTCAATGGGTAAAATCATTGAAATACCCTC-AATGGGTA
1 AAATGATTGAAATACCCTCAATGGGTAAAATCACCGAAATACCCTCGAA--GGTA
*
45125603 AAATGATTGAAATACCCTCAATGGGTAAAATGACCGAAATACCCTCGTAAGGTA
1 AAATGATTGAAATACCCTCAATGGGTAAAATCACCGAAATACCCTCG-AAGGTA
* * *
45125657 AAATTATTGTAATGCCCT
1 AAATGATTGAAATACCCT
45125675 TGTAAAGTAA
Statistics
Matches: 146, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
53 1 0.01
54 143 0.98
56 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (53 bp):
AAATGATTGAAATACCCTCAATGGGTAAAATCACCGAAATACCCTCGAAGGTA
Found at i:45125657 original size:81 final size:80
Alignment explanation
Indices: 45125504--45125740 Score: 205
Period size: 81 Copynumber: 2.9 Consensus size: 80
45125494 AAACTAACCA
* * * *** * * *
45125504 AAATACTCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGAAAAATGATCGAAATACCCTC-
1 AAATACCCTCAATGGGTAAAATGATTGAAATACCCTCAATGGGTAAAATGACCGAAATACCCTCT
45125568 AATGGGTAAAATCATTG
66 AA--GGTAAAATCATTG
45125585 AAATACCCTCAATGGGTAAAATGATTGAAATACCCTCAATGGGTAAAATGACCGAAATACCCTCG
1 AAATACCCTCAATGGGTAAAATGATTGAAATACCCTCAATGGGTAAAATGACCGAAATACCCTC-
*
45125650 TAAGGTAAAATTATTG
65 TAAGGTAAAATCATTG
* * * * * * * *
45125666 TAATGCCCTTGTAA--AGTAAAATGATTGTAATACCC-CTATAAGGTAAAATGACCGAAAAACCC
1 AAATACCC-T-CAATGGGTAAAATGATTGAAATACCCTCAAT-GGGTAAAATGACCGAAATACCC
*
45125728 -CATAGGGTAAAAT
63 TC-TAAGGTAAAAT
45125741 AACCATAATG
Statistics
Matches: 131, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
80 14 0.11
81 112 0.85
82 1 0.01
83 4 0.03
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (80 bp):
AAATACCCTCAATGGGTAAAATGATTGAAATACCCTCAATGGGTAAAATGACCGAAATACCCTCT
AAGGTAAAATCATTG
Found at i:45125755 original size:53 final size:55
Alignment explanation
Indices: 45125693--45125831 Score: 133
Period size: 55 Copynumber: 2.6 Consensus size: 55
45125683 AAAATGATTG
*
45125693 TAATACCCCTATAAGGTAAAATGACCG-AA-AAACCCCATAGGGTAAAATAACCA
1 TAATACCCCTATAAGGTAAAAAGACCGTAATAAACCCCATAGGGTAAAATAACCA
* * * ** * * *
45125746 TAATGCCCCTGTAGGGTAAAAAGACCGTAATACCCCCCATAGGGTTAAATGATCGA
1 TAATACCCCTATAAGGTAAAAAGACCGTAATAAACCCCATAGGGTAAAAT-AACCA
* *
45125802 -AATATCCCTGTAAGGTAAAATA-ACCGTAAT
1 TAATACCCCTATAAGGTAAAA-AGACCGTAAT
45125832 GCCCTTATAG
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
53 23 0.33
54 2 0.03
55 41 0.59
56 4 0.06
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.21
Consensus pattern (55 bp):
TAATACCCCTATAAGGTAAAAAGACCGTAATAAACCCCATAGGGTAAAATAACCA
Found at i:45125868 original size:11 final size:11
Alignment explanation
Indices: 45125852--45125921 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
45125842 GGTAAATGAC
*
45125852 TGATTTGTCTG
1 TGATTTGTATG
**
45125863 TGATTTAAATG
1 TGATTTGTATG
*
45125874 ACTGATTTGTTTG
1 --TGATTTGTATG
*
45125887 TGATTGGTATG
1 TGATTTGTATG
*
45125898 ACTGATTTGTCTG
1 --TGATTTGTATG
45125911 TGATTTGTATG
1 TGATTTGTATG
45125922 ACTGATTCTG
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 27 0.61
13 17 0.39
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.50
Consensus pattern (11 bp):
TGATTTGTATG
Found at i:45125873 original size:24 final size:24
Alignment explanation
Indices: 45125844--45125928 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
45125834 CCTTATAGGG
45125844 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
*
45125868 TAAATGACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
***
45125892 GGTATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
**
45125916 TGTATGACTGATT
1 TAAATGACTGATT
45125929 CTGAGCATGG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.47
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATT
Found at i:45126053 original size:27 final size:26
Alignment explanation
Indices: 45125997--45126062 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
45125987 GGAAGTACTG
*
45125997 TACTGGTGGCTCTGCCACAATCACTGT
1 TACTGGTGGCT-TGCCACAATCACTAT
45126024 TACTGGTGGCTTGGCCACATAT-ACTAT
1 TACTGGTGGCTT-GCCACA-ATCACTAT
* *
45126051 TACGGGTAGCTT
1 TACTGGTGGCTT
45126063 TGCTGTGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 31 0.91
28 2 0.06
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (26 bp):
TACTGGTGGCTTGCCACAATCACTAT
Found at i:45126142 original size:32 final size:32
Alignment explanation
Indices: 45126100--45126236 Score: 195
Period size: 32 Copynumber: 4.3 Consensus size: 32
45126090 GCTACGATGC
* * *
45126100 TACTGTTGGCTTTGGGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
45126132 TACTGATGGCTTTGTGCCGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* *
45126164 TACTGATGGCTTTGTGCCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* *
45126196 TACTAATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
45126227 TACTTATGGC
1 TACTGATGGC
45126237 CTGTAGCCAT
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 9 0.09
32 87 0.91
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACTGT
Found at i:45137912 original size:53 final size:53
Alignment explanation
Indices: 45137854--45137956 Score: 181
Period size: 53 Copynumber: 1.9 Consensus size: 53
45137844 TCTTTTTGAG
*
45137854 TTTGTGGCACCAGGATGCACTTTGTAAGCCGATATGCAG-TTTTTGCGCCAGGA
1 TTTGTGGCACCAGGATGCACTTTGTAAGCCGATATGC-GCTTTGTGCGCCAGGA
45137907 TTTGTGGCACCAGGATGCACTTTGTAAGCCGATATGCGCTTTGTGCGCCA
1 TTTGTGGCACCAGGATGCACTTTGTAAGCCGATATGCGCTTTGTGCGCCA
45137957 AGATGCATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 1 0.02
53 47 0.98
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.30
Consensus pattern (53 bp):
TTTGTGGCACCAGGATGCACTTTGTAAGCCGATATGCGCTTTGTGCGCCAGGA
Found at i:45141026 original size:18 final size:18
Alignment explanation
Indices: 45140974--45141027 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
45140964 TATATATTGT
* *
45140974 ATAATCTATAACACATACA
1 ATAATCTATAATAC-TATA
*
45140993 AAAAT-TA-AAT-CTATA
1 ATAATCTATAATACTATA
45141008 ATAATCTATAATACTATA
1 ATAATCTATAATACTATA
45141026 AT
1 AT
45141028 GTAAACACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
15 7 0.25
16 3 0.11
17 5 0.18
18 9 0.32
19 4 0.14
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATCTATAATACTATA
Found at i:45142588 original size:18 final size:18
Alignment explanation
Indices: 45142549--45142590 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
45142539 CGTTCGTTTC
45142549 CAAAACATTATTCATTTA
1 CAAAACATTATTCATTTA
*
45142567 CAAATCATTATTCAATTT-
1 CAAAACATTATTC-ATTTA
45142585 CAAAAC
1 CAAAAC
45142591 GTTTTCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (18 bp):
CAAAACATTATTCATTTA
Found at i:45147655 original size:27 final size:27
Alignment explanation
Indices: 45147624--45147738 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 27
45147614 GTTATAACAG
*
45147624 TCATTTTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTACGGGGGTATTTCAA
* * * * *
45147651 CCATTTTACCCTATGGAGATATTTCGA
1 TCATTTTACCCTACGGGGGTATTTCAA
** **
45147678 TCATTTTACCCTACAAGGGTATTTTGA
1 TCATTTTACCCTACGGGGGTATTTCAA
45147705 TCATTTTACCCTACGGGGGTATTTCAA
1 TCATTTTACCCTACGGGGGTATTTCAA
45147732 TCATTTT
1 TCATTTT
45147739 TCAGTCATTT
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTACGGGGGTATTTCAA
Found at i:45147688 original size:54 final size:54
Alignment explanation
Indices: 45147624--45147874 Score: 218
Period size: 54 Copynumber: 4.4 Consensus size: 54
45147614 GTTATAACAG
* *
45147624 TCATTTTACCCTATGGGGGTATTTCAACCATTTTACCCTATGGAGATATTTCGA
1 TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGAGATATTTCGA
** ** * *
45147678 TCATTTTACCCTACAAGGGTATTTTGATCATTTTACCCTACGGGGGTATTTCAATCATTTTTC-A
1 TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTA---TGG-A----GAT-A--TTTCGA
* *
45147742 GTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTCGA
1 -TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGAGATATTTCGA
** * * * *
45147797 TCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGAGATATTTCGA
*
45147851 TCATTTCACCCTATG-GAGGTATTT
1 TCATTTTACCCTATGAG-GGTATTT
45147875 TAGTCAAAAC
Statistics
Matches: 162, Mismatches: 21, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
53 1 0.01
54 109 0.67
55 1 0.01
56 1 0.01
57 3 0.02
58 1 0.01
62 4 0.02
63 1 0.01
64 1 0.01
65 40 0.25
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (54 bp):
TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGAGATATTTCGA
Found at i:45147774 original size:27 final size:27
Alignment explanation
Indices: 45147737--45147874 Score: 188
Period size: 27 Copynumber: 5.1 Consensus size: 27
45147727 TTCAATCATT
*
45147737 TTTCAGTCATTTTACCCTATGAGGGTA
1 TTTCGGTCATTTTACCCTATGAGGGTA
** *
45147764 TTTCAATCATTTTACCCTATGGGGGTA
1 TTTCGGTCATTTTACCCTATGAGGGTA
*
45147791 TTTCGATCATTTTACCCTATGAGGGTA
1 TTTCGGTCATTTTACCCTATGAGGGTA
* *
45147818 TTTCGGTCATTCTACCCTATGGGGGTA
1 TTTCGGTCATTTTACCCTATGAGGGTA
*
45147845 TTTCGGTCATTTCACCCTATG-GAGGTA
1 TTTCGGTCATTTTACCCTATGAG-GGTA
45147872 TTT
1 TTT
45147875 TAGTCAAAAC
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 100 0.99
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (27 bp):
TTTCGGTCATTTTACCCTATGAGGGTA
Found at i:45147782 original size:65 final size:65
Alignment explanation
Indices: 45147678--45147803 Score: 198
Period size: 65 Copynumber: 1.9 Consensus size: 65
45147668 GATATTTCGA
**
45147678 TCATTTTACCCTACAAGGGTATTTTGATCATTTTACCCTACGGGGGTATTTCAATCATTTTTCAG
1 TCATTTTACCCTACAAGGGTATTTCAATCATTTTACCCTACGGGGGTATTTCAATCATTTTTCAG
** * *
45147743 TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTCGATCATTTT
1 TCATTTTACCCTACAAGGGTATTTCAATCATTTTACCCTACGGGGGTATTTCAATCATTTT
45147804 ACCCTATGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (65 bp):
TCATTTTACCCTACAAGGGTATTTCAATCATTTTACCCTACGGGGGTATTTCAATCATTTTTCAG
Found at i:45147828 original size:92 final size:92
Alignment explanation
Indices: 45147652--45147821 Score: 252
Period size: 92 Copynumber: 1.8 Consensus size: 92
45147642 GTATTTCAAC
* *
45147652 CATTTTACCCTATGGAGATATTTCGATCATTTTACCCTACAAGGGTATTTTGATCATTTTACCCT
1 CATTTTACCCTATGGAGATATTTCAATCATTTTACCCTACAAGGGTATTTCGATCATTTTACCCT
*
45147717 ACGGGGGTATTTCAATCATTTTTCAGT
66 ACGAGGGTATTTCAATCATTTTTCAGT
* ***
45147744 CATTTTACCCTAT-GAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTCGATCATTTTACCC
1 CATTTTACCCTATGGA-GATATTTCAATCATTTTACCCTACAAGGGTATTTCGATCATTTTACCC
*
45147808 TATGAGGGTATTTC
65 TACGAGGGTATTTC
45147822 GGTCATTCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
91 2 0.03
92 67 0.97
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.41
Consensus pattern (92 bp):
CATTTTACCCTATGGAGATATTTCAATCATTTTACCCTACAAGGGTATTTCGATCATTTTACCCT
ACGAGGGTATTTCAATCATTTTTCAGT
Found at i:45147856 original size:119 final size:119
Alignment explanation
Indices: 45147621--45147848 Score: 366
Period size: 119 Copynumber: 1.9 Consensus size: 119
45147611 AGGGTTATAA
*
45147621 CAGTCATTTTACCCTATGGGGGTATTTCAACCATTTTACCCTATGGAGATATTTCGATCATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCAACCATTTTACCCTATGGAGATATTTCGATCATTTTA
* *
45147686 CCCTACAAGGGTATTTTGATCATTTTACCCTACGGGGGTATTTCAATCATTTTT
66 CCCTACAAGGGTATTTCGATCATTCTACCCTACGGGGGTATTTCAATCATTTTT
* * *
45147740 CAGTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTCGATCATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCAACCATTTTACCCTATGGAGATATTTCGATCATTTTA
** * *
45147805 CCCTATGAGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTC
66 CCCTACAAGGGTATTTCGATCATTCTACCCTACGGGGGTATTTC
45147849 GGTCATTTCA
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 99 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (119 bp):
CAGTCATTTTACCCTATGAGGGTATTTCAACCATTTTACCCTATGGAGATATTTCGATCATTTTA
CCCTACAAGGGTATTTCGATCATTCTACCCTACGGGGGTATTTCAATCATTTTT
Found at i:45164588 original size:19 final size:18
Alignment explanation
Indices: 45164561--45164597 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
45164551 AATGCACATA
*
45164561 ATAATAACATTATTTTTTT
1 ATAACAACATT-TTTTTTT
45164580 ATAACAACATTTTTTTTT
1 ATAACAACATTTTTTTTT
45164598 CAGTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAACAACATTTTTTTTT
Found at i:45166818 original size:15 final size:15
Alignment explanation
Indices: 45166798--45166827 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45166788 CATTCATGCC
45166798 AAAACACTTTAGCAA
1 AAAACACTTTAGCAA
45166813 AAAACACTTTAGCAA
1 AAAACACTTTAGCAA
45166828 TTTTGTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAACACTTTAGCAA
Found at i:45168798 original size:10 final size:10
Alignment explanation
Indices: 45168780--45168814 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
45168770 TTGCAAAACT
*
45168780 ATTTCATTTC
1 ATTTTATTTC
*
45168790 ATTTTATTTT
1 ATTTTATTTC
45168800 ATTTTATTTC
1 ATTTTATTTC
45168810 ATTTT
1 ATTTT
45168815 CATATTAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTATTTC
Found at i:45168833 original size:25 final size:26
Alignment explanation
Indices: 45168780--45168839 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
45168770 TTGCAAAACT
* * *
45168780 ATTTCA-TTTCATTTTATTTTATTTT
1 ATTTCATTTTCATATTAGTTTATTTA
45168805 ATTTCATTTTCATATTAGTTT-TTTA
1 ATTTCATTTTCATATTAGTTTATTTA
*
45168830 ATTTAATTTT
1 ATTTCATTTT
45168840 AACATTCATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 18 0.60
26 12 0.40
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (26 bp):
ATTTCATTTTCATATTAGTTTATTTA
Found at i:45172390 original size:43 final size:43
Alignment explanation
Indices: 45172343--45172439 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
45172333 TCCCAGATAT
*
45172343 GGTCTTACATGTTA-TCACATATCGATGCCACTGTCCCACACAA
1 GGTCTTACATG-TAGTCACATATCGATGCCAATGTCCCACACAA
* * * * *
45172386 GGTCTTACACGTAGTCTCATATCGATGCCAATGTCCTAGACAT
1 GGTCTTACATGTAGTCACATATCGATGCCAATGTCCCACACAA
*
45172429 GATCTTACATG
1 GGTCTTACATG
45172440 AAATCACACC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
42 2 0.04
43 43 0.96
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (43 bp):
GGTCTTACATGTAGTCACATATCGATGCCAATGTCCCACACAA
Found at i:45178244 original size:50 final size:50
Alignment explanation
Indices: 45178140--45178319 Score: 157
Period size: 50 Copynumber: 3.6 Consensus size: 50
45178130 GAGGTTCCAC
* * * * * ** **
45178140 GTAAGACCATGTCAGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCTACATGAGAACTCCCAT
* *
45178190 GTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCTACATGAGAACTCCCAT
* * * * * *
45178240 GTAAGACCATATTTGGGATATGGCATTGGTA-GTACAGGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCTACATGAGAAC-TCCCAT
* * *
45178289 GTAAAACCATGTCTGGGACATGACTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
45178320 TGTTATTATC
Statistics
Matches: 104, Mismatches: 25, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
48 3 0.03
49 35 0.34
50 66 0.63
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCTACATGAGAACTCCCAT
Found at i:45183103 original size:27 final size:27
Alignment explanation
Indices: 45183061--45183233 Score: 215
Period size: 27 Copynumber: 6.4 Consensus size: 27
45183051 ATCTTTCAAG
45183061 AGGGTAAAATGATCGAAATACCCCCAT
1 AGGGTAAAATGATCGAAATACCCCCAT
*
45183088 AGGATAAAATGATCGAAATACCCCCAT
1 AGGGTAAAATGATCGAAATACCCCCAT
* * **
45183115 AAGGTAAAATGAACGAAATACCCTTAT
1 AGGGTAAAATGATCGAAATACCCCCAT
45183142 AGGGTAAAATGATCGAAATA-CCCCAT
1 AGGGTAAAATGATCGAAATACCCCCAT
* *
45183168 AGGGTAAAATAACCGAAATACCCCCAT
1 AGGGTAAAATGATCGAAATACCCCCAT
* * **
45183195 AGGGTACAAT-AACTGAAATACCCCTTT
1 AGGGTAAAATGATC-GAAATACCCCCAT
*
45183222 AGGGTAGAATGA
1 AGGGTAAAATGA
45183234 CTATAGTACC
Statistics
Matches: 126, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
26 24 0.19
27 101 0.80
28 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
AGGGTAAAATGATCGAAATACCCCCAT
Found at i:45183195 original size:80 final size:81
Alignment explanation
Indices: 45183061--45183233 Score: 253
Period size: 80 Copynumber: 2.1 Consensus size: 81
45183051 ATCTTTCAAG
* *
45183061 AGGGTAAAATGATCGAAATACCCCCATAGGATAAAATGATCGAAATACCCCCATAAGGTAAAATG
1 AGGGTAAAATGATCGAAATACCCCCATAGGATAAAATAACCGAAATACCCCCATAAGGTAAAAT-
45183126 AAC-GAAATA-CCCTTAT
65 AACTGAAATACCCCTT-T
* * *
45183142 AGGGTAAAATGATCGAAATA-CCCCATAGGGTAAAATAACCGAAATACCCCCATAGGGTACAATA
1 AGGGTAAAATGATCGAAATACCCCCATAGGATAAAATAACCGAAATACCCCCATAAGGTAAAATA
45183206 ACTGAAATACCCCTTT
66 ACTGAAATACCCCTTT
*
45183222 AGGGTAGAATGA
1 AGGGTAAAATGA
45183234 CTATAGTACC
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
79 3 0.04
80 56 0.67
81 25 0.30
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (81 bp):
AGGGTAAAATGATCGAAATACCCCCATAGGATAAAATAACCGAAATACCCCCATAAGGTAAAATA
ACTGAAATACCCCTTT
Found at i:45183555 original size:58 final size:58
Alignment explanation
Indices: 45183465--45183709 Score: 483
Period size: 58 Copynumber: 4.2 Consensus size: 58
45183455 CTGCGATATA
45183465 GGTGTGTTGGCTGGGTGGGTCGATTTTATCCCCACATGGTGTGTTGGTGGTACGGAGT
1 GGTGTGTTGGCTGGGTGGGTCGATTTTATCCCCACATGGTGTGTTGGTGGTACGGAGT
45183523 GGTGTGTTGGCTGGGTGGGTCGATTTTATCCCCACATGGTGTGTTGGTGGTACGGAGT
1 GGTGTGTTGGCTGGGTGGGTCGATTTTATCCCCACATGGTGTGTTGGTGGTACGGAGT
45183581 GGTGTGTTGGCTGGGTGGGTCGATTTTATCCCCACATGGTGTGTTGGTGGTACGGAGT
1 GGTGTGTTGGCTGGGTGGGTCGATTTTATCCCCACATGGTGTGTTGGTGGTACGGAGT
45183639 GGTGTGTTGGCTGGGTGGGTCGATTTTATCCCCACATGGTGTGTTGGTGGTAC-GAGT
1 GGTGTGTTGGCTGGGTGGGTCGATTTTATCCCCACATGGTGTGTTGGTGGTACGGAGT
45183696 GGTGTGTTGGCTGG
1 GGTGTGTTGGCTGG
45183710 ATTGGGATGG
Statistics
Matches: 187, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
57 18 0.10
58 169 0.90
ACGTcount: A:0.10, C:0.13, G:0.42, T:0.35
Consensus pattern (58 bp):
GGTGTGTTGGCTGGGTGGGTCGATTTTATCCCCACATGGTGTGTTGGTGGTACGGAGT
Found at i:45183777 original size:28 final size:28
Alignment explanation
Indices: 45183737--45183794 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
45183727 TATTACACTG
45183737 CATTGATAATGTAATGGGCCAAGGCCCA
1 CATTGATAATGTAATGGGCCAAGGCCCA
* * * *
45183765 CATTGTTACTGTATTGGGCTAAGGCCCA
1 CATTGATAATGTAATGGGCCAAGGCCCA
45183793 CA
1 CA
45183795 CTATACTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (28 bp):
CATTGATAATGTAATGGGCCAAGGCCCA
Found at i:45187575 original size:21 final size:22
Alignment explanation
Indices: 45187550--45187593 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
45187540 CAAATATAAG
*
45187550 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
45187571 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
45187593 T
1 T
45187594 TCATATACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:45188202 original size:13 final size:13
Alignment explanation
Indices: 45188181--45188231 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
45188171 ACACTTAAAT
45188181 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
45188194 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
*
45188207 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
45188220 TTCTCAAAAGCA
1 TTCTCAAAAGCA
45188232 ATGAAGAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:45191273 original size:24 final size:24
Alignment explanation
Indices: 45191246--45191292 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
45191236 CAGTCGAGTT
45191246 TGAAGATGGCCCCTTATGAAGCTC
1 TGAAGATGGCCCCTTATGAAGCTC
45191270 TGAAGATGGCCCCTTATGAAGCT
1 TGAAGATGGCCCCTTATGAAGCT
45191293 TTGTATGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (24 bp):
TGAAGATGGCCCCTTATGAAGCTC
Found at i:45191854 original size:28 final size:31
Alignment explanation
Indices: 45191796--45191854 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
45191786 ATATATAGTT
45191796 TTTATATTATTTATAAAGGTTATAATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
* *
45191827 TTTATA-TA-TTAT-AATGTTATTATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
45191855 AAACAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 4 0.15
30 2 0.08
31 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTATATTATTTATAAAGGTTATAATAATAA
Found at i:45193778 original size:41 final size:41
Alignment explanation
Indices: 45193551--45193771 Score: 372
Period size: 41 Copynumber: 5.4 Consensus size: 41
45193541 GACTTTACGT
45193551 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
45193592 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
* * *
45193633 CTTGCAGGCTAAGTGCTGGTGAACTGAATCAAGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
45193674 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
* * *
45193715 CCAGCAGGCTAAGTGTCGGTGAACTAAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
45193756 CTAGCAGG-TGAAGTGC
1 CTAGCAGGCT-AAGTGC
45193772 TAGTGAATCT
Statistics
Matches: 168, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 1 0.01
41 167 0.99
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.20
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
Found at i:45197011 original size:56 final size:51
Alignment explanation
Indices: 45196938--45197135 Score: 163
Period size: 50 Copynumber: 3.9 Consensus size: 51
45196928 ACATTAAGGG
* *
45196938 GATGAGA--TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTATTGA
1 GATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCA--ATCGA
**
45196989 GGTTATGAGAGGTCCCACGTAAGACCATGTC-AGGGACATGGTGTTGGC-ATCGA
1 -G--ATGAGAGGTCCCACGTAAGACCATGTCTA-GGACATGGCATTGGCAATCGA
* * * *
45197042 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGC-ACCGA
1 GATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCAATCGA
* * ** * * * *
45197092 TATTAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 GATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGG
45197136 TAGTACAGGG
Statistics
Matches: 121, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
50 77 0.64
52 2 0.02
53 4 0.03
54 6 0.05
55 1 0.01
56 31 0.26
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (51 bp):
GATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCAATCGA
Found at i:45197111 original size:50 final size:49
Alignment explanation
Indices: 45197001--45197186 Score: 153
Period size: 50 Copynumber: 3.8 Consensus size: 49
45196991 TTATGAGAGG
* ** * * **
45197001 TCCCACGTAAGACCATGTCAGGGACATGGTGTTGGCATCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATATCAGAAC
* * *
45197051 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATTAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATATCAGAAC
* * * *
45197101 TCCCATGTAAGACCATATCTGGGATATGGCATTGGTA-G-TA-CAGGGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACGATATCA--GAAC
* * *
45197149 ATCCCATGTAAGACCATGTATGGGACATGGCTTTGGCA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
45197187 TGTTATTGTC
Statistics
Matches: 111, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 5 0.05
49 32 0.29
50 71 0.64
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (49 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACGATATCAGAAC
Found at i:45197413 original size:20 final size:20
Alignment explanation
Indices: 45197388--45197426 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
45197378 TGAGTTATTT
45197388 AAGTAAGAAAGTAAGTAAAC
1 AAGTAAGAAAGTAAGTAAAC
*
45197408 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAAAGTAAGTAAA
45197427 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAAAGTAAGTAAAC
Found at i:45202381 original size:76 final size:76
Alignment explanation
Indices: 45202255--45202670 Score: 832
Period size: 76 Copynumber: 5.5 Consensus size: 76
45202245 CCGGAGTACA
45202255 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATT
1 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATT
45202320 CCTCCGTATCT
66 CCTCCGTATCT
45202331 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATT
1 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATT
45202396 CCTCCGTATCT
66 CCTCCGTATCT
45202407 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATT
1 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATT
45202472 CCTCCGTATCT
66 CCTCCGTATCT
45202483 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATT
1 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATT
45202548 CCTCCGTATCT
66 CCTCCGTATCT
45202559 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATT
1 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATT
45202624 CCTCCGTATCT
66 CCTCCGTATCT
45202635 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCC
1 TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCC
45202671 CAAGGGGTTG
Statistics
Matches: 340, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 340 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (76 bp):
TTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATT
CCTCCGTATCT
Found at i:45202693 original size:103 final size:103
Alignment explanation
Indices: 45202571--45202873 Score: 412
Period size: 102 Copynumber: 3.0 Consensus size: 103
45202561 GAATATAAAG
* *
45202571 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTACTAAGTGCTGATTCCTCCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTACTAAGTGCTGATTCCACCGTATCTT
* *
45202636 TGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
66 TGAATGTAAAGGGGATTGCTAAGTGCTGATTCCCCCAA
* * * *
45202674 GGGGTTGCTCAGTGCTGATTCCCCGATTCATTGGTGGTTACTAAGTGCTGATCCCACTGTAT-TT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTACTAAGTGCTGATTCCACCGTATCTT
* *
45202738 TAAATGTGAAGGGGATTGCTAAGTGCTGATTCCCCCAA
66 TGAATGTAAAGGGGATTGCTAAGTGCTGATTCCCCCAA
* * * * * *
45202776 GGGGCTGTTAAGTGCTGATTCCCTGAATCATTGGTGGTTGCTAAGTGCTGCTTCCACCATATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTACTAAGTGCTGATTCCACCGTATCTT
* * *
45202841 TGAATGTGAAA-GGGCTTACTAAGTGGTGATTCC
66 TGAATGT-AAAGGGGATTGCTAAGTGCTGATTCC
45202874 TCGAATCACT
Statistics
Matches: 174, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
102 88 0.51
103 84 0.48
104 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (103 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTACTAAGTGCTGATTCCACCGTATCTT
TGAATGTAAAGGGGATTGCTAAGTGCTGATTCCCCCAA
Found at i:45208561 original size:17 final size:20
Alignment explanation
Indices: 45208526--45208567 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
45208516 AAATATTGTA
45208526 ATTTTAATTCAATCATTATT
1 ATTTTAATTCAATCATTATT
*
45208546 -TTTTAATT-ATTC-TTATT
1 ATTTTAATTCAATCATTATT
45208563 ATTTT
1 ATTTT
45208568 TAGTATTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 7 0.35
19 8 0.40
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTAATTCAATCATTATT
Found at i:45213516 original size:28 final size:28
Alignment explanation
Indices: 45213478--45213535 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
45213468 GGACTCTTAC
* *
45213478 ATGCAGGTTCAAAGATGCAAAATCACAT
1 ATGCAGATTCAAAGATACAAAATCACAT
* * *
45213506 ATGCAGATTCATAGATACATAATCATAT
1 ATGCAGATTCAAAGATACAAAATCACAT
45213534 AT
1 AT
45213536 ACGGATTGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (28 bp):
ATGCAGATTCAAAGATACAAAATCACAT
Found at i:45218444 original size:57 final size:59
Alignment explanation
Indices: 45218350--45218534 Score: 223
Period size: 59 Copynumber: 3.2 Consensus size: 59
45218340 ATTTTTTTAA
* * * * *
45218350 AGAGATTTTCCACAAAGTCATTCTTTCATTCTG-TACTCACCACAAAGGCTGTCCTTTCT
1 AGAGATTTGCTACAAAGGCATCCTTTCATT-TGATACTCACCACAAAGGCTTTCCTTTCT
* * * *
45218409 AGATATTTG-T-CATAGGCATCCTTTCATTTGATACTCCCCACAAAGGCTTTCCTTCCT
1 AGAGATTTGCTACAAAGGCATCCTTTCATTTGATACTCACCACAAAGGCTTTCCTTTCT
** *
45218466 AGAGATTTGCTACAAAGGCATCCTTTCATTCAATACTCACCACAAAGGCTTTCCTTTCC
1 AGAGATTTGCTACAAAGGCATCCTTTCATTTGATACTCACCACAAAGGCTTTCCTTTCT
*
45218525 AGTGATTTGC
1 AGAGATTTGC
45218535 CATAAAGGGT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
56 2 0.02
57 46 0.43
58 1 0.01
59 57 0.54
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (59 bp):
AGAGATTTGCTACAAAGGCATCCTTTCATTTGATACTCACCACAAAGGCTTTCCTTTCT
Found at i:45218462 original size:31 final size:31
Alignment explanation
Indices: 45218427--45218523 Score: 76
Period size: 29 Copynumber: 3.2 Consensus size: 31
45218417 GTCATAGGCA
* *
45218427 TCCTTTCATTTGATACTCCCCACAAAGGCTT
1 TCCTTTCATTAGATACTCACCACAAAGGCTT
* * * ** * *
45218458 TCC-TTC-CTAGAGATTTGCTACAAAGGC-A
1 TCCTTTCATTAGATACTCACCACAAAGGCTT
45218486 TCCTTTCATTCA-ATACTCACCACAAAGGCTT
1 TCCTTTCATT-AGATACTCACCACAAAGGCTT
45218517 TCCTTTC
1 TCCTTTC
45218524 CAGTGATTTG
Statistics
Matches: 47, Mismatches: 15, Indels: 8
0.67 0.21 0.11
Matches are distributed among these distances:
28 3 0.06
29 17 0.36
30 16 0.34
31 11 0.23
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (31 bp):
TCCTTTCATTAGATACTCACCACAAAGGCTT
Found at i:45218748 original size:49 final size:50
Alignment explanation
Indices: 45218662--45218768 Score: 153
Period size: 49 Copynumber: 2.1 Consensus size: 50
45218652 TCCTTTAGAT
* *
45218662 ATTTCCATATGATGCCATAACCCACCAGTTATGGTCTTACACGATATGGTC
1 ATTT-CATAAGATGCCATAACCCACCAGCTATGGTCTTACACGATATGGTC
* * *
45218713 -TTTCATAAGATGTCATAGCCCAGCAGCTATGGTCTTACACGATATGGTC
1 ATTTCATAAGATGCCATAACCCACCAGCTATGGTCTTACACGATATGGTC
45218762 ATTTCAT
1 ATTTCAT
45218769 TTGAAATGCC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 41 0.82
50 9 0.18
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (50 bp):
ATTTCATAAGATGCCATAACCCACCAGCTATGGTCTTACACGATATGGTC
Found at i:45219690 original size:22 final size:22
Alignment explanation
Indices: 45219648--45219690 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
45219638 GAAAATAACT
*
45219648 TCCACTTAACCAAGCCTAAGTG
1 TCCACTTAACCAAGCCCAAGTG
*
45219670 TCCATTTAACTCAA-CCCAAGT
1 TCCACTTAAC-CAAGCCCAAGT
45219691 CTCTATTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.33, C:0.33, G:0.09, T:0.26
Consensus pattern (22 bp):
TCCACTTAACCAAGCCCAAGTG
Found at i:45221382 original size:10 final size:10
Alignment explanation
Indices: 45221333--45221384 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
45221323 ATGAAATTTT
*
45221333 TTAATTTTAA
1 TTAATTTTGA
45221343 TTAATTTT-A
1 TTAATTTTGA
45221352 TATCAAATTTTGA
1 T-T--AATTTTGA
45221365 TTAATTTTGA
1 TTAATTTTGA
*
45221375 TTATTTTTGA
1 TTAATTTTGA
45221385 CAGATTTGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
9 2 0.05
10 26 0.70
12 7 0.19
13 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (10 bp):
TTAATTTTGA
Found at i:45222749 original size:48 final size:48
Alignment explanation
Indices: 45222674--45222774 Score: 195
Period size: 48 Copynumber: 2.1 Consensus size: 48
45222664 TTGCTTATTA
45222674 AAAT-TTGTTTAATTGGTCGAATTGACATAGAGATATAGTCAAGAGAT
1 AAATATTGTTTAATTGGTCGAATTGACATAGAGATATAGTCAAGAGAT
45222721 AAATATTGTTTAATTGGTCGAATTGACATAGAGATATAGTCAAGAGAT
1 AAATATTGTTTAATTGGTCGAATTGACATAGAGATATAGTCAAGAGAT
45222769 AAATAT
1 AAATAT
45222775 ATTTTGGTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 4 0.08
48 49 0.92
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.34
Consensus pattern (48 bp):
AAATATTGTTTAATTGGTCGAATTGACATAGAGATATAGTCAAGAGAT
Found at i:45235686 original size:27 final size:27
Alignment explanation
Indices: 45235656--45235833 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45235646 ATATTGAGTC
* * * *
45235656 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45235683 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45235710 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45235738 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45235765 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45235792 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45235819 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45235834 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45235795 original size:82 final size:81
Alignment explanation
Indices: 45235677--45235832 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45235667 TGCTATATAA
* *
45235677 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45235742 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45235759 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45235823 CACTTAGTGC
65 CACTTAGTGC
45235833 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45239975 original size:14 final size:14
Alignment explanation
Indices: 45239917--45239978 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
45239907 AAAGTTGCAA
*
45239917 ATTCATATATATAG
1 ATTCATATATACAG
*
45239931 AATCATA-AGTACAG
1 ATTCATATA-TACAG
* *
45239945 ATTCATATATGCGG
1 ATTCATATATACAG
* *
45239959 ATTCATAGATATAG
1 ATTCATATATACAG
45239973 ATTCAT
1 ATTCAT
45239979 GCCTATGGGC
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
13 1 0.03
14 35 0.95
15 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (14 bp):
ATTCATATATACAG
Found at i:45244305 original size:22 final size:22
Alignment explanation
Indices: 45244275--45244348 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
45244265 TACCTTTTTA
*
45244275 TTTTTGAACATGATATTAAGGC
1 TTTTAGAACATGATATTAAGGC
*
45244297 TTTTAGAAC--GATACCTT-TGTG-
1 TTTTAGAACATGATA--TTAAG-GC
*
45244318 TTTTTGTAACATGATATTAAGGC
1 TTTTAG-AACATGATATTAAGGC
45244341 TTTTAGAA
1 TTTTAGAA
45244349 TGATATCGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 16
0.65 0.08 0.27
Matches are distributed among these distances:
20 4 0.10
21 6 0.15
22 19 0.49
23 6 0.15
24 4 0.10
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (22 bp):
TTTTAGAACATGATATTAAGGC
Found at i:45244343 original size:44 final size:43
Alignment explanation
Indices: 45244259--45244369 Score: 168
Period size: 44 Copynumber: 2.6 Consensus size: 43
45244249 GGGCATTATC
*
45244259 GAACGATACCTTTTTATTTTTGAACATGATATTAAGGCTTTTA
1 GAACGATACCTTTGTATTTTTGAACATGATATTAAGGCTTTTA
*
45244302 GAACGATACCTTTGTGTTTTTGTAACATGATATTAAGGCTTTTA
1 GAACGATACCTTTGTATTTTTG-AACATGATATTAAGGCTTTTA
* * *
45244346 GAATGATATCGTTGTATTTTTGAA
1 GAACGATACCTTTGTATTTTTGAA
45244370 AGTACACAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 22 0.36
44 39 0.64
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (43 bp):
GAACGATACCTTTGTATTTTTGAACATGATATTAAGGCTTTTA
Found at i:45252370 original size:21 final size:22
Alignment explanation
Indices: 45252327--45252370 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
45252317 GCATCTACTC
* *
45252327 AGGGCAATTATAATCCACGACA
1 AGGGCAATTATAATCAACAACA
*
45252349 AGGG-AATTATACTCAACAACA
1 AGGGCAATTATAATCAACAACA
45252370 A
1 A
45252371 CAAAACTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.18
Consensus pattern (22 bp):
AGGGCAATTATAATCAACAACA
Found at i:45257943 original size:6 final size:6
Alignment explanation
Indices: 45257926--45257958 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
45257916 GATAAGTATA
*
45257926 CATTGT CATT-T CATTTT CATTGT CATTGT CATT
1 CATTGT CATTGT CATTGT CATTGT CATTGT CATT
45257959 ACTTATTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.55
Consensus pattern (6 bp):
CATTGT
Found at i:45260760 original size:488 final size:488
Alignment explanation
Indices: 45259844--45260819 Score: 1907
Period size: 488 Copynumber: 2.0 Consensus size: 488
45259834 CTATGTAGAG
*
45259844 GGATATGGTTGATCGATATAGGATAAGTCCCTCCTACATAATGGGAGTAATATCTTAGGCAACTT
1 GGATATGGTTGATCAATATAGGATAAGTCCCTCCTACATAATGGGAGTAATATCTTAGGCAACTT
45259909 GATTGAGTGAGACTAGAAATGCATGGCCATTCTCAAATAAGTTGATATGACATGTCATACTTATT
66 GATTGAGTGAGACTAGAAATGCATGGCCATTCTCAAATAAGTTGATATGACATGTCATACTTATT
45259974 TGTATATCATAGTCTACTTAAGATATCAAGGAACATGGAATGGACTATGCAAGTGTGACTATTCC
131 TGTATATCATAGTCTACTTAAGATATCAAGGAACATGGAATGGACTATGCAAGTGTGACTATTCC
*
45260039 ATGACTTGTGTCCAATCCAGAGATAAAGGACTTAAGGATTATTGCATGAAAGGTTAATCATAAAA
196 ATGACTTGTGTCCAATCCAGAGATAAAGAACTTAAGGATTATTGCATGAAAGGTTAATCATAAAA
45260104 AGGTTATGTCGAATCATGATTTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGGTGCCACTCA
261 AGGTTATGTCGAATCATGATTTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGGTGCCACTCA
45260169 TTGTTTGTAACATTGGAATCGTTCTAGTATTACTGCTAACGTTACAAGAACCTATAGGGTCACAC
326 TTGTTTGTAACATTGGAATCGTTCTAGTATTACTGCTAACGTTACAAGAACCTATAGGGTCACAC
*
45260234 CCTATAGTTGAAATGAACGGAATAAAATATAGTTGGTATTATGTTTGGTTGTCGCTTGAATTAAA
391 CCTATAGTTGAAATGAACGGAATAAAATATAGTTGGTATTATATTTGGTTGTCGCTTGAATTAAA
*
45260299 TTAATTATAGAATTAATTTAATTGGGTAATCAA
456 TTAATTATAGAATTAATTTAATTGGATAATCAA
45260332 GGATATGGTTGATCAATATAGGATAAGTCCCTCCTACATAATGGGAGTAATATCTTAGGCAACTT
1 GGATATGGTTGATCAATATAGGATAAGTCCCTCCTACATAATGGGAGTAATATCTTAGGCAACTT
45260397 GATTGAGTGAGACTAGAAATGCATGGCCATTCTCAAATAAGTTGATATGACATGTCATACTTATT
66 GATTGAGTGAGACTAGAAATGCATGGCCATTCTCAAATAAGTTGATATGACATGTCATACTTATT
45260462 TGTATATCATAGTCTACTTAAGATATCAAGGAACATGGAATGGACTATGCAAGTGTGACTATTCC
131 TGTATATCATAGTCTACTTAAGATATCAAGGAACATGGAATGGACTATGCAAGTGTGACTATTCC
45260527 ATGACTTGTGTCCAATCCAGAGATAAAGAACTTAAGGATTATTGCATGAAAGGTTAATCATAAAA
196 ATGACTTGTGTCCAATCCAGAGATAAAGAACTTAAGGATTATTGCATGAAAGGTTAATCATAAAA
*
45260592 AGGTTATGTCGAATCATGATTTCTTGTGACTTAGGTAGCAATGATGTATTGCTAGGTGCCACTCA
261 AGGTTATGTCGAATCATGATTTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGGTGCCACTCA
45260657 TTGTTTGTAACATTGGAATCGTTCTAGTATTACTGCTAACGTTACAAGAACCTATAGGGTCACAC
326 TTGTTTGTAACATTGGAATCGTTCTAGTATTACTGCTAACGTTACAAGAACCTATAGGGTCACAC
45260722 CCTATAGTTGAAATGAACGGAATAAAATATAGTTGGTATTATATTTGGTTGTCGCTTGAATTAAA
391 CCTATAGTTGAAATGAACGGAATAAAATATAGTTGGTATTATATTTGGTTGTCGCTTGAATTAAA
45260787 TTAATTATAGAATTAATTTAATTGGATAATCAA
456 TTAATTATAGAATTAATTTAATTGGATAATCAA
45260820 ATATCAAACA
Statistics
Matches: 483, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
488 483 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (488 bp):
GGATATGGTTGATCAATATAGGATAAGTCCCTCCTACATAATGGGAGTAATATCTTAGGCAACTT
GATTGAGTGAGACTAGAAATGCATGGCCATTCTCAAATAAGTTGATATGACATGTCATACTTATT
TGTATATCATAGTCTACTTAAGATATCAAGGAACATGGAATGGACTATGCAAGTGTGACTATTCC
ATGACTTGTGTCCAATCCAGAGATAAAGAACTTAAGGATTATTGCATGAAAGGTTAATCATAAAA
AGGTTATGTCGAATCATGATTTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGGTGCCACTCA
TTGTTTGTAACATTGGAATCGTTCTAGTATTACTGCTAACGTTACAAGAACCTATAGGGTCACAC
CCTATAGTTGAAATGAACGGAATAAAATATAGTTGGTATTATATTTGGTTGTCGCTTGAATTAAA
TTAATTATAGAATTAATTTAATTGGATAATCAA
Found at i:45262442 original size:169 final size:170
Alignment explanation
Indices: 45262162--45262504 Score: 670
Period size: 169 Copynumber: 2.0 Consensus size: 170
45262152 GCAATTTCAC
*
45262162 TTTATTTACTTTTCAAACATTTTCATCTCCCCTGATTTATTTATTTTTTTCAGCATGTTTGTCAC
1 TTTATTTACTTTCCAAACATTTTCATCTCCCCTGATTTATTTATTTTTTTCAGCATGTTTGTCAC
45262227 GAGTCGTGGGCAAGACAATTGCCGCAACAATAATTCTAGTCACAAGAAAAGGCAAAATTAGATAA
66 GAGTCGTGGGCAAGACAATTGCCGCAACAATAATTCTAGTCACAAGAAAAGGCAAAATTAGATAA
45262292 CCAATCCCTATGGATTCAGTCCTACTATTCTATACTGCTA
131 CCAATCCCTATGGATTCAGTCCTACTATTCTATACTGCTA
45262332 TTTATTTACTTTCCAAACATTTTCATCTCCCCTGATTTATTTA-TTTTTTCAGCATGTTTGTCAC
1 TTTATTTACTTTCCAAACATTTTCATCTCCCCTGATTTATTTATTTTTTTCAGCATGTTTGTCAC
45262396 GAGTCGTGGGCAAGACAATTGCCGCAACAATAATTCTAGTCACAAGAAAAGGCAAAATTAGATAA
66 GAGTCGTGGGCAAGACAATTGCCGCAACAATAATTCTAGTCACAAGAAAAGGCAAAATTAGATAA
45262461 CCAATCCCTATGGATTCAGTCCTACTATTCTATACTGCTA
131 CCAATCCCTATGGATTCAGTCCTACTATTCTATACTGCTA
45262501 TTTA
1 TTTA
45262505 GTGTTATTTT
Statistics
Matches: 172, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
169 130 0.76
170 42 0.24
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (170 bp):
TTTATTTACTTTCCAAACATTTTCATCTCCCCTGATTTATTTATTTTTTTCAGCATGTTTGTCAC
GAGTCGTGGGCAAGACAATTGCCGCAACAATAATTCTAGTCACAAGAAAAGGCAAAATTAGATAA
CCAATCCCTATGGATTCAGTCCTACTATTCTATACTGCTA
Found at i:45277084 original size:20 final size:19
Alignment explanation
Indices: 45277002--45277084 Score: 53
Period size: 20 Copynumber: 4.2 Consensus size: 19
45276992 GTTGTTACAA
45277002 TGCCCCTGTATACACTTCAG
1 TGCCCCTGT-TACACTTCAG
* *
45277022 TGTCCCTGTTCACACTAC-G
1 TGCCCCTGTT-ACACTTCAG
* * *
45277041 ATGCCCCTATTTGCACATT-TG
1 -TGCCCCT-GTTACAC-TTCAG
45277062 TGCCCCTGTCTACACTTCAG
1 TGCCCCTGT-TACACTTCAG
45277082 TGC
1 TGC
45277085 TCTTGTTATG
Statistics
Matches: 47, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
19 5 0.11
20 38 0.81
21 4 0.09
ACGTcount: A:0.17, C:0.35, G:0.16, T:0.33
Consensus pattern (19 bp):
TGCCCCTGTTACACTTCAG
Found at i:45282029 original size:13 final size:13
Alignment explanation
Indices: 45282007--45282040 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
45281997 CTAAAATTCG
45282007 AAAATATTAAA-A
1 AAAATATTAAATA
45282019 AAAAGTATTAAATA
1 AAAA-TATTAAATA
45282033 AAAATATT
1 AAAATATT
45282041 GAAACTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 11 0.55
14 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AAAATATTAAATA
Found at i:45284396 original size:36 final size:39
Alignment explanation
Indices: 45284355--45284426 Score: 105
Period size: 36 Copynumber: 1.9 Consensus size: 39
45284345 ATTTTAACTT
*
45284355 AATAAATATTTAATTAGGTAAA-A-AA-TTTAAAAATTA
1 AATAAATATTTAATTAGATAAATAGAATTTTAAAAATTA
*
45284391 AATAAATGTTTAATTAGATAAATAGAATTTTAAAAA
1 AATAAATATTTAATTAGATAAATAGAATTTTAAAAA
45284427 AACTATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 20 0.65
37 1 0.03
38 2 0.06
39 8 0.26
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (39 bp):
AATAAATATTTAATTAGATAAATAGAATTTTAAAAATTA
Found at i:45284576 original size:16 final size:16
Alignment explanation
Indices: 45284555--45284588 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45284545 ATAATAACTA
45284555 TTTTTTAAGTTAATAT
1 TTTTTTAAGTTAATAT
* *
45284571 TTTTTTAATTTTATAT
1 TTTTTTAAGTTAATAT
45284587 TT
1 TT
45284589 AAAAAATAGT
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:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTTAAGTTAATAT
Found at i:45285770 original size:42 final size:42
Alignment explanation
Indices: 45285723--45285802 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
45285713 TACTTAATTG
** *
45285723 AATACTTAAACTGTAAAAATATATCAATTAAATTATTTATCA
1 AATACTTAAACTAAAAAAATACATCAATTAAATTATTTATCA
*
45285765 AATACTTAAATTAAAAAAATACATCAATTAAATTATTT
1 AATACTTAAACTAAAAAAATACATCAATTAAATTATTT
45285803 TACCATTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.38
Consensus pattern (42 bp):
AATACTTAAACTAAAAAAATACATCAATTAAATTATTTATCA
Found at i:45290812 original size:13 final size:14
Alignment explanation
Indices: 45290794--45290822 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45290784 AATTCGAATC
45290794 AGCTAGCTA-ACTT
1 AGCTAGCTAGACTT
45290807 AGCTAGCTAGACTT
1 AGCTAGCTAGACTT
45290821 AG
1 AG
45290823 ACATTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (14 bp):
AGCTAGCTAGACTT
Found at i:45294529 original size:16 final size:16
Alignment explanation
Indices: 45294491--45294531 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
45294481 GTCTTTTTTC
*
45294491 TTAAAACTAATTGTTA
1 TTAAAATTAATTGTTA
45294507 TTAAAATTAATTGTTA
1 TTAAAATTAATTGTTA
45294523 TTAAAATTA
1 TTAAAATTA
45294532 TATCAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (16 bp):
TTAAAATTAATTGTTA
Found at i:45297705 original size:62 final size:62
Alignment explanation
Indices: 45297636--45297860 Score: 253
Period size: 62 Copynumber: 3.5 Consensus size: 62
45297626 AGTGATTATC
*
45297636 TTAATATTAAATTTAAT-ATAATGTTTATCTTGTACATCAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCA-AATATTTATCTTGTACATCAACATTCTATTATTTTAATAAGAT
* * * *
45297698 TTAATATTAAATTTAATCAAATATTTATCTTG---ATAAATATTATATTAATTTAATATTAAAGT
1 TTAATATTAAATTTAATCAAATATTTATCTTGTACATCAACATTCTATT-ATTT--TAAT-AA--
45297760 GATTAT
60 G---AT
*
45297766 CTTAATATTAAATTTAAT-ATAATGTTTATCTTGTACATCAACATTCTATTATTTTAATAAGAT
1 -TTAATATTAAATTTAATCA-AATATTTATCTTGTACATCAACATTCTATTATTTTAATAAGAT
45297829 TTAATATTAAATTTAATCAAATATTTATCTTG
1 TTAATATTAAATTTAATCAAATATTTATCTTG
45297861 ATAAATATTA
Statistics
Matches: 136, Mismatches: 11, Indels: 32
0.76 0.06 0.18
Matches are distributed among these distances:
59 11 0.08
60 4 0.03
62 61 0.45
63 6 0.04
65 1 0.01
66 1 0.01
68 5 0.04
69 32 0.24
71 4 0.03
72 11 0.08
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.48
Consensus pattern (62 bp):
TTAATATTAAATTTAATCAAATATTTATCTTGTACATCAACATTCTATTATTTTAATAAGAT
Found at i:45297760 original size:131 final size:131
Alignment explanation
Indices: 45297553--45297895 Score: 593
Period size: 131 Copynumber: 2.6 Consensus size: 131
45297543 CTAAAAATAA
* * ** * * * *
45297553 TATTATTTTAAT-AG-TTTAATGTTAAATTTGATTTAATACTTATCTTAAT-ATTATTTTATTAA
1 TATTATTTTAATAAGATTTAATATTAAATTTAATCAAATATTTATCTTGATAAATATTATATTAA
45297615 TTTAATATTAAAGTGATTATCTTAATATTAAATTTAATATAATGTTTATCTTGTACATCAACATT
66 TTTAATATTAAAGTGATTATCTTAATATTAAATTTAATATAATGTTTATCTTGTACATCAACATT
45297680 C
131 C
45297681 TATTATTTTAATAAGATTTAATATTAAATTTAATCAAATATTTATCTTGATAAATATTATATTAA
1 TATTATTTTAATAAGATTTAATATTAAATTTAATCAAATATTTATCTTGATAAATATTATATTAA
45297746 TTTAATATTAAAGTGATTATCTTAATATTAAATTTAATATAATGTTTATCTTGTACATCAACATT
66 TTTAATATTAAAGTGATTATCTTAATATTAAATTTAATATAATGTTTATCTTGTACATCAACATT
45297811 C
131 C
45297812 TATTATTTTAATAAGATTTAATATTAAATTTAATCAAATATTTATCTTGATAAATATTATATTAA
1 TATTATTTTAATAAGATTTAATATTAAATTTAATCAAATATTTATCTTGATAAATATTATATTAA
45297877 TTTAATATTAAAGTGATTA
66 TTTAATATTAAAGTGATTA
45297896 AGTTTAACCA
Statistics
Matches: 204, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
128 12 0.06
129 2 0.01
130 29 0.14
131 161 0.79
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (131 bp):
TATTATTTTAATAAGATTTAATATTAAATTTAATCAAATATTTATCTTGATAAATATTATATTAA
TTTAATATTAAAGTGATTATCTTAATATTAAATTTAATATAATGTTTATCTTGTACATCAACATT
C
Found at i:45301473 original size:56 final size:56
Alignment explanation
Indices: 45301387--45301618 Score: 455
Period size: 56 Copynumber: 4.1 Consensus size: 56
45301377 ACAAGGGATG
45301387 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
45301443 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
45301499 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
45301555 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
45301611 ATGGGCAA
1 ATGGGCAA
45301619 TAAACTAATA
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 175 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:45302884 original size:79 final size:81
Alignment explanation
Indices: 45302748--45302932 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
45302738 TCGAATGATG
*
45302748 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
45302812 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
45302827 TTCCGGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
45302889 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
45302907 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45302933 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.64
80 32 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:45302946 original size:40 final size:40
Alignment explanation
Indices: 45302749--45302932 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
45302739 CGAATGATGT
* * * *
45302749 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
45302789 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
45302829 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
45302867 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
45302908 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45302933 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:45302954 original size:79 final size:79
Alignment explanation
Indices: 45302801--45302965 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
45302791 GGACTAAGAT
* ***
45302801 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
45302866 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
45302880 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
45302943 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
45302959 CCGAAGG
1 CCGAAGG
45302966 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:45307919 original size:15 final size:15
Alignment explanation
Indices: 45307899--45307929 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45307889 AACAAAGTTT
45307899 ATTATCATCATCATC
1 ATTATCATCATCATC
45307914 ATTATCATCATCATC
1 ATTATCATCATCATC
45307929 A
1 A
45307930 AGGATCGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTATCATCATCATC
Found at i:45310836 original size:86 final size:85
Alignment explanation
Indices: 45310556--45310840 Score: 261
Period size: 86 Copynumber: 3.3 Consensus size: 85
45310546 TAATTGCTTT
* * * * ***
45310556 AGTTTATCTGATGATGCACTGCGTGTGCTAGTATAATTG-TTTCAGCTTGTTTGATGATGTGTTG
1 AGTTTATCCGATGATGCACTACATGTGCTAGTATAATTGCTTT-GGCTTG-TTGATGATGCACTG
* * * *
45310620 TCTGTGCCAGTATGTTTCCTTT
64 TATGTGACAGTATATTTCCTTC
* * *** * * *
45310642 GGTTTATCCAATGATGCACTACGCATGCTAGTATAATCGCTTCGGCTTGTTCGATGATGCACTAT
1 AGTTTATCCGATGATGCACTACATGTGCTAGTATAATTGCTTTGGCTTGTT-GATGATGCACTGT
* * *
45310707 GTGTGACATTATATTTCTTTC
65 ATGTGACAGTATATTTCCTTC
* *
45310728 TA-TTTATCTGATGATGCACTACATGTGATAGTATAATTGCTTTGGCTTGTCTGATGATGCACTG
1 -AGTTTATCCGATGATGCACTACATGTGCTAGTATAATTGCTTTGGCTTGT-TGATGATGCACTG
* *
45310792 TATATGTCAGTATATTTCCTTC
64 TATGTGACAGTATATTTCCTTC
*
45310814 AGTTTATCCGATGATACACTACA-GTGC
1 AGTTTATCCGATGATGCACTACATGTGC
45310841 CAGATTGGGA
Statistics
Matches: 157, Mismatches: 37, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
85 6 0.04
86 148 0.94
87 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (85 bp):
AGTTTATCCGATGATGCACTACATGTGCTAGTATAATTGCTTTGGCTTGTTGATGATGCACTGTA
TGTGACAGTATATTTCCTTC
Found at i:45311594 original size:17 final size:19
Alignment explanation
Indices: 45311572--45311609 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
45311562 TATGGTTTAA
45311572 TGGTT-AATGT-TATAATT
1 TGGTTAAATGTATATAATT
*
45311589 TGGTTAAATGTATATAGTT
1 TGGTTAAATGTATATAATT
45311608 TG
1 TG
45311610 TAATGGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 5 0.28
19 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (19 bp):
TGGTTAAATGTATATAATT
Found at i:45312553 original size:18 final size:16
Alignment explanation
Indices: 45312522--45312556 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
45312512 GTATTATGGT
45312522 GATTTTTTATTGGATA
1 GATTTTTTATTGGATA
45312538 GATTTTATTAATTGGATA
1 GATTTT-TT-ATTGGATA
45312556 G
1 G
45312557 TTAGTCAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTTTATTGGATA
Found at i:45317825 original size:17 final size:17
Alignment explanation
Indices: 45317805--45317843 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
45317795 TTTAAGTATG
45317805 AGAAAAATTCAAACTCA
1 AGAAAAATTCAAACTCA
*
45317822 AG-AAAGTTCAAACTCA
1 AGAAAAATTCAAACTCA
45317838 AGAAAA
1 AGAAAA
45317844 TTTGAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.59, C:0.15, G:0.10, T:0.15
Consensus pattern (17 bp):
AGAAAAATTCAAACTCA
Done.