Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 76 of 211
Found at i:20328232 original size:26 final size:28
Alignment explanation
Indices: 20328076--20328238 Score: 84
Period size: 28 Copynumber: 5.6 Consensus size: 28
20328066 TAAGAACATT
* *
20328076 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
* ** *
20328106 TCATTATTAAATTATATTTAATATTA-A
1 TTATTATTAAATTATATGAAATAATATA
*
20328133 TTATT-TTAAATTATAT-AAATTCATATAAGAAAA
1 TTATTATTAAATTATATGAAA-T-A-AT----ATA
* * *
20328166 TTTATTATCAAGAATTTTATGAAATTATATA
1 -TTATTAT-TA-AATTATATGAAATAATATA
*
20328197 TTATTATTAAATTATATGTAATAATA-A
1 TTATTATTAAATTATATGAAATAATATA
20328224 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
20328239 CAAATTCATA
Statistics
Matches: 103, Mismatches: 17, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
25 2 0.02
26 22 0.21
27 12 0.12
28 27 0.26
29 2 0.02
30 14 0.14
31 2 0.02
32 1 0.01
33 1 0.01
34 5 0.05
35 3 0.03
36 1 0.01
37 8 0.08
38 3 0.03
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:20328302 original size:17 final size:17
Alignment explanation
Indices: 20328280--20328313 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
20328270 ATTATTTTAA
20328280 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAAT-ATAT
20328297 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
20328314 TTAATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:20328404 original size:118 final size:120
Alignment explanation
Indices: 20328279--20328693 Score: 730
Period size: 120 Copynumber: 3.5 Consensus size: 120
20328269 AATTATTTTA
* *
20328279 AATTTTATTAAATCATATATTTTAATTA-AATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATCTTT
20328342 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA-
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
20328397 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATC-TTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
20328461 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
20328516 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
20328581 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
20328636 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
20328694 ATGATTAAAT
Statistics
Matches: 285, Mismatches: 7, Indels: 7
0.95 0.02 0.02
Matches are distributed among these distances:
118 84 0.29
119 86 0.30
120 110 0.39
121 5 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:20328424 original size:18 final size:17
Alignment explanation
Indices: 20328398--20328432 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20328388 AATTATTAAA
*
20328398 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
20328415 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
20328433 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:20328536 original size:61 final size:61
Alignment explanation
Indices: 20328469--20328656 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
20328459 TTATAGTATC
20328469 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
20328530 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
20328588 C
61 T
*
20328589 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
20328650 ATATATT
1 ATATATT
20328657 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.17
61 25 0.26
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:20328556 original size:15 final size:15
Alignment explanation
Indices: 20328521--20328572 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
20328511 TTAAGAATTT
*
20328521 TATTAAATTAT-ATA
1 TATTTAATTATAATA
20328535 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
20328549 TATTTAATAATAAT-
1 TATTTAATTATAATA
20328563 TATGTTAATT
1 TAT-TTAATT
20328573 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:20328671 original size:16 final size:16
Alignment explanation
Indices: 20328650--20328691 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
20328640 TTATTAAATT
*
20328650 ATATATTTTAATTATA
1 ATATATTTTAATAATA
20328666 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
20328681 AT-TATGTTTAA
1 ATATAT-TTTAA
20328692 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:20328676 original size:15 final size:15
Alignment explanation
Indices: 20328641--20328682 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20328631 TTAAGAATTT
*
20328641 TATTAAATTAT-ATA
1 TATTTAATTATAATA
20328655 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
20328669 TATTTAATAATAAT
1 TATTTAATTATAAT
20328683 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:20328930 original size:16 final size:16
Alignment explanation
Indices: 20328905--20328937 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20328895 TTGATTTGTT
20328905 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
20328921 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
20328937 A
1 A
20328938 ATATAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.36, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:20330101 original size:20 final size:20
Alignment explanation
Indices: 20330076--20330116 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20330066 CTTAGTTGGC
20330076 ATTAGCATTACTGCTAGTGT
1 ATTAGCATTACTGCTAGTGT
20330096 ATTAGCATTACTGCTAGTGT
1 ATTAGCATTACTGCTAGTGT
20330116 A
1 A
20330117 GGAGAACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTAGCATTACTGCTAGTGT
Found at i:20340675 original size:21 final size:21
Alignment explanation
Indices: 20340649--20340699 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
20340639 AGCGGTGGCG
*
20340649 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
20340670 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
20340691 GTGAGATTA
1 GTGAGATTA
20340700 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:20346379 original size:31 final size:31
Alignment explanation
Indices: 20346344--20346405 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
20346334 TTAGTTATTA
*
20346344 TTTTTGAAAAA-TTGATGGACAAATTTAACTC
1 TTTTT-AAAAAGTTGATAGACAAATTTAACTC
*
20346375 TTTTTAAAAATGTTGATAGTCAAATTTAACT
1 TTTTTAAAAA-GTTGATAGACAAATTTAACT
20346406 TACAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 5 0.19
31 5 0.19
32 17 0.63
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (31 bp):
TTTTTAAAAAGTTGATAGACAAATTTAACTC
Found at i:20348624 original size:19 final size:21
Alignment explanation
Indices: 20348600--20348638 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20348590 TACTATTTAT
20348600 TTGGT-CAAG-TATCGATACC
1 TTGGTCCAAGTTATCGATACC
*
20348619 TTGGTCCCAGTTATCGATAC
1 TTGGTCCAAGTTATCGATAC
20348639 TTTTACTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (21 bp):
TTGGTCCAAGTTATCGATACC
Found at i:20356349 original size:13 final size:13
Alignment explanation
Indices: 20356331--20356369 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
20356321 CTAGTGCTGA
*
20356331 TGTTTACACAACT
1 TGTTTAAACAACT
* *
20356344 TGTTTAAATACCT
1 TGTTTAAACAACT
20356357 TGTTTAAACAACT
1 TGTTTAAACAACT
20356370 ACCATGACAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (13 bp):
TGTTTAAACAACT
Found at i:20371382 original size:50 final size:50
Alignment explanation
Indices: 20371099--20371382 Score: 338
Period size: 50 Copynumber: 5.7 Consensus size: 50
20371089 CATGCCAAAA
* ** * * * *
20371099 CCATGTCCCAGACATGGTCTTACACGGGATGTTTTTTGTAC--TGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCT-CGGTGCCAACG
* * * ** * * * *
20371148 CCATATCCCAGATATGGTCTTGCATGGGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACG
* ** *
20371198 CCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACG
* *
20371248 CCATGTCCCAGACATAGTCTTACATGGGACATCTTATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACG
20371298 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACG
*
20371348 CCATATCCCAGACATGGTCTTACATGGGACCTCTT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTT
20371383 TACCCAAATA
Statistics
Matches: 202, Mismatches: 31, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
48 1 0.00
49 29 0.14
50 172 0.85
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACG
Found at i:20374449 original size:61 final size:58
Alignment explanation
Indices: 20374310--20374450 Score: 153
Period size: 56 Copynumber: 2.4 Consensus size: 58
20374300 ACCCTAATTC
* * * * *
20374310 GGATTACCCGTTCGGGCTAAATCTATTTTCCACATATTCTTCGGGAGGGCTATATCAA
1 GGATCACCCGTCCGGGCTAGATCTATCTTCCACATATTCTTCGAGAGGGCTATATCAA
* *
20374368 -GATCACCCATCCGGGCTAGATCT-TCTT-CACACTATTCTTTGAGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCTATCTTCCACA-TATTCTTCGAGAGGGCTATATC---A-A
20374428 GGATCACCCGTCCGGGCTAGATC
1 GGATCACCCGTCCGGGCTAGATC
20374451 CTTTTTACCG
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
55 4 0.06
56 23 0.33
57 19 0.28
59 1 0.01
60 1 0.01
61 21 0.30
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (58 bp):
GGATCACCCGTCCGGGCTAGATCTATCTTCCACATATTCTTCGAGAGGGCTATATCAA
Found at i:20378545 original size:67 final size:66
Alignment explanation
Indices: 20378431--20378687 Score: 297
Period size: 67 Copynumber: 3.8 Consensus size: 66
20378421 GAGGTACAGG
* *
20378431 GTGTAAGACCATAGCTCAACTATGGCAACGA-ATG-GA-TTCTGTTGGGACAGTAAACATGGGGT
1 GTGTAAGACCATAGCTC-ACTATGACAAC-ATA-GAGAGTTC-GTAGGGACAGTAAACATGGGGT
20378493 ATGTT
62 ATGTT
*
20378498 GTGTAAGACCATAGCTCATCTATGACAGCATAGAGAGTTCGTAGGGACAGTAAACATGGGGTATG
1 GTGTAAGACCATAGCTCA-CTATGACAACATAGAGAGTTCGTAGGGACAGTAAACATGGGGTATG
20378563 TT
65 TT
* * * *
20378565 GTGTAAGACCATAGCTCAGCTATGACAGCATAGAGAGTTTGCTA-GGACAGTAAACACGAGGTAT
1 GTGTAAGACCATAGCTCA-CTATGACAACATAGAGAGTTCG-TAGGGACAGTAAACATGGGGTAT
20378629 GTT
64 GTT
* * * * * *
20378632 GTGTAAGACCATAGGTCGACTATGGCAACATAGAGAGTCCGTTGGAATAGTAAACA
1 GTGTAAGACCATAGCTC-ACTATGACAACATAGAGAGTTCGTAGGGACAGTAAACA
20378688 CGGGAAGTTT
Statistics
Matches: 168, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
66 4 0.02
67 158 0.94
68 6 0.04
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (66 bp):
GTGTAAGACCATAGCTCACTATGACAACATAGAGAGTTCGTAGGGACAGTAAACATGGGGTATGT
T
Found at i:20380664 original size:27 final size:27
Alignment explanation
Indices: 20380634--20380690 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
20380624 AGTCTATTGA
* *
20380634 GACATTAAACAC-GAGGTAGTCTGTCAG
1 GACATTAAACACAG-GGTAGCCCGTCAG
20380661 GACATTAAACACAGGGTAGCCCGTCAG
1 GACATTAAACACAGGGTAGCCCGTCAG
20380688 GAC
1 GAC
20380691 GTTATGTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (27 bp):
GACATTAAACACAGGGTAGCCCGTCAG
Found at i:20392982 original size:70 final size:71
Alignment explanation
Indices: 20392706--20393272 Score: 377
Period size: 70 Copynumber: 8.1 Consensus size: 71
20392696 GATCTCCCCA
* * * * * * * * * *
20392706 AAAATAGTTAGTGAGAGCTCAAGTTCCCAACTGTAGCT-TTAAGACTCGCAGGTTCAATACCGCA
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTATAGATCTTAAGGCTCACAGGTTCAATATCGTA
20392770 GCCTCT
66 GCCTCT
* * * * * * * * * **
20392776 GAAACAGGTAGGGATAGCTCAAGCTCCCAACTATAG-TTTTAAAGCTCCCAAGTTCAAT-TACAC
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTATAGATCTTAAGGCTCACAGGTTCAATAT-CGT
20392839 AGCCTCT
65 AGCCTCT
* * * * * * ** * *
20392846 AAAGCAGTTAGCAAGAGCTCAAGCTCAC-ATTGT-GATCTTAAGGCTCGTAAGTTCAATATCGCA
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTATAGATCTTAAGGCTCACAGGTTCAATATCGTA
*
20392909 GCCTTT
66 GCCTCT
** * * * ***
20392915 AAAACAGTTAGCGAGAGCCCAAGCTCTTAATTGTAGCT-TTAAGGCTTGTAGGTTCAATA-CTGT
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTATAGATCTTAAGGCTCACAGGTTCAATATC-GT
*
20392978 AGCCTCC
65 AGCCTCT
* * * ** * * *
20392985 AAAATAGTTAACGAGAGCCTAAGCTCCCAGTTAT-GATCGTAAGGCTCATAGGTTTAATATCGTA
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTATAGATCTTAAGGCTCACAGGTTCAATATCGTA
*
20393049 GCCTCC
66 GCCTCT
* * * * **
20393055 AAAACAGTTAGTGCGAGCCCAAGCTCCCAACTATAGCT-TTAAAGCTCACAGGTTCAATATTATA
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTATAGATCTTAAGGCTCACAGGTTCAATATCGTA
20393119 GCCTCT
66 GCCTCT
* * * *
20393125 AAAACAATTAGCGATAGCCCAAGCTCCTAACTATA-ATCTTAAGGCTCACAGGTTCAATATCATA
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTATAGATCTTAAGGCTCACAGGTTCAATATCGTA
20393189 GCCTCT
66 GCCTCT
* * * ** * * * * *
20393195 AAAATAGTTAGTGTGAGCTGAAGCT-CCAACTGTAGCT-TTAAGGCTCGCAGGTTCAACA-CTGC
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTATAGATCTTAAGGCTCACAGGTTCAATATC-GT
*
20393257 AACCTCT
65 AGCCTCT
20393264 AAAACAGTT
1 AAAACAGTT
20393273 GAAGCTTGCG
Statistics
Matches: 394, Mismatches: 90, Indels: 27
0.77 0.18 0.05
Matches are distributed among these distances:
68 2 0.01
69 97 0.25
70 290 0.74
71 5 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (71 bp):
AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTATAGATCTTAAGGCTCACAGGTTCAATATCGTA
GCCTCT
Found at i:20393073 original size:140 final size:139
Alignment explanation
Indices: 20392755--20393269 Score: 431
Period size: 140 Copynumber: 3.7 Consensus size: 139
20392745 TAAGACTCGC
* * * * * * * * * *
20392755 AGGTTCAATACCGCAGCCTCTGAAACAGGTAGGGATAGCTCAAGCTCCCAACTATAGTTTTAAAG
1 AGGTTCAATATCGTAGCCTCTAAAACAGTTAGTGAGAGCCCAAGCT-CCAACTGTAGCTTTAAGG
* * ** * * * * * * * * *
20392820 CTCCCAAGTTCAATTAC-ACAGCCTCTAAAGCAGTTAGCAAGAGCTCAAGCTCAC-ATTGTGATC
65 CTCGCAGGTTCAA-TACTGTAGCCTCCAAAACAATTAACGAGAGCCCAAGCTCCCAACTATGATC
*
20392883 TTAAGGCTCGT
129 TTAAGGCTCAT
* * * * * *
20392894 AAGTTCAATATCGCAGCCTTTAAAACAGTTAGCGAGAGCCCAAGCTCTTAATTGTAGCTTTAAGG
1 AGGTTCAATATCGTAGCCTCTAAAACAGTTAGTGAGAGCCCAAGCTC-CAACTGTAGCTTTAAGG
* * * * * ** *
20392959 CTTGTAGGTTCAATACTGTAGCCTCCAAAATAGTTAACGAGAGCCTAAGCTCCCAGTTATGATCG
65 CTCGCAGGTTCAATACTGTAGCCTCCAAAACAATTAACGAGAGCCCAAGCTCCCAACTATGATCT
20393024 TAAGGCTCAT
130 TAAGGCTCAT
* * * * *
20393034 AGGTTTAATATCGTAGCCTCCAAAACAGTTAGTGCGAGCCCAAGCTCCCAACTATAGCTTTAAAG
1 AGGTTCAATATCGTAGCCTCTAAAACAGTTAGTGAGAGCCCAAGCT-CCAACTGTAGCTTTAAGG
* * * * * * * *
20393099 CTCACAGGTTCAATATTATAGCCTCTAAAACAATTAGCGATAGCCCAAGCTCCTAACTATAATCT
65 CTCGCAGGTTCAATACTGTAGCCTCCAAAACAATTAACGAGAGCCCAAGCTCCCAACTATGATCT
*
20393164 TAAGGCTCAC
130 TAAGGCTCAT
* * * **
20393174 AGGTTCAATATCATAGCCTCTAAAATAGTTAGTGTGAGCTGAAGCTCCAACTGTAGCTTTAAGGC
1 AGGTTCAATATCGTAGCCTCTAAAACAGTTAGTGAGAGCCCAAGCTCCAACTGTAGCTTTAAGGC
* * * *
20393239 TCGCAGGTTCAACACTGCAACCTCTAAAACA
66 TCGCAGGTTCAATACTGTAGCCTCCAAAACA
20393270 GTTGAAGCTT
Statistics
Matches: 298, Mismatches: 74, Indels: 8
0.78 0.19 0.02
Matches are distributed among these distances:
138 4 0.01
139 128 0.43
140 165 0.55
141 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (139 bp):
AGGTTCAATATCGTAGCCTCTAAAACAGTTAGTGAGAGCCCAAGCTCCAACTGTAGCTTTAAGGC
TCGCAGGTTCAATACTGTAGCCTCCAAAACAATTAACGAGAGCCCAAGCTCCCAACTATGATCTT
AAGGCTCAT
Found at i:20398696 original size:79 final size:79
Alignment explanation
Indices: 20398551--20398697 Score: 242
Period size: 79 Copynumber: 1.9 Consensus size: 79
20398541 AAGGGATTGC
* *
20398551 TCGGAATTCTTTTAAGTACCTTTTATTTACAAAAGGTATTGGTGATATGGATCATACTTTAGCTG
1 TCGGAATTCTTTTAAGAACCTTTTATTTACAAAAGGTATTGGTGATATGGATCATACTTTAACTG
20398616 GTGATATGGATTAA
66 GTGATATGGATTAA
* *
20398630 TCGGAATTCTTTTAAGAACTTTTTATTTACAAATGGTATTGGTGATATGGATCATA-TTTCAACT
1 TCGGAATTCTTTTAAGAACCTTTTATTTACAAAAGGTATTGGTGATATGGATCATACTTT-AACT
20398694 GGTG
65 GGTG
20398698 TGAACATATG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 3 0.05
79 60 0.95
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (79 bp):
TCGGAATTCTTTTAAGAACCTTTTATTTACAAAAGGTATTGGTGATATGGATCATACTTTAACTG
GTGATATGGATTAA
Found at i:20402022 original size:20 final size:22
Alignment explanation
Indices: 20401999--20402045 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
20401989 TATTAGAAAT
20401999 TTTACTT-AAATAT-TTAAAAA
1 TTTACTTAAAATATGTTAAAAA
20402019 TTTA-TTAAAATATGTTAAAAA
1 TTTACTTAAAATATGTTAAAAA
*
20402040 TATACT
1 TTTACT
20402046 ACAATTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 2 0.09
20 10 0.43
21 10 0.43
22 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (22 bp):
TTTACTTAAAATATGTTAAAAA
Found at i:20402839 original size:16 final size:15
Alignment explanation
Indices: 20402820--20402850 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
20402810 AATTTGTAAT
20402820 TTTTTATACTATATTA
1 TTTTTATA-TATATTA
20402836 TTTTTATATATATTA
1 TTTTTATATATATTA
20402851 CGTAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTATATATATTA
Found at i:20407755 original size:25 final size:25
Alignment explanation
Indices: 20407721--20407777 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 25
20407711 TTAGGAAGTA
20407721 GAGAACTAACGTTAGGCAAACCCAG
1 GAGAACTAACGTTAGGCAAACCCAG
20407746 GAGAACTAACGTTAGGCAAACCCAG
1 GAGAACTAACGTTAGGCAAACCCAG
20407771 GAAGAAC
1 G-AGAAC
20407778 CCCCAGTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.11
Consensus pattern (25 bp):
GAGAACTAACGTTAGGCAAACCCAG
Found at i:20408343 original size:29 final size:29
Alignment explanation
Indices: 20408308--20408374 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
20408298 TGTGATATGC
* *
20408308 GAACCCTAGGAACATGCGAGCCTATGTGT
1 GAACCCTAGGAACATGCGAGCATATGTGA
* * *
20408337 GAACCCTAGTAATATGCTAGCATATGTGA
1 GAACCCTAGGAACATGCGAGCATATGTGA
*
20408366 AAACCCTAG
1 GAACCCTAG
20408375 AAACTTGCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (29 bp):
GAACCCTAGGAACATGCGAGCATATGTGA
Found at i:20427979 original size:20 final size:20
Alignment explanation
Indices: 20427943--20427990 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
20427933 CCTTTGCATA
*
20427943 GCTCTGTTTAGCACTGCTTT
1 GCTCTGTTTAGCACTGCTAT
* **
20427963 GTTCTGTTTAGTTCTGCTAT
1 GCTCTGTTTAGCACTGCTAT
20427983 GCTCTGTT
1 GCTCTGTT
20427991 CTGTTATGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.08, C:0.21, G:0.21, T:0.50
Consensus pattern (20 bp):
GCTCTGTTTAGCACTGCTAT
Found at i:20427985 original size:25 final size:25
Alignment explanation
Indices: 20427957--20428005 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
20427947 TGTTTAGCAC
*
20427957 TGCTTTGTTCTGTT-TAGTTCTGCTA
1 TGCTCTGTTCTGTTAT-GTTCTGCTA
20427982 TGCTCTGTTCTGTTATGTTCTGCT
1 TGCTCTGTTCTGTTATGTTCTGCT
20428006 CTGTCCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.06, C:0.18, G:0.20, T:0.55
Consensus pattern (25 bp):
TGCTCTGTTCTGTTATGTTCTGCTA
Found at i:20451798 original size:28 final size:27
Alignment explanation
Indices: 20451750--20451810 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
20451740 AAATTAGCTC
* * *
20451750 GCTTATCGTATTATGTCGCACTTTGTT
1 GCTTATCATATTATGTCGCACTTCGGT
* *
20451777 GCTTATCAATATTATTTTGCACTTCGGT
1 GCTTATC-ATATTATGTCGCACTTCGGT
20451805 GCTTAT
1 GCTTAT
20451811 TGTTATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (27 bp):
GCTTATCATATTATGTCGCACTTCGGT
Found at i:20451832 original size:23 final size:25
Alignment explanation
Indices: 20451788--20451835 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
20451778 CTTATCAATA
*
20451788 TTATTTTGCACTTCGGTGCTTATTG
1 TTATTTTGCACATCGGTGCTTATTG
20451813 TTATTTT-CACATC-GTGCTTATTG
1 TTATTTTGCACATCGGTGCTTATTG
20451836 ATATATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 5 0.23
25 7 0.32
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.52
Consensus pattern (25 bp):
TTATTTTGCACATCGGTGCTTATTG
Found at i:20456456 original size:24 final size:24
Alignment explanation
Indices: 20456407--20456465 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
20456397 TAAAAATAAA
*
20456407 AATA-AATAATTTAATAACATTCTT
1 AATATAAT-ATTTAATAAAATTCTT
20456431 AATATAATATTTAATAATAATT-TT
1 AATATAATATTTAATAA-AATTCTT
20456455 AATATAATATT
1 AATATAATATT
20456466 ATTATTAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 26 0.81
25 6 0.19
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
AATATAATATTTAATAAAATTCTT
Found at i:20460821 original size:26 final size:26
Alignment explanation
Indices: 20460792--20460842 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
20460782 GATATGCAAG
*
20460792 ATATTAATCTTTTA-AATATTATACAA
1 ATATAAAT-TTTTAGAATATTATACAA
*
20460818 ATATAAATTTTTAGAATATTTTACA
1 ATATAAATTTTTAGAATATTATACA
20460843 TATTTTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (26 bp):
ATATAAATTTTTAGAATATTATACAA
Found at i:20468077 original size:18 final size:19
Alignment explanation
Indices: 20468054--20468103 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
20468044 TAAGGAACTT
20468054 TGGTATCGATAAAAA-ATA
1 TGGTATCGATAAAAACATA
20468072 TGGTATCGATAAAAATCATA
1 TGGTATCGATAAAAA-CATA
20468092 TGGATATCGATA
1 TGG-TATCGATA
20468104 CTTTTTGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.52
20 6 0.21
21 8 0.28
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (19 bp):
TGGTATCGATAAAAACATA
Found at i:20469592 original size:53 final size:53
Alignment explanation
Indices: 20469535--20469641 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
20469525 TTCTATTAAA
20469535 TATTAAAACCAAAACCCTTTCATTACAAACTTGACCTTATTTTCAAATTCTCT
1 TATTAAAACCAAAACCCTTTCATTACAAACTTGACCTTATTTTCAAATTCTCT
*
20469588 TATTAAAACCAAAACCCTTTCATTACTAACTTGACCTTATTTTCAAATTCTCT
1 TATTAAAACCAAAACCCTTTCATTACAAACTTGACCTTATTTTCAAATTCTCT
20469641 T
1 T
20469642 TCATTCCCCT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (53 bp):
TATTAAAACCAAAACCCTTTCATTACAAACTTGACCTTATTTTCAAATTCTCT
Found at i:20477927 original size:3 final size:3
Alignment explanation
Indices: 20477921--20478034 Score: 219
Period size: 3 Copynumber: 38.0 Consensus size: 3
20477911 TTCTTCAATC
20477921 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
20477969 GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
20478017 GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA
20478035 ACGCCATTAA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 109 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20489010 original size:27 final size:26
Alignment explanation
Indices: 20488968--20489027 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
20488958 ATTTTTAAAG
*
20488968 AAAAATAGAAACTTTTGAAAC-AATATA
1 AAAAATAGAAAATTTT-AAACAAAT-TA
* *
20488995 AAAAATATAAAATTTTAAATAAATTA
1 AAAAATAGAAAATTTTAAACAAATTA
20489021 AAAAATA
1 AAAAATA
20489028 ATTAAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (26 bp):
AAAAATAGAAAATTTTAAACAAATTA
Found at i:20506241 original size:17 final size:17
Alignment explanation
Indices: 20506219--20506252 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20506209 ATTGGTATAC
20506219 AAAGAAGAAGAACCCTA
1 AAAGAAGAAGAACCCTA
20506236 AAAGAAGAAGAACCCTA
1 AAAGAAGAAGAACCCTA
20506253 TGCCTACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.18, G:0.18, T:0.06
Consensus pattern (17 bp):
AAAGAAGAAGAACCCTA
Found at i:20509075 original size:27 final size:27
Alignment explanation
Indices: 20509029--20509176 Score: 138
Period size: 27 Copynumber: 5.5 Consensus size: 27
20509019 GTACGTTGTC
* * *
20509029 AAGGCATTCTTTTTAGAGTTTTCCATG
1 AAGGCATTCCTTTCAGAGTTTTCCACG
* *
20509056 AAGGCATTCCTTTCAAAGTTTTCCATG
1 AAGGCATTCCTTTCAGAGTTTTCCACG
* * * *
20509083 AATGCATTCCATTCAGAGTCTACCACG
1 AAGGCATTCCTTTCAGAGTTTTCCACG
* * * *
20509110 AAGGCATTCCCTTCAGAGTCTACCACA
1 AAGGCATTCCTTTCAGAGTTTTCCACG
* *
20509137 AAGGCATTCCTTTCATA-TATTTCCACA
1 AAGGCATTCCTTTCAGAGT-TTTCCACG
20509164 AAGGCATT-CTTTC
1 AAGGCATTCCTTTC
20509177 CCTAGCATGT
Statistics
Matches: 104, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
26 6 0.06
27 98 0.94
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (27 bp):
AAGGCATTCCTTTCAGAGTTTTCCACG
Found at i:20510929 original size:16 final size:16
Alignment explanation
Indices: 20510905--20510940 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
20510895 TGGTTCACTA
*
20510905 TAATAGAATAGGGTTG
1 TAATAGAATAGAGTTG
*
20510921 TAATTGAATAGAGTTG
1 TAATAGAATAGAGTTG
20510937 TAAT
1 TAAT
20510941 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (16 bp):
TAATAGAATAGAGTTG
Found at i:20511147 original size:26 final size:25
Alignment explanation
Indices: 20511098--20511153 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
20511088 ATTGTTATTA
* ** *
20511098 AATTTTAATAAAATTATTATTAAAT
1 AATTTTAATAAAAATAAAAATAAAT
20511123 ATATTTTAATAAAAATAAAAATAAAT
1 A-ATTTTAATAAAAATAAAAATAAAT
20511149 AATTT
1 AATTT
20511154 AATCATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AATTTTAATAAAAATAAAAATAAAT
Found at i:20511194 original size:61 final size:58
Alignment explanation
Indices: 20511099--20511236 Score: 172
Period size: 61 Copynumber: 2.3 Consensus size: 58
20511089 TTGTTATTAA
* * *
20511099 ATTTTAATAAAATTATTATTAAATATATTTTAATAAAAATAAAAATAAATAATTTAAT-CAT
1 ATTTTAATATAATTATTATTAAATACAATTTAAT-AAAAT---AATAAATAATTTAATACAT
*
20511160 ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAGCAT
1 ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATA-CAT
*
20511219 -TCTTAATATAATTATTAT
1 ATTTTAATATAATTATTAT
20511237 ATGAATTAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
57 14 0.20
58 17 0.24
59 3 0.04
60 5 0.07
61 31 0.44
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATACAT
Found at i:20511258 original size:21 final size:21
Alignment explanation
Indices: 20511241--20511282 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20511231 TATTATATGA
20511241 ATTAAAAAATATAATATATAAT
1 ATTAAAAAA-ATAATATATAAT
*
20511263 ATTACAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
20511283 CCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:20514383 original size:21 final size:21
Alignment explanation
Indices: 20514359--20514438 Score: 99
Period size: 21 Copynumber: 3.8 Consensus size: 21
20514349 TTACACACCC
20514359 GTGTGAAGGCCACACACGTCT
1 GTGTGAAGGCCACACACGTCT
* *
20514380 GTGTGGAGGCTACACACGTCT
1 GTGTGAAGGCCACACACGTCT
* * *
20514401 GTGTGTAGGCCACACACGACC
1 GTGTGAAGGCCACACACGTCT
20514422 GTGT-AGAGGCCACACAC
1 GTGTGA-AGGCCACACAC
20514439 ACCCATGTGG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.24, C:0.29, G:0.30, T:0.17
Consensus pattern (21 bp):
GTGTGAAGGCCACACACGTCT
Found at i:20514411 original size:42 final size:42
Alignment explanation
Indices: 20514359--20514438 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
20514349 TTACACACCC
* * * *
20514359 GTGTGAAGGCCACACACGTCTGTGTGGAGGCTACACACGTCT
1 GTGTGAAGGCCACACACGACCGTGTAGAGGCCACACACGTCT
*
20514401 GTGTGTAGGCCACACACGACCGTGTAGAGGCCACACAC
1 GTGTGAAGGCCACACACGACCGTGTAGAGGCCACACAC
20514439 ACCCATGTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.24, C:0.29, G:0.30, T:0.17
Consensus pattern (42 bp):
GTGTGAAGGCCACACACGACCGTGTAGAGGCCACACACGTCT
Found at i:20514451 original size:21 final size:21
Alignment explanation
Indices: 20514351--20514451 Score: 87
Period size: 21 Copynumber: 4.8 Consensus size: 21
20514341 GTGAGGGTTT
*
20514351 ACACACCCGTGTGAAGGCCAC
1 ACACACCCGTGTGGAGGCCAC
** * *
20514372 ACACGTCTGTGTGGAGGCTAC
1 ACACACCCGTGTGGAGGCCAC
** * *
20514393 ACACGTCTGTGTGTAGGCCAC
1 ACACACCCGTGTGGAGGCCAC
*
20514414 ACACGA-CCGTGTAGAGGCCAC
1 ACAC-ACCCGTGTGGAGGCCAC
*
20514435 ACACACCCATGTGGAGG
1 ACACACCCGTGTGGAGG
20514452 GGAGACACGC
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
20 1 0.02
21 64 0.98
ACGTcount: A:0.25, C:0.31, G:0.29, T:0.16
Consensus pattern (21 bp):
ACACACCCGTGTGGAGGCCAC
Found at i:20532320 original size:21 final size:22
Alignment explanation
Indices: 20532278--20532330 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
20532268 CGTTGAAACC
*
20532278 AAAAATGAATCGTGTGTTTGAAT
1 AAAAATGAATC-TGTATTTGAAT
20532301 AAAAATGAAT-TGTATTTGAAT
1 AAAAATGAATCTGTATTTGAAT
*
20532322 AGAAATGAA
1 AAAAATGAA
20532331 AGGAATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 18 0.64
23 10 0.36
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.32
Consensus pattern (22 bp):
AAAAATGAATCTGTATTTGAAT
Found at i:20532629 original size:26 final size:26
Alignment explanation
Indices: 20532590--20532655 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
20532580 TATTTTCTCG
20532590 AAATTTTACTAAGGGCAAAATCATCA
1 AAATTTTACTAAGGGCAAAATCATCA
* *
20532616 AAATTTTA-TCAAGGGTAAAATCGTCA
1 AAATTTTACT-AAGGGCAAAATCATCA
*
20532642 AAATTTTGCTAAGG
1 AAATTTTACTAAGG
20532656 ATAAAATAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.03
26 33 0.94
27 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (26 bp):
AAATTTTACTAAGGGCAAAATCATCA
Found at i:20544426 original size:499 final size:489
Alignment explanation
Indices: 20543505--20544495 Score: 1705
Period size: 499 Copynumber: 2.0 Consensus size: 489
20543495 TAGACAAGCA
* *
20543505 CCCAATTTCCTCCAACACACGCCTAGGTAGCGCTTACCACAATACATACAGTTGAAAGTTTTATC
1 CCCAATTTCCTCCAACACACGCCCAGGTAGCACTTACCACAATACATACAGTTGAAAGTTTTATC
20543570 CCCAAAATTAGCCTCAGCAACCTCTTGTTACGGTTTACCCTCTCTAGCTCACTTTATGGGACAAG
66 CCCAAAATTAGCCTCAGCAACCTCTTGTTACGGTTTACCCTCTCTAGCTCACTTTATGGGACAAG
*
20543635 TATTTAAGTTAGTAGAACTAGAATCCCTTTTAACCAGGACCTTATTCTTTTTCCATTTTTCGTGT
131 TATTTAAGTTAGTAGAACTAGAATCCCTTTTAACCAGGACCGTATTCTTTTTCCATTTTTCGTGT
*
20543700 TCCACCTGTTTGATCTCCTCCACAATTTTGGATTTCTCAACTAGACCGGTTCTTGAAGTAGAGAA
196 TCCACCTGTTTGATCTCCTCCACAATTTTGGATTTATCAACTAGACCGGTTCTTGAAGTAGAGAA
*
20543765 ACCTAAATTTTAAGGTCAAAACACAACCTATTTTTGAACCTCACACACTTATCTTGTCCTATGGC
261 ACCTAAATTTTAAGGTCAAAACACAACCTATTTTCGAACCTCACACACTTATCTTGTCCTATGGC
* * *
20543830 AACCATACCCTGAACGTAGCGGCTAAGACTAAAAATTTTAGCCTCATATTCCACCAGAATCTTAT
326 AACCATACCCTGAACATAGCGGCTAAGACTAAAAAATTTAGCCTCATATTCCACCACAATCTTAT
20543895 CTCCCTACTTCAACTCAATAAACTTAAACTTAGTGCCCACATACTTCTTTTGGAAGGCTTCTT-A
391 CTCCCTACTTCAACTCAATAAACTTAAACTTAGTGCCCACATACTTCTTTTGGAAGGCTTCTTGA
20543959 GAAATATTTCAAGGTCAAACTTTCAGCCTACATAC
456 -AAATATTTCAAGGTCAAACTTTCAGCCTACATAC
20543994 CCCAATTTCCTCCAACACACGCCCAGGTAGCACTTACCACAATACATACAGTTGAAAGTTTTATC
1 CCCAATTTCCTCCAACACACGCCCAGGTAGCACTTACCACAATACATACAGTTGAAAGTTTTATC
*
20544059 CCCAAAATTAGCCTCAGCAACCTCTTGTTGCGGTTTACCCTCTCTAGCTCACTTTATGGGACAAG
66 CCCAAAATTAGCCTCAGCAACCTCTTGTTACGGTTTACCCTCTCTAGCTCACTTTATGGGACAAG
* *
20544124 TATTTAAGTTAGTAGAACTAGAATCCCTTTTAACCAGGATCGTATTCTTTTTCCATTTTTTGTGT
131 TATTTAAGTTAGTAGAACTAGAATCCCTTTTAACCAGGACCGTATTCTTTTTCCATTTTTCGTGT
*
20544189 TCCACCTGTTTGATCTCCTCCATAATTTTGGATTTATCAACTAGAGTCTCAAACACCGGTTCTTG
196 TCCACCTGTTTGATCTCCTCCACAATTTTGGATTTATCAACT--AG--------ACCGGTTCTTG
* *
20544254 AAGTAGAGAAACCTGAATTTTGAGGTCAAAACACAACCTATTTTCGAACCTCACACACTTATCTT
251 AAGTAGAGAAACCTAAATTTTAAGGTCAAAACACAACCTATTTTCGAACCTCACACACTTATCTT
20544319 GTCCTATGGCAACCATACCCTGAACATAGCGGCTAAGACTAAAAAATTTAGCCTCATATTCCACC
316 GTCCTATGGCAACCATACCCTGAACATAGCGGCTAAGACTAAAAAATTTAGCCTCATATTCCACC
* *
20544384 ACAATCTTATCTCCCTGCTTCAACTCGATAAACTTAAACTTAGTGCCCACATACTTCTTTTGGAA
381 ACAATCTTATCTCCCTACTTCAACTCAATAAACTTAAACTTAGTGCCCACATACTTCTTTTGGAA
** *
20544449 GGCTTCTTGAAAATATTTCGTGGTCAAACTTTCAGCCTGCATAC
446 GGCTTCTTGAAAATATTTCAAGGTCAAACTTTCAGCCTACATAC
20544493 CCC
1 CCC
20544496 TTATAATAAG
Statistics
Matches: 472, Mismatches: 19, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
489 229 0.49
491 2 0.00
499 240 0.51
500 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (489 bp):
CCCAATTTCCTCCAACACACGCCCAGGTAGCACTTACCACAATACATACAGTTGAAAGTTTTATC
CCCAAAATTAGCCTCAGCAACCTCTTGTTACGGTTTACCCTCTCTAGCTCACTTTATGGGACAAG
TATTTAAGTTAGTAGAACTAGAATCCCTTTTAACCAGGACCGTATTCTTTTTCCATTTTTCGTGT
TCCACCTGTTTGATCTCCTCCACAATTTTGGATTTATCAACTAGACCGGTTCTTGAAGTAGAGAA
ACCTAAATTTTAAGGTCAAAACACAACCTATTTTCGAACCTCACACACTTATCTTGTCCTATGGC
AACCATACCCTGAACATAGCGGCTAAGACTAAAAAATTTAGCCTCATATTCCACCACAATCTTAT
CTCCCTACTTCAACTCAATAAACTTAAACTTAGTGCCCACATACTTCTTTTGGAAGGCTTCTTGA
AAATATTTCAAGGTCAAACTTTCAGCCTACATAC
Found at i:20546339 original size:38 final size:38
Alignment explanation
Indices: 20546272--20546362 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
20546262 AAAAATAGTT
* *
20546272 GACATGTTTAACATGTATCCAGTTCAACAGTAGCAATA
1 GACATGCTTAACATGTATCCAGTTCAACAGTAACAATA
*** * *
20546310 GACATGCTTAACATGTATTTGGTTTAACAGTAACAGTA
1 GACATGCTTAACATGTATCCAGTTCAACAGTAACAATA
* *
20546348 GGCATGCTAAACATG
1 GACATGCTTAACATG
20546363 CAATCAGTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (38 bp):
GACATGCTTAACATGTATCCAGTTCAACAGTAACAATA
Found at i:20558416 original size:4 final size:4
Alignment explanation
Indices: 20558407--20558458 Score: 54
Period size: 4 Copynumber: 13.2 Consensus size: 4
20558397 AGTAAACAAA
* * *
20558407 AGTT AGTT AGTT AGTT AGTT AGTT A-AT AGTT AGCT -GATC AGTT AGTT
1 AGTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT AG-TT AGTT AGTT
20558454 AGTT A
1 AGTT A
20558459 TTAATTGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 3 0.08
4 35 0.90
5 1 0.03
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (4 bp):
AGTT
Found at i:20563029 original size:4 final size:4
Alignment explanation
Indices: 20563020--20563044 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20563010 AGTAAACAAA
20563020 AGTT AGTT AGTT AGTT AGTT AGTT A
1 AGTT AGTT AGTT AGTT AGTT AGTT A
20563045 ACAGTTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
AGTT
Found at i:20565100 original size:23 final size:23
Alignment explanation
Indices: 20565057--20565104 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
20565047 AATACGTTAA
20565057 AAATATTTTTTATGTATTATTTG
1 AAATATTTTTTATGTATTATTTG
20565080 AAAT-TTTTTTAT-TATAATATTTG
1 AAATATTTTTTATGTAT--TATTTG
20565103 AA
1 AA
20565105 TTGATAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.13
22 8 0.35
23 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (23 bp):
AAATATTTTTTATGTATTATTTG
Found at i:20568871 original size:3 final size:3
Alignment explanation
Indices: 20568863--20568895 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
20568853 AGACTATGCT
20568863 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20568896 AGCCACCACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20571824 original size:87 final size:86
Alignment explanation
Indices: 20571670--20571828 Score: 237
Period size: 87 Copynumber: 1.8 Consensus size: 86
20571660 TACATACATA
* * * * *
20571670 AGGTTGAGTTCTTACTCTTAATGAATTCATATCCCAGGGTTTGGGTGGTCTTATTGAGACAGGCT
1 AGGTTGAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTCGGTGGTCCTATTGAAACAGACT
20571735 TGATGAATTCATTGACATGTG
66 TGATGAATTCATTGACATGTG
** *
20571756 AGGTTGAGTTTCTTACTCTTAATGGGTTCATATCCTAGAGTTTCGGTGGTCCTATTGAAACAGAC
1 AGGTTGAG-TTCTTACTCTTAATGAATTCATATCCCAGAGTTTCGGTGGTCCTATTGAAACAGAC
20571821 TTGATGAA
65 TTGATGAA
20571829 CTCGTCGAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 8 0.12
87 56 0.88
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (86 bp):
AGGTTGAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTCGGTGGTCCTATTGAAACAGACT
TGATGAATTCATTGACATGTG
Found at i:20574391 original size:24 final size:24
Alignment explanation
Indices: 20574364--20574415 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20574354 TTAGTAAGTC
*
20574364 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20574388 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20574412 AAAT
1 AAAT
20574416 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20576359 original size:24 final size:24
Alignment explanation
Indices: 20576332--20576383 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20576322 TTAGTAAGTC
*
20576332 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20576356 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20576380 AAAT
1 AAAT
20576384 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20581321 original size:17 final size:17
Alignment explanation
Indices: 20581284--20581321 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
20581274 ATTTAACCAT
*
20581284 TTTTATTTTTATTATAT
1 TTTTATTTTTATTATAA
20581301 TTTTATTTTTAGTT-TAA
1 TTTTATTTTTA-TTATAA
20581318 TTTT
1 TTTT
20581322 TGTTTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTATAA
Found at i:20587761 original size:17 final size:17
Alignment explanation
Indices: 20587705--20587762 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
20587695 CGGGCAAGAC
* *
20587705 ACACGGCCGAGTGCAAG
1 ACACGACCGTGTGCAAG
20587722 ACACGACC-T-TGC--G
1 ACACGACCGTGTGCAAG
* *
20587735 ACATGGCCGTGTGCAAG
1 ACACGACCGTGTGCAAG
20587752 ACACGACCGTG
1 ACACGACCGTG
20587763 CGACACAGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
13 7 0.23
14 1 0.03
15 6 0.19
17 17 0.55
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.12
Consensus pattern (17 bp):
ACACGACCGTGTGCAAG
Found at i:20587774 original size:30 final size:30
Alignment explanation
Indices: 20587705--20587777 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
20587695 CGGGCAAGAC
* *
20587705 ACACGGCCGAGTGCAAGACACGACCTTGCG
1 ACACGGCCGTGTGCAAGACACGACCGTGCG
*
20587735 ACATGGCCGTGTGCAAGACACGACCGTGCG
1 ACACGGCCGTGTGCAAGACACGACCGTGCG
*
20587765 ACACAGCCGTGTG
1 ACACGGCCGTGTG
20587778 TGCCACAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.32, T:0.12
Consensus pattern (30 bp):
ACACGGCCGTGTGCAAGACACGACCGTGCG
Found at i:20590199 original size:19 final size:19
Alignment explanation
Indices: 20590163--20590200 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20590153 TTTGGTATAG
*
20590163 GGACTAAATCGTAAAAACT
1 GGACTAAATCGAAAAAACT
20590182 GGACTAAATC-AAATAAACT
1 GGACTAAATCGAAA-AAACT
20590201 TCAAACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (19 bp):
GGACTAAATCGAAAAAACT
Found at i:20601073 original size:25 final size:23
Alignment explanation
Indices: 20601048--20601092 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
20601038 GCTTGAGAGA
*
20601048 AATACTTTTTCTCTAAAAAAAAAG
1 AATA-TTTTTATCTAAAAAAAAAG
*
20601072 AATATTTTTATCTCAAAAAAA
1 AATATTTTTATCTAAAAAAAA
20601093 GTGTGGGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
AATATTTTTATCTAAAAAAAAAG
Found at i:20609274 original size:15 final size:16
Alignment explanation
Indices: 20609236--20609276 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
20609226 AATGATTTTC
*
20609236 ATTTATT-TATATTAA
1 ATTTATTATTTATTAA
20609251 ATTTATTATTTATTAA
1 ATTTATTATTTATTAA
*
20609267 GTTT-TTATTT
1 ATTTATTATTT
20609277 TAAATAGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
ATTTATTATTTATTAA
Found at i:20609278 original size:16 final size:16
Alignment explanation
Indices: 20609237--20609278 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
20609227 ATGATTTTCA
20609237 TTTATTTATATTAAATT
1 TTTATTT-TATTAAATT
*
20609254 TATTA-TTTATTAAGTT
1 T-TTATTTTATTAAATT
20609270 TTTATTTTA
1 TTTATTTTA
20609279 AATAGATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 3 0.14
16 13 0.59
17 3 0.14
18 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTATTTTATTAAATT
Found at i:20609571 original size:26 final size:24
Alignment explanation
Indices: 20609514--20609590 Score: 61
Period size: 26 Copynumber: 3.1 Consensus size: 24
20609504 AATTTTCTAA
*
20609514 TTATTATTTAAAATTTAAA-TTAATT
1 TTATTA-TT-AAATTTAAATTTACTT
*
20609539 CTAATTACTTGAAATTTAAATTTACTT
1 -TTATTA-TT-AAATTTAAATTTACTT
*
20609566 TTATTATTAGA-TTAAATTT-CTT
1 TTATTATTAAATTTAAATTTACTT
20609588 TTA
1 TTA
20609591 AATTATTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 6 0.14
23 8 0.18
24 2 0.05
25 2 0.05
26 21 0.48
27 5 0.11
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (24 bp):
TTATTATTAAATTTAAATTTACTT
Found at i:20611638 original size:50 final size:50
Alignment explanation
Indices: 20611527--20611774 Score: 253
Period size: 50 Copynumber: 4.8 Consensus size: 50
20611517 ATTTGGGTAA
* * *
20611527 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
20611583 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTCGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * *
20611633 AGAGGTCTCATGTAAGACCATGTTTGGGACATGACGTTGGTACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
20611683 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
20611733 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
20611775 GTACAAGAAA
Statistics
Matches: 163, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 121 0.74
53 3 0.02
55 1 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:20611706 original size:100 final size:102
Alignment explanation
Indices: 20611535--20611774 Score: 286
Period size: 100 Copynumber: 2.3 Consensus size: 102
20611525 AAAGAGATCC
* * *
20611535 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGA
1 CATGTAAGACCATGTTTGGGACATGACATTGGCACCA-T-AG--TATGAGAGGTCCCACGTAAGA
* **
20611600 CCATGTCTGGGACATGGCGTCGGCACCGAGATGAGAGGTCT
62 CCATGTCTGGGACATGGCATCGGCACCGAGATGAGAACTCT
* * *
20611641 CATGTAAGACCATGTTTGGGACATGACGTTGGTACCA-AG-ATGAGAGGTCCCCCGTAAGACCAT
1 CATGTAAGACCATGTTTGGGACATGACATTGGCACCATAGTATGAGAGGTCCCACGTAAGACCAT
* * *
20611704 GTCTGGGACATGGCATGGGCACCTATATGAGAACTCT
66 GTCTGGGACATGGCATCGGCACCGAGATGAGAACTCT
* * * *
20611741 CATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CATGTAAGACCATGTTTGGGACATGACATTGGCA
20611775 GTACAAGAAA
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
100 81 0.70
103 2 0.02
106 33 0.28
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (102 bp):
CATGTAAGACCATGTTTGGGACATGACATTGGCACCATAGTATGAGAGGTCCCACGTAAGACCAT
GTCTGGGACATGGCATCGGCACCGAGATGAGAACTCT
Found at i:20611808 original size:49 final size:50
Alignment explanation
Indices: 20611591--20611813 Score: 164
Period size: 50 Copynumber: 4.5 Consensus size: 50
20611581 TGAGAGGTCC
* * * * * **
20611591 CATGTAAGACCATGTCTGGGACATGGCGTCGGCACCGAGATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
* * * * * * * * ** *
20611641 CATGTAAGACCATGTTTGGGACATGACGTTGGTACCAAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
** * *
20611691 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
* * * *
20611741 CATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-AACATC-
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAAC-TCT
*
20611789 CGATGTAAGACTATGTCTGGGACAT
1 C-ATGTAAGACCATGTCTGGGACAT
20611814 AGCTTTGGCA
Statistics
Matches: 142, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
48 4 0.03
49 27 0.19
50 111 0.78
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
Found at i:20618282 original size:5 final size:5
Alignment explanation
Indices: 20618272--20618296 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20618262 AGTTATATTG
20618272 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
20618297 TATGAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:20629581 original size:47 final size:47
Alignment explanation
Indices: 20629512--20629605 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
20629502 TCACTCTGTT
20629512 AGATGTTGAATACCTACCTCAGAATGGGGTACTCATAGATACTATTA
1 AGATGTTGAATACCTACCTCAGAATGGGGTACTCATAGATACTATTA
20629559 AGATGTTGAATACCTACCTCAGAATGGGGTACTCATAGATACTATTA
1 AGATGTTGAATACCTACCTCAGAATGGGGTACTCATAGATACTATTA
20629606 TTGGCGGATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (47 bp):
AGATGTTGAATACCTACCTCAGAATGGGGTACTCATAGATACTATTA
Found at i:20630242 original size:23 final size:23
Alignment explanation
Indices: 20630210--20630294 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 23
20630200 GGGCGTTACT
* *
20630210 AATACGCCACACAGGCATCACAG
1 AATATGCCACAAAGGCATCACAG
* * * *
20630233 AATATTCCACAAAGACTTTACAG
1 AATATGCCACAAAGGCATCACAG
* * *
20630256 AATATGCCACATAGGCTTTATC-G
1 AATATGCCACAAAGGCATCA-CAG
20630279 AATATGCCACAAAGGC
1 AATATGCCACAAAGGC
20630295 TTTATAGAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 50 0.98
24 1 0.02
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.20
Consensus pattern (23 bp):
AATATGCCACAAAGGCATCACAG
Found at i:20630295 original size:23 final size:24
Alignment explanation
Indices: 20630230--20630303 Score: 100
Period size: 23 Copynumber: 3.2 Consensus size: 24
20630220 ACAGGCATCA
* *
20630230 CAGAATATTCCACAAAGACTTTA-
1 CAGAATATGCCACAAAGGCTTTAT
*
20630253 CAGAATATGCCACATAGGCTTTAT
1 CAGAATATGCCACAAAGGCTTTAT
20630277 C-GAATATGCCACAAAGGCTTTAT
1 CAGAATATGCCACAAAGGCTTTAT
20630300 -AGAA
1 CAGAA
20630304 AATTACGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 44 0.98
24 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (24 bp):
CAGAATATGCCACAAAGGCTTTAT
Found at i:20631729 original size:17 final size:17
Alignment explanation
Indices: 20631707--20631743 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
20631697 TTGGTTGATA
20631707 CTCGCTTATCTCTCAAC
1 CTCGCTTATCTCTCAAC
*
20631724 CTCGCTTATCTCTCGAC
1 CTCGCTTATCTCTCAAC
20631741 CTC
1 CTC
20631744 ATTTAGCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.14, C:0.43, G:0.08, T:0.35
Consensus pattern (17 bp):
CTCGCTTATCTCTCAAC
Found at i:20634908 original size:29 final size:29
Alignment explanation
Indices: 20634876--20634944 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
20634866 AAAAAGTTTG
*
20634876 GTTCGGTTAATTTTTTTGAAA-AAATTTCA
1 GTTCGATTAATTTTTTT-AAATAAATTTCA
20634905 GTTCGATTAATTTTTTTAAATAAATTTC-
1 GTTCGATTAATTTTTTTAAATAAATTTCA
20634933 GTTTCGATTAAT
1 G-TTCGATTAAT
20634945 AGTTAAGGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 4 0.11
29 33 0.89
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (29 bp):
GTTCGATTAATTTTTTTAAATAAATTTCA
Found at i:20636119 original size:38 final size:38
Alignment explanation
Indices: 20636058--20636141 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
20636048 TTGCATGTTT
* * *
20636058 AGCATGCCTACTATTACATTTGAACCGAATATATGTGA
1 AGCATGTCTACTACTACATTTGAACCGAATACATGTGA
* *
20636096 AGCATGTCTACTACTAC-TATTGAACTGAATACATGTTA
1 AGCATGTCTACTACTACAT-TTGAACCGAATACATGTGA
20636134 AGCATGTC
1 AGCATGTC
20636142 ATACCGCATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.03
38 39 0.98
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (38 bp):
AGCATGTCTACTACTACATTTGAACCGAATACATGTGA
Found at i:20640586 original size:35 final size:35
Alignment explanation
Indices: 20640547--20640643 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 35
20640537 ATTTATTGAT
* * * *
20640547 ATTATGTTTCGGATATTGAGCATGCTATTATTCTG
1 ATTATGATTCGCATATTAAGCATGCCATTATTCTG
* *
20640582 ATTATGATTCGCATGTTAAGCATGCCATTATTTTG
1 ATTATGATTCGCATATTAAGCATGCCATTATTCTG
* * * *
20640617 ATTTTGATTCGTATGTTAAACATGCCA
1 ATTATGATTCGCATATTAAGCATGCCA
20640644 CTGTGATAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (35 bp):
ATTATGATTCGCATATTAAGCATGCCATTATTCTG
Found at i:20642071 original size:16 final size:15
Alignment explanation
Indices: 20642031--20642082 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 15
20642021 AATATAGATT
*
20642031 ACTATAGATTGTG-A
1 ACTATAGATTCTGAA
* *
20642045 ACTCTAAATTCTGAAA
1 ACTATAGATTCTG-AA
20642061 ACTATAGATTCTGAA
1 ACTATAGATTCTGAA
20642076 ACTATAG
1 ACTATAG
20642083 TGACGGAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 10 0.32
15 9 0.29
16 12 0.39
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
ACTATAGATTCTGAA
Found at i:20647445 original size:15 final size:15
Alignment explanation
Indices: 20647425--20647457 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
20647415 TCACATCCAA
20647425 TTTATAATTAT-TTAT
1 TTTAT-ATTATGTTAT
20647440 TTTATATTATGTTAT
1 TTTATATTATGTTAT
20647455 TTT
1 TTT
20647458 TAGTCTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTATATTATGTTAT
Found at i:20648247 original size:35 final size:35
Alignment explanation
Indices: 20648161--20648257 Score: 90
Period size: 35 Copynumber: 2.8 Consensus size: 35
20648151 ATTTATTGAT
*
20648161 ATTCTGATTCACATGTT-GAGCATG-CTATTATTCTG
1 ATTCTGATTCACATGTTAG-GCATGTC-ATTATTCTA
* * * **
20648196 ACTATGGTTCGTATGTTAGGCATGTCATTATTCTA
1 ATTCTGATTCACATGTTAGGCATGTCATTATTCTA
**
20648231 ATTCTGATTCACATGTTAAACATGTCA
1 ATTCTGATTCACATGTTAGGCATGTCA
20648258 CTATGATAAA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
35 45 0.96
36 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (35 bp):
ATTCTGATTCACATGTTAGGCATGTCATTATTCTA
Found at i:20650273 original size:68 final size:68
Alignment explanation
Indices: 20650164--20650292 Score: 249
Period size: 68 Copynumber: 1.9 Consensus size: 68
20650154 ATCATATTTG
20650164 GGCATGCCACTAATATCCCAATAGTTCTAAATTCCATCTACTTGGGCATTAAGGCTGAGTTCCTT
1 GGCATGCCACTAATATCCCAATAGTTCTAAATTCCATCTACTTGGGCATTAAGGCTGAGTTCCTT
20650229 AAT
66 AAT
*
20650232 GGCATGCCACTAATATCCCAGTAGTTCTAAATTCCATCTACTTGGGCATTAAGGCTGAGTT
1 GGCATGCCACTAATATCCCAATAGTTCTAAATTCCATCTACTTGGGCATTAAGGCTGAGTT
20650293 TTATACATAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (68 bp):
GGCATGCCACTAATATCCCAATAGTTCTAAATTCCATCTACTTGGGCATTAAGGCTGAGTTCCTT
AAT
Found at i:20659435 original size:26 final size:26
Alignment explanation
Indices: 20659406--20659467 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
20659396 ATAGTTACCC
20659406 ATTTTTTAGATT-TAT-TTTTATTTAAT
1 ATTTTTTA-ATTATATATTTTA-TTAAT
**
20659432 ATTTAGTAATTATATATTTTATTAAT
1 ATTTTTTAATTATATATTTTATTAAT
20659458 A-TTTTTAATT
1 ATTTTTTAATT
20659468 TTATGAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 10 0.33
26 15 0.50
27 5 0.17
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (26 bp):
ATTTTTTAATTATATATTTTATTAAT
Found at i:20666056 original size:27 final size:27
Alignment explanation
Indices: 20665987--20666058 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
20665977 GATGATGGGC
* *
20665987 CTGCCGCAAGCGGCACCAAAGGTGCCT
1 CTGCCACAAGCGGCACCAAAGGTGCCA
* * * * *
20666014 GTGGCAGAGGCAGCACCAAAGGTGCCA
1 CTGCCACAAGCGGCACCAAAGGTGCCA
20666041 CTGCCACAAGCGGCACCA
1 CTGCCACAAGCGGCACCA
20666059 CTTCAATTAT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.35, G:0.31, T:0.08
Consensus pattern (27 bp):
CTGCCACAAGCGGCACCAAAGGTGCCA
Found at i:20666103 original size:3 final size:3
Alignment explanation
Indices: 20666090--20666191 Score: 179
Period size: 3 Copynumber: 34.3 Consensus size: 3
20666080 CAGTCCAGCT
*
20666090 GAA GCA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
20666138 AAA GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
20666185 GAA GAA G
1 GAA GAA G
20666192 GTGGTACCGG
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
2 2 0.02
3 92 0.98
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20666583 original size:76 final size:77
Alignment explanation
Indices: 20666378--20666609 Score: 211
Period size: 76 Copynumber: 2.9 Consensus size: 77
20666368 GTTTAGTTAT
* * *
20666378 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAATTAATACTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGT---AAA--AA-ACTATTATTATTGTTAGTTAT
20666443 TAGGATTAGTAAAAACCC
60 TAGGATTAGTAAAAACCC
* *** * * ***
20666461 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATTT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAG-TAAAAAACTATTATTATTGTTAGTTATTAGGA
20666524 TTAGT-AAAACCC
65 TTAGTAAAAACCC
20666536 TAATTATTATTGTTAGTTAGTATTATT-TTGAGTAAAAAACTATTATTATTATTGTGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTT-AGTAAAAAAC---TATTATTA-T-TGTTAGTTAT
20666600 TAGGATTAGT
60 TAGGATTAGT
20666610 GGTTAAACGT
Statistics
Matches: 119, Mismatches: 21, Indels: 20
0.74 0.13 0.12
Matches are distributed among these distances:
75 23 0.19
76 38 0.32
77 3 0.03
78 3 0.03
79 5 0.04
80 1 0.01
81 17 0.14
82 18 0.15
83 11 0.09
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (77 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTAGTTATTAGGAT
TAGTAAAAACCC
Found at i:20666595 original size:40 final size:40
Alignment explanation
Indices: 20666499--20666601 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
20666489 TAGTTTTTAC
* * **
20666499 ATTA-TATTATTGTTAGTTATTATTTTTAGTAAAACCCTA
1 ATTATTATTGTTGTTAGTTATTATTTTGAGTAAAAAACTA
20666538 ATTATTATTGTTAGTTAG-TATTATTTTGAGTAAAAAACTA
1 ATTATTATTGTT-GTTAGTTATTATTTTGAGTAAAAAACTA
20666578 TTATTATTATTG-TGTTAGTTATTA
1 --ATTATTATTGTTGTTAGTTATTA
20666602 GGATTAGTGG
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 4 0.07
40 30 0.55
41 11 0.20
42 10 0.18
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (40 bp):
ATTATTATTGTTGTTAGTTATTATTTTGAGTAAAAAACTA
Found at i:20670859 original size:154 final size:153
Alignment explanation
Indices: 20670307--20671215 Score: 1252
Period size: 154 Copynumber: 5.9 Consensus size: 153
20670297 ACTTCAAAAC
* * * * *
20670307 AAATTTAGTAAAAAACTCTTATTTCGGCCATTTGTTTGTATTTTTTTCCCGGATTTTATTACTTT
1 AAATTTA-AAAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTCCCGAATTTTATTACTTT
* * * *
20670372 TAAAAAAATATACTATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
64 CAAAAAAATATATTATTTTTTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
20670437 TATTAATTTAGTGTGTTTTTTAAAT
129 TATTAATTTAGTGTGTTTTTTAAAT
20670462 AAA-TT--AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTC
1 AAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTCCCGAATTTTATTACTTTC
* * *
20670524 AATAAAAATATATTATTTTCTAATTTTATTATTTGACATTATTTTAGTACATTATGTTTTAAATG
65 AA-AAAAATATATTATTTTTTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
20670589 TATTAATTTA--GTGTTTTTTAAAT
129 TATTAATTTAGTGTGTTTTTTAAAT
* * * *
20670612 AAATTTTAAAAAAACACTTATTTCGGCCCTTAGTTCGTATTTTTTCCCCGGATTTTATTACTTT-
1 AAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTT-CCCGAATTTTATTACTTTC
* * *
20670676 TAAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
65 AAAAAAATATATTATTTTTTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
20670741 ATTAATTTAGTGTGTTTTTTAAAT
130 ATTAATTTAGTGTGTTTTTTAAAT
*
20670765 AAATTTCAAAAAATAACCCTTATCTT-GGCCCTTTATTCGTATTTTTTCCCGAATTTTATTACTT
1 AAATTT-AAAAAA-AACCCTTAT-TTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTT
* * *
20670829 TTAAAAAAA-ATAATATTTTTTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTAAAAT
63 TCAAAAAAATATATTATTTTTTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
*
20670893 TTATTAATTTAGTGTGTTTTTTAAAT
128 GTATTAATTTAGTGTGTTTTTTAAAT
20670919 AAATTTAAAAAAATAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTT
1 AAATTT-AAAAAA-AACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTT
*
20670984 CAATAAAAATATATTATTTTCTT-ATTTTCTTATTTTACATTATTTTAGTACATTATGTTTGAAA
64 CAA-AAAAATATATTATTTT-TTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
20671048 TGTATTAATTTAGTGTGTTTTTTAAAT
127 TGTATTAATTTAGTGTGTTTTTTAAAT
* * * ** * *
20671075 AAATTTAGTAAAAAAA-CCTTATTTCAGCCCTTTGTTCATATTTTTTTACCGAAGCCTCATT-GT
1 AAATTTA--AAAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTCCCGAA-TTTTATTACT
* *
20671138 TTC-AAAAAATATATTATTTTTGT-ATTTTATTATTTTACGTTATTTTAGTACATTATGTTTTAA
62 TTCAAAAAAATATATTATTTTT-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
20671201 ATGCT-TTAATTTAGT
126 ATG-TATTAATTTAGT
20671216 AAAAAAACCC
Statistics
Matches: 689, Mismatches: 44, Indels: 43
0.89 0.06 0.06
Matches are distributed among these distances:
150 16 0.02
151 124 0.18
152 75 0.11
153 68 0.10
154 230 0.33
155 66 0.10
156 99 0.14
157 11 0.02
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (153 bp):
AAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTCA
AAAAAATATATTATTTTTTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
TTAATTTAGTGTGTTTTTTAAAT
Found at i:20671072 original size:310 final size:306
Alignment explanation
Indices: 20670307--20671215 Score: 1295
Period size: 310 Copynumber: 3.0 Consensus size: 306
20670297 ACTTCAAAAC
** * * *
20670307 AAATTTAGTAAAAAACTCTTATTTCGGCCATTTGTTTGTATTTTTTTCCCGGATTTTATTACTTT
1 AAATTTAAAAAAAAACACTTATTTCGGCCCTTTGTTCGTA-TTTTTTCCCGGATTTTATTAC-TT
20670372 TAAAAAAATATACTATTTTC-TATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
64 TAAAAAAATATACTATTTTCTTA-TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
20670436 GTATTAATTTAGTGTGTTTTTTAAATAAA-TT--AAAAAACCCTTATTTCGGCCCTTTGTTCGTA
128 GTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTA
* *
20670498 TTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCTAATTTTATTATTTGACAT
193 TTTTTTTCCCGAATTTTATTACTTTCAA-AAAAA-ATATTATTTTTTAATTTTATTATTTTACAT
*
20670563 TATTTTAGTACATTATGTTTTAAATGTATTAATTTA--GTGTTTTTTAAAT
256 TATTTTAGTACATTATGTTTTAAATCTATTAATTTAGTGTGTTTTTTAAAT
* *
20670612 AAATTT-TAAAAAAACACTTATTTCGGCCCTTAGTTCGTATTTTTTCCCCGGATTTTATTACTTT
1 AAATTTAAAAAAAAACACTTATTTCGGCCCTTTGTTCGTATTTTTT-CCCGGATTTTATTACTTT
* * *
20670676 TAAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
65 AAAAAAATATACTATTTTCTTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
*
20670741 ATTAATTTAGTGTGTTTTTTAAATAAATTTCAAAAAATAACCCTTATCTT-GGCCCTTTATTCGT
130 ATTAATTTAGTGTGTTTTTTAAATAAATTT-AAAAAA-AACCCTTAT-TTCGGCCCTTTGTTCGT
* *
20670805 A-TTTTTTCCCGAATTTTATTACTTTTAAAAAAAATAATATTTTTTAATTTTATTATTTTACATT
192 ATTTTTTTCCCGAATTTTATTACTTTCAAAAAAAATATTATTTTTTAATTTTATTATTTTACATT
* *
20670869 ATTTTAGTACATTATGTTTAAAATTTATTAATTTAGTGTGTTTTTTAAAT
257 ATTTTAGTACATTATGTTTTAAATCTATTAATTTAGTGTGTTTTTTAAAT
* *
20670919 AAATTTAAAAAAATAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTT
1 AAATTTAAAAAAA-AACACTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTT
* *
20670984 CAATAAAAATATATTATTTTCTTATTTTCTTATTTTACATTATTTTAGTACATTATGTTTGAAAT
65 -AA-AAAAATATACTATTTTCTTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
* *
20671049 GTATTAATTTAGTGTGTTTTTTAAATAAATTTAGTAAAAAAA-CCTTATTTCAGCCCTTTGTTCA
128 GTATTAATTTAGTGTGTTTTTTAAATAAATTTA--AAAAAAACCCTTATTTCGGCCCTTTGTTCG
* ** * * *
20671113 TATTTTTTTACCGAAGCCTCATT-GTTTCAAAAAATATATTATTTTTGT-ATTTTATTATTTTAC
191 TATTTTTTTCCCGAA-TTTTATTACTTTCAAAAAAAATATTATTTTT-TAATTTTATTATTTTAC
*
20671176 GTTATTTTAGTACATTATGTTTTAAATGCT-TTAATTTAGT
254 ATTATTTTAGTACATTATGTTTTAAAT-CTATTAATTTAGT
20671216 AAAAAAACCC
Statistics
Matches: 544, Mismatches: 39, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
303 96 0.18
304 45 0.08
305 67 0.12
306 5 0.01
307 49 0.09
308 47 0.09
309 53 0.10
310 171 0.31
311 11 0.02
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (306 bp):
AAATTTAAAAAAAAACACTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTA
AAAAAATATACTATTTTCTTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
TTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTT
TTTTCCCGAATTTTATTACTTTCAAAAAAAATATTATTTTTTAATTTTATTATTTTACATTATTT
TAGTACATTATGTTTTAAATCTATTAATTTAGTGTGTTTTTTAAAT
Found at i:20671329 original size:131 final size:131
Alignment explanation
Indices: 20671076--20671314 Score: 329
Period size: 131 Copynumber: 1.8 Consensus size: 131
20671066 TTTTTAAATA
*
20671076 AATTTAGTAAAAAAACCTTATTTCAGCCCTTTGTTCATATTTTTTTACCGAAGCCTCATTGTTTC
1 AATTTAGTAAAAAAACCTTATTTCAGCCCTTTGTTCATATTTTTTTA-CGAAGCCTCATTCTTTC
* *
20671141 AAAAAATATATTATTTTTGTATTTTATTATTTTACGTTATTTTAGTACATTATGTTTTAAATGCT
65 AAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGCT
20671206 TT
130 TT
* * * * ** *
20671208 AATTTAGTAAAAAAACCCTTATTTCGGCTCTTTGTTCGTATTTTTTT-CGGA-TTTTATTACTTT
1 AATTTAGTAAAAAAA-CCTTATTTCAGCCCTTTGTTCATATTTTTTTACGAAGCCTCATT-CTTT
* *
20671271 CAAAAAATATTTTATTTTCGTATTTTATTATTTTACATTTTTTT
64 CAAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTT
20671315 CATATTTTAT
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
130 4 0.04
131 46 0.49
132 15 0.16
133 28 0.30
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (131 bp):
AATTTAGTAAAAAAACCTTATTTCAGCCCTTTGTTCATATTTTTTTACGAAGCCTCATTCTTTCA
AAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGCTT
T
Found at i:20671511 original size:26 final size:27
Alignment explanation
Indices: 20671459--20671513 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
20671449 GAGTTTTTTC
* * *
20671459 ATGCTAAATAAATTTCATAAAATATAT
1 ATGCTAAATAAATATAATAAAACATAT
20671486 ATGCTAAATAAA-ATAATAAAACATAT
1 ATGCTAAATAAATATAATAAAACATAT
20671512 AT
1 AT
20671514 AATGTACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (27 bp):
ATGCTAAATAAATATAATAAAACATAT
Found at i:20671619 original size:20 final size:21
Alignment explanation
Indices: 20671596--20671709 Score: 96
Period size: 20 Copynumber: 5.5 Consensus size: 21
20671586 TCCCTCGCTC
20671596 TTCTTCTTC-TTCTTCTCCTT
1 TTCTTCTTCTTTCTTCTCCTT
20671616 TTCTT-TTCTTTCTTCTCCTT
1 TTCTTCTTCTTTCTTCTCCTT
* * *
20671636 TCCTT-TTCTTTCTTTTTC-T
1 TTCTTCTTCTTTCTTCTCCTT
*
20671655 TTCTTCTCCTTTACTT-TCCTT
1 TTCTTCTTCTTT-CTTCTCCTT
20671676 TTCTTTCTTTTTCTTTCTTCTCCTT
1 TTC-TTC---TTCTTTCTTCTCCTT
*
20671701 CT-TTCTTCT
1 TTCTTCTTCT
20671710 CCTTCAGTCG
Statistics
Matches: 77, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
19 8 0.10
20 42 0.55
21 7 0.09
22 3 0.04
23 3 0.04
24 3 0.04
25 11 0.14
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (21 bp):
TTCTTCTTCTTTCTTCTCCTT
Found at i:20671628 original size:50 final size:51
Alignment explanation
Indices: 20671569--20671683 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 51
20671559 TAACTTATTT
* *
20671569 TTTTCTTTCTTTTTCCTTCCCTCGCTC-TTCTTCTTC-TTCTTCTCCTTTTC
1 TTTTCTTTCTTTCTCCTTCCCT-GCTCTTTCTTCTTCTTTCTTCTCCTTTAC
* ** *
20671619 TTTTCTTTC-TTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTCTCCTTTAC
1 TTTTCTTTCTTTCTCCTTCCCTGCTCTTTCTTCTTCTTTCTTCTCCTTTAC
*
20671669 TTTCCTTTTCTTTCT
1 TTTTC-TTTCTTTCT
20671684 TTTTCTTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
48 2 0.04
49 18 0.33
50 26 0.48
51 4 0.07
52 4 0.07
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.66
Consensus pattern (51 bp):
TTTTCTTTCTTTCTCCTTCCCTGCTCTTTCTTCTTCTTTCTTCTCCTTTAC
Found at i:20671692 original size:35 final size:35
Alignment explanation
Indices: 20671633--20671700 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
20671623 CTTTCTTCTC
20671633 CTTTCCTTTTCTTTCTTTTTCTTTCTTCTCCTTTA
1 CTTTCCTTTTCTTTCTTTTTCTTTCTTCTCCTTTA
20671668 CTTTCCTTTTCTTTCTTTTTCTTTCTTCTCCTT
1 CTTTCCTTTTCTTTCTTTTTCTTTCTTCTCCTT
20671701 CTTTCTTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.69
Consensus pattern (35 bp):
CTTTCCTTTTCTTTCTTTTTCTTTCTTCTCCTTTA
Found at i:20672884 original size:13 final size:13
Alignment explanation
Indices: 20672866--20672891 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20672856 TTATAAACAA
20672866 TTAAAAAAATTAT
1 TTAAAAAAATTAT
20672879 TTAAAAAAATTAT
1 TTAAAAAAATTAT
20672892 AAGTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAAAAATTAT
Found at i:20676534 original size:3 final size:3
Alignment explanation
Indices: 20676526--20676563 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
20676516 TATATAGTAG
20676526 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20676564 GAGAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20678431 original size:13 final size:13
Alignment explanation
Indices: 20678413--20678437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20678403 GAATAAAAGG
20678413 AAAAAAAACAAAA
1 AAAAAAAACAAAA
20678426 AAAAAAAACAAA
1 AAAAAAAACAAA
20678438 GGCCCTCTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:20678601 original size:11 final size:12
Alignment explanation
Indices: 20678583--20678621 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
20678573 ATTTAAAACG
20678583 ATATAAAAGAAA
1 ATATAAAAGAAA
20678595 A-ATAAAAGAAA
1 ATATAAAAGAAA
*
20678606 ATAAAAAAG-AA
1 ATATAAAAGAAA
20678617 ATATA
1 ATATA
20678622 TGTAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
ATATAAAAGAAA
Found at i:20679478 original size:89 final size:90
Alignment explanation
Indices: 20679246--20679772 Score: 454
Period size: 89 Copynumber: 5.9 Consensus size: 90
20679236 ACTCCACCTT
* * * *
20679246 GATCTTCTTCGCTGCCAATACAGGAAGACAAGGTCTTCTATATTTGATCTACTTCA-TGTCAATA
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCACTGCCAATA
* * ***
20679310 CATGAAGACAAGAACCATTATCTTC
66 CAGGAAGACAAGATCTGCTATCTTC
** * * * * * * *
20679335 GATCTACTT-TATGTCAATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCAC-GCCAATA
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCACTGCCAATA
* * *
20679398 CATGAAGACAAGATCTGCTATATTT
66 CAGGAAGACAAGATCTGCTATCTTC
* * * * * * *
20679423 GATCTACTTCGCTGCCAGTATAGGAAAACAAGATCTGTTTTCTTTGATCTACTTCAC-GCTAATA
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCACTGCCAATA
* * *
20679487 CATGAAGACAAGATCAGCTATCTTT
66 CAGGAAGACAAGATCTGCTATCTTC
* * * * * *
20679512 GATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATATTTGATCTATTTCGCTACCAGTA
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCACTGCCAATA
* * * *
20679576 TAGGAAAACAAGATCTGTTTTCTTC
66 CAGGAAGACAAGATCTGCTATCTTC
* * * * * *
20679601 GATCTACTTCAC-GCCAATACATGAAGATAAGATCTGCTATATTTGATCAACTTCGCTGCCAGTA
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCACTGCCAATA
* * * *
20679665 TAGGAAGATAAGATCTGTTTTCTTC
66 CAGGAAGACAAGATCTGCTATCTTC
** * ** * * * *
20679690 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCCACTTCACTACCAATA
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCACTGCCAATA
* *
20679755 TAGGAAGACAGGATCTGC
66 CAGGAAGACAAGATCTGC
20679773 AGCTTTTCAA
Statistics
Matches: 361, Mismatches: 73, Indels: 7
0.82 0.17 0.02
Matches are distributed among these distances:
88 104 0.29
89 202 0.56
90 55 0.15
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (90 bp):
GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCACTGCCAATA
CAGGAAGACAAGATCTGCTATCTTC
Found at i:20679498 original size:133 final size:133
Alignment explanation
Indices: 20679244--20679746 Score: 560
Period size: 133 Copynumber: 3.8 Consensus size: 133
20679234 CTACTCCACC
* * * * * ** *
20679244 TTGATCTTCTTCGCTGCCAATACAGGAAGACAAGGTCTTCTATATTTGATCTACTTC-ATGTCAA
1 TTGATCTACTTCAC-GCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTACCAG
* * * * ** * * * *
20679308 TACATGAAGACAAGAACCATTATCTTCGATCTACTTTATG-TCAATACATGAAGACAAGATCCGT
65 TATAGGAAAACAAGATCTGTTATCTTCGATCTACTTCACGCT-AATACATGAAGACAAGATCAGC
*
20679372 TTTCT
129 TATCT
* * *
20679377 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCCAGT
1 TTGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTACCAGT
* *
20679442 ATAGGAAAACAAGATCTGTTTTCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCAGCTA
66 ATAGGAAAACAAGATCTGTTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCAGCTA
20679507 TCT
131 TCT
* *
20679510 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATATTTGATCTATTTCGCTACCAGT
1 TTGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTACCAGT
* * * *
20679575 ATAGGAAAACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTA
66 ATAGGAAAACAAGATCTGTTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCAGCTA
*
20679640 TAT
131 TCT
* * * * * * * * * *
20679643 TTGATCAACTTCGCTGCCAGTATAGGAAGATAAGATCTGTTTTCTTCGATCTACTTCGCCACCAG
1 TTGATCTACTTCAC-GCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTACCAG
* * * *
20679708 TATGGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
65 TATAGGAAAACAAGATCTGTTATCTTCGATCTACTTCAC
20679747 TACCAATATA
Statistics
Matches: 320, Mismatches: 47, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
132 39 0.12
133 206 0.64
134 75 0.23
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (133 bp):
TTGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTACCAGT
ATAGGAAAACAAGATCTGTTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCAGCTA
TCT
Found at i:20679680 original size:45 final size:45
Alignment explanation
Indices: 20679244--20679772 Score: 431
Period size: 44 Copynumber: 11.9 Consensus size: 45
20679234 CTACTCCACC
* * * * * *
20679244 TTGATCTTCTTCGCTGCCAATACAGGAAGACAAGGTCTTCTATAT
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
* * * * ***
20679289 TTGATCTACTTCA-TGTCAATACATGAAGACAAGAACCATTATCT
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
* * * * * * * *
20679333 TCGATCTACTTTA-TGTCAATACATGAAGACAAGATCCGTTTTCT
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
* * * *
20679377 TCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATAT
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
* * * * *
20679421 TTGATCTACTTCGCTGCCAGTATAGGAAAACAAGATCTGTTTTCT
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
* * * *
20679466 TTGATCTACTTCAC-GCTAATACATGAAGACAAGATCAGCTATCT
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
* * *
20679510 TTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATAT
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
* * * * * * *
20679554 TTGATCTATTTCGCTACCAGTATAGGAAAACAAGATCTGTTTTCT
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
* * * * *
20679599 TCGATCTACTTCAC-GCCAATACATGAAGATAAGATCTGCTATAT
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
* * * * * *
20679643 TTGATCAACTTCGCTGCCAGTATAGGAAGATAAGATCTGTTTTCT
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
* * ** * *
20679688 TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
* * * *
20679733 TCGATCCACTTCACTACCAATATAGGAAGACAGGATCTGC
1 TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGC
20679773 AGCTTTTCAA
Statistics
Matches: 393, Mismatches: 87, Indels: 8
0.81 0.18 0.02
Matches are distributed among these distances:
44 218 0.55
45 175 0.45
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (45 bp):
TTGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATCT
Found at i:20686741 original size:3 final size:3
Alignment explanation
Indices: 20686727--20686762 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
20686717 AATAAGTAGG
*
20686727 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20686763 ACAATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20687985 original size:100 final size:100
Alignment explanation
Indices: 20687747--20688184 Score: 551
Period size: 99 Copynumber: 4.4 Consensus size: 100
20687737 GTCGAGGAAA
* * * * * *****
20687747 TAAGATTCGTCGTTGCGGCTTCAATCTTTT-AGTTGCAATGTCGGGAAAGCAAGATTCGCCACCA
1 TAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCTGTTG
* * * * *
20687811 TAGCGTCAATATGTTTCACTGCATCGCTTG-GAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAG
* * * * * *
20687845 TAAGATGCACCGTTGTGGCTTCAATCCTTTGAATTACAATGTCGGGGAAGTGAGATTCGCTGTCG
1 TAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCTGTTG
* * *
20687910 TAGCTTCAATTTGCTCCGCTGCATCGCCTGAGAAA
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAG
* * *
20687945 TAAGATTTGCCATTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCTGTTG
1 TAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCTGTTG
*
20688010 TAACTTCAATCTGTTCCGCTGCATCGCCTG-GAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAG
* * * *
20688044 TAAGATTCACCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCTATTT
1 TAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCTGTTG
20688109 TAGCTTCAATCTGTTCCGCTGCATCGCCT-AGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAG
*
20688143 TAAGATTCGCCGTTATGGCTTCAATCTTTTGAATTGCAATGT
1 TAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGT
20688185 ATGGTTTCTT
Statistics
Matches: 294, Mismatches: 43, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
98 25 0.09
99 183 0.62
100 86 0.29
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (100 bp):
TAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCTGTTG
TAGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAG
Found at i:20688050 original size:49 final size:49
Alignment explanation
Indices: 20687890--20688169 Score: 150
Period size: 50 Copynumber: 5.7 Consensus size: 49
20687880 ACAATGTCGG
* * * *
20687890 GGAAGTGAGATTCGCTGTCGTAGCTTCAATTTGCTCCGCTGCATCGCCT
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* * ** * * * **** **
20687939 GAGAAATAAGATTTGCCATTGTGGCTTCGATCTTTTGAATTGCAAT-GTCGG
1 G-GAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG-CCT
** *
20687990 GGAAGCGAGATTCGCTGTTGTAACTTCAATCTGTTCCGCTGCATCGCCT
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* * * * * **** **
20688039 GGAAGTAAGATTCACCGTTGTGGCTTCGATCTTTTGAATTGCAAT-GTCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG-CCT
** * *
20688089 GGAAGCGAGATTCGCTATTTTAGCTTCAATCTGTTCCGCTGCATCGCCT
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* * * *
20688138 AGAAGTAAGATTCGCCGTTATGGCTTCAATCT
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCT
20688170 TTTGAATTGC
Statistics
Matches: 155, Mismatches: 69, Indels: 14
0.65 0.29 0.06
Matches are distributed among these distances:
49 63 0.41
50 88 0.57
51 4 0.03
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (49 bp):
GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
Found at i:20688100 original size:50 final size:50
Alignment explanation
Indices: 20687957--20688101 Score: 141
Period size: 49 Copynumber: 2.9 Consensus size: 50
20687947 AGATTTGCCA
* *
20687957 TTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCTG
1 TTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCACCG
** * * **** ** **
20688007 TTGTAACTTCAATCTGTTCCGCTGC-ATCG-CCTGGAAGTAAGATTCACCG
1 TTGTGGCTTCGATCTTTTGAATTGCAAT-GTCGGGGAAGCGAGATTCACCG
20688056 TTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTC
1 TTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTC
20688102 GCTATTTTAG
Statistics
Matches: 66, Mismatches: 26, Indels: 6
0.67 0.27 0.06
Matches are distributed among these distances:
49 34 0.52
50 32 0.48
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (50 bp):
TTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCACCG
Found at i:20688129 original size:199 final size:198
Alignment explanation
Indices: 20687743--20688184 Score: 589
Period size: 199 Copynumber: 2.2 Consensus size: 198
20687733 TCTCGTCGAG
* * *
20687743 GAAATAAGATTCGTCGTTGCGGCTTCAATCTTTT-AGTTGCAATGTCGGGAAAGCAAGATTCGCC
1 GAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGAAAGCAAGATTCGCC
* * *
20687807 ACCATAGCGTCAATATGTTTCACTGCATCGCTTGGAAGTAAGATGCACCGTTGTGGCTTCAATCC
66 ACCATAACGTCAATATGTTCCACTGCATCGCCTGGAAGTAAGATGCACCGTTGTGGCTTCAATCC
* * *
20687872 TTTGAATTACAATGTCGGGGAAGTGAGATTCGCTGTCGTAGCTTCAATTTGCTCCGCTGCATCGC
131 TTTGAATTACAATGTCGGGGAAGCGAGATTCGCTATCGTAGCTTCAATCTGCTCCGCTGCATCGC
20687937 CTGA
196 CT-A
* * * * * *
20687941 GAAATAAGATTTGCCATTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCT
1 GAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGAAAGCAAGATTCGCC
**** * * * * * *
20688006 GTTGTAACTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCACCGTTGTGGCTTCGATCT
66 ACCATAACGTCAATATGTTCCACTGCATCGCCTGGAAGTAAGATGCACCGTTGTGGCTTCAATCC
* ** *
20688071 TTTGAATTGCAATGTCGGGGAAGCGAGATTCGCTATTTTAGCTTCAATCTGTTCCGCTGCATCGC
131 TTTGAATTACAATGTCGGGGAAGCGAGATTCGCTATCGTAGCTTCAATCTGCTCCGCTGCATCGC
20688136 CTA
196 CTA
* *
20688139 GAAGTAAGATTCGCCGTTATGGCTTCAATCTTTTGAATTGCAATGT
1 GAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGT
20688185 ATGGTTTCTT
Statistics
Matches: 209, Mismatches: 34, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
198 71 0.34
199 138 0.66
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (198 bp):
GAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGAAAGCAAGATTCGCC
ACCATAACGTCAATATGTTCCACTGCATCGCCTGGAAGTAAGATGCACCGTTGTGGCTTCAATCC
TTTGAATTACAATGTCGGGGAAGCGAGATTCGCTATCGTAGCTTCAATCTGCTCCGCTGCATCGC
CTA
Found at i:20700030 original size:92 final size:92
Alignment explanation
Indices: 20699873--20700060 Score: 376
Period size: 92 Copynumber: 2.0 Consensus size: 92
20699863 GATATTCTAG
20699873 CCATCTCGGATTTAAAAATGAGATCACGACCAGTAAGTTAGGTCGCGATTTTTTAAATCCCGAGA
1 CCATCTCGGATTTAAAAATGAGATCACGACCAGTAAGTTAGGTCGCGATTTTTTAAATCCCGAGA
20699938 TCTTTTAAAATTTGAGTTCAAAAAGAT
66 TCTTTTAAAATTTGAGTTCAAAAAGAT
20699965 CCATCTCGGATTTAAAAATGAGATCACGACCAGTAAGTTAGGTCGCGATTTTTTAAATCCCGAGA
1 CCATCTCGGATTTAAAAATGAGATCACGACCAGTAAGTTAGGTCGCGATTTTTTAAATCCCGAGA
20700030 TCTTTTAAAATTTGAGTTCAAAAAGAT
66 TCTTTTAAAATTTGAGTTCAAAAAGAT
20700057 CCAT
1 CCAT
20700061 GCATTTAGAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 96 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (92 bp):
CCATCTCGGATTTAAAAATGAGATCACGACCAGTAAGTTAGGTCGCGATTTTTTAAATCCCGAGA
TCTTTTAAAATTTGAGTTCAAAAAGAT
Found at i:20700596 original size:3 final size:3
Alignment explanation
Indices: 20700582--20700611 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
20700572 AATAAGTAGG
*
20700582 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20700612 ACAATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20708757 original size:16 final size:16
Alignment explanation
Indices: 20708716--20708758 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
20708706 TTTGTTATTT
*
20708716 AAAACGAAATAAAAGA
1 AAAAAGAAATAAAAGA
*
20708732 AAAATA-AAATAAAATA
1 AAAA-AGAAATAAAAGA
20708748 AAAAAGAAATA
1 AAAAAGAAATA
20708759 TATGTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (16 bp):
AAAAAGAAATAAAAGA
Found at i:20721514 original size:58 final size:58
Alignment explanation
Indices: 20721421--20721534 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
20721411 TTAAATTGGT
20721421 GGGAACCTCTAAGAACGTCATGTAAATATGAACGATAGTAACATTTCTCAATAGAGAG
1 GGGAACCTCTAAGAACGTCATGTAAATATGAACGATAGTAACATTTCTCAATAGAGAG
20721479 GGGAACCTCTAAGAACGTCATGTAAATAT-AGACGATAGTAACATTTCTCAATAGAG
1 GGGAACCTCTAAGAACGTCATGTAAATATGA-ACGATAGTAACATTTCTCAATAGAG
20721535 GGTTGTGTCC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
57 1 0.02
58 54 0.98
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (58 bp):
GGGAACCTCTAAGAACGTCATGTAAATATGAACGATAGTAACATTTCTCAATAGAGAG
Found at i:20731237 original size:13 final size:14
Alignment explanation
Indices: 20731206--20731238 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
20731196 TTAAAATCAT
*
20731206 ATAAAAGGATATAA
1 ATAAAACGATATAA
20731220 ATAAAACGATAT-A
1 ATAAAACGATATAA
20731233 ATAAAA
1 ATAAAA
20731239 TAAATGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (14 bp):
ATAAAACGATATAA
Found at i:20735049 original size:25 final size:25
Alignment explanation
Indices: 20735021--20735099 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
20735011 CTAATGGCCG
20735021 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
20735046 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
20735068 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
20735093 ATGTGAT
1 ATGTGAT
20735100 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:20735163 original size:49 final size:47
Alignment explanation
Indices: 20734974--20735484 Score: 826
Period size: 47 Copynumber: 10.7 Consensus size: 47
20734964 TTAGGATTCT
* * * *
20734974 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGCCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
20735021 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
20735068 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
20735115 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAAGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
20735164 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
20735211 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
20735260 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
20735309 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
20735356 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
** * * * *
20735403 ATGTGATGAATGTGAAAGTGTATATATGTGGCAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
20735450 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
20735485 TCCCGAAGGG
Statistics
Matches: 441, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 298 0.68
49 142 0.32
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:20735189 original size:96 final size:94
Alignment explanation
Indices: 20734974--20735484 Score: 826
Period size: 96 Copynumber: 5.4 Consensus size: 94
20734964 TTAGGATTCT
* * * *
20734974 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGCCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
20735038 GTGTATATATGTGATAAGGCCTAATGGCCG
65 GTGTATATATGTGATAAGGCCTAATGGCCG
20735068 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
20735133 TGTATATATATGTGATAAGGCCTAAAGGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
20735164 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
20735229 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
20735260 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
20735325 AGTGTATATATGTGATAAGGCCTAATGGCCG
64 AGTGTATATATGTGATAAGGCCTAATGGCCG
20735356 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
** * * * *
20735421 TGTATATATGTGGCAGGGCCGAGTGGCCA
66 TGTATATATGTGATAAGGCCTAATGGCCG
* * *
20735450 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
20735485 TCCCGAAGGG
Statistics
Matches: 397, Mismatches: 15, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.00
94 161 0.41
96 188 0.47
98 47 0.12
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCG
Found at i:20735659 original size:37 final size:37
Alignment explanation
Indices: 20735603--20735681 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20735593 CCGAGCTCTA
* * *
20735603 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
20735640 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
20735677 AAGAC
1 AAGAC
20735682 TTTGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:20736964 original size:96 final size:95
Alignment explanation
Indices: 20736854--20737030 Score: 275
Period size: 96 Copynumber: 1.9 Consensus size: 95
20736844 CTAATTTATG
* * *
20736854 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTAT-AGTTTGCTCCACTG
1 GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGC-ATCT-TGAATTTGCTCCACTG
20736918 CAACTTCAGGCAGATAAGACTTGTGGCTTTAA
64 CAACTTCAGGCAGATAAGACTTGTGGCTTTAA
* *
20736950 GCTTTAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCGTCTTGAATTTGCTCCACTGCA
1 GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCATCTTGAATTTGCTCCACTGCA
*
20737015 ACTTCAGGGAGATAAG
66 ACTTCAGGCAGATAAG
20737031 GTTTATAGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
94 1 0.01
95 33 0.45
96 40 0.54
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (95 bp):
GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCATCTTGAATTTGCTCCACTGCA
ACTTCAGGCAGATAAGACTTGTGGCTTTAA
Found at i:20736987 original size:51 final size:45
Alignment explanation
Indices: 20736854--20737351 Score: 213
Period size: 45 Copynumber: 10.9 Consensus size: 45
20736844 CTAATTTATG
*
20736854 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
* * * * * * * *
20736899 TCTATAGTTTGCTCCACTGCAACTTCAGGCAGATAAGACTTGTGGCTTTAA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA--T-TCGC--T-A
* *
20736950 GCTTTAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGC--
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
* * * * * **
20736993 GTCTTGAATTTGCTCCACTGCAACTTCAGGGAGATAAGGTT-TATA
1 G-CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
* * ** * *
20737038 GCTTTAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
* *** ** * * **
20737083 TCTCCGATCTACTCCACTGCAACTTTAGGGAGATAAGATT-TATA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
* * * * * * * *
20737127 ACTTCAATTTGCTCCACCGTAACTTCA-GGAAGATAAGATTTGTAATTTATA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTCG------CTA
* * *
20737178 TCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGACTT-GTTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTA
* * * * * * **
20737223 TCTTCAGTCCGTTCCACTGCAACTTTAGGGAGATAAGACTT-ATTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTA
* * * * * *
20737268 TCTTCAGTCCGTTCCACTGCAACTTCAGGGAGATAAGACTT-G-TG
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTA
* * * *
20737312 GCTTTAATCTGCTCCACTACAACTTCAAGGAGATAAGATT
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
20737352 TACAGCCTGT
Statistics
Matches: 355, Mismatches: 78, Indels: 42
0.75 0.16 0.09
Matches are distributed among these distances:
43 6 0.02
44 127 0.36
45 146 0.41
47 1 0.00
48 6 0.02
49 1 0.00
50 1 0.00
51 61 0.17
52 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (45 bp):
GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
Found at i:20737030 original size:44 final size:44
Alignment explanation
Indices: 20736955--20737351 Score: 201
Period size: 44 Copynumber: 8.8 Consensus size: 44
20736945 TTTAAGCTTT
* * * *
20736955 AATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCGTCTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCATCTTG
* * * * *
20736999 AATTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTA-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTAGCATCTTG
* ** * *
20737043 AATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCTATCTCCG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGC-ATCT-TG
* * * * *
20737089 -ATCTACTCCACTGCAACTTTAGGGAGATAAGATTTA-TAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCATCTTG
* * * * ** *
20737132 AATTTGCTCCACCGTAACTTCAGGAAGATAAGATTTGTAATTTATATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A---GCATCTTG
* * * * *
20737183 AATCTGTTCCACTGCAACTTTAGGGAAATAAGACTT-GTTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAG-CATCTTG
* * * * ** *
20737228 AGTCCGTTCCACTGCAACTTTAGGGAGATAAGACTTATTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCATCTTG
* * * *** *
20737273 AGTCCGTTCCACTGCAACTTCAGGGAGATAAGACTT-GTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCATCTTG
* *
20737317 AATCTGCTCCACTACAACTTCAAGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
20737352 TACAGCCTGT
Statistics
Matches: 277, Mismatches: 61, Indels: 31
0.75 0.17 0.08
Matches are distributed among these distances:
43 5 0.02
44 118 0.43
45 117 0.42
46 3 0.01
47 1 0.00
49 1 0.00
50 1 0.00
51 31 0.11
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCATCTTG
Found at i:20737042 original size:95 final size:96
Alignment explanation
Indices: 20736854--20737044 Score: 269
Period size: 95 Copynumber: 2.0 Consensus size: 96
20736844 CTAATTTATG
* * *
20736854 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTATAGTTTGCTCCACTGC
1 GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCTATCTATAATTTGCTCCACTGC
* *
20736919 AACTTCAGGCAGATAAGACTTGTGGCTTTAA
66 AACTTCAGGCAGATAAGACTTATAGCTTTAA
* *
20736950 GCTTTAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGC-GTCT-TGAATTTGCTCCACTG
1 GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCTATCTAT-AATTTGCTCCACTG
* **
20737013 CAACTTCAGGGAGATAAGGTTTATAGCTTTAA
65 CAACTTCAGGCAGATAAGACTTATAGCTTTAA
20737045 TCTGCTCTAC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
94 1 0.01
95 43 0.51
96 40 0.48
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (96 bp):
GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCTATCTATAATTTGCTCCACTGC
AACTTCAGGCAGATAAGACTTATAGCTTTAA
Found at i:20737125 original size:89 final size:88
Alignment explanation
Indices: 20736945--20737352 Score: 295
Period size: 89 Copynumber: 4.5 Consensus size: 88
20736935 GACTTGTGGC
* * * * * * ** * *
20736945 TTTA-AGCTTTAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAG-CGTCTTGAATTTGCTC
1 TTTATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGATATCTT-CATCTGCTC
*
20737008 CACTGCAACTTCAGGGAGATAAGG
65 CACTGCAACTTCAGGGAGATAAGA
* * * * * *
20737032 TTTATAGCTTTAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCTATCTCCGATCTACTC
1 TTTATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGATATCTTC-ATCTGCTC
*
20737097 CACTGCAACTTTAGGGAGATAAGA
65 CACTGCAACTTCAGGGAGATAAGA
* * * * *
20737121 TTTATAACTTCAATTTGCTCCACCGTAACTTC-AGGAAGATAAGATTTGTAATTTATATCTTTAA
1 TTTATAGCTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTG------ATATC-TTCA
* * *
20737185 TCTGTTCCACTGCAACTTTAGGGAAATAAGA
58 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * * * *
20737216 CTTGT-TATCTTCAGTCCGTTCCACTGCAACTTTAGGGAGATAAGACTT-ATTATCTTCAGTCCG
1 -TT-TATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGA-TATCTTCA-TCTG
*
20737279 TTCCACTGCAACTTCAGGGAGATAAGA
62 CTCCACTGCAACTTCAGGGAGATAAGA
* * * * *
20737306 CTTGTGGCTTTAATCTGCTCCACTACAACTTCAAGGAGATAAGATTT
1 TTTATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTT
20737353 ACAGCCTGTC
Statistics
Matches: 251, Mismatches: 53, Indels: 32
0.75 0.16 0.10
Matches are distributed among these distances:
87 4 0.02
88 39 0.16
89 107 0.43
90 32 0.13
95 33 0.13
96 33 0.13
97 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (88 bp):
TTTATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGATATCTTCATCTGCTCC
ACTGCAACTTCAGGGAGATAAGA
Found at i:20746737 original size:45 final size:46
Alignment explanation
Indices: 20746668--20746867 Score: 176
Period size: 45 Copynumber: 4.5 Consensus size: 46
20746658 TACACGGTGG
* * * * * *
20746668 ATCAGCACACATC-ACCACCGTTATAGTCAATAGTACTC-AGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGGTGAA
*
20746712 ATCAGCACATAGCAACCACCTTTATACTCAATGGTAC-CGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGGTGAA
* * * * *
20746757 ATCAACACATAGCAACCACCTATATAACCATTGGTA-TCTGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGGTGAA
* ** * ** *
20746802 ATCAGCACATAACAACCACCTTTATTTTCATTAATA-TCGGGTGGA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGGTGAA
* *
20746847 ATCAACACATAGCATCCACCT
1 ATCAGCACATAGCAACCACCT
20746868 ATATTTCCAA
Statistics
Matches: 128, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
44 12 0.09
45 116 0.91
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (46 bp):
ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGGTGAA
Found at i:20746843 original size:90 final size:90
Alignment explanation
Indices: 20746707--20746871 Score: 249
Period size: 90 Copynumber: 1.8 Consensus size: 90
20746697 ATAGTACTCA
* **
20746707 GTGAAATCAGCACATAGCAACCACCTTTATACTCAATGGTACCGGGTGAAATCAACACATAGCAA
1 GTGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAACACATAGCAA
20746772 CCACCTATATAACCATTGGTATCTG
66 CCACCTATATAACCATTGGTATCTG
** * * * *
20746797 GTGAAATCAGCACATAACAACCACCTTTATTTTCATTAATATCGGGTGGAATCAACACATAGCAT
1 GTGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAACACATAGCAA
20746862 CCACCTATAT
66 CCACCTATAT
20746872 TTCCAACGAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 66 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (90 bp):
GTGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAACACATAGCAA
CCACCTATATAACCATTGGTATCTG
Found at i:20747239 original size:30 final size:29
Alignment explanation
Indices: 20747205--20747274 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 29
20747195 CCTTGACTCG
20747205 AACTTTAGAAAAATTACAATTTTTCCCCTA
1 AACTTTAGAAAAATTACAATTTTTCCCC-A
* * * * *
20747235 AACTTTTGCATATTTACACTTTTTCCCCA
1 AACTTTAGAAAAATTACAATTTTTCCCCA
20747264 AAGC-TTAGAAA
1 AA-CTTTAGAAA
20747275 TTAAATTTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.37
Consensus pattern (29 bp):
AACTTTAGAAAAATTACAATTTTTCCCCA
Found at i:20749323 original size:23 final size:23
Alignment explanation
Indices: 20749280--20749323 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
20749270 GTATGGAGCT
*
20749280 ATAGGCATGTGATGTATTCAAAC
1 ATAGGCATGTGATATATTCAAAC
*
20749303 ATAGGTATGT-ATATATGTCAA
1 ATAGGCATGTGATATAT-TCAA
20749324 TAAAGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (23 bp):
ATAGGCATGTGATATATTCAAAC
Done.