Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 14 of 172
Found at i:3698228 original size:176 final size:176
Alignment explanation
Indices: 3697921--3698355 Score: 537
Period size: 176 Copynumber: 2.5 Consensus size: 176
3697911 CATAAATCCT
3697921 ATCTCCCT-AGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
1 ATCTCCCTGA-GCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* * * *
3697985 AAGAAGGTCGAAGAT-CTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTCAAAATAAAAGA
65 AAGTAGATCGAAGATAC-CAACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTCAAAATAAAAGA
* * *
3698049 TCTTGTCTTCCTATATTGGCAACGAAGTAAATCGAAGAC-CTTAGCCTTG
129 TCTTGTCTTCCTATATTGGCAACGAAGTAAATCAAAAACAC-CAGCC-TG
*
3698098 -TCTCCCTGAGCAGTAGTGGGGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
1 ATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
*
3698162 AGTAGATCGAAGATACCAACCTTATCTCCCTAAGTAGCAGTGGAGTAGGTT-AAAA-AAAGTAGA
66 AGTAGATCGAAGATACCAACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTCAAAATAAA--AGA
* ** *
3698225 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAAACACCAGCCTG
129 TCTTGTCTTCCTATATTGGCAACGAAGTAAATCAAAAACACCAGCCTG
* * ** * *
3698273 ACCTCCCTGAGTTACAGCA-T--AGTAGACTGAAAATAACAGATCTTGTCTTCTTGTATTGGCAG
1 ATCTCCCTGAG---CAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAG
* *
3698335 TGAAGTAGATCGAAGACACCA
63 CGAAGTAGATCGAAGATACCA
3698356 GTCTTATCGC
Statistics
Matches: 227, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
174 3 0.01
175 6 0.03
176 210 0.93
177 3 0.01
178 1 0.00
179 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (176 bp):
ATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
AGTAGATCGAAGATACCAACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTCAAAATAAAAGATC
TTGTCTTCCTATATTGGCAACGAAGTAAATCAAAAACACCAGCCTG
Found at i:3698354 original size:88 final size:87
Alignment explanation
Indices: 3697921--3698356 Score: 445
Period size: 88 Copynumber: 5.0 Consensus size: 87
3697911 CATAAATCCT
* *
3697921 ATCTCCCT-AGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
1 ATCTCCCTGA-GCAGCAGT-GAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCG
* * * *
3697985 AAGAAGGTCGAAGATC-TCAGCCTT
64 AAGTAGATCGAAGA-CACCAGCCTG
* * * *
3698009 ATCTCCCTGAGCAGCAGTGGAGTAGGTTCAAAATAAAAGATCTTGTCTTCCTATATTGGCAACGA
1 ATCTCCCTGAGCAGCAGT-GAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGA
* *
3698074 AGTAAATCGAAGAC-CTTAGCCTTG
65 AGTAGATCGAAGACAC-CAGCC-TG
* * *
3698098 -TCTCCCTGAGCAGTAGTGGGGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
1 ATCTCCCTGAGCAGCAGT-GAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGA
* * *
3698162 AGTAGATCGAAGATACCAACCTT
65 AGTAGATCGAAGACACCAGCCTG
* * * * *
3698185 ATCTCCCTAAGTAGCAGTGGAGTAGGTT-AAAAAAAGTAGATCTTGTCTTCCTGTATTGGCAGTG
1 ATCTCCCTGAGCAGCAGT-GAGTAGGTTGAAAATAA-CAGATCTTGTCTTCCTGTATTGGCAGCG
* *
3698249 AAGTAGATCAAAAACACCAGCCTG
64 AAGTAGATCGAAGACACCAGCCTG
* ** * *
3698273 ACCTCCCTGAGTTACAGCA-T-AGTAGACTGAAAATAACAGATCTTGTCTTCTTGTATTGGCAGT
1 ATCTCCCTGAG---CAGCAGTGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGC
3698336 GAAGTAGATCGAAGACACCAG
63 GAAGTAGATCGAAGACACCAG
3698357 TCTTATCGCC
Statistics
Matches: 291, Mismatches: 47, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
87 7 0.02
88 270 0.93
89 9 0.03
90 1 0.00
91 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
ATCTCCCTGAGCAGCAGTGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGAA
GTAGATCGAAGACACCAGCCTG
Found at i:3698599 original size:50 final size:49
Alignment explanation
Indices: 3698545--3698731 Score: 180
Period size: 50 Copynumber: 3.8 Consensus size: 49
3698535 AATTACAGTG
* *
3698545 GAACAGATTGAAGCTACAATAGTGAATCTTACTTCTCTGGTGGTGTAGTA
1 GAACAGATTGAAGCTACAACAGTGAATCTTACTTC-CTGGCGGTGTAGTA
* * ** * *
3698595 GAACAGATTGAAGCTACAACAGTGAATCTTGCTTCCTCGACCTTGCAATTA
1 GAACAGATTGAAGCTACAACAGTGAATCTTACTTCCT-GGCGGTG-TAGTA
* * ** * *
3698646 -AATAGATTAAAGCTACAACAGCAAATCTTACTTCCCTAGCGGTGTAGTG
1 GAACAGATTGAAGCTACAACAGTGAATCTTACTT-CCTGGCGGTGTAGTA
*
3698695 GAACAGATTGAAGCTACAAC-GACGAATCTTACTTCCT
1 GAACAGATTGAAGCTACAACAG-TGAATCTTACTTCCT
3698732 CGACATTGCA
Statistics
Matches: 109, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
49 8 0.07
50 95 0.87
51 6 0.06
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (49 bp):
GAACAGATTGAAGCTACAACAGTGAATCTTACTTCCTGGCGGTGTAGTA
Found at i:3698691 original size:100 final size:100
Alignment explanation
Indices: 3698549--3698747 Score: 283
Period size: 100 Copynumber: 2.0 Consensus size: 100
3698539 ACAGTGGAAC
* * ** * * *
3698549 AGATTGAAGCTACAATAGTGAATCTTACTTCTCTGGTGGTGTAGTAGAACAGATTGAAGCTACAA
1 AGATTAAAGCTACAACAGCAAATCTTACTTCCCTAGCGGTGTAGTAGAACAGATTGAAGCTACAA
* * *
3698614 C-AGTGAATCTTGCTTCCTCGACCTTGCAATTAAAT
66 CGA-CGAATCTTACTTCCTCGACATTGCAATTAAAT
*
3698649 AGATTAAAGCTACAACAGCAAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAA
1 AGATTAAAGCTACAACAGCAAATCTTACTTCCCTAGCGGTGTAGTAGAACAGATTGAAGCTACAA
3698714 CGACGAATCTTACTTCCTCGACATTGCAATTAAA
66 CGACGAATCTTACTTCCTCGACATTGCAATTAAA
3698748 CGGACTGAAG
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 86 0.99
101 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (100 bp):
AGATTAAAGCTACAACAGCAAATCTTACTTCCCTAGCGGTGTAGTAGAACAGATTGAAGCTACAA
CGACGAATCTTACTTCCTCGACATTGCAATTAAAT
Found at i:3698861 original size:44 final size:44
Alignment explanation
Indices: 3698764--3698885 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
3698754 GAAGATGGTA
* **
3698764 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAAAT
* *
3698808 AATCCTATCTCCCTGAAGTTGCAGTGGAACAGATTAAA-AAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAAAT
* ** * *
3698851 GGATCTTATCTCTTTAAAGTTGCAGTAGAGCAGAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
3698886 CGCATCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 3 0.05
44 62 0.95
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAAAT
Found at i:3700284 original size:3 final size:3
Alignment explanation
Indices: 3700276--3700301 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3700266 ATTTATGTAC
3700276 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
3700302 CCACGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:3700491 original size:8 final size:10
Alignment explanation
Indices: 3700468--3700502 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
3700458 TTCATTTTTT
3700468 TATATATACA
1 TATATATACA
3700478 TATATATACTTA
1 TATATATAC--A
3700490 TATATATACA
1 TATATATACA
3700500 TAT
1 TAT
3700503 TTTCATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (10 bp):
TATATATACA
Found at i:3705650 original size:13 final size:13
Alignment explanation
Indices: 3705634--3705658 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3705624 AGGTACCTAC
3705634 CACATGGGGCACG
1 CACATGGGGCACG
3705647 CACATGGGGCAC
1 CACATGGGGCAC
3705659 ATAGCCCTAC
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:0.24, C:0.32, G:0.36, T:0.08
Consensus pattern (13 bp):
CACATGGGGCACG
Found at i:3709786 original size:12 final size:11
Alignment explanation
Indices: 3709748--3709789 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
3709738 ATTTTTAAAA
3709748 TATTTTATGTT
1 TATTTTATGTT
*
3709759 GTA-TTTATTTT
1 -TATTTTATGTT
3709770 TATTTTATGTGT
1 TATTTTATGT-T
3709782 TATTTTAT
1 TATTTTAT
3709790 AATTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.08
11 13 0.50
12 11 0.42
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (11 bp):
TATTTTATGTT
Found at i:3711051 original size:29 final size:30
Alignment explanation
Indices: 3710997--3711088 Score: 107
Period size: 29 Copynumber: 3.0 Consensus size: 30
3710987 GGCCCATTTT
*
3710997 TATTTTAAAAATTTTAAAAAATTAAAAAAAA
1 TATTTT-AAAATTTAAAAAAATTAAAAAAAA
*
3711028 TATTTTAAAA-TTAAAAAAATTAAAAAAAG
1 TATTTTAAAATTTAAAAAAATTAAAAAAAA
**
3711057 TATTTTAAAAATATT-TTAAAATTAAAAAAAA
1 TATTTT-AAAAT-TTAAAAAAATTAAAAAAAA
3711088 T
1 T
3711089 TAAAAAAAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
29 23 0.43
30 8 0.15
31 20 0.38
32 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (30 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAAA
Found at i:3711085 original size:41 final size:41
Alignment explanation
Indices: 3711023--3711127 Score: 169
Period size: 41 Copynumber: 2.6 Consensus size: 41
3711013 AAAAATTAAA
*
3711023 AAAAATATTTTAAAATT-AAAAAAATT-AAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAAATTAAAAAAAAGTA-TGT
3711063 AAAAATATTTTAAAATTAAAAAAAATTAAAAAAAAGTATGT
1 AAAAATATTTTAAAATTAAAAAAAATTAAAAAAAAGTATGT
*
3711104 AAAAATATTTTAAAGTTAAAAAAA
1 AAAAATATTTTAAAATTAAAAAAA
3711128 TAAATATATT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
40 17 0.28
41 34 0.56
42 10 0.16
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (41 bp):
AAAAATATTTTAAAATTAAAAAAAATTAAAAAAAAGTATGT
Found at i:3711245 original size:31 final size:33
Alignment explanation
Indices: 3711200--3711270 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
3711190 GTTTTCTAAA
*
3711200 CGGGCCTCATTTTTTGCCC-AA-TCCCATATTT
1 CGGGCCTCATTTTTTACCCAAACTCCCATATTT
3711231 CGGGCCT-ATATTTTTACCCAAACTCTCCCATATTT
1 CGGGCCTCAT-TTTTTACCCAAA--CTCCCATATTT
3711266 CGGGC
1 CGGGC
3711271 GGGCCATCGG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
30 2 0.06
31 15 0.44
32 2 0.06
35 15 0.44
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.35
Consensus pattern (33 bp):
CGGGCCTCATTTTTTACCCAAACTCCCATATTT
Found at i:3715759 original size:23 final size:24
Alignment explanation
Indices: 3715732--3715783 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
3715722 TTTTTAGAAG
*
3715732 ATTTAGTATTTATTAGTATA-TAT
1 ATTTAGCATTTATTAGTATAGTAT
*
3715755 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAGTAT
3715779 ATTTA
1 ATTTA
3715784 ACCTACTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAGTAT
Found at i:3721081 original size:13 final size:15
Alignment explanation
Indices: 3721043--3721093 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
3721033 GAGGAAATAA
*
3721043 TAATAATAGTAGTAG
1 TAATAATAATAGTAG
3721058 TAATAATAATAGT-G
1 TAATAATAATAGTAG
*
3721072 TAAT-ATAATAGTAA
1 TAATAATAATAGTAG
3721086 TAATAATA
1 TAATAATA
3721094 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 8 0.25
14 9 0.28
15 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (15 bp):
TAATAATAATAGTAG
Found at i:3722487 original size:35 final size:35
Alignment explanation
Indices: 3722442--3722510 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
3722432 GGGTGTGTGA
3722442 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
*
3722477 TGGTGCTGGTGGCAGGCAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
3722511 AGAGGCAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.19, C:0.12, G:0.52, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:3723108 original size:130 final size:130
Alignment explanation
Indices: 3722950--3723619 Score: 1081
Period size: 130 Copynumber: 5.1 Consensus size: 130
3722940 AATGTTGTTT
*
3722950 TCTTCGATCTATTCCACTGTTGTCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
3723015 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
3723080 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
* * *
3723145 TCAGGGAGGTAAAATCCGCCGTCTTCAACCTGCTCCACTATTGCTTAGAGAGAT-AGATCTATAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
* *
3723209 TCTTCGACCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
* *
3723274 TCAGGGAGGTAAAATCCGCCGTCTTTGACCTGCTCCACTATTTCTTAGGGAGATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
* ***** ** * *
3723339 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
1 TCTTCGATCTATTCCACTG--TTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGT
* * * * *
3723404 AGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCTCCACTATTACTTAGGAAGATAAGATCTGT
64 AATCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGT
3723469 AA
129 AA
3723471 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
* *
3723536 TCAGGGAGGTAAAATCCACCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
*
3723601 TCTTCAATCTATTCCACTG
1 TCTTCGATCTATTCCACTG
3723620 CCAAATATAG
Statistics
Matches: 490, Mismatches: 47, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
129 122 0.25
130 255 0.52
132 113 0.23
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (130 bp):
TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
Found at i:3723171 original size:43 final size:43
Alignment explanation
Indices: 3722950--3723619 Score: 122
Period size: 43 Copynumber: 15.4 Consensus size: 43
3722940 AATGTTGTTT
* * ** * *
3722950 TCTTCGATCTATTCCACTGTTGTCCAGGGAGATAGAACTAC-CAG
1 TCTTCAATCTACTCCACTGTAAT-CAGGGAGATA-AAATCCGCAG
* * *
3722994 -CTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCG
1 TCTTCAATCTACTCCACTGTAATCAGGGAGATAAAATCCGCAG
* * * * ** * * * * *
3723036 TCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACT-GTAATCAGGGAGATAAAATCCGCAG
* * *** * *
3723080 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTAC-CAG
1 TCTTCAATCTACTCCACTG-TAATCAGGGAGATA-AAATCCGCAG
* * *
3723124 -CTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCG
1 TCTTCAATCTACTCCACTGTAATCAGGGAGATAAAATCCGCAG
* * * ** * * * *** *
3723166 TCTTCAACCTGCTCCACTATTGCTTAGAGAGAT-AGATCTATAA
1 TCTTCAATCTACTCCACT-GTAATCAGGGAGATAAAATCCGCAG
* * * *** * *
3723209 TCTTCGACCTATTCCACTGTTGCCTAGGGAGATAGAACTAC-CAG
1 TCTTCAATCTACTCCACTGTAATC-AGGGAGATA-AAATCCGCAG
* * *
3723253 -CTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCG
1 TCTTCAATCTACTCCACTGTAATCAGGGAGATAAAATCCGCAG
** * * * * * * * *
3723295 TCTTTGACCTGCTCCACTAT-TTCTTAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACTGTAATC--AGGGAGATAAAATCCGCAG
* * * * ***
3723339 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATC-G
1 TCTTCAATCTACTCCACTG--TAAT-CAGGGAGATAAAATCCGCAG
* * * * *
3723384 GCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCA-
1 TCTTCAATCTACTCCACTGTAATCAGGGAGATAAAATCCG-CAG
* * * * * * * * * * *
3723427 TCTTCGACCTGCTCCACTATTACTTAGGAAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACT-GTAATCAGGGAGATAAAATCCGCAG
* * *** * *
3723471 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTAC-CAG
1 TCTTCAATCTACTCCACTG-TAATCAGGGAGATA-AAATCCGCAG
* * * *
3723515 -CTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCACCG
1 TCTTCAATCTACTCCACTGTAATCAGGGAGATAAAATCCGCAG
* * * ** * * * * *
3723557 TCTTCAACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACT-GTAATCAGGGAGATAAAATCCGCAG
*
3723601 TCTTCAATCTATTCCACTG
1 TCTTCAATCTACTCCACTG
3723620 CCAAATATAG
Statistics
Matches: 418, Mismatches: 180, Indels: 57
0.64 0.27 0.09
Matches are distributed among these distances:
41 16 0.04
42 59 0.14
43 160 0.38
44 149 0.36
45 22 0.05
46 10 0.02
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
TCTTCAATCTACTCCACTGTAATCAGGGAGATAAAATCCGCAG
Found at i:3723560 original size:262 final size:261
Alignment explanation
Indices: 3722950--3723695 Score: 1219
Period size: 262 Copynumber: 2.9 Consensus size: 261
3722940 AATGTTGTTT
*
3722950 TCTTCGATCTATTCCACTGTTGTCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
3723015 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
* ***** ** * *
3723080 TCTTCGATCTATTCCACTG--TTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGT
131 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
* * * * *
3723143 AATCAGGGAGGTAAAATCCGCCGTCTTCAACCTGCTCCACTATTGCTTAGAGAGATAGATCTATA
196 AGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCTCCACTATTACTTAGAGAGATAGATCTATA
3723208 A
261 A
* *
3723209 TCTTCGACCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
* *
3723274 TCAGGGAGGTAAAATCCGCCGTCTTTGACCTGCTCCACTATTTCTTAGGGAGATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
3723339 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
131 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
*
3723404 AGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCTCCACTATTACTTAG-GAAGATAAGATCTG
196 AGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCTCCACTATTACTTAGAG-AGAT-AGATCTA
3723468 TAA
259 TAA
3723471 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
* *
3723536 TCAGGGAGGTAAAATCCACCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
* *
3723601 TCTTCAATCTATTCCACTGCCAAATATAGGGAGATAGAGTTATCGGTTTCAATGTACTCCACTGT
131 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
*
3723666 AGTCAGGGAGGTAAACTCTGCCATCTTCGA
196 AGTCAGGGAGGTAAAATCTGCCATCTTCGA
3723696 TCTTCAATCT
Statistics
Matches: 453, Mismatches: 30, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
259 143 0.32
260 1 0.00
261 84 0.19
262 225 0.50
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (261 bp):
TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
AGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCTCCACTATTACTTAGAGAGATAGATCTATA
A
Found at i:3723712 original size:95 final size:95
Alignment explanation
Indices: 3723600--3723793 Score: 334
Period size: 95 Copynumber: 2.0 Consensus size: 95
3723590 AAGATCTGTA
* **
3723600 ATCTTCAATCTATTCCACTGCCAAATATAGGGAGATAGAGTTATCGGTTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
*
3723665 TAGTCAGGGAGGTAAACTCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
3723695 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
* *
3723760 TAGTCAGGGAGGTAAAATTTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
3723790 ATCT
1 ATCT
3723794 GCTTCGCTGC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:3723983 original size:231 final size:229
Alignment explanation
Indices: 3723590--3724024 Score: 762
Period size: 231 Copynumber: 1.9 Consensus size: 229
3723580 TTAGGGAGAT
* * *
3723590 AAGATCTGTAATCTTCAATCTATTCCACTGCCAAATATAGGGAGATAGAGTTATCGGTTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
*
3723655 TACTCCACTGTAGTCAGGGAGGTAAACTCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAA
66 TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAA
* *
3723720 TACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATTTGCCAT
131 TACAAGGAGATAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
*
3723785 CTTTGATCTGCTTCGCTGCCAAATACAGGAAGGC
196 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGC
3723819 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
*
3723884 TACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCA
66 TACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCA
* *
3723949 AATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGTC
129 AATACAAGGAGATAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCC
3724014 ATCTTCGATCT
194 ATCTTCGATCT
3724025 TCAATCTATT
Statistics
Matches: 194, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
229 76 0.39
231 118 0.61
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (229 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAA
TACAAGGAGATAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGC
Found at i:3724055 original size:95 final size:95
Alignment explanation
Indices: 3723829--3724119 Score: 510
Period size: 95 Copynumber: 3.0 Consensus size: 95
3723819 AAGATCTGCA
3723829 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
3723894 TAGTCACATGGAGGTAAAATCTGCCATCTTCG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTCG
*
3723926 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
3723991 TAGTCAGGGAGGTAAAATCTGTCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
*
3724021 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCTACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
3724086 TAGTCAGGGAGGTAAACTCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
3724116 ATCT
1 ATCT
3724120 GCTTCGCTGC
Statistics
Matches: 186, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
95 118 0.63
97 68 0.37
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:3724193 original size:326 final size:326
Alignment explanation
Indices: 3723600--3724350 Score: 1351
Period size: 326 Copynumber: 2.3 Consensus size: 326
3723590 AAGATCTGTA
* *
3723600 ATCTTCAATCTATTCCACTGCCAAATATAGGGAGATAGAGTTATCGGTTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
3723665 TAGTCAGGGAGGTAAACTCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
66 TAGTCAGGGAGGTAAAATCTGTCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
*
3723730 TAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATTTGCCATCTTTGATCTG
131 TAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTG
*
3723795 CTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGG
196 CTTCGCTGCCAAATACAGAAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGG
*
3723860 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTC
261 GAGATAGAGTTATCGGCTTCAATGTACTCCACTATAGTCACATGGAGGTAAAATCTGCCATCTTC
3723925 G
326 G
*
3723926 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
3723991 TAGTCAGGGAGGTAAAATCTGTCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
66 TAGTCAGGGAGGTAAAATCTGTCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
* * *
3724056 TAGAGTTATCGGCTTCAATGTACTCTACTGTAGTCAGGGAGGTAAACTCTGCCATCTTTGATCTG
131 TAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTG
3724121 CTTCGCTGCCAAATACAGAAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGG
196 CTTCGCTGCCAAATACAGAAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGG
*
3724186 GAGATAGAGTTATCGGCTTCAATGTACTCCACTATAGTCACATGGAGGTAAAATCTGCCATCTTT
261 GAGATAGAGTTATCGGCTTCAATGTACTCCACTATAGTCACATGGAGGTAAAATCTGCCATCTTC
3724251 G
326 G
* *
3724252 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTTAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
3724317 TAGTCAGGGAGGTAAAATCT-TCCATCTTTGATCT
66 TAGTCAGGGAGGTAAAATCTGT-CATCTTCGATCT
3724351 ACTTTACTGC
Statistics
Matches: 408, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
325 1 0.00
326 407 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (326 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGTCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
TAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTG
CTTCGCTGCCAAATACAGAAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGG
GAGATAGAGTTATCGGCTTCAATGTACTCCACTATAGTCACATGGAGGTAAAATCTGCCATCTTC
G
Found at i:3724270 original size:97 final size:95
Alignment explanation
Indices: 3724155--3724350 Score: 329
Period size: 97 Copynumber: 2.0 Consensus size: 95
3724145 AAGATCTGCA
3724155 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
*
3724220 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTG
* * *
3724252 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTTAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
*
3724317 TAGTCAGGGAGGTAAAATCTTCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
3724347 ATCT
1 ATCT
3724351 ACTTTACTGC
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 28 0.30
97 66 0.70
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:3724327 original size:231 final size:229
Alignment explanation
Indices: 3723926--3724393 Score: 774
Period size: 231 Copynumber: 2.0 Consensus size: 229
3723916 GCCATCTTCG
*
3723926 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
*
3723991 TAGTCAGGGAGGTAAAATCTGTCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
* * *
3724056 TAGAGTTATCGGCTTCAATGTACTCTACTGTAGTCAGGGAGGTAAACTCTGCCATCTTTGATCTG
131 TAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTA
*
3724121 CTTCGCTGCCAAATACAGAAAGGCAAGATCTGCA
196 CTTCACTGCCAAATACAGAAAGGCAAGATCTGCA
*
3724155 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
1 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
* * *
3724220 TAGTCACATGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATGCAGGGA
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGA
* *
3724285 GATAGAGTTATCGGCTTTAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTTCCATCTTTGATC
129 GATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATC
* * *
3724350 TACTTTACTGCCAAATACAGGAAGGCAAGATCTGCT
194 TACTTCACTGCCAAATACAGAAAGGCAAGATCTGCA
*
3724386 ATATTCAA
1 ATCTTCAA
3724394 CCTACTCTGC
Statistics
Matches: 221, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
229 67 0.30
231 154 0.70
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (229 bp):
ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
TAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTA
CTTCACTGCCAAATACAGAAAGGCAAGATCTGCA
Found at i:3757434 original size:20 final size:20
Alignment explanation
Indices: 3757398--3757437 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3757388 TCCTATTGTT
3757398 GTTTTGTTACTGTTTGCTGC
1 GTTTTGTTACTGTTTGCTGC
*
3757418 GTTTCTGTTTCTG-TTGCTGC
1 GTTT-TGTTACTGTTTGCTGC
3757438 TTCCGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.17, G:0.25, T:0.55
Consensus pattern (20 bp):
GTTTTGTTACTGTTTGCTGC
Found at i:3761475 original size:132 final size:131
Alignment explanation
Indices: 3761271--3761680 Score: 466
Period size: 132 Copynumber: 3.1 Consensus size: 131
3761261 ACTACTGCTT
* *
3761271 AGGGAGATAAGAA-TGCTGGCTTTAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCA
1 AGGGAGAT-AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-ACCA
*
3761334 TATTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGAAATCTTCAATCTATTCCACTGCT
64 TATTTGATCTGCTCCACTACTGCTTAGGGAGA-AAGATCTGAAATCTTCAATCTATTCCACTGCT
3761399 GCCC
128 GCCC
* * *
3761403 AGGGA-AGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGT
1 AGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCAT
* * * * ** ** * * * * * *
3761467 CTTCGATCTGCTTCGCTGTTTATGCAGGAAGGAAAGCTCTAAAATCTTCAGTCTATTCCATTGCT
65 ATTTGATCTGCTCCACTACTGCT-TAGGGA-GAAAGATCTGAAATCTTCAATCTATTCCACTGCT
3761532 GCCC
128 GCCC
* * ** * *
3761536 AGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGAGAGGTAAAATCTAACATA
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATA
* * * *
3761601 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTCAATTTATTCCGCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGA-AAGATCTGAAATCTTCAATCTATTCCACTGCTGC
3761666 CC
130 CC
3761668 AGGGAGATAGAAT
1 AGGGAGATAGAAT
3761681 ATGATCTGCT
Statistics
Matches: 224, Mismatches: 47, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
131 7 0.03
132 110 0.49
133 104 0.46
134 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (131 bp):
AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATA
TTTGATCTGCTCCACTACTGCTTAGGGAGAAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
C
Found at i:3762041 original size:132 final size:133
Alignment explanation
Indices: 3761837--3762125 Score: 456
Period size: 132 Copynumber: 2.2 Consensus size: 133
3761827 GCTAATACAT
** * *
3761837 GAAGACAAGATCTGTTTTC-TCGATCTATTCCACTGCCGACCAGGAAGATAGAATTACTGGCTTT
1 GAAGACAAGATCTGTAATCTTCAATCTATTCCACTGCCGACCAGGAAGATAGAATTACTGGCTTC
*
3761901 AATATACTCCACTGCAACCTCAGGGAGGT-AAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
66 AATATACTCCACTGCAACCTCAGGGAAGTAAAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
3761965 TAG
131 TAG
* * * * * *
3761968 GGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAGTTACTGGCTTC
1 GAAGACAAGATCTGTAATCTTCAATCTATTCCACTGCCGACCAGGAAGATAGAATTACTGGCTTC
*
3762033 AATGTACTCCACTGCAACCTCAGGGAAGTAAAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
66 AATATACTCCACTGCAACCTCAGGGAAGTAAAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
3762098 TAG
131 TAG
3762101 GAAGACAAGATCTGTAATCTTCAAT
1 GAAGACAAGATCTGTAATCTTCAAT
3762126 TTGTTCAACT
Statistics
Matches: 142, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
131 15 0.11
132 66 0.46
133 61 0.43
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (133 bp):
GAAGACAAGATCTGTAATCTTCAATCTATTCCACTGCCGACCAGGAAGATAGAATTACTGGCTTC
AATATACTCCACTGCAACCTCAGGGAAGTAAAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
TAG
Found at i:3762137 original size:133 final size:132
Alignment explanation
Indices: 3761837--3762137 Score: 442
Period size: 133 Copynumber: 2.3 Consensus size: 132
3761827 GCTAATACAT
** * * * * *
3761837 GAAGACAAGATCTGTTTTC-TCGATCTATTCCACTGCCGACCAGGAAGATAGAATTACTGGCTTT
1 GAAGACAAGATCTGTAATCTTCAATCTATTCAACTGCTGCCCAGGAAGATAGAATTACTGGCTTC
*
3761901 AATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTT
66 AATATACTCCACTGCAACCTCAGGGAAGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTT
3761966 AG
131 AG
* * * * *
3761968 GGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAGTTACTGGCTTC
1 GAAGACAAGATCTGTAATCTTCAATCTATTCAACTGCTGCCCAGGAAGATAGAATTACTGGCTTC
*
3762033 AATGTACTCCACTGCAACCTCAGGGAAGTAAAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
66 AATATACTCCACTGCAACCTCAGGGAAGT-AAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
3762098 TAG
130 TAG
* *
3762101 GAAGACAAGATCTGTAATCTTCAATTTGTTCAACTGC
1 GAAGACAAGATCTGTAATCTTCAATCTATTCAACTGC
3762138 AATGTCGGGG
Statistics
Matches: 151, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 15 0.10
132 66 0.44
133 70 0.46
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
GAAGACAAGATCTGTAATCTTCAATCTATTCAACTGCTGCCCAGGAAGATAGAATTACTGGCTTC
AATATACTCCACTGCAACCTCAGGGAAGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTT
AG
Found at i:3762246 original size:50 final size:50
Alignment explanation
Indices: 3762192--3762377 Score: 144
Period size: 50 Copynumber: 3.7 Consensus size: 50
3762182 CACCGTACCG
* * * *
3762192 TCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATA
1 TCAGGAAAGTAAGATCCGCCGTCGTAGCTTCAATCTTTTTAACTGCAATA
** ** * * ** *
3762242 TCAGGGAAA-CCAGATCTACCATCGTAGCTTCAATCTGTTCCACTGCACT-
1 TCA-GGAAAGTAAGATCCGCCGTCGTAGCTTCAATCTTTTTAACTGCAATA
* * * * *
3762291 GCTAAGAAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAGTGCAATA
1 TC-AGGAAAGTAAGATCCGCCGTCGTAGCTTCAATCTTTTTAACTGCAATA
* *
3762342 TCAGGAAAACT-AGATCCGTCGTCGTAGCTTCAATCT
1 TCAGG-AAAGTAAGATCCGCCGTCGTAGCTTCAATCT
3762378 GTTCCACTGC
Statistics
Matches: 98, Mismatches: 33, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
49 5 0.05
50 84 0.86
51 9 0.09
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (50 bp):
TCAGGAAAGTAAGATCCGCCGTCGTAGCTTCAATCTTTTTAACTGCAATA
Found at i:3762249 original size:100 final size:100
Alignment explanation
Indices: 3762135--3762403 Score: 353
Period size: 100 Copynumber: 2.7 Consensus size: 100
3762125 TTTGTTCAAC
* * * * *
3762135 TGCAATGTCGGGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCACCGTACCG-TCAGGGA
1 TGCAATATCAGGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGCT-AAGAA
*
3762199 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
* * * *
3762235 TGCAATATCAGGGAAACCAGA-TCTACCATCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGAA
1 TGCAATATCAGGGAAACCAGATTC-GCCGTCGTAGCTTCAATCTGTTCCACCGCACCGCTAAGAA
3762299 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
* * * * * * *
3762335 TGCAATATCAGGAAAACTAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGCTAAGAAA
3762400 GTAA
66 GTAA
3762404 AATCTATGGT
Statistics
Matches: 149, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
99 2 0.01
100 145 0.97
101 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (100 bp):
TGCAATATCAGGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGCTAAGAAA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
Found at i:3763684 original size:8 final size:7
Alignment explanation
Indices: 3763640--3763681 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
3763630 TTAGCCTCTC
3763640 CATTTTT
1 CATTTTT
3763647 -ACTTTTT
1 CA-TTTTT
3763654 CATTTTT
1 CATTTTT
3763661 CA-TTTT
1 CATTTTT
3763667 CATCTTTT
1 CAT-TTTT
3763675 CATTTTT
1 CATTTTT
3763682 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 16 0.52
8 8 0.26
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:3768607 original size:31 final size:29
Alignment explanation
Indices: 3768551--3768616 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 29
3768541 AGTATGTACC
*
3768551 AGTATATATTTACAAAATAAGAATGTATA
1 AGTATATATTTACAAAATAAAAATGTATA
*
3768580 TGTATATATTTACAAAAATAAAAAATGTATA
1 AGTATATATTTAC-AAAAT-AAAAATGTATA
3768611 AGTATA
1 AGTATA
3768617 CATGTACTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 12 0.38
30 5 0.16
31 15 0.47
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (29 bp):
AGTATATATTTACAAAATAAAAATGTATA
Found at i:3768616 original size:29 final size:28
Alignment explanation
Indices: 3768554--3768616 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
3768544 ATGTACCAGT
* *
3768554 ATATATTTACAAAATAAGAATGTATATG
1 ATATATTTACAAAATAAAAATGTATAAG
3768582 TATATATTTACAAAAATAAAAAATGTATAAG
1 -ATATATTTAC-AAAAT-AAAAATGTATAAG
3768613 -TATA
1 ATATA
3768617 CATGTACTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 14 0.47
30 5 0.17
31 11 0.37
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (28 bp):
ATATATTTACAAAATAAAAATGTATAAG
Found at i:3770532 original size:14 final size:14
Alignment explanation
Indices: 3770515--3770549 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
3770505 AAAAAGGAAG
3770515 AAAAGAAAACAAA-A
1 AAAAGAAAA-AAAGA
3770529 AAAAGAAAAAAAGA
1 AAAAGAAAAAAAGA
3770543 AAAAGAA
1 AAAAGAA
3770550 CAGAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 3 0.15
14 17 0.85
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAGA
Found at i:3770545 original size:17 final size:19
Alignment explanation
Indices: 3770497--3770556 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
3770487 AGCAACACAC
* *
3770497 AAAAGAACAAAAAGGA-AG
1 AAAAAAACAAAAAGAACAG
3770515 AAAAGAAAACAAAAA-AA-AG
1 -AAA-AAAACAAAAAGAACAG
*
3770534 AAAAAAAGAAAAAGAACAG
1 AAAAAAACAAAAAGAACAG
3770553 AAAA
1 AAAA
3770557 GAGGATGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 9 0.26
18 5 0.14
19 12 0.34
20 9 0.26
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAAGAACAG
Found at i:3771745 original size:19 final size:20
Alignment explanation
Indices: 3771717--3771756 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3771707 TTCTAAATTA
*
3771717 TTATCCACATGA-TTTAAAT
1 TTATCAACATGATTTTAAAT
*
3771736 TTATCAACATTATTTTAAAT
1 TTATCAACATGATTTTAAAT
3771756 T
1 T
3771757 CTTTTTTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (20 bp):
TTATCAACATGATTTTAAAT
Found at i:3772068 original size:26 final size:27
Alignment explanation
Indices: 3772038--3772088 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
3772028 TAGAATTTGT
3772038 TTGTTATTC-ATCAT-TTGCTTTGTATA
1 TTGTTATTCAATCATATTG-TTTGTATA
3772064 TTGTTATTCAATCATATTGTTTGTA
1 TTGTTATTCAATCATATTGTTTGTA
3772089 AGAATTGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 9 0.39
27 11 0.48
28 3 0.13
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.57
Consensus pattern (27 bp):
TTGTTATTCAATCATATTGTTTGTATA
Found at i:3779812 original size:6 final size:7
Alignment explanation
Indices: 3779794--3779819 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3779784 AATTTGAGGG
3779794 GAAAAAA
1 GAAAAAA
3779801 GAAAAAA
1 GAAAAAA
3779808 GAAAAAA
1 GAAAAAA
3779815 GAAAA
1 GAAAA
3779820 GGAGTTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:3787083 original size:30 final size:30
Alignment explanation
Indices: 3787047--3787196 Score: 259
Period size: 30 Copynumber: 5.1 Consensus size: 30
3787037 TGTTTTGTAT
*
3787047 ATTGCCGAATTGATTTGTATATGAATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
3787077 ATTGCCGAATTGATTTGTATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
*
3787107 ATTGCCAAATTGATTTGTATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
3787137 ATTGCCGAATTGATTTGTATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
*
3787167 ATTACCGAATTGATTTGTATAT-G-TATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
3787195 AT
1 AT
3787197 ATATATTGTC
Statistics
Matches: 116, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
28 7 0.06
29 1 0.01
30 108 0.93
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (30 bp):
ATTGCCGAATTGATTTGTATATGGATATAC
Found at i:3794186 original size:30 final size:30
Alignment explanation
Indices: 3794141--3794263 Score: 165
Period size: 30 Copynumber: 4.1 Consensus size: 30
3794131 GTATATGTTT
* * *
3794141 TATATATTGCTGAATTGATTTATATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
3794171 TATACATTGCCGAATTGATTTTTAAATTGA
1 TATACATTGCCGAATTGATTTGTATATGGA
3794201 TATACATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
3794231 TATACATTGCCAAATTAATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
3794261 TAT
1 TAT
3794264 GCATATATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:3794216 original size:60 final size:66
Alignment explanation
Indices: 3794141--3794287 Score: 207
Period size: 60 Copynumber: 2.3 Consensus size: 66
3794131 GTATATGTTT
* * *
3794141 TATATATTGCTGAATTGATTTATATATGGATATACATTGCCGAATTGATTT-T-TA-A-AT-TG-
1 TATATATTGCCGAATTGATTTATATATGGATATACATTGCCAAATTAATTTGTATATAGATATGC
3794200 A
66 A
* *
3794201 TATACATTGCCGAATTGATTTGTATATGGATATACATTGCCAAATTAATTTGTATATAGATATGC
1 TATATATTGCCGAATTGATTTATATATGGATATACATTGCCAAATTAATTTGTATATAGATATGC
3794266 A
66 A
3794267 TATATATTGCCGAATTGATTT
1 TATATATTGCCGAATTGATTT
3794288 GAGCATTGGA
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
60 46 0.61
61 1 0.01
62 2 0.03
63 1 0.01
64 2 0.03
65 2 0.03
66 21 0.28
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (66 bp):
TATATATTGCCGAATTGATTTATATATGGATATACATTGCCAAATTAATTTGTATATAGATATGC
A
Found at i:3795928 original size:12 final size:12
Alignment explanation
Indices: 3795908--3795954 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
3795898 GGACACAGGG
3795908 CCGTGTCCGTGC
1 CCGTGTCCGTGC
*
3795920 CCTTGTCCGTGC
1 CCGTGTCCGTGC
** *
3795932 CCGTGTCTATTC
1 CCGTGTCCGTGC
3795944 CCGTGTCCGTG
1 CCGTGTCCGTG
3795955 TAACTCACTG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.02, C:0.38, G:0.28, T:0.32
Consensus pattern (12 bp):
CCGTGTCCGTGC
Found at i:3796961 original size:31 final size:32
Alignment explanation
Indices: 3796888--3796963 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
3796878 AGTCCATTAC
* * *
3796888 GACAGTGAACATAGAACAAAGATAGTTTGTTGG
1 GACAGTAAACATAGAAC-AAGATAGTTTGTCGA
* * *
3796921 GTCAATAAACATAGAAC-ATATAGTTTGTCGA
1 GACAGTAAACATAGAACAAGATAGTTTGTCGA
3796952 GACAGTAAACAT
1 GACAGTAAACAT
3796964 GGGTGAGTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
31 21 0.60
33 14 0.40
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (32 bp):
GACAGTAAACATAGAACAAGATAGTTTGTCGA
Found at i:3826285 original size:20 final size:19
Alignment explanation
Indices: 3826247--3826285 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
3826237 TTTATTTAAC
*
3826247 AATTTAAATATAATAAAAA
1 AATTCAAATATAATAAAAA
3826266 AATTCAAATCATAATTAAAA
1 AATTCAAAT-ATAA-TAAAA
3826286 CATTTATACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTCAAATATAATAAAAA
Found at i:3831755 original size:19 final size:17
Alignment explanation
Indices: 3831708--3831759 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
3831698 CTGATTTTAT
* * *
3831708 TTTTATTTTGTTATATA
1 TTTTATTTTATTTTCTA
3831725 TTTTATTTTATTTTCTA
1 TTTTATTTTATTTTCTA
3831742 TTTTATTCTTTATTTTCT
1 TTTTA-T-TTTATTTTCT
3831760 TGCATGTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 19 0.63
18 1 0.03
19 10 0.33
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTATTTTATTTTCTA
Found at i:3831755 original size:29 final size:28
Alignment explanation
Indices: 3831701--3831757 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
3831691 AGGCAAGCTG
*
3831701 ATTTTATTTTTATTTTGTTATATATTTT
1 ATTTTATTTTTATTTTATTATATATTTT
* *
3831729 ATTTTATTTTCTATTTTATTCTTTATTTT
1 ATTTTATTTT-TATTTTATTATATATTTT
3831758 CTTGCATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (28 bp):
ATTTTATTTTTATTTTATTATATATTTT
Found at i:3832390 original size:5 final size:5
Alignment explanation
Indices: 3832380--3832404 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3832370 ATTTCATTAA
3832380 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
3832405 CTAATGATTC
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:3832734 original size:105 final size:105
Alignment explanation
Indices: 3832552--3832744 Score: 255
Period size: 105 Copynumber: 1.8 Consensus size: 105
3832542 ACAAAAAAAA
* *
3832552 GAGTGTGTTAGGCTGAATAACCTGGGTAGGGTGCTTGGGTTGTTATCCCACTTTGAGTCAAAAGG
1 GAGTGTGTTAGGCTGAATAACCTGGGTACGGTGCTTGGGTTGTCATCCCACTTTGAGTCAAAAGG
3832617 GCCAAAACATTCTTAACAAAAAATTATAATAATAAAATAG
66 GCCAAAACATTCTTAACAAAAAATTATAATAATAAAATAG
* * * * * * *
3832657 GAGTGTGTTGGGCTGAGTAA-CTAGGGTTCGGTGTTTGGGTTGTCATCCC-TTTTCGTGTCAAGA
1 GAGTGTGTTAGGCTGAATAACCT-GGGTACGGTGCTTGGGTTGTCATCCCACTTT-GAGTCAAAA
* *
3832720 GGGCCAATACATTCTTAAGAAAAAA
64 GGGCCAAAACATTCTTAACAAAAAA
3832745 AAAACTAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
104 5 0.07
105 70 0.93
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (105 bp):
GAGTGTGTTAGGCTGAATAACCTGGGTACGGTGCTTGGGTTGTCATCCCACTTTGAGTCAAAAGG
GCCAAAACATTCTTAACAAAAAATTATAATAATAAAATAG
Found at i:3832756 original size:11 final size:10
Alignment explanation
Indices: 3832740--3832778 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
3832730 ATTCTTAAGA
3832740 AAAAAAAAACT
1 AAAAAAAAA-T
*
3832751 AAAAAAAATT
1 AAAAAAAAAT
*
3832761 AAAAAAAAAG
1 AAAAAAAAAT
3832771 AAAAAAAA
1 AAAAAAAA
3832779 TTCATTTGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.87, C:0.03, G:0.03, T:0.08
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:3832766 original size:20 final size:20
Alignment explanation
Indices: 3832740--3832780 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
3832730 ATTCTTAAGA
*
3832740 AAAAAAAAACTAAAAAAAATT
1 AAAAAAAAA-GAAAAAAAATT
3832761 AAAAAAAAAGAAAAAAAATT
1 AAAAAAAAAGAAAAAAAATT
3832781 CATTTGGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAAATT
Found at i:3845127 original size:63 final size:62
Alignment explanation
Indices: 3845028--3845147 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 62
3845018 CACAGCTTGG
* *
3845028 ACACACGCCAGTGTCTCTGGCCCATGTGAACCTAATTCCAGAATAGTGAGTTACAAGGCCTAT
1 ACACACGCCAGTGTCTCTGGCCCATGTGAACCTAATTCCAAAACAGTGAGTTA-AAGGCCTAT
* * *
3845091 ACACACGCCTGTGTCTTTGGCCCATGT-TACTCTAATTCCAAAACAGTGAGTTAAAGG
1 ACACACGCCAGTGTCTCTGGCCCATGTGAAC-CTAATTCCAAAACAGTGAGTTAAAGG
3845148 GTTGCCACAC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
62 6 0.12
63 45 0.88
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (62 bp):
ACACACGCCAGTGTCTCTGGCCCATGTGAACCTAATTCCAAAACAGTGAGTTAAAGGCCTAT
Found at i:3862199 original size:45 final size:46
Alignment explanation
Indices: 3862124--3862246 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 46
3862114 GATTGGAGGG
* * * *
3862124 TGCCATGGTGTCTTTCAAACATGATCTTATTTATTCT-TGACTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCTGACATGA
* * * * * *
3862169 TGTCATAGTGTCTTTCAACCATGGTTTTATTCATTTTCTGTCATGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCTGACATGA
*
3862215 TGCCATAGTGTCTTTCAACTATGGTCTTATTT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTT
3862247 GTTTGATTCG
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
45 30 0.48
46 33 0.52
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCTGACATGA
Found at i:3862312 original size:45 final size:45
Alignment explanation
Indices: 3862215--3862381 Score: 172
Period size: 45 Copynumber: 3.7 Consensus size: 45
3862205 TCTGTCATGT
** * * * * * * *
3862215 TGCCATAGTGTCTTTCAACTATGGTCTTATTTGTTTGATTCGTTA
1 TGCCATAACGTCTTTCAAATATGGTCTTACTCGATAGAATCGTGA
** * *
3862260 TGCCATAACGTCTACCAACTATGGTCTTGCTCGATAGAATCGTGA
1 TGCCATAACGTCTTTCAAATATGGTCTTACTCGATAGAATCGTGA
* ** * *
3862305 TGTCATAACGTCTTTCAGTTATGGTCTTACTCGATGGAATCATGA
1 TGCCATAACGTCTTTCAAATATGGTCTTACTCGATAGAATCGTGA
3862350 TGCCATAACGTCTTTCAAATATGGTCTTACTC
1 TGCCATAACGTCTTTCAAATATGGTCTTACTC
3862382 ATTTCTGGTA
Statistics
Matches: 100, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 100 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (45 bp):
TGCCATAACGTCTTTCAAATATGGTCTTACTCGATAGAATCGTGA
Found at i:3862408 original size:45 final size:45
Alignment explanation
Indices: 3862359--3862476 Score: 173
Period size: 45 Copynumber: 2.6 Consensus size: 45
3862349 ATGCCATAAC
* * * *
3862359 GTCTTTCAAATATGGTCTTACTCATTTCTGGTATGGTGTTATAGT
1 GTCTTTCAACTATGGTCTTAATCATTTCTGGTATAGTGTCATAGT
* *
3862404 GTCTTTCAACTATGGTCTTATTTATTTCTGGTATAGTGTCATAGT
1 GTCTTTCAACTATGGTCTTAATCATTTCTGGTATAGTGTCATAGT
*
3862449 GTTTTTCAACTATGGTCTTAATCATTTC
1 GTCTTTCAACTATGGTCTTAATCATTTC
3862477 CTTCAAGCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.48
Consensus pattern (45 bp):
GTCTTTCAACTATGGTCTTAATCATTTCTGGTATAGTGTCATAGT
Found at i:3863489 original size:26 final size:27
Alignment explanation
Indices: 3863453--3863515 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
3863443 GGCCCGGCCC
* * * *
3863453 ATTTTTAAAAT-AAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAAAT
3863479 ATTTTAAAAATAAAAAAATAAAAAAAAT
1 ATTTTAAAAAT-AAAAAATAAAAAAAAT
3863507 ATTTTAAAA
1 ATTTTAAAA
3863516 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.32
28 21 0.68
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
ATTTTAAAAATAAAAAATAAAAAAAAT
Found at i:3869628 original size:16 final size:15
Alignment explanation
Indices: 3869607--3869636 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3869597 TGACTAGCTA
3869607 CTTTTTCTTTATTTTT
1 CTTTTTCTTT-TTTTT
3869623 CTTTTTCTTTTTTT
1 CTTTTTCTTTTTTT
3869637 GGGTTGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTCTTTTTTTT
Found at i:3871364 original size:18 final size:18
Alignment explanation
Indices: 3871341--3871384 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3871331 AAACTAACAC
* * *
3871341 AATAATAATACCCATAAT
1 AATAATAATAACAACAAT
3871359 AATAATAATAACAACAAT
1 AATAATAATAACAACAAT
3871377 AATAATAA
1 AATAATAA
3871385 CAGCAGTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (18 bp):
AATAATAATAACAACAAT
Found at i:3871377 original size:15 final size:15
Alignment explanation
Indices: 3871359--3871396 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
3871349 TACCCATAAT
3871359 AATAATAATAACAAC
1 AATAATAATAACAAC
*
3871374 AATAATAATAACAGC
1 AATAATAATAACAAC
*
3871389 AGTAATAA
1 AATAATAA
3871397 CTTAATTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (15 bp):
AATAATAATAACAAC
Found at i:3878069 original size:123 final size:123
Alignment explanation
Indices: 3877850--3878197 Score: 635
Period size: 123 Copynumber: 2.8 Consensus size: 123
3877840 TTATTTCGAG
*
3877850 TTGACGTTTCTG-GTCAAATAATATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGT
3877914 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
* * *
3877973 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTGTACCAAGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGTG
3878038 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
*
3878096 TTGACGTTTCTGAGCAAAGAGTATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGTG
3878161 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
3878198 CAAGTTTGGG
Statistics
Matches: 216, Mismatches: 8, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
123 215 1.00
124 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
Found at i:3881249 original size:10 final size:10
Alignment explanation
Indices: 3881234--3881258 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3881224 CAAATCTAAC
3881234 ATTATGTAAA
1 ATTATGTAAA
3881244 ATTATGTAAA
1 ATTATGTAAA
3881254 ATTAT
1 ATTAT
3881259 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:3881348 original size:55 final size:55
Alignment explanation
Indices: 3881242--3881478 Score: 395
Period size: 55 Copynumber: 4.3 Consensus size: 55
3881232 ACATTATGTA
*
3881242 AAATTATGTAAAATTATTAAG-CCAAAAAAATTTTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC--AAAAATTGTGTTAATGGTTAGTAAAATTATC
3881298 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
* * * *
3881353 TAATTATGTAAAATTATTAAGCCCGAAAATTGTGTTAATGGTTAGTAAATTTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
3881408 AAATTATGTAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
3881463 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
3881479 GGTTAGGGTT
Statistics
Matches: 170, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
55 147 0.86
56 21 0.12
57 2 0.01
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:3881507 original size:29 final size:29
Alignment explanation
Indices: 3881473--3882693 Score: 1063
Period size: 29 Copynumber: 41.6 Consensus size: 29
3881463 AAATTATGTA
3881473 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
3881502 AAATTAGATTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
3881531 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
3881560 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
3881589 AAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
3881618 AAATTAGGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
3881647 AAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
3881676 AAATTAGGTTAGGGTTAGGTTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
3881705 AAATTATGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
3881734 AAATTAGGTTACGGTTA-GGTTTTTAA-T
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
3881761 ---TTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
3881787 AAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATT
1 -AA--A--TTA-GGTTAGGGTTAGGGTTTTTAATT
3881822 AAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATT
1 AA---A--TTA-GGTTAGGGTTAGGGTTTTTAATT
*
3881857 AAATTAGGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
3881886 AAATTAGGTTAGGGTTAGGATTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
3881915 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
3881944 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
3881973 --A--A-GTTA-GGTTAAGGTTTTTAATC
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* ** * *** *****
3881996 AAATAATATCAAAATAACTCGAAAACATTTATATGT
1 AAATTAGGTTAGGGT---T--AGGGTTTTTA-AT-T
** ** * ** * *** *
3882032 CTATTATATCA-AATAAACTTCTATTTTATT
1 AAATTAGGTTAGGGTTAGGGT-T-TTTAATT
* * ** * ** *
3882062 ACATCAAATTA---ATA---AATTTAAAT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* * * **** ** ***
3882085 ACGGCAATCAATGTCTATGCCCGGGGGATTCGGTT
1 A----AAT-TAGGT-TAGGGTTAGGGTTTTTAATT
* ** * *
3882120 CCACATGGCGGTTAGGGTTAGGGTTAGGGTTAGGGTTTT
1 --AAAT-TAGGTTAGGGTTAGGGTT---TTTA----ATT
* * *
3882159 TAATTAAGTTAGGTTAGGGTTAGGGTTTTAAATT
1 AAATTAGGTT-----AGGGTTAGGGTTTTTAATT
*
3882193 AAATTAGGTTAGAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* * *
3882222 AAATTATGTTATGATTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
3882251 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
3882280 AAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
3882309 AAATTAGGTTATGGTTAGGGTTTTAAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
3882338 AAGTTAGATTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* * *
3882367 AAGTTA--ATAGGGTTAGGGTTTTAAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
3882394 AAGTTAGGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
3882423 AAATTAGGTTATGGTTAGGGTTTTCAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
3882452 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
3882481 AAGTTAAGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
3882510 AAATTAGATTAGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
3882539 AAATTATGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
3882568 AAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
3882597 AAATTAGGTTATGGTTAGGGTTTTTATTT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
3882626 AAATTAGGTTAGGGTTAGGATTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
3882655 --A--A-GTTA-GGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
3882678 AAGTTAGGTTAGGGTT
1 AAATTAGGTTAGGGTT
3882694 TTTAATCAAA
Statistics
Matches: 996, Mismatches: 135, Indels: 122
0.79 0.11 0.10
Matches are distributed among these distances:
23 37 0.04
24 21 0.02
25 12 0.01
26 1 0.00
27 32 0.03
28 18 0.02
29 728 0.73
30 12 0.01
31 2 0.00
32 11 0.01
33 4 0.00
34 21 0.02
35 67 0.07
36 11 0.01
37 3 0.00
38 2 0.00
39 2 0.00
41 12 0.01
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.44
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:3882140 original size:6 final size:6
Alignment explanation
Indices: 3882129--3882156 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3882119 TCCACATGGC
3882129 GGTTAG GGTTAG GGTTAG GGTTAG GGTT
1 GGTTAG GGTTAG GGTTAG GGTTAG GGTT
3882157 TTTAATTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (6 bp):
GGTTAG
Found at i:3882662 original size:18 final size:20
Alignment explanation
Indices: 3882646--3882686 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
3882636 AGGGTTAGGA
3882646 TTTTTAATTAAGTTAGGTTAGGG
1 TTTTTAATTAAGTTAGG-TA--G
3882669 TTTTTAATTAAGTTAGGT
1 TTTTTAATTAAGTTAGGT
3882687 TAGGGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (20 bp):
TTTTTAATTAAGTTAGGTAG
Found at i:3882772 original size:25 final size:25
Alignment explanation
Indices: 3882738--3882848 Score: 92
Period size: 25 Copynumber: 4.6 Consensus size: 25
3882728 TTTCTATGCC
*
3882738 TATTATATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
*
3882763 TATTACATCAAAT-AA-TATC-A--A
1 TATTACATCAAATAAACT-TCTATTT
* * * *
3882784 AATAAC-TCGAAA-AAATTTCTATGTG
1 TATTACATC-AAATAAACTTCTAT-TT
3882809 TATTACATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
3882834 TATTACATCAAATAA
1 TATTACATCAAATAA
3882849 TAAATTTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
20 2 0.03
21 11 0.16
22 2 0.03
23 2 0.03
24 4 0.06
25 35 0.52
26 11 0.16
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.39
Consensus pattern (25 bp):
TATTACATCAAATAAACTTCTATTT
Found at i:3882819 original size:71 final size:71
Alignment explanation
Indices: 3882698--3882850 Score: 270
Period size: 71 Copynumber: 2.2 Consensus size: 71
3882688 AGGGTTTTTA
* *
3882698 ATCAAATAATATCAAAATAACTCGAAAACATTTCTATGCCTATTATATCAAATAAACTTCTATTT
1 ATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGCCTATTACATCAAATAAACTTCTATTT
3882763 TATTAC
66 TATTAC
**
3882769 ATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGTGTATTACATCAAATAAACTTCTATTT
1 ATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGCCTATTACATCAAATAAACTTCTATTT
3882834 TATTAC
66 TATTAC
3882840 ATCAAATAATA
1 ATCAAATAATA
3882851 AATTTAAATA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 78 1.00
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (71 bp):
ATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGCCTATTACATCAAATAAACTTCTATTT
TATTAC
Found at i:3883279 original size:18 final size:18
Alignment explanation
Indices: 3883252--3883286 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3883242 CGGAAAAGGA
* *
3883252 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
3883270 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
3883287 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:3886664 original size:22 final size:22
Alignment explanation
Indices: 3886639--3886689 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
3886629 AAATATGGGT
3886639 TTGAGAGAATTTTGGAAA-GAAA
1 TTGAGAGAATTTT-GAAAGGAAA
3886661 TTGAGAGAATTTTGAAAGGAAA
1 TTGAGAGAATTTTGAAAGGAAA
3886683 TTGAGAG
1 TTGAGAG
3886690 GATTAGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGAAAGGAAA
Found at i:3886677 original size:51 final size:51
Alignment explanation
Indices: 3886555--3886667 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
3886545 TTTAAAAAAT
* *
3886555 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAA
*
3886606 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAA
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAA
3886657 GAAATTGAGAG
1 GAAATTGAGAG
3886668 AATTTTGAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAA
Found at i:3886703 original size:21 final size:22
Alignment explanation
Indices: 3886639--3886704 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
3886629 AAATATGGGT
*
3886639 TTGAGAGAATTTTGGAAA-GAAA
1 TTGAGAGAA-TTTAGAAAGGAAA
*
3886661 TTGAGAGAATTTTGAAAGGAAA
1 TTGAGAGAATTTAGAAAGGAAA
* *
3886683 TTGAGAGGA-TTAGAGAGGAAA
1 TTGAGAGAATTTAGAAAGGAAA
3886704 T
1 T
3886705 ATTAGATAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
21 18 0.46
22 21 0.54
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (22 bp):
TTGAGAGAATTTAGAAAGGAAA
Found at i:3888108 original size:20 final size:21
Alignment explanation
Indices: 3888060--3888108 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 21
3888050 TAATTTTTTT
3888060 ATATT-TTT-ACTAAATTATA
1 ATATTATTTAACTAAATTATA
* *
3888079 ATAATA-TTAACTAATTTA-A
1 ATATTATTTAACTAAATTATA
3888098 ATATTATTTAA
1 ATATTATTTAA
3888109 ATGTATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTATTTAACTAAATTATA
Found at i:3888514 original size:26 final size:26
Alignment explanation
Indices: 3888485--3888573 Score: 88
Period size: 26 Copynumber: 3.4 Consensus size: 26
3888475 ATGATTGTGA
*
3888485 TTTTAAAAAATGCTGTGGAAAAGTGC
1 TTTTAAAAAATGTTGTGGAAAAGTGC
* * * *
3888511 TTTTGAGAAGTGTTGTGAAAAAGTGC
1 TTTTAAAAAATGTTGTGGAAAAGTGC
* * * * *
3888537 TTTTGAAAAGTGTTTTTGAGAAGTGC
1 TTTTAAAAAATGTTGTGGAAAAGTGC
3888563 TTTTAAAAAAT
1 TTTTAAAAAAT
3888574 TTAGTTTAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (26 bp):
TTTTAAAAAATGTTGTGGAAAAGTGC
Found at i:3888553 original size:13 final size:13
Alignment explanation
Indices: 3888502--3888570 Score: 79
Period size: 13 Copynumber: 5.4 Consensus size: 13
3888492 AAATGCTGTG
3888502 GAAAAGTGCTTTT
1 GAAAAGTGCTTTT
* *
3888515 GAGAAGTG-TTGT
1 GAAAAGTGCTTTT
3888527 GAAAAAGTGCTTTT
1 G-AAAAGTGCTTTT
*
3888541 GAAAAGTGTTTTT
1 GAAAAGTGCTTTT
*
3888554 GAGAAGTGCTTTT
1 GAAAAGTGCTTTT
3888567 -AAAA
1 GAAAA
3888571 AATTTAGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
12 7 0.15
13 35 0.76
14 4 0.09
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.36
Consensus pattern (13 bp):
GAAAAGTGCTTTT
Found at i:3888571 original size:39 final size:38
Alignment explanation
Indices: 3888485--3888573 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 38
3888475 ATGATTGTGA
3888485 TTTTAAAAAATGCTGTGGAAAAGTGCTTTTGAGAAGTG
1 TTTTAAAAAATGCTGTGGAAAAGTGCTTTTGAGAAGTG
* * * * *
3888523 TTGTGAAAAAGTGCTTTTGAAAAGTGTTTTTGAGAAGTG
1 TT-TTAAAAAATGCTGTGGAAAAGTGCTTTTGAGAAGTG
3888562 CTTTTAAAAAAT
1 -TTTTAAAAAAT
3888574 TTAGTTTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
38 2 0.05
39 38 0.90
40 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (38 bp):
TTTTAAAAAATGCTGTGGAAAAGTGCTTTTGAGAAGTG
Found at i:3889873 original size:21 final size:20
Alignment explanation
Indices: 3889847--3889919 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
3889837 ACATATATGT
3889847 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
3889868 ATAATAATAGTGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
3889890 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
3889910 GTAACAATAT
1 ATAATAATAT
3889920 TAGTAATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.24
21 27 0.60
22 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:3889891 original size:16 final size:15
Alignment explanation
Indices: 3889862--3889904 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
3889852 AATGATGAAA
3889862 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
3889876 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
3889892 ATAATAATAAATA
1 ATAATAATAAATA
3889905 TAATAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:3894090 original size:17 final size:17
Alignment explanation
Indices: 3894065--3894099 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3894055 TAAATTAAAA
3894065 TTTTATATATACAATTT
1 TTTTATATATACAATTT
* *
3894082 TTTTTTATATATAATTT
1 TTTTATATATACAATTT
3894099 T
1 T
3894100 AAGATTTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATATATACAATTT
Found at i:3898867 original size:43 final size:45
Alignment explanation
Indices: 3898789--3898877 Score: 119
Period size: 43 Copynumber: 2.0 Consensus size: 45
3898779 TAAACATTAA
* *
3898789 AAAATTATTTTAAAACTAAAAAAATAAAAAAAAAAATTTAT-TTT
1 AAAAGTATTTTAAAACTAAAAAAATAAAAAAAAAAATATATATTT
* * *
3898833 AAAAGTATTTTAAAA-TTAAGAAATAAAAATAAAAATATATATTT
1 AAAAGTATTTTAAAACTAAAAAAATAAAAAAAAAAATATATATTT
3898877 A
1 A
3898878 TTATATTCGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 21 0.54
44 18 0.46
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (45 bp):
AAAAGTATTTTAAAACTAAAAAAATAAAAAAAAAAATATATATTT
Found at i:3898867 original size:44 final size:45
Alignment explanation
Indices: 3898789--3898876 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 45
3898779 TAAACATTAA
* *
3898789 AAAATTATTTTAAAACTAAAAAAATAAAAAAAAAA-ATTTATTTT
1 AAAAGTATTTTAAAACTAAAAAAATAAAAAAAAAATATATATTTT
* *
3898833 AAAAGTATTTTAAAA-TTAAGAAATAAAAATAAAAATATATATTT
1 AAAAGTATTTTAAAACTAAAAAAATAAAAA-AAAAATATATATTT
3898877 ATTATATTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 12 0.32
44 19 0.50
45 7 0.18
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (45 bp):
AAAAGTATTTTAAAACTAAAAAAATAAAAAAAAAATATATATTTT
Found at i:3902498 original size:19 final size:20
Alignment explanation
Indices: 3902463--3902500 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3902453 TTTTTTATTT
*
3902463 TTCCCAATTTTCTTTTCTTC
1 TTCCCAATTTCCTTTTCTTC
3902483 TTCCCAA-TTCCTTTTCTT
1 TTCCCAATTTCCTTTTCTT
3902501 TTTCTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.11, C:0.32, G:0.00, T:0.58
Consensus pattern (20 bp):
TTCCCAATTTCCTTTTCTTC
Found at i:3903097 original size:30 final size:31
Alignment explanation
Indices: 3903054--3903113 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
3903044 AACCTTTTTT
* *
3903054 CTTTTCCCTCAAAACTTTTACTCCT-TCCCA
1 CTTTCCCCCCAAAACTTTTACTCCTCTCCCA
3903084 CTTTCCCCCCAAAACTTTTACTCCTCTCCC
1 CTTTCCCCCCAAAACTTTTACTCCTCTCCC
3903114 CTCCCAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.18, C:0.45, G:0.00, T:0.37
Consensus pattern (31 bp):
CTTTCCCCCCAAAACTTTTACTCCTCTCCCA
Found at i:3903383 original size:16 final size:17
Alignment explanation
Indices: 3903357--3903397 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
3903347 ACTCCCCCTA
*
3903357 TTTACATTCCCTC-AAAC
1 TTTATATTCCC-CAAAAC
3903374 TTT-TATTCCCCAAAAC
1 TTTATATTCCCCAAAAC
3903390 TTTATATT
1 TTTATATT
3903398 TTTCCCCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 13 0.62
17 7 0.33
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTATATTCCCCAAAAC
Found at i:3907178 original size:20 final size:20
Alignment explanation
Indices: 3907126--3907178 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
3907116 AAAATAAAAG
* *
3907126 AAAAGAAAAGGAAATTGGGA
1 AAAAGAAGAGAAAATTGGGA
3907146 AGAATA-AAG-GAAAATTGGGA
1 A-AA-AGAAGAGAAAATTGGGA
3907166 AAAAGAAGAGAAA
1 AAAAGAAGAGAAA
3907179 CAATGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 1 0.04
19 5 0.19
20 16 0.59
21 4 0.15
22 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.09
Consensus pattern (20 bp):
AAAAGAAGAGAAAATTGGGA
Found at i:3908572 original size:13 final size:13
Alignment explanation
Indices: 3908543--3908584 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
3908533 AATGGCATAG
3908543 AAATAATATAAAC-
1 AAATAA-ATAAACA
3908556 AAATAAATAAACA
1 AAATAAATAAACA
* *
3908569 AAATTAATATACA
1 AAATAAATAAACA
3908582 AAA
1 AAA
3908585 AAAACAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAATAAACA
Found at i:3908794 original size:21 final size:21
Alignment explanation
Indices: 3908770--3908814 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3908760 TATACAAACA
3908770 AAATACATA-ATAAAAATATAT
1 AAATACATACATAAAAAT-TAT
* *
3908791 AAATATATACATATAAATTAT
1 AAATACATACATAAAAATTAT
3908812 AAA
1 AAA
3908815 ATATGCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATACATACATAAAAATTAT
Found at i:3908970 original size:30 final size:33
Alignment explanation
Indices: 3908927--3908997 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 33
3908917 AAAATAATAT
* *
3908927 ATAAATATATACATGTACAT-A-TATAAAAAA-
1 ATAATTATATACATATACATAATTATAAAAAAG
* *
3908957 ATAATTATCTACATATATATAGATTATAAAAAAG
1 ATAATTATATACATATACATA-ATTATAAAAAAG
3908991 ATAATTA
1 ATAATTA
3908998 CAAATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 16 0.48
32 1 0.03
33 9 0.27
34 7 0.21
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (33 bp):
ATAATTATATACATATACATAATTATAAAAAAG
Found at i:3909181 original size:17 final size:17
Alignment explanation
Indices: 3909159--3909202 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
3909149 TGGGAAATAA
3909159 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
3909176 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
3909193 -ATATGTATAT
1 AAAATGTATAT
3909203 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:3909338 original size:3 final size:3
Alignment explanation
Indices: 3909330--3909377 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
3909320 ATATACATAG
* * * * *
3909330 TAA TAA TAA TAA TAA TAA TAA TAA CAA CAA CAA CAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3909378 CTTAATAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (3 bp):
TAA
Found at i:3909738 original size:21 final size:21
Alignment explanation
Indices: 3909689--3909787 Score: 114
Period size: 21 Copynumber: 4.7 Consensus size: 21
3909679 AAATTAAATC
*
3909689 TCTAAGATTACA-AAATCATA
1 TCTAAGATTACATATATCATA
*
3909709 TCTTCTAAGATTACATATATTATA
1 ---TCTAAGATTACATATATCATA
*
3909733 TCTAAGATTGCATATATCATA
1 TCTAAGATTACATATATCATA
*
3909754 TCTAAGATTGC--ATATCATA
1 TCTAAGATTACATATATCATA
3909773 TCTAAGATTACATAT
1 TCTAAGATTACATAT
3909788 CCTTGAAGAT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
19 18 0.26
21 32 0.47
23 12 0.18
24 6 0.09
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (21 bp):
TCTAAGATTACATATATCATA
Found at i:3909747 original size:19 final size:19
Alignment explanation
Indices: 3909725--3909787 Score: 90
Period size: 19 Copynumber: 3.2 Consensus size: 19
3909715 AAGATTACAT
3909725 ATATTATATCTAAGATTGC
1 ATATTATATCTAAGATTGC
3909744 ATATATCATATCTAAGATTGC
1 ATAT-T-ATATCTAAGATTGC
* *
3909765 ATATCATATCTAAGATTAC
1 ATATTATATCTAAGATTGC
3909784 ATAT
1 ATAT
3909788 CCTTGAAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 21 0.52
20 1 0.03
21 18 0.45
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (19 bp):
ATATTATATCTAAGATTGC
Found at i:3910099 original size:44 final size:44
Alignment explanation
Indices: 3910048--3910155 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
3910038 GATCTGCTCT
* * *
3910048 CTGCAACTTCAGAGAGATAAAATCTGT-GATTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAAAT-TATAGACTTTAATCCGCTCCA
** * *
3910092 CTGCAACTTCAGGGAGATAGGATTATAGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAAATTATAGACTTTAATCCGCTCCA
*
3910136 CTACAACTTCAGGGAGATAA
1 CTGCAACTTCAGGGAGATAA
3910156 GATTTGTCAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.04
44 52 0.96
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAAATTATAGACTTTAATCCGCTCCA
Found at i:3910400 original size:43 final size:42
Alignment explanation
Indices: 3910347--3910479 Score: 115
Period size: 43 Copynumber: 3.0 Consensus size: 42
3910337 TATTTTCAAC
3910347 CTACTCCGCTGCCACCGAGGGAGGCAAGACTGGTGTCTTTGAT
1 CTACTCCGCTGCCACC-AGGGAGGCAAGACTGGTGTCTTTGAT
* * * * * *
3910390 CTACTTCGCTGCCGGTA-CAGGAAGGCAAGATCTGCTATCTTTAAC
1 CTACTCCGCTGCC---ACCAGGGAGGCAAGA-CTGGTGTCTTTGAT
* * * *
3910435 CTACTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGACTTTGAT
1 CTACTCCGCTGCCA-CCAGGGAGGCAAGACTGGTGTCTTTGAT
3910478 CT
1 CT
3910480 GCTTCACTTC
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
42 1 0.01
43 22 0.32
44 22 0.32
45 22 0.32
46 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (42 bp):
CTACTCCGCTGCCACCAGGGAGGCAAGACTGGTGTCTTTGAT
Found at i:3910416 original size:44 final size:44
Alignment explanation
Indices: 3910368--3910507 Score: 111
Period size: 44 Copynumber: 3.2 Consensus size: 44
3910358 CCACCGAGGG
3910368 AGGCAAGACTGGTGTCTTTGATCTACTTCGCTGCCGGTACAGGA
1 AGGCAAGACTGGTGTCTTTGATCTACTTCGCTGCCGGTACAGGA
* * * * * **** *
3910412 AGGCAAGATCTGCTATCTTTAACCTACTCCGCTG-CAACCCAGGG
1 AGGCAAGA-CTGGTGTCTTTGATCTACTTCGCTGCCGGTACAGGA
* * * * * * *
3910456 AGGCAAGGCTAGTGACTTTGATCTGCTTCACTTCCGGTACAGAA
1 AGGCAAGACTGGTGTCTTTGATCTACTTCGCTGCCGGTACAGGA
3910500 AGGCAAGA
1 AGGCAAGA
3910508 TCTTCTATCT
Statistics
Matches: 66, Mismatches: 28, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
43 15 0.23
44 31 0.47
45 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (44 bp):
AGGCAAGACTGGTGTCTTTGATCTACTTCGCTGCCGGTACAGGA
Found at i:3910436 original size:88 final size:88
Alignment explanation
Indices: 3910284--3910603 Score: 390
Period size: 88 Copynumber: 3.6 Consensus size: 88
3910274 TCAAGGCGAT
* * ** *
3910284 AAGACTGGTGTCTTTGATTTGTTTCACTGTCAGTACAGGAAGGCAAGATCTGCTAT-TTTCAACC
1 AAGACTAGTGTCTTTGATCTACTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTT-AACC
* *
3910348 TACTCCGCTGCCACCGAGGGAGGC
65 TACTCCGCTGCAACCCAGGGAGGC
* * *
3910372 AAGACTGGTGTCTTTGATCTACTTCGCTGCCGGTACAGGAAGGCAAGATCTGCTATCTTTAACCT
1 AAGACTAGTGTCTTTGATCTACTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCT
3910437 ACTCCGCTGCAACCCAGGGAGGC
66 ACTCCGCTGCAACCCAGGGAGGC
* * * * * * *
3910460 AAGGCTAGTGACTTTGATCTGCTTCACTTCCGGTACAGAAAGGCAAGATCTTCTATCTTTAACCT
1 AAGACTAGTGTCTTTGATCTACTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCT
* * *
3910525 GCTCCACTGCAACCTAGGGAGGC
66 ACTCCGCTGCAACCCAGGGAGGC
* * * * * *
3910548 AAGGCTAGTGTCTTCGATCTACTTCGCTGTCAGTGCAGGAAAGCAAGATCTGCTAT
1 AAGACTAGTGTCTTTGATCTACTTCACTGCCAGTACAGGAAGGCAAGATCTGCTAT
3910604 TTTCGATCTA
Statistics
Matches: 201, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
88 198 0.99
89 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (88 bp):
AAGACTAGTGTCTTTGATCTACTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCT
ACTCCGCTGCAACCCAGGGAGGC
Found at i:3910439 original size:45 final size:44
Alignment explanation
Indices: 3910316--3910446 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 44
3910306 TTCACTGTCA
3910316 GTACAGGAAGGCAAGATCTGCTAT-TTTCAACCTACTCCGCTGCC
1 GTACAGGAAGGCAAGATCTGCTATCTTT-AACCTACTCCGCTGCC
* * * * * *
3910360 --ACCGAGGGAGGCAAGA-CTGGTGTCTTTGATCTACTTCGCTGCC
1 GTA-C-AGGAAGGCAAGATCTGCTATCTTTAACCTACTCCGCTGCC
3910403 GGTACAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCGCTGC
1 -GTACAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCGCTGC
3910447 AACCCAGGGA
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.01
43 19 0.28
44 25 0.37
45 22 0.32
46 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (44 bp):
GTACAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCGCTGCC
Found at i:3910611 original size:45 final size:45
Alignment explanation
Indices: 3910558--3911189 Score: 410
Period size: 44 Copynumber: 14.3 Consensus size: 45
3910548 AAGGCTAGTG
* *
3910558 TCTTCGATCTACTTCGCTGTCAGTGCAGGAA-AGCAAGATCTGCTAT
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGA-CAAGATCTGCT-T
* * *
3910604 T-TTCGATCTACTTC-ATGTCAATACATGAAGACAAGATCTTCTT
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
*** * ** *
3910647 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-A
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
* ** * * * **
3910691 TCTTCGATCCACTTCGCTACCAATATAGTAAGACAAGATCTACCA
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
* * * *
3910736 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAATATCTGCTT
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
*** ** * *
3910780 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCGGC-A
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
* * ** *
3910824 TCTTTGATCCACTTC-CTACCAATATAGGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
*** ** *
3910868 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-A
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
* ** * * * **
3910912 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTACCA
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
* * *
3910957 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
* * * * * * * **
3911001 TCTTCGATCCACTTCGCT-ACTAATATAGGAAAATAGGATCTACCA
1 TCTTCGATCTACTTCGCTGTC-AATACAGGAAGACAAGATCTGCTT
* * * *
3911046 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
* *** * * * *
3911090 TCTTTGATCTACTTCGCCACCAATATAGGAATACAATATCTGC-A
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
* ** ** *
3911134 TCTTTGAT-TCACTTC-CTACCAATTTAGGAAGACAAGATCTACTT
1 TCTTCGATCT-ACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
3911178 TCTTCGATCTAC
1 TCTTCGATCTAC
3911190 CTTGCCACCA
Statistics
Matches: 470, Mismatches: 101, Indels: 32
0.78 0.17 0.05
Matches are distributed among these distances:
43 49 0.10
44 260 0.55
45 160 0.34
46 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTT
Found at i:3910696 original size:133 final size:133
Alignment explanation
Indices: 3910591--3911267 Score: 638
Period size: 133 Copynumber: 5.1 Consensus size: 133
3910581 TGCAGGAAAG
* * *
3910591 CAAGATCTGCTATTTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTTCTTTCTTCGATC
1 CAAGATCTGCTATTTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATC
* *
3910656 TACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGTA
66 TACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGA
3910721 AGA
131 AGA
* * * *
3910724 CAAGATCTACCATCTTCGATCTACTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATC
1 CAAGATCTGCTATTTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATC
* *
3910789 TACTTCGCCACCAATATGGGAAGACAAGATCGGCATCTTTGATCCACTTC-CTACCAATATAGGA
66 TACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGA
3910853 AGA
131 AGA
* * *** *
3910856 CAAGATCTGCT-TTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGA
1 CAAGATCTGCTATT-TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGA
* * * * * * * * *
3910919 TCCACTTCGCTACCAATATAGGAAGACAGGATCTACCATCTTCGATCTACTTCAC-GCCAATACA
64 TCTACTTCGCCACCAATATGGGAAGACAAGATCT-GCATCTTCGATCCACTTCGCTACCAATATA
*
3910983 TGAAGA
128 GGAAGA
* * * * * * * * * * **
3910989 CAAGATCTGCT-TTCTTCGATCCACTTCGCTACTAATATAGGAAAATAGGATCTACCATCTTCGA
1 CAAGATCTGCTATT-TTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGA
* * *** * * * * *
3911053 TCTACTTC-ACGCCAATACATGAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAATATA
64 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATA
*
3911117 GGAATA
128 GGAAGA
* * ** * *
3911123 CAATATCTGC-ATCTTT-GAT-TCACTTC-CTACCAATTTAGGAAGACAAGATCTACTTTCTTCG
1 CAAGATCTGCTAT-TTTCGATCT-ACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCG
* * *
3911184 ATCTACCTT-GCCACCAATATGGGAAGATAAGATCTCCATCTTCAATCCACTTCGCTACCAATAT
63 ATCTA-CTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATAT
3911248 AGGAAGA
127 AGGAAGA
* *
3911255 CAGGATCTACTAT
1 CAAGATCTGCTAT
3911268 CTTCACAGAT
Statistics
Matches: 450, Mismatches: 80, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
131 1 0.00
132 144 0.32
133 265 0.59
134 39 0.09
135 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (133 bp):
CAAGATCTGCTATTTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATC
TACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGA
AGA
Found at i:3910715 original size:89 final size:89
Alignment explanation
Indices: 3910591--3911271 Score: 653
Period size: 89 Copynumber: 7.7 Consensus size: 89
3910581 TGCAGGAAAG
* * ** * * * *
3910591 CAAGATCTGCTATTTTCGATCTACTTC-ATGTCAATACATGAAGACAAGATCTTCTTTCTTCGAT
1 CAAGATCTGC-ATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTCGAT
* *
3910655 CTACTTCGCCACCAGTATGGGAAGA
65 CTACTTCGCCACCAATATAGGAAGA
* * *
3910680 CAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGTAAGACAAGATCTACCATCTTCGATC
1 CAAGATCTGCATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTCGATC
* * * *
3910745 TACTTC-ACGCCAATACATGAAGA
66 TACTTCGCCACCAATATAGGAAGA
* * * * ** *
3910768 CAATATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCGGC-ATCTTTGAT
1 CAAGATCTGC-ATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTCGAT
* *
3910832 CCACTTC-CTACCAATATAGGAAGA
65 CTACTTCGCCACCAATATAGGAAGA
* * * *
3910856 CAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGAT
1 CAAGATCTGC-ATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTCGAT
* *
3910920 CCACTTCGCTACCAATATAGGAAGA
65 CTACTTCGCCACCAATATAGGAAGA
* * * * * * * *
3910945 CAGGATCTACCATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGAT
1 CAAGATCT-GCATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTCGAT
* * * *
3911009 CCACTTCGCTACTAATATAGGAAAA
65 CTACTTCGCCACCAATATAGGAAGA
* * * * * * * * *
3911034 TAGGATCTACCATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTACTTTCTTTGAT
1 CAAGATCT-GCATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTCGAT
*
3911098 CTACTTCGCCACCAATATAGGAATA
65 CTACTTCGCCACCAATATAGGAAGA
* * * *
3911123 CAATATCTGCATCTTTGAT-TCACTTC-CTACCAATTTAGGAAGACAAGATCTACTTTCTTCGAT
1 CAAGATCTGCATCTTCGATCT-ACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTCGAT
*
3911186 CTACCTT-GCCACCAATATGGGAAGA
65 CTA-CTTCGCCACCAATATAGGAAGA
* * * * *
3911211 TAAGATCTCCATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATCTACTATCTTC
1 CAAGATCTGCATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTC
3911272 ACAGATCTGC
Statistics
Matches: 508, Mismatches: 74, Indels: 20
0.84 0.12 0.03
Matches are distributed among these distances:
87 2 0.00
88 231 0.45
89 274 0.54
90 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (89 bp):
CAAGATCTGCATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTACTATCTTCGATC
TACTTCGCCACCAATATAGGAAGA
Found at i:3910886 original size:221 final size:222
Alignment explanation
Indices: 3910584--3911271 Score: 864
Period size: 221 Copynumber: 3.1 Consensus size: 222
3910574 CTGTCAGTGC
* * * * * *** * *
3910584 AGGAAAGCAAGATCTGCTATTTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTTCTTTC
1 AGGAAAACAAGATCTACCATCTTCGATCCACTTCACACCAATACAGGAAGACAAGATCTACTTTC
*
3910649 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAA
66 TTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAA
* *
3910714 TATAGTAAGACAAGATCTACCATCTTCGATCTACTTCACGCCAATACATGAAGACAATATCTGCT
131 TATAGGAAGACAAGATCTACCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
*
3910779 TTCTTCGATCTACTTCGCCACCAATAT
196 TTCTTCGATCCACTTCGCCACCAATAT
* * ** * * *
3910806 GGGAAGACAAGATC-GGCATCTTTGATCCACTTC-CTACCAATATAGGAAGACAAGATCTGCTTT
1 AGGAAAACAAGATCTACCATCTTCGATCCACTTCAC-ACCAATACAGGAAGACAAGATCTACTTT
3910869 CTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCA
65 CTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCA
*
3910934 ATATAGGAAGACAGGATCTACCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
130 ATATAGGAAGACAAGATCTACCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* *
3910999 TTTCTTCGATCCACTTCGCTACTAATAT
195 TTTCTTCGATCCACTTCGCCACCAATAT
* * * * *
3911027 AGGAAAATAGGATCTACCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTC
1 AGGAAAACAAGATCTACCATCTTCGATCCACTTCACACCAATACAGGAAGACAAGATCTACTTTC
* * * * * *
3911092 TTTGATCTACTTCGCCACCAATATAGGAATACAATATCTGCATCTTTGATTCACTTC-CTACCAA
66 TTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAA
* ** * *** *
3911156 TTTAGGAAGACAAGATCTACTTTCTTCGATCTACCTTGC-CACCAATATGGGAAGATAAGATCT-
131 TATAGGAAGACAAGATCTACCATCTTCGATCTA-CTT-CACGCCAATACATGAAGACAAGATCTG
** * *
3911219 CCATCTTCAATCCACTTCGCTACCAATAT
194 CTTTCTTCGATCCACTTCGCCACCAATAT
* * *
3911248 AGGAAGACAGGATCTACTATCTTC
1 AGGAAAACAAGATCTACCATCTTC
3911272 ACAGATCTGC
Statistics
Matches: 406, Mismatches: 55, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
221 280 0.69
222 124 0.31
223 2 0.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (222 bp):
AGGAAAACAAGATCTACCATCTTCGATCCACTTCACACCAATACAGGAAGACAAGATCTACTTTC
TTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAA
TATAGGAAGACAAGATCTACCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
TTCTTCGATCCACTTCGCCACCAATAT
Found at i:3911007 original size:310 final size:309
Alignment explanation
Indices: 3910675--3911271 Score: 989
Period size: 310 Copynumber: 1.9 Consensus size: 309
3910665 ACCAGTATGG
* *
3910675 GAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGTAAGACAAGATCTACCATCTT
1 GAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAAACAAGATCTACCATCTT
* *
3910740 CGATCTACTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAATA
66 CGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAATA
* *
3910805 TGGGAAGACAAGATCGGCATCTTTGATCCACTTCCTACCAATATAGGAAGACAAGATCTGCTTTC
131 TAGGAAGACAAGATCGGCATCTTTGATCCACTTCCTACCAATATAGGAAGACAAGATCTACTTTC
* *
3910870 TTCGATCTA-CTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCA
196 TTCGATCTACCTT-GCCACCAATATGGGAAGACAAGATCTCCATCTTCAATCCACTTCGCTACCA
3910934 ATATAGGAAGACAGGATCTACCATCTTCGATCTACTTCACGCCAATACAT
260 ATATAGGAAGACAGGATCTACCATCTTCGATCTACTTCACGCCAATACAT
* * * *
3910984 GAAGACAAGATCTGCTTTCTTCGATCCACTTCGCTACTAATATAGGAAAATAGGATCTACCATCT
1 GAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAAACAAGATCTACCATCT
*
3911049 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAAT
65 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAAT
* * * * *
3911114 ATAGGAATACAATATCTGCATCTTTGATTCACTTCCTACCAATTTAGGAAGACAAGATCTACTTT
130 ATAGGAAGACAAGATCGGCATCTTTGATCCACTTCCTACCAATATAGGAAGACAAGATCTACTTT
*
3911179 CTTCGATCTACCTTGCCACCAATATGGGAAGATAAGATCTCCATCTTCAATCCACTTCGCTACCA
195 CTTCGATCTACCTTGCCACCAATATGGGAAGACAAGATCTCCATCTTCAATCCACTTCGCTACCA
*
3911244 ATATAGGAAGACAGGATCTACTATCTTC
260 ATATAGGAAGACAGGATCTACCATCTTC
3911272 ACAGATCTGC
Statistics
Matches: 266, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
309 15 0.06
310 248 0.93
311 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (309 bp):
GAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAAACAAGATCTACCATCTT
CGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAATA
TAGGAAGACAAGATCGGCATCTTTGATCCACTTCCTACCAATATAGGAAGACAAGATCTACTTTC
TTCGATCTACCTTGCCACCAATATGGGAAGACAAGATCTCCATCTTCAATCCACTTCGCTACCAA
TATAGGAAGACAGGATCTACCATCTTCGATCTACTTCACGCCAATACAT
Found at i:3912284 original size:13 final size:13
Alignment explanation
Indices: 3912266--3912290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3912256 TATTTTAATA
3912266 TTATTTTGTGTGT
1 TTATTTTGTGTGT
3912279 TTATTTTGTGTG
1 TTATTTTGTGTG
3912291 CATTCGATGG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:3914028 original size:41 final size:41
Alignment explanation
Indices: 3913821--3914017 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
3913811 TTTATCGTTA
* * * *
3913821 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
3913862 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
3913903 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
3913944 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
3913985 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
3914018 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:3914288 original size:33 final size:32
Alignment explanation
Indices: 3914232--3914295 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
3914222 ATAGATATGT
3914232 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
3914264 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
3914296 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:3914312 original size:33 final size:33
Alignment explanation
Indices: 3914239--3914312 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
3914229 TGTATATATA
* * **
3914239 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
3914271 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
3914304 TGTATGTAT
1 TATATGTAT
3914313 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:3921699 original size:41 final size:41
Alignment explanation
Indices: 3921492--3921688 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
3921482 TTTATCGTTA
* * * *
3921492 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
3921533 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
3921574 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
3921615 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
3921656 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
3921689 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:3921958 original size:32 final size:31
Alignment explanation
Indices: 3921903--3921966 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
3921893 ATAGATATGT
3921903 ATATATATATATGTTGCATTCGGCATAGGTG
1 ATATATATATATGTTGCATTCGGCATAGGTG
* *
3921934 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
3921966 A
1 A
3921967 AAATAAGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.39
Consensus pattern (31 bp):
ATATATATATATGTTGCATTCGGCATAGGTG
Found at i:3923034 original size:12 final size:12
Alignment explanation
Indices: 3923018--3923066 Score: 73
Period size: 12 Copynumber: 4.0 Consensus size: 12
3923008 TTGGCCTCTC
3923018 CTTTTTCTTTTTT
1 CTTTTT-TTTTTT
3923031 -TTTTTTGTTTTT
1 CTTTTTT-TTTTT
3923043 CTTTTTTTTTTT
1 CTTTTTTTTTTT
3923055 CTTTTTTTTTTT
1 CTTTTTTTTTTT
3923067 GAAATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.03
12 27 0.79
13 6 0.18
ACGTcount: A:0.00, C:0.08, G:0.02, T:0.90
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:3923041 original size:19 final size:19
Alignment explanation
Indices: 3923019--3923066 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
3923009 TGGCCTCTCC
3923019 TTTTTCTTTTTTTTTTT-T
1 TTTTTCTTTTTTTTTTTCT
3923037 GTTTTTCTTTTTTTTTTTCT
1 -TTTTTCTTTTTTTTTTTCT
3923057 TTTTT-TTTTT
1 TTTTTCTTTTT
3923067 GAAATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.18
19 22 0.79
20 1 0.04
ACGTcount: A:0.00, C:0.06, G:0.02, T:0.92
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTTCT
Found at i:3923079 original size:1 final size:1
Alignment explanation
Indices: 3923019--3923066 Score: 60
Period size: 1 Copynumber: 48.0 Consensus size: 1
3923009 TGGCCTCTCC
* * * *
3923019 TTTTTCTTTTTTTTTTTTGTTTTTCTTTTTTTTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3923067 GAAATATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.06, G:0.02, T:0.92
Consensus pattern (1 bp):
T
Found at i:3926832 original size:13 final size:13
Alignment explanation
Indices: 3926803--3926844 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
3926793 AATGGCATAG
3926803 AAATAATATAAAC-
1 AAATAA-ATAAACA
3926816 AAATAAATAAACA
1 AAATAAATAAACA
* *
3926829 AAATTAATATACA
1 AAATAAATAAACA
3926842 AAA
1 AAA
3926845 AACACAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAATAAACA
Found at i:3927435 original size:17 final size:17
Alignment explanation
Indices: 3927413--3927456 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
3927403 TGGGAAATAA
3927413 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
3927430 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
3927447 -ATATGTATAT
1 AAAATGTATAT
3927457 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:3927589 original size:3 final size:3
Alignment explanation
Indices: 3927581--3927640 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
3927571 ATATACATAG
* * *
3927581 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA CAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3927629 CAA TAA TAA TAA
1 TAA TAA TAA TAA
3927641 ACACTTAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:3928007 original size:21 final size:19
Alignment explanation
Indices: 3927981--3928035 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
3927971 AATAATATCT
3927981 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATA--ATA
3928002 TCTAAGATTGCATATAATA
1 TCTAAGATTGCATATAATA
*
3928021 TCTAAGATTACATAT
1 TCTAAGATTGCATAT
3928036 CCTTAAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 17 0.52
21 16 0.48
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATAATA
Found at i:3928022 original size:24 final size:20
Alignment explanation
Indices: 3927972--3928015 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
3927962 ATATTACAAA
3927972 ATAATATCTTCTAAGATTGC
1 ATAATATCTTCTAAGATTGC
3927992 AT-ATATCATATCTAAGATTGC
1 ATAATATC-T-TCTAAGATTGC
3928013 ATA
1 ATA
3928016 TAATATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.24
20 3 0.14
21 13 0.62
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (20 bp):
ATAATATCTTCTAAGATTGC
Found at i:3930190 original size:21 final size:20
Alignment explanation
Indices: 3930163--3930217 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
3930153 CTAGTCTAAC
3930163 TAAGGTTTTGTTGTTCCA-TA
1 TAAGGTTTT-TTGTTCCATTA
3930183 TGAAGGTTCTTTTGTTCCATTA
1 T-AAGGTT-TTTTGTTCCATTA
*
3930205 TAAGGTTTCTTGT
1 TAAGGTTTTTTGT
3930218 CTTATTTCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 6 0.19
21 20 0.65
22 5 0.16
ACGTcount: A:0.18, C:0.11, G:0.20, T:0.51
Consensus pattern (20 bp):
TAAGGTTTTTTGTTCCATTA
Found at i:3930828 original size:30 final size:30
Alignment explanation
Indices: 3930793--3930852 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
3930783 GTCATGTTTT
**
3930793 ATTTTAATTCTGTTTGAATAGATATTTAAA
1 ATTTTAATTAGGTTTGAATAGATATTTAAA
* *
3930823 ATTTTAATTAGGTTTGAATTGCTATTTAAA
1 ATTTTAATTAGGTTTGAATAGATATTTAAA
3930853 TCAAATTGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (30 bp):
ATTTTAATTAGGTTTGAATAGATATTTAAA
Found at i:3944678 original size:50 final size:50
Alignment explanation
Indices: 3944556--3945095 Score: 262
Period size: 50 Copynumber: 10.9 Consensus size: 50
3944546 GTAACCATAG
* * * * * *
3944556 ATTGCAATTTAAAAGATTC-AAGCTACAACAGCGAATCTCACCTCCCTGGC
1 ATTGCAGTTTAAAAGA-TCGAAGCCACAACAGCGAATCTTACTTCCCCGAC
* * ** * * * * *
3944606 AATGTAGTGGAACAGATTGAAGCTACAACAGCGGATCATACTTCCCCGAC
1 ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCCGAC
* ** *
3944656 ATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTACCTT--TAGGC
1 ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTA-CTTCCCCGAC
**** * * *
3944705 GA-TGCAACGGAACAGATTGAAGCCACAACAGCGAATCTTGCTTCCCCGAC
1 -ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCCGAC
* ** *
3944755 ATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTACCTT--TAGGC
1 ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTA-CTTCCCCGAC
**** * * * *
3944804 GA-TGCAACAGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGAC
1 -ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCCGAC
* ** *
3944854 ATTGCAGTTTAAAAGATCGAAGCCAC-ACGGCGAATCTTACCTT--TAGGC
1 ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTA-CTTCCCCGAC
**** * * * * * *
3944902 GA-TGCAACGGAACATATTGAAGCTACAACAGCGAATCTTGCTTCCCCAAC
1 -ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCCGAC
* * *
3944952 ATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTACCTT--CAGGC
1 ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTA-CTTCCCCGAC
* **** * * * * * *
3945001 GA-TGAAACGGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCTCGAC
1 -ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCCGAC
* * * * *
3945051 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTTATTTCC
1 ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTACTTCC
3945096 TCAACGGGAC
Statistics
Matches: 346, Mismatches: 122, Indels: 44
0.68 0.24 0.09
Matches are distributed among these distances:
48 30 0.09
49 120 0.35
50 187 0.54
51 9 0.03
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (50 bp):
ATTGCAGTTTAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCCGAC
Found at i:3944749 original size:99 final size:99
Alignment explanation
Indices: 3944614--3945090 Score: 821
Period size: 99 Copynumber: 4.8 Consensus size: 99
3944604 GCAATGTAGT
* * *
3944614 GGAACAGATTGAAGCTACAACAGCGGATCATACTTCCCCGACATTGCAGTTTAAAAGATCGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGC
3944679 CACAACGGCGAATCTTACCTTTAGGCGATGCAAC
66 CACAACGGCGAATCTTACCTTTAGGCGATGCAAC
*
3944713 GGAACAGATTGAAGCCACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGC
3944778 CACAACGGCGAATCTTACCTTTAGGCGATGCAAC
66 CACAACGGCGAATCTTACCTTTAGGCGATGCAAC
*
3944812 AGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGC
3944877 CAC-ACGGCGAATCTTACCTTTAGGCGATGCAAC
66 CACAACGGCGAATCTTACCTTTAGGCGATGCAAC
* *
3944910 GGAACATATTGAAGCTACAACAGCGAATCTTGCTTCCCCAACATTGCAGTTTAAAAGATCGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGC
* *
3944975 CACAACGGCGAATCTTACCTTCAGGCGATGAAAC
66 CACAACGGCGAATCTTACCTTTAGGCGATGCAAC
* * * *
3945009 GGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCTCGACATTGCAATTTAAAAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGC
*
3945074 TACAACGGCGAATCTTA
66 CACAACGGCGAATCTTA
3945091 TTTCCTCAAC
Statistics
Matches: 359, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
98 95 0.26
99 264 0.74
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (99 bp):
GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGC
CACAACGGCGAATCTTACCTTTAGGCGATGCAAC
Found at i:3944956 original size:197 final size:198
Alignment explanation
Indices: 3944615--3945090 Score: 819
Period size: 197 Copynumber: 2.4 Consensus size: 198
3944605 CAATGTAGTG
* * *
3944615 GAACAGATTGAAGCTACAACAGCGGATCATACTTCCCCGACATTGCAGTTTAAAAGATCGAAGCC
1 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGCC
3944680 ACAACGGCGAATCTTACCTTTAGGCGATGCAACGGAACAGATTGAAGCCACAACAGCGAATCTTG
66 ACAACGGCGAATCTTACCTTTAGGCGATGCAACGGAACAGATTGAAGCCACAACAGCGAATCTTG
* * *
3944745 CTTCCCCGACATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTACCTTTAGGCGATGCA
131 CTTCCCCAACATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTACCTTCAGGCGATGAA
3944810 ACA
196 ACA
3944813 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGCC
1 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGCC
* *
3944878 AC-ACGGCGAATCTTACCTTTAGGCGATGCAACGGAACATATTGAAGCTACAACAGCGAATCTTG
66 ACAACGGCGAATCTTACCTTTAGGCGATGCAACGGAACAGATTGAAGCCACAACAGCGAATCTTG
3944942 CTTCCCCAACATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTACCTTCAGGCGATGAA
131 CTTCCCCAACATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTACCTTCAGGCGATGAA
*
3945007 ACG
196 ACA
* * * * *
3945010 GAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCTCGACATTGCAATTTAAAAGATTGAAGCT
1 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGCC
3945075 ACAACGGCGAATCTTA
66 ACAACGGCGAATCTTA
3945091 TTTCCTCAAC
Statistics
Matches: 263, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
197 186 0.71
198 77 0.29
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (198 bp):
GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTTAAAAGATCGAAGCC
ACAACGGCGAATCTTACCTTTAGGCGATGCAACGGAACAGATTGAAGCCACAACAGCGAATCTTG
CTTCCCCAACATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTACCTTCAGGCGATGAA
ACA
Found at i:3946414 original size:11 final size:12
Alignment explanation
Indices: 3946400--3946428 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
3946390 TGAATTAATA
3946400 ATATTATTATT-
1 ATATTATTATTG
3946411 ATATTATTATTG
1 ATATTATTATTG
3946423 ATATTA
1 ATATTA
3946429 CGATCAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (12 bp):
ATATTATTATTG
Done.