Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 13 of 168
Found at i:3579022 original size:18 final size:18
Alignment explanation
Indices: 3578985--3579038 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
3578975 ATAACAAAAC
*
3578985 AATTCAAAATAATTTTTAA
1 AATTCAAAAT-ATTTATAA
3579004 AATTCAAAATATTTATAA
1 AATTCAAAATATTTATAA
*
3579022 AAGTTCCAAA-ATTTATA
1 AA-TTCAAAATATTTATA
3579039 TTTTTTTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (18 bp):
AATTCAAAATATTTATAA
Found at i:3579677 original size:19 final size:19
Alignment explanation
Indices: 3579653--3579690 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3579643 CACCGTAATG
3579653 TTGGCTTAATACCTTTCTT
1 TTGGCTTAATACCTTTCTT
3579672 TTGGCTTAATACCTTTCTT
1 TTGGCTTAATACCTTTCTT
3579691 GGATGAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.11, T:0.53
Consensus pattern (19 bp):
TTGGCTTAATACCTTTCTT
Found at i:3583036 original size:21 final size:22
Alignment explanation
Indices: 3583012--3583059 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 22
3583002 ATAAAAATGC
3583012 AAAAAAAATCCC-TAATATT-TT
1 AAAAAAAA-CCCATAATATTCTT
3583033 AAAAAAAACCCATAATATTCTT
1 AAAAAAAACCCATAATATTCTT
3583055 AAAAA
1 AAAAA
3583060 TATTCATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 3 0.12
21 15 0.60
22 7 0.28
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAAAAAACCCATAATATTCTT
Found at i:3583712 original size:14 final size:17
Alignment explanation
Indices: 3583686--3583726 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
3583676 GAGTTGACAA
*
3583686 ATAATAAATAAAAAAT-T
1 ATAATAAA-AAAGAATGT
3583703 A-AATAAAAAAGAATGT
1 ATAATAAAAAAGAATGT
3583719 ATAATAAA
1 ATAATAAA
3583727 TTTTAAGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 8 0.38
17 7 0.33
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (17 bp):
ATAATAAAAAAGAATGT
Found at i:3590999 original size:22 final size:22
Alignment explanation
Indices: 3590960--3591004 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
3590950 AAGTTGGTCC
3590960 TTAAAATTCAAAATATT-ATAT
1 TTAAAATTCAAAATATTAATAT
* *
3590981 TTAAATATTTAAAGTATTAATAT
1 TTAAA-ATTCAAAATATTAATAT
3591004 T
1 T
3591005 GCACCAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TTAAAATTCAAAATATTAATAT
Found at i:3605921 original size:22 final size:22
Alignment explanation
Indices: 3605896--3605937 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3605886 GTGATTGACT
*
3605896 GCGAAAAATCCAATAGGAAACC
1 GCGAAAAATCCAATAAGAAACC
*
3605918 GCGAAAAATCGAATAAGAAA
1 GCGAAAAATCCAATAAGAAA
3605938 AGTAAAGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.17, G:0.19, T:0.10
Consensus pattern (22 bp):
GCGAAAAATCCAATAAGAAACC
Found at i:3608849 original size:36 final size:36
Alignment explanation
Indices: 3608785--3609055 Score: 267
Period size: 36 Copynumber: 7.0 Consensus size: 36
3608775 TATGTATGAT
* *
3608785 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
* *
3608819 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
3608855 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GT-G-T--AG
* * *
3608897 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTATAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
3608937 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GT-G-T--AG
* *
3608979 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
3609019 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
3609055 C
1 C
3609056 TAAAGCTACT
Statistics
Matches: 199, Mismatches: 16, Indels: 42
0.77 0.06 0.16
Matches are distributed among these distances:
34 10 0.05
35 4 0.02
36 109 0.55
38 4 0.02
40 6 0.03
42 5 0.03
43 1 0.01
44 4 0.02
46 56 0.28
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
Found at i:3608906 original size:46 final size:46
Alignment explanation
Indices: 3608855--3609091 Score: 271
Period size: 46 Copynumber: 5.6 Consensus size: 46
3608845 ATAAGTATAA
3608855 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
3608901 CACTTATCACTTTGTCTCTTGATCAGATAA--GTA--T--AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
3608937 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
3608983 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
3609019 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
3609065 TACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
3609092 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 11, Indels: 40
0.76 0.05 0.19
Matches are distributed among these distances:
36 56 0.35
38 5 0.03
39 1 0.01
40 6 0.04
42 6 0.04
43 1 0.01
44 5 0.03
46 80 0.50
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:3608912 original size:82 final size:82
Alignment explanation
Indices: 3608819--3609091 Score: 492
Period size: 82 Copynumber: 3.3 Consensus size: 82
3608809 ATAAGTGTAG
* * *
3608819 CACTTATCACTTTTTCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
3608884 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
3608901 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
3608966 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
*
3608983 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
3609048 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
* *
3609065 TACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCTCTTGATCAGA
3609092 AGTACTCAAA
Statistics
Matches: 185, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 185 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
AGTGTAGCTAAAGCTAC
Found at i:3611147 original size:21 final size:21
Alignment explanation
Indices: 3611123--3611164 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3611113 CTTTTTGTTC
*
3611123 AATTAATTATCGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
**
3611144 AATTTCTTAACGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
3611165 TACTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTAATTAACGAAACTTTAA
Found at i:3617473 original size:29 final size:29
Alignment explanation
Indices: 3617441--3617602 Score: 73
Period size: 29 Copynumber: 5.7 Consensus size: 29
3617431 AAAATGAAAC
3617441 ACCTTTATGGAAAAACTCTGGAAAGGTAA
1 ACCTTTATGGAAAAACTCTGGAAAGGTAA
* *** * * * *
3617470 ACCTTT-TAGTGTACCT-TTGAATGGAAA
1 ACCTTTATGGAAAAACTCTGGAAAGGTAA
*
3617497 AGCCTTCAT-GACAAAA-TCTGGAAAGGTAA
1 A-CCTTTATGGA-AAAACTCTGGAAAGGTAA
* * ** * * * *
3617526 GCCTTTGTGGTGAACCTCT-AAAAAGAAA
1 ACCTTTATGGAAAAACTCTGGAAAGGTAA
* *
3617554 CACCTTTGTGGCAAAACTCTGGAAAGGTAA
1 -ACCTTTATGGAAAAACTCTGGAAAGGTAA
* *
3617584 GCCTTTATGGCAAAACTCT
1 ACCTTTATGGAAAAACTCT
3617603 AAAAGGAAAC
Statistics
Matches: 91, Mismatches: 34, Indels: 16
0.65 0.24 0.11
Matches are distributed among these distances:
27 9 0.10
28 24 0.26
29 52 0.57
30 6 0.07
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (29 bp):
ACCTTTATGGAAAAACTCTGGAAAGGTAA
Found at i:3617581 original size:58 final size:57
Alignment explanation
Indices: 3617425--3617626 Score: 219
Period size: 58 Copynumber: 3.5 Consensus size: 57
3617415 CACCTAAAAC
* * * * *
3617425 ACCTCTAAAATGAAACACCTTTATGGAAAAACTCTGGAAAGGTAAACCTTTTAGTGT
1 ACCTCTAAAAGGAAACACCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTTTGGTGA
* * * * *
3617482 ACCTTTGAATGGAAA-AGCCTTCATGACAAAA-TCTGGAAAGGTAAGCCTTTGTGGTGA
1 ACCTCTAAAAGGAAACA-CCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTT-TGGTGA
* * **
3617539 ACCTCTAAAAAGAAACACCTTTGTGGCAAAACTCTGGAAAGGTAAGCCTTTATGGCAA
1 ACCTCTAAAAGGAAACACCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTT-TGGTGA
* *
3617597 AACTCTAAAAGGAAACGCCTTTATGGCAAA
1 ACCTCTAAAAGGAAACACCTTTATGGCAAA
3617627 TTTCTGTCAA
Statistics
Matches: 117, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
56 19 0.16
57 48 0.41
58 50 0.43
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (57 bp):
ACCTCTAAAAGGAAACACCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTTTGGTGA
Found at i:3617616 original size:29 final size:29
Alignment explanation
Indices: 3617541--3617626 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 29
3617531 TGTGGTGAAC
* * *
3617541 CTCTAAAAAGAAACACCTTTGTGGCAAAA
1 CTCTAAAAGGAAACGCCTTTATGGCAAAA
* *
3617570 CTCTGGAAAGGTAA-GCCTTTATGGCAAAA
1 CTCT-AAAAGGAAACGCCTTTATGGCAAAA
3617599 CTCTAAAAGGAAACGCCTTTATGGCAAA
1 CTCTAAAAGGAAACGCCTTTATGGCAAA
3617627 TTTCTGTCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 7 0.15
29 35 0.73
30 6 0.12
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.22
Consensus pattern (29 bp):
CTCTAAAAGGAAACGCCTTTATGGCAAAA
Found at i:3618948 original size:27 final size:26
Alignment explanation
Indices: 3618926--3619218 Score: 293
Period size: 27 Copynumber: 11.0 Consensus size: 26
3618916 GTGTATAATA
3618926 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTT-G
* *
3618953 GTCATTTTACTCTATTGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTT-G
* * * *
3618980 ATCGTTCTACCCTAT-GGAGTATTTTG
1 GTCATTTTACCCTATGGGGGTA-TTTG
* * *
3619006 GTCATTCTACCCTATAGGGTTATTTCG
1 GTCATTTTACCCTATGGGGGTATTT-G
* *
3619033 GTCATTTTATCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTT-G
3619060 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTA-TTTG
* * *
3619087 ATCATTTTACCTTATGGGGGTTATTCG
1 GTCATTTTACCCTATGGGGG-TATTTG
* * * *
3619114 TTCATTCTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTT-G
*
3619141 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTT-G
*
3619168 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTT-G
*
3619195 GTCATTCTACCCTAT-GGGGTATTT
1 GTCATTTTACCCTATGGGGGTATTT
3619219 CGGTTATAAT
Statistics
Matches: 226, Mismatches: 34, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
26 35 0.15
27 186 0.82
28 5 0.02
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGGTATTTG
Found at i:3618995 original size:54 final size:54
Alignment explanation
Indices: 3618927--3619222 Score: 357
Period size: 54 Copynumber: 5.5 Consensus size: 54
3618917 TGTATAATAG
* * *
3618927 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACTCTATTGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
* * * * * * *
3618981 TCGTTCTACCCTAT-GGAGTATTTTGGTCATTCTACCCTATAGGGTTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
* * * *
3619034 TCATTTTATCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGA
1 TCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
* * * * *
3619088 TCATTTTACCTTATGGGGGT-TATTCGTTCATTCTACCCTATGAGGGTATTTC-A
1 TCATTCTACCCTATGGGGGTAT-TTCGGTCATTTTACCCTATGGGGGTATTTCGA
* *
3619141 GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGG
1 -TCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
3619196 TCATTCTACCCTAT-GGGGTATTTCGGT
1 TCATTCTACCCTATGGGGGTATTTCGGT
3619223 TATAATAGTG
Statistics
Matches: 203, Mismatches: 34, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
53 57 0.28
54 145 0.71
55 1 0.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (54 bp):
TCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
Found at i:3619128 original size:81 final size:81
Alignment explanation
Indices: 3618927--3619219 Score: 396
Period size: 81 Copynumber: 3.6 Consensus size: 81
3618917 TGTATAATAG
* * * *
3618927 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACTCTATTGGGGTATTTC-GATCGTTCTACC
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCAG-TCATTCTACC
* *
3618991 CTAT-GGAGTATTTTGG
65 CTATGGGGGTATTTTGA
* * * * * *
3619007 TCATTCTACCCTATAGGGTTATTTCGGTCATTTTATCCTATGGGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCAGTCATTCTACCC
3619072 TATGGGGGTATTTTGA
66 TATGGGGGTATTTTGA
* * *
3619088 TCATTTTACCTTATGGGGGT-TATTCGTTCATTCTACCCTATGAGGGTATTTCAGTCATTCTACC
1 TCATTTTACCCTATGGGGGTAT-TTCGGTCATTCTACCCTATGGGGGTATTTCAGTCATTCTACC
*
3619152 CTATGGGGGTATTTCGA
65 CTATGGGGGTATTTTGA
3619169 TCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTAT-GGGGTATTTC
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTC
3619220 GGTTATAATA
Statistics
Matches: 186, Mismatches: 23, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
80 68 0.37
81 117 0.63
82 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCAGTCATTCTACCC
TATGGGGGTATTTTGA
Found at i:3628808 original size:9 final size:8
Alignment explanation
Indices: 3628786--3628898 Score: 58
Period size: 9 Copynumber: 13.9 Consensus size: 8
3628776 TTTTTTCCCT
3628786 TTTTATT-
1 TTTTATTA
3628793 TATTTATTA
1 T-TTTATTA
3628802 TTCTTATTTA
1 TT-TTA-TTA
3628812 TTTTTATTA
1 -TTTTATTA
3628821 TATTTATTA
1 T-TTTATTA
** *
3628830 TCCT-TTG
1 TTTTATTA
*
3628837 TTTTCTTA
1 TTTTATTA
3628845 -TTT-TTA
1 TTTTATTA
*
3628851 TTTTTTTA
1 TTTTATTA
3628859 TTCTTATTA
1 TT-TTATTA
3628868 TGTTTATTA
1 T-TTTATTA
3628877 -TTTATTA
1 TTTTATTA
*
3628884 TTAT-TTA
1 TTTTATTA
3628891 TTCTTATT
1 TT-TTATT
3628899 TTAGCTATCG
Statistics
Matches: 83, Mismatches: 9, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
6 3 0.04
7 23 0.28
8 19 0.23
9 29 0.35
10 7 0.08
11 2 0.02
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTTATTA
Found at i:3628980 original size:3 final size:3
Alignment explanation
Indices: 3628960--3629035 Score: 59
Period size: 3 Copynumber: 25.0 Consensus size: 3
3628950 TTGTGTTGAT
*
3628960 TTA TTA TT- TTCA TGTA TTA TTA TTA TTA TTA TTA TTA TT- TTC TTA
1 TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
3629005 TTA CTTA GTT- TTA TTT TTG TTA TGA TTA TTA
1 TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
3629036 GTCATTTTGG
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
2 6 0.10
3 45 0.75
4 8 0.13
5 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3629296 original size:40 final size:39
Alignment explanation
Indices: 3629255--3629366 Score: 161
Period size: 40 Copynumber: 2.8 Consensus size: 39
3629245 TAAATACTTT
*
3629255 AAATACTTTTAAAATACTTTTATTAAATTTTTTAAATTTTA
1 AAATATTTTTAAAATACTTTT-TT-AATTTTTTAAATTTTA
* *
3629296 AAATTTTTTTTAAAATACTTTTTTAATTTTTTTAATTTTA
1 AAA-TATTTTTAAAATACTTTTTTAATTTTTTAAATTTTA
3629336 AAATATTTTTAAAATACTTTTTTTAATTTTT
1 AAATATTTTTAAAATAC-TTTTTTAATTTTT
3629367 ATTTTAATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
39 13 0.20
40 31 0.48
41 5 0.08
42 16 0.25
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (39 bp):
AAATATTTTTAAAATACTTTTTTAATTTTTTAAATTTTA
Found at i:3629356 original size:28 final size:28
Alignment explanation
Indices: 3629303--3629356 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
3629293 TTAAAATTTT
* **
3629303 TTTTAAAATACTTTTTTAATTTTTTTAA
1 TTTTAAAATACTTTTTAAATACTTTTAA
3629331 TTTTAAAATA-TTTTTAAAATACTTTT
1 TTTTAAAATACTTTTT-AAATACTTTT
3629357 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTAAAATACTTTTTAAATACTTTTAA
Found at i:3655133 original size:44 final size:44
Alignment explanation
Indices: 3655066--3655526 Score: 303
Period size: 44 Copynumber: 10.6 Consensus size: 44
3655056 GAAGATGACA
3655066 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * * * *
3655110 AATCCTATCTCCCCGAAGTTGCAGTAGAGCGGATTAAAATC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * ***
3655153 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGGTCGCA-TC--T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * *
3655194 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-AGCT-AAGTAAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGT-CG-AT
* * * *
3655238 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-TCG-AT
* * * * * *
3655283 AATCTTATCTTCTTAAAGTTGCACTGGAGCAGATTAAAGCCGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * *
3655327 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * * **
3655370 AGATCTTATCTCTCTAAAGTTACAG-AGAGCAGATTGCA-TC--T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * *
3655411 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGTTGGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TCG-AT
* * *
3655455 AATCTTATATTCTTGAAGTTGCAGTGGAGCAGATTAAAG-CTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC-GAT
*
3655499 AATCCTATCTCCCTGAAGTTGCAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
3655527 ATAGACTAAG
Statistics
Matches: 325, Mismatches: 66, Indels: 52
0.73 0.15 0.12
Matches are distributed among these distances:
40 41 0.13
41 16 0.05
42 5 0.02
43 28 0.09
44 194 0.60
45 38 0.12
46 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
Found at i:3655372 original size:217 final size:217
Alignment explanation
Indices: 3654997--3655526 Score: 715
Period size: 217 Copynumber: 2.4 Consensus size: 217
3654987 TTACAGTGGA
* * * *
3654997 GCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCGCGTGAAGTTGCAGTGAGGCAGACTGAAGAT
1 GCAGTGGAGCAAGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
* * * *
3655062 GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCCGAA
66 GACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTAAAGCCGACAATCCTATCTCCCCGAA
* * * * *
3655127 GTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGGTCGCAT
131 GTTACAGTAGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCAT
3655192 CTAGTCTTATCTCCCTGAAGTT
196 CTAGTCTTATCTCCCTGAAGTT
3655214 GCAGTGGAGCAAGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
1 GCAGTGGAGCAAGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
* * * * *
3655279 GGCAAATCTTATCTTCTTAAAGTTGCACTGGAGCAGATTAAAGCCGACAATCTTATCTCCCTGAA
66 GACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTAAAGCCGACAATCCTATCTCCCCGAA
* *
3655344 GTTACAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAGATTGCAT
131 GTTACAGTAGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCAT
3655409 CTAGTCTTATCTCCCTGAAGTT
196 CTAGTCTTATCTCCCTGAAGTT
* ** * ** * * *
3655431 GCAATGGAGC-AGACTAAGTTGGCAAATCTTATATTCTTGAAGTTGCAGTG-GAGCAGATTAAAG
1 GCAGTGGAGCAAG-CTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAG-GCAGACTGAAG
* * * * *
3655494 CTGA-TAATCCTATCTCCCTGAAGTTGCAGTGGA
64 ATGACAAATCTTATCTCCCTAAAGTTGCACTGGA
3655527 ATAGACTAAG
Statistics
Matches: 274, Mismatches: 37, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
216 26 0.09
217 248 0.91
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
GCAGTGGAGCAAGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
GACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTAAAGCCGACAATCCTATCTCCCCGAA
GTTACAGTAGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCAT
CTAGTCTTATCTCCCTGAAGTT
Found at i:3658007 original size:44 final size:44
Alignment explanation
Indices: 3657941--3658618 Score: 413
Period size: 44 Copynumber: 15.6 Consensus size: 44
3657931 GAAGATGACA
3657941 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * * *
3657985 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * ***
3658028 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGGTCGCA-TC--T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* ** *
3658069 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-CG-AT
* * * * * *
3658113 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCGGACTGAAGATGGAA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-TCGAT
* *
3658158 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * ** * *
3658202 AATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATC-ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGA-T
* * * * **
3658246 AATCTTATCGCTCTGAAGTTGCAG-AGAGTAGATTGCA-TC--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * *
3658286 AGTCTTATCTCCCTGAAGTTGCAGTGG-GACAGACT-AAGTAAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTAAAGT-CG-AT
* * * *
3658330 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-TCG-AT
* * * * * *
3658375 AATCTTATCTTCTTAAAGTTGCACTGGAGCAGATTAAAGCCGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * *
3658419 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * * **
3658462 AGATCTTATCTCTCTAAAGTTACAG-AGAGCAGATTGCA-TC--T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * *
3658503 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGTTGGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TCG-AT
* * *
3658547 AATCTTATATTCTTGAAGTTGCAGTGGAGCAGATTAAAG-CTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC-GAT
*
3658591 AATCCTATCTCCCTGAAGTTGCAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
3658619 ATAGACTAAG
Statistics
Matches: 497, Mismatches: 97, Indels: 80
0.74 0.14 0.12
Matches are distributed among these distances:
40 64 0.13
41 24 0.05
42 7 0.01
43 40 0.08
44 283 0.57
45 72 0.14
46 7 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
Found at i:3658128 original size:128 final size:129
Alignment explanation
Indices: 3657943--3658181 Score: 301
Period size: 128 Copynumber: 1.9 Consensus size: 129
3657933 AGATGACAAA
* *
3657943 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTAGATAATCCTATCTCCCTGAAGTTGCA
* * *
3658008 GT-AGAGCGGA-TTAAAAT-CACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGGTCGCATCTA
66 GTGAG-GCGGACTGAAAATGCA-AAATCTTATCTCCCTGAAGTTGCAGAGAGCAGGTCGCATCTA
3658070 G
129 G
* * *
3658071 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAGCA-AGTCTTATC-CTCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGT-AG-ATAATCCTATCTC-CCTGAAGTT
* *
3658133 GCAGTGAGGCGGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAG
63 GCAGTGAGGCGGACTGAAAATGCAAAATCTTATCTCCCTGAAGTTGCAG
3658182 TGGAGCAGAT
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
127 5 0.05
128 58 0.61
129 31 0.33
130 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTAGATAATCCTATCTCCCTGAAGTTGCA
GTGAGGCGGACTGAAAATGCAAAATCTTATCTCCCTGAAGTTGCAGAGAGCAGGTCGCATCTAG
Found at i:3658171 original size:173 final size:173
Alignment explanation
Indices: 3657909--3658221 Score: 395
Period size: 173 Copynumber: 1.8 Consensus size: 173
3657899 CTTATCCGCG
*
3657909 TGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TGAAGTTGCAGTGAGGCAGACTGAAGAAGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * * * *
3657974 TTAAAGTCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATC-ACAGATCTTATC
66 CTAAAGTCGAAAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCGACA-ATCCTATC
*
3658038 TCTCTGAAGTTGCAGAGAGCAGGTCGCATCTAGTCTTATCTCCC
130 TCCCTGAAGTTGCAGAGAGCAGGTCGCATCTAGTCTTATCTCCC
* *
3658082 TGAAGTTGCAGTG-GAGCAGGCT-AAGTAAG-CAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGG
1 TGAAGTTGCAGTGAG-GCAGACTGAAG-AAGACAAATCTTATCTC-CCTGAAGTTGCAGTGGA-G
* * * * * *
3658142 CGGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCC
62 CAGACTAAAG-TCGAAAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCGACAATCC
3658207 TATCTCCCTGAAGTT
126 TATCTCCCTGAAGTT
3658222 ACAGTGGAGT
Statistics
Matches: 119, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
171 3 0.03
172 36 0.30
173 77 0.65
174 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (173 bp):
TGAAGTTGCAGTGAGGCAGACTGAAGAAGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
CTAAAGTCGAAAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCGACAATCCTATCT
CCCTGAAGTTGCAGAGAGCAGGTCGCATCTAGTCTTATCTCCC
Found at i:3658253 original size:217 final size:216
Alignment explanation
Indices: 3657872--3658618 Score: 1102
Period size: 217 Copynumber: 3.4 Consensus size: 216
3657862 TTACAGTGGA
* * * *
3657872 GCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCGCGTGAAGTTGCAGTGAGGCAGACTGAAGAT
1 GCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
* *
3657937 GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAA
66 GA-AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAA
* * * *
3658002 GTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGGTCGCAT
130 GTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCAT
3658067 CTAGTCTTATCTCCCTGAAGTT
195 CTAGTCTTATCTCCCTGAAGTT
* *
3658089 GCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCGGACTGAAGAT
1 GCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
3658154 GGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAA
66 -GAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAA
* * * *
3658219 GTTACAGTGGAGTGGATTAAAATCACAAATCTTATCGCTCTGAAGTTGCAGAGAGTAGATTGCAT
130 GTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCAT
3658284 CTAGTCTTATCTCCCTGAAGTT
195 CTAGTCTTATCTCCCTGAAGTT
3658306 GCAGTGG-GACAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGA
1 GCAGTGGAG-CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGA
* * * * * *
3658370 TGGCAAATCTTATCTTCTTAAAGTTGCACTGGAGCAGATTAAAGCCGACAATCTTATCTCCCTGA
65 T-GAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGA
* * *
3658435 AGTTACAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAGATTGCA
129 AGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCA
3658500 TCTAGTCTTATCTCCCTGAAGTT
194 TCTAGTCTTATCTCCCTGAAGTT
* ** * ** * * * *
3658523 GCAATGGAGCAGACTAAGTTGGCAAATCTTATATTCTTGAAGTTGCAGTG-GAGCAGATTAAAGC
1 GCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAG-GCAGACTGAAGA
* *
3658587 TGATAATCCTATCTCCCTGAAGTTGCAGTGGA
65 TGAAAATCTTATCTCCCTGAAGTTGCAGTGGA
3658619 ATAGACTAAG
Statistics
Matches: 480, Mismatches: 46, Indels: 9
0.90 0.09 0.02
Matches are distributed among these distances:
216 26 0.05
217 451 0.94
218 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (216 bp):
GCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
GAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAG
TTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCATC
TAGTCTTATCTCCCTGAAGTT
Found at i:3661161 original size:44 final size:44
Alignment explanation
Indices: 3661094--3661554 Score: 310
Period size: 44 Copynumber: 10.6 Consensus size: 44
3661084 GAAGATGACA
3661094 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * * * *
3661138 AATCCTATCTCCCCGAAGTTGCAGTAGAGCGGATTAAAATC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * ***
3661181 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGGTCGCA-TC--T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* ** *
3661222 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-CG-AT
* * * *
3661266 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-TCG-AT
* * * * * *
3661311 AATCTTATCTTCTTAAAGTTGCACTGGAGCAGATTAAAGCCGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * *
3661355 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * * **
3661398 AGATCTTATCTCTCTAAAGTTACAG-AGAGCAGATTGCA-TC--T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * *
3661439 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGTTGGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TCG-AT
* * *
3661483 AATCTTATATTCTTGAAGTTGCAGTGGAGCAGATTAAAG-CTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC-GAT
*
3661527 AATCCTATCTCCCTGAAGTTGCAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
3661555 ATAGACTAAG
Statistics
Matches: 327, Mismatches: 66, Indels: 48
0.74 0.15 0.11
Matches are distributed among these distances:
40 41 0.13
41 18 0.06
42 5 0.02
43 28 0.09
44 195 0.60
45 37 0.11
46 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
Found at i:3661400 original size:217 final size:217
Alignment explanation
Indices: 3661025--3661554 Score: 731
Period size: 217 Copynumber: 2.4 Consensus size: 217
3661015 TTACAGTGGA
* * *
3661025 GCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCGCGTGAAGTTGCAGTGAGGCAGACTGAAGAT
1 GCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
* * * *
3661090 GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCCGAA
66 GACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTAAAGCCGACAATCCTATCTCCCCGAA
* * * * *
3661155 GTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGGTCGCAT
131 GTTACAGTAGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCAT
3661220 CTAGTCTTATCTCCCTGAAGTT
196 CTAGTCTTATCTCCCTGAAGTT
3661242 GCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
1 GCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
* * * * *
3661307 GGCAAATCTTATCTTCTTAAAGTTGCACTGGAGCAGATTAAAGCCGACAATCTTATCTCCCTGAA
66 GACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTAAAGCCGACAATCCTATCTCCCCGAA
* *
3661372 GTTACAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAGATTGCAT
131 GTTACAGTAGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCAT
3661437 CTAGTCTTATCTCCCTGAAGTT
196 CTAGTCTTATCTCCCTGAAGTT
* * ** * ** * * * *
3661459 GCAATGGAGCAGACTAAGTTGGCAAATCTTATATTCTTGAAGTTGCAGTG-GAGCAGATTAAAGC
1 GCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAG-GCAGACTGAAGA
* * * *
3661523 TGA-TAATCCTATCTCCCTGAAGTTGCAGTGGA
65 TGACAAATCTTATCTCCCTAAAGTTGCACTGGA
3661555 ATAGACTAAG
Statistics
Matches: 275, Mismatches: 37, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
216 24 0.09
217 251 0.91
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (217 bp):
GCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
GACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTAAAGCCGACAATCCTATCTCCCCGAA
GTTACAGTAGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCAT
CTAGTCTTATCTCCCTGAAGTT
Found at i:3664038 original size:44 final size:44
Alignment explanation
Indices: 3663972--3664689 Score: 411
Period size: 44 Copynumber: 16.6 Consensus size: 44
3663962 GAAGATGACA
3663972 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * * *
3664016 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * ***
3664059 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGGTCGCA-TC--T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * ***
3664100 AGTCTTATCTCCCTGAAGTTGCAG-AGAGCAGGTCGCA-TC--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* ** *
3664140 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-CG-AT
** * * * * *
3664184 AGCCTTATC-CTCCTGAAGTTGCAGT-GAGGCGGACTGAAGATGGAA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-TCGAT
* *
3664229 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * ** * *
3664273 AATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATC-ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGA-T
* * * * **
3664317 AATCTTATCGCTCTGAAGTTGCAG-AGAGTAGATTGCA-TC--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * *
3664357 AGTCTTATCTCCCTGAAGTTGCAGTGG-GACAGACT-AAGTAAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTAAAGT-CG-AT
* * * *
3664401 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-TCG-AT
* * * * * *
3664446 AATCTTATCTTCTTAAAGTTGCACTGGAGCAGATTAAAGCCGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* *
3664490 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * * **
3664533 AGATCTTATCTCTCTAAAGTTACAG-AGAGCAGATTGCA-TC--T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * *
3664574 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGTTGGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TCG-AT
* * *
3664618 AATCTTATATTCTTGAAGTTGCAGTGGAGCAGATTAAAG-CTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC-GAT
*
3664662 AATCCTATCTCCCTGAAGTTGCAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
3664690 ATAGACTAAG
Statistics
Matches: 535, Mismatches: 99, Indels: 80
0.75 0.14 0.11
Matches are distributed among these distances:
40 104 0.19
41 24 0.04
42 7 0.01
43 40 0.07
44 282 0.53
45 71 0.13
46 7 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
Found at i:3664116 original size:40 final size:40
Alignment explanation
Indices: 3664062--3664172 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
3664052 AAATCACAGA
*
3664062 TCTTATCTCTCTGAAGTTGCAGAGAGCAGGTCGCATCTAG
1 TCTTATCTCCCTGAAGTTGCAGAGAGCAGGTCGCATCTAG
3664102 TCTTATCTCCCTGAAGTTGCAGAGAGCAGGTCGCATCTAG
1 TCTTATCTCCCTGAAGTTGCAGAGAGCAGGTCGCATCTAG
*
3664142 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGG
1 TCTTATCTCCCTGAAGTTGCAG-AGAGCAGG
3664173 CTAAGTAAGC
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
40 61 0.90
41 7 0.10
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
TCTTATCTCCCTGAAGTTGCAGAGAGCAGGTCGCATCTAG
Found at i:3664359 original size:257 final size:257
Alignment explanation
Indices: 3663903--3664567 Score: 824
Period size: 257 Copynumber: 2.6 Consensus size: 257
3663893 TTACAGTGGA
*
3663903 GCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCGCGTGAAGTTGCAGTGAGGCAGACTGAAGAT
1 GCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCGCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
* *
3663968 GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAA
66 GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAA
* * * *
3664033 GTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGGTCGCAT
131 GTTACAGTAGAGCGGATTAAAATCACAAATCTTATCGCTCTGAAGTTGCAGAGAGCAGATCGCAT
3664098 CTAGTCTTATCTCCCTGAAGTTGCAGAGAGCAGGTCGCATCTAGTCTTATCTCCCTGAAGTT
196 CTAGTCTTATCTCCCTGAAGTTGCAGAGAGCAGGTCGCATCTAGTCTTATCTCCCTGAAGTT
* *
3664160 GCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCTCCTGAAGTTGCAGTGAGGCGGACTGAAGAT
1 GCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCGCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
3664225 GGA-AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGA
66 -GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGA
* * * *
3664289 AGTTACAGTGGAGTGGATTAAAATCACAAATCTTATCGCTCTGAAGTTGCAGAGAGTAGATTGCA
130 AGTTACAGTAGAGCGGATTAAAATCACAAATCTTATCGCTCTGAAGTTGCAGAGAGCAGATCGCA
* * * * * * *
3664354 TCTAGTCTTATCTCCCTGAAGTTGCAGTGGGACAGACTAAGTAAGCAAGTCTTATC-CTCCTGAA
195 TCTAGTCTTATCTCCCTGAAGTTGCAGAGAG-CAG-GT-CG-CATCTAGTCTTATCTC-CCTGAA
3664418 GTT
255 GTT
* * ** ** * * * * *
3664421 GCAGT-GAGGCAGACTGAAG-ATGGCAAATCTTATCTTCTTAAAGTTGCACTG-GAGCAGATTAA
1 GCAGTGGA-GCAGGCT-AAGTA-AGCAAGCCTTATCCGCCTGAAGTTGCAGTGAG-GCAGACTGA
** ** * *
3664483 AGCCGAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-ACAGATCTTATCTCT
62 AGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACA-ATCCTATCTCC
* *
3664546 CTAAAGTTACAG-AGAGCAGATT
126 CTGAAGTTACAGTAGAGCGGATT
3664568 GCATCTAGTC
Statistics
Matches: 355, Mismatches: 41, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
257 207 0.58
258 5 0.01
259 1 0.00
260 14 0.04
261 94 0.26
262 34 0.10
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (257 bp):
GCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCGCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAA
GTTACAGTAGAGCGGATTAAAATCACAAATCTTATCGCTCTGAAGTTGCAGAGAGCAGATCGCAT
CTAGTCTTATCTCCCTGAAGTTGCAGAGAGCAGGTCGCATCTAGTCTTATCTCCCTGAAGTT
Found at i:3664375 original size:217 final size:217
Alignment explanation
Indices: 3663940--3664689 Score: 860
Period size: 217 Copynumber: 3.5 Consensus size: 217
3663930 CTTATCCGCG
* *
3663940 TGAAGTTGCAGT-GAGGCAGACTGAAG-ATGACAAATCTTAT-CTCCCTGAAGTTGCAGTG-GAG
1 TGAAGTTGCAGTGGA-GCAGACT-AAGTAAG-CAAGTCTTATCCT-CCTGAAGTTGCAGTGAG-G
* * * * * * * **
3664001 CAGATTAAAG-TCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATC-ACAGATC
61 CAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACA-ATC
* * * * * *** * * *
3664064 TTATCTCTCTGAAGTTGCAG-AGAGCAG-GTCGCAT--CTAGTCTTATCTCCCTGAAGTTGCAGA
125 CTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATCACAAATCTTATCTCTCTGAAGTTGCAGA
* *
3664125 GAGCAGGTCGCATCTAGTCTTATCTCCC
190 GAGCAGATTGCATCTAGTCTTATCTCCC
* * *
3664153 TGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCTCCTGAAGTTGCAGTGAGGCGGAC
1 TGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGAC
3664218 TGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCT
66 TGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCT
** * *
3664283 CCCTGAAGTTACAGTGGAGTGGATTAAAATCACAAATCTTATCGCTCTGAAGTTGCAGAGAGTAG
131 CCCTGAAGTTACAGTGGAGCAGATTAAAATCACAAATCTTATCTCTCTGAAGTTGCAGAGAGCAG
3664348 ATTGCATCTAGTCTTATCTCCC
196 ATTGCATCTAGTCTTATCTCCC
3664370 TGAAGTTGCAGTGG-GACAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGA
1 TGAAGTTGCAGTGGAG-CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGA
* * * * * *
3664434 CTGAAGATGGCAAATCTTATCTTCTTAAAGTTGCACTGGAGCAGATTAAAGCCGACAATCTTATC
65 CTGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATC
* * * *
3664499 TCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCA
130 TCCCTGAAGTTACAGTGGAGCAGATTAAAATCACAAATCTTATCTCTCTGAAGTTGCAGAGAGCA
3664564 GATTGCATCTAGTCTTATCTCCC
195 GATTGCATCTAGTCTTATCTCCC
* ** * ** *
3664587 TGAAGTTGCAATGGAGCAGACTAAGTTGGCAAATCTTATATTCTTGAAGTTGCAGTG-GAGCAGA
1 TGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAG-GCAGA
* * * * *
3664651 TTAAAGCT-GATAATCCTATCTCCCTGAAGTTGCAGTGGA
65 CTGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGA
3664690 ATAGACTAAG
Statistics
Matches: 459, Mismatches: 65, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
212 34 0.07
213 82 0.18
214 9 0.02
215 3 0.01
216 26 0.06
217 304 0.66
218 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
TGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGAC
TGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCT
CCCTGAAGTTACAGTGGAGCAGATTAAAATCACAAATCTTATCTCTCTGAAGTTGCAGAGAGCAG
ATTGCATCTAGTCTTATCTCCC
Found at i:3667673 original size:44 final size:43
Alignment explanation
Indices: 3667622--3667754 Score: 142
Period size: 44 Copynumber: 3.0 Consensus size: 43
3667612 TTGCATCTAG
*
3667622 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTTGGCAAA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGAT-GCAAA
* * * *
3667666 TCTTATCTTCTTGAAGTTGCAATGGAGCAGATTAAAGCTG-ATAA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGATGCA-AA
* * **
3667710 TCCTATCTCCCTGAAATTGCAATGGAATAGACTAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGAT-GCAAA
3667754 T
1 T
3667755 ATTGTTCTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
43 5 0.07
44 63 0.86
45 5 0.07
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGATGCAAA
Found at i:3671650 original size:31 final size:31
Alignment explanation
Indices: 3671615--3671676 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
3671605 AAATTACAAG
*
3671615 AGTAATTGAAACCT-ATAAAAACTCTTTAAAA
1 AGTAATTGAAACCTAAT-AAAACTCCTTAAAA
*
3671646 AGTAATTGAATCCTAATAAAACTCCTTAAAA
1 AGTAATTGAAACCTAATAAAACTCCTTAAAA
3671677 TTATCTAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (31 bp):
AGTAATTGAAACCTAATAAAACTCCTTAAAA
Found at i:3677864 original size:31 final size:32
Alignment explanation
Indices: 3677803--3677867 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
3677793 GGCAAATTAC
3677803 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
*
3677835 AAGAGTAATTGAATCCTAAT-ATAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
3677866 AA
1 AA
3677868 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:3687895 original size:44 final size:44
Alignment explanation
Indices: 3687832--3688519 Score: 319
Period size: 44 Copynumber: 15.8 Consensus size: 44
3687822 GTAGCCAATA
* * *
3687832 ATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAATCACAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
***
3687876 ATCTTATCTCTCTGAAGTTGC--TGAGAGCAGA-TCGCA-C-CTAG
1 ATCTTATCTCTCTGAAGTTGCAGTG-GAGCAGATTAAAATCAC-AG
* **
3687917 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGT-A-AG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAA--AA-TCACAG
* * * *
3687961 -TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAA
1 ATCTTATCTCT-CTGAAGTTGCAGTGGA-GCAGA-TTAAAATCACAG
* ** *
3688005 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACA-G
* *
3688049 ATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * *** *
3688093 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAG-GTCGCATC-TAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * * ** * *
3688134 -TCTTATCTCCCTGAAGATGCAGTGGAACAGGCT-AAGTACGCA-
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAAT-CACAG
* *** *
3688176 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGATTGAAGATGGTAA
1 A-TCTTATCTCT-CTGAAGTTGCAGTGGA-GCAGATT-AAAATCACAG
* * * ** *
3688222 ATCTTACCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATA-
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATC-ACAG
* * *
3688266 ATCCTATCTCCCTGAAGTTGCAGTGGA-TAGGATTAAAATCACAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCA-GATTAAAATCACAG
* ** * ** *
3688310 ATCTTATCTCTCTGATGTTGCAG-AAAGTAGATT-GCATC-TAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * *
3688351 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAA--AATCACAG
* * * *
3688395 -TCTTATC-CTTCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGA-AA
1 ATCTTATCTC-TCTGAAGTTGCAGTGGA-GCAGA-TTAAAAT-CACAG
* * **
3688439 ATCTTATCT-TCCCGAAGTTGCACTGGAGCAGATTAAAGCCGACA-
1 ATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAATC-ACAG
* *
3688483 ATCCTATCTC-CTTGAAGTTGCAGTGGAGCGGATTAAA
1 ATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAA
3688520 GTTGCAGAGA
Statistics
Matches: 487, Mismatches: 103, Indels: 108
0.70 0.15 0.15
Matches are distributed among these distances:
40 60 0.12
41 25 0.05
42 17 0.03
43 34 0.07
44 257 0.53
45 83 0.17
46 11 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
Found at i:3688026 original size:89 final size:87
Alignment explanation
Indices: 3687917--3688511 Score: 349
Period size: 89 Copynumber: 6.8 Consensus size: 87
3687907 TCGCACCTAG
**
3687917 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGTAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG-AAGTAAGTCTTAT-CTCCTGAAGTTGCA
3687982 GT-GAGGCAGACTGAAGATGACAAA
64 GTGGA-GCAGACTGAAGATGACAAA
*
3688006 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TCCTATCTCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAG--AAGTAAGTCTTATCTC-CTGAAGTTG
* * * * *
3688069 CAGTGGAGCGGA-TTAAAATCACAGA
62 CAGTGGAGCAGACTGAAGATGACAAA
* * * * * * *
3688094 TCTTATCTCTCTGAAGTTGCAG-AGAGCAG-GT-CGCA-TCTAGTCTTATCTCCCTGAAGATGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAAGT-AAGTCTTATCT-CCTGAAGTTGCA
* * * *
3688155 GTGGAACAGGCT-AAGTACG-CAAG
64 GTGGAGCAGACTGAAG-ATGACAAA
* * *
3688178 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGATTGAAGATGGTAAATCTTACCTCCCTGAAGTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATT-AAGA-AGTAAGTCTTATCT-CCTGAAGTT
* * * ** *
3688241 GCAGTGGAGTAGATTAAAGCCGA-TAA
61 GCAGTGGAGCAGACTGAAGATGACAAA
* * *
3688267 TCCTATCTCCCTGAAGTTGCAGTGGA-TAGGATTAA-AA-TCACAGATCTTATCTCTCTGATGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAGAAGT-A-AG-TCTTATCTC-CTGAAGTT
** * * * * *
3688329 GCAG-AAAGTAGATTG--CAT--CTAG
61 GCAGTGGAGCAGACTGAAGATGACAAA
* * *
3688351 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG-AAGTAAGTCTTAT-CTCCTGAAGTTGCA
3688416 GT-GAGGCAGACTGAAGATGGA-AAA
64 GTGGA-GCAGACTGAAGAT-GACAAA
* ** * *
3688440 TCTTATCTTCCC-GAAGTTGCACTGGAGCAGATTAAAGCCG-ACAATCCTATCTCCTTGAAGTTG
1 TCTTATC-TCCCTGAAGTTGCAGTGGAGCAGATT-AAGAAGTA-AGTCTTATCTCC-TGAAGTTG
3688503 CAGTGGAGC
62 CAGTGGAGC
3688512 GGATTAAAGT
Statistics
Matches: 389, Mismatches: 73, Indels: 88
0.71 0.13 0.16
Matches are distributed among these distances:
82 2 0.01
83 2 0.01
84 100 0.26
85 19 0.05
86 6 0.02
87 19 0.05
88 59 0.15
89 156 0.40
90 24 0.06
91 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAAGTAAGTCTTATCTCCTGAAGTTGCAGT
GGAGCAGACTGAAGATGACAAA
Found at i:3688138 original size:173 final size:173
Alignment explanation
Indices: 3687831--3688157 Score: 373
Period size: 173 Copynumber: 1.9 Consensus size: 173
3687821 CGTAGCCAAT
* * *
3687831 AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAATCACAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAACCACAAATCCTATCTCTCTGAAGTTG
*** * * *
3687896 CTGAGAGCAGATCGCACCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGTAAG
66 CTGAGAGCAGATAAAACCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTAAGCAACTAAG
*
3687961 TCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACA
131 TCTTATCTC-CCTGAAGATGCAGTGAGGCAGACTGAAGATGACA
* * *
3688004 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATAATCCTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAACCACA-AATCCTATCTCTCTGAAGTT
* * *
3688068 GCAGTG-GAGCGGATTAAAATCAC-AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGG-T-CGC
65 GC--TGAGAGCAGA-TAAAA-C-CTAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTAAGC
*
3688128 ATCT-AGTCTTATCTCCCTGAAGATGCAGTG
124 AACTAAGTCTTATCTCCCTGAAGATGCAGTG
3688158 GAACAGGCTA
Statistics
Matches: 129, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
172 1 0.01
173 81 0.63
174 10 0.08
175 5 0.04
176 10 0.08
177 22 0.17
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (173 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAACCACAAATCCTATCTCTCTGAAGTTG
CTGAGAGCAGATAAAACCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTAAGCAACTAAG
TCTTATCTCCCTGAAGATGCAGTGAGGCAGACTGAAGATGACA
Found at i:3688199 original size:217 final size:216
Alignment explanation
Indices: 3687824--3688519 Score: 1088
Period size: 217 Copynumber: 3.2 Consensus size: 216
3687814 ATAAATCCGT
* * **
3687824 AGCCAATAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAATCACAGATCTTATCTCTCT
1 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* *
3687889 GAAGTTGCTGAGAGCAGATCGCACCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
*
3687954 AAGTAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGA-AAATCTTATCTCCCTG
3688019 AAGTTGCAGTGGAGCAGATTAA
195 AAGTTGCAGTGGAGCAGATTAA
*
3688041 AGCCAATAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
1 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* * *
3688106 GAAGTTGCAGAGAGCAGGTCGCATCTAGTCTTATCTCCCTGAAGATGCAGTGGAACAGGCTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
* * * *
3688171 ACGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGGTAAATCTTACCTCCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GAAAATCTTATCTCCCTG
*
3688236 AAGTTGCAGTGGAGTAGATTAA
195 AAGTTGCAGTGGAGCAGATTAA
* **
3688258 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGATAGGATTAAAATCACAGATCTTATCTCTCT
1 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* * * * *
3688323 GATGTTGCAGAAAGTAGATTGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
*
3688388 AAGCAAGTCTTATCCTTCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCTTATCTTCCC-
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GAAAATCTTATC-TCCCT
*
3688452 GAAGTTGCACTGGAGCAGATTAA
194 GAAGTTGCAGTGGAGCAGATTAA
* * *
3688475 AGCCGACAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAA
1 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
3688520 GTTGCAGAGA
Statistics
Matches: 438, Mismatches: 39, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
217 433 0.99
218 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (216 bp):
AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGAAAATCTTATCTCCCTGA
AGTTGCAGTGGAGCAGATTAA
Found at i:3688536 original size:20 final size:21
Alignment explanation
Indices: 3688497--3688536 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3688487 TATCTCCTTG
* *
3688497 AAGTTGCAGTGGAGCGGATTA
1 AAGTTGCAGTAGAGCAGATTA
3688518 AAGTTGCAG-AGAGCAGATT
1 AAGTTGCAGTAGAGCAGATT
3688537 GCATCTAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.10, G:0.35, T:0.23
Consensus pattern (21 bp):
AAGTTGCAGTAGAGCAGATTA
Found at i:3692599 original size:44 final size:44
Alignment explanation
Indices: 3692536--3693036 Score: 304
Period size: 44 Copynumber: 11.5 Consensus size: 44
3692526 AATCCTAATA
*
3692536 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * ***
3692580 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCA-C-CTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC-AG
* * **
3692621 -TCTTATCTCCCTGAAGTTACATTGGAGCAGGCTAAGTAAGT-A-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AA-TCACAG
* * * *
3692665 -TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAA
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCACAG
** *
3692709 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACA-G
* *
3692753 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * * * * *** *
3692797 ATCTTATCTCTCTAAAGTTGCAG-AGAGTAG-GTCGCATC-TAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
** *
3692838 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCA-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCACAG
* * * *** *
3692882 -TCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGTAA
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCACAG
* * ** *
3692926 ATCTTACCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-ACAG
* * * *
3692970 ATCCTATCTCCTTGAAGTTGTAGTGGAGCGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
*
3693014 ATCTTATCTCTCTGAAGTTGCAG
1 ATCTTATCTCCCTGAAGTTGCAG
3693037 AGAGTAGATT
Statistics
Matches: 343, Mismatches: 82, Indels: 64
0.70 0.17 0.13
Matches are distributed among these distances:
40 40 0.12
41 16 0.05
42 9 0.03
43 22 0.06
44 194 0.57
45 56 0.16
46 6 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
Found at i:3692908 original size:217 final size:217
Alignment explanation
Indices: 3692532--3693103 Score: 937
Period size: 217 Copynumber: 2.6 Consensus size: 217
3692522 ATTGAATCCT
* **
3692532 AATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAATCACAGATCTTATCTCTCTGAAG
1 AATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAG
* * * * *
3692597 TTGCAGAGAGCAGATCGCACCTAGTCTTATCTCCCTGAAGTTACATTGGAGCAGGCTAAGTAAGT
66 TTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGGCTAAGTAAGC
*
3692662 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGT
131 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTACCTCCCTGAAGT
3692727 TGCAGTGGAGCAGATTAAAGCC
196 TGCAGTGGAGCAGATTAAAGCC
*
3692749 AATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAG
1 AATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAG
* *
3692814 TTGCAGAGAGTAGGTCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGC
66 TTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGGCTAAGTAAGC
* **
3692879 AAGTCTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGTAAATCTTACCTCCCTGAAGT
131 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTACCTCCCTGAAGT
*
3692944 TGCAGTGGAGTAGATTAAAGCC
196 TGCAGTGGAGCAGATTAAAGCC
* * *
3692966 GATAATCCTATCTCCTTGAAGTTGTAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAG
1 AATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAG
* * * *
3693031 TTGCAGAGAGTAGATTGCATCTAGTCTTATCTCCCTAAAGCTGCAATGGAGCAGACTAAGTAAGC
66 TTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGGCTAAGTAAGC
3693096 AAGTCTTA
131 AAGTCTTA
3693104 GTGTGAGTTT
Statistics
Matches: 330, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 330 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (217 bp):
AATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAG
TTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGGCTAAGTAAGC
AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTACCTCCCTGAAGT
TGCAGTGGAGCAGATTAAAGCC
Found at i:3693520 original size:44 final size:44
Alignment explanation
Indices: 3693295--3693538 Score: 180
Period size: 44 Copynumber: 5.6 Consensus size: 44
3693285 GAAGATGGCA
* * * *
3693295 AATCTTATCTTCCTGAAGTTGCACTGGAGCAAATTAAAGCCGAC
1 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCTGAC
* * * * * *
3693339 AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAA-ATCAC
1 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCTGAC
* * * ** *
3693382 AGATCTTATCTCTCTAAAGTTG-GA-GAGAGCAGATTGCATCT---
1 A-ATCTTATCTCCCTGAAGTTGCAATG-GAGCAGATTAAAGCTGAC
* * *
3693423 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAG-TAGGC
1 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCT-GAC
* * *
3693466 AAATCTTATCTTCTTGAAGTTGCAATGGAGCAGATTAAAGCTGAT
1 -AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCTGAC
* *
3693511 AATCCTATCTCCCTGAAATTGCAATGGA
1 AATCTTATCTCCCTGAAGTTGCAATGGA
3693539 ATAGACTAAG
Statistics
Matches: 152, Mismatches: 36, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
39 1 0.01
40 18 0.12
41 10 0.07
42 2 0.01
43 12 0.08
44 104 0.68
45 4 0.03
46 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCTGAC
Found at i:3694541 original size:29 final size:30
Alignment explanation
Indices: 3694473--3694541 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 30
3694463 GTAATTGTTT
* *
3694473 TTTA-TTTTATTTTATGATTTTCATGTGTA
1 TTTATTTTTATTTTATGATTATCATGTATA
* *
3694502 ATTATTATTATTTTAT-ATATAT-ATGTATA
1 TTTATTTTTATTTTATGAT-TATCATGTATA
3694531 TTTATTTTTAT
1 TTTATTTTTAT
3694542 GTACGTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (30 bp):
TTTATTTTTATTTTATGATTATCATGTATA
Found at i:3710561 original size:45 final size:43
Alignment explanation
Indices: 3710371--3711572 Score: 546
Period size: 44 Copynumber: 27.9 Consensus size: 43
3710361 CGTAGCCGAT
* * * * *
3710371 AATCCTATCTTCCTGAAGTTGCAGTGGAGAAGATTAA-AATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * * * *
3710413 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCA-AAT-CGCATCT
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* *
3710455 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
3710499 AGTCTTATC-CTCTTGAAGTTCCAGT-GAGGCAGACTGAA-AATGACA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGAA-G-CA
*
3710544 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGCCGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* *
3710587 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGCCGA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* ** * * * *
3710631 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGA-T-CGCATCT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* *
3710673 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* *
3710717 AGTCTTATC-CTCCTGAAGTTGC-----AGCAGGCTAAGTAAGCA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * * *
3710756 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCGGACTGAAGATGACA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG-CA
* *
3710801 AATCTTATCTCCCTGAAGTTGCAGTGGAGCATA-TTA-AAGCCGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * * *
3710844 CAATCCTATCTCCCTGAAGTTGAAGTGGAGCGGATTAA-AATCA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
** * * * * * *
3710887 CAGATCTTATCTCTTTAAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* *
3710929 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * * *
3710973 AGTTTTATC-CTCCTGAAGTTGCAGT-GAGGCGGACTGAAGATGACA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG-CA
* * *
3711018 AATATTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTA-AAGCCGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * *
3711061 CAATC-TATCTCCCTGAAGTTGAAGTGGAGCGGATTAA-AATCA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * *
3711103 CAGATCTTATCTCTCC-GAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 -A-ATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * **
3711145 AGTCTTATCTCCCTGAAGCTGCAGTGGAGCGGATTAA-ATTCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * * * *
3711187 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T-CGCATCT
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* *
3711229 ATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* *
3711273 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* * *
3711318 AATCTTATCTTCCTGAAGTTGCACTGGAGCAGA-TTA-AAGCCGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * * * * *
3711361 CAATCCTATCTCCCTAAAATTGTAGTGGAGCAGA-TTATAATCA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * * *
3711404 CAGATCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-T-TG-CGTCT
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-CA
* * **
3711446 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTTGGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
3711490 AATATTATCTTCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGCTGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--A
* * **
3711533 TAATCCTATCTCCCTGAAGTTGCAGCGGAATAGACTAAGA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGA
3711573 TAACAAATAT
Statistics
Matches: 902, Mismatches: 173, Indels: 165
0.73 0.14 0.13
Matches are distributed among these distances:
39 40 0.04
40 97 0.11
41 67 0.07
42 38 0.04
43 99 0.11
44 418 0.46
45 131 0.15
46 12 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:3710754 original size:39 final size:39
Alignment explanation
Indices: 3710700--3710779 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
3710690 GTTGCAGTGG
*
3710700 AGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGC
1 AGCAGGCTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGC
3710739 AGCAGGCTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGC
1 AGCAGGCTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGC
3710778 AG
1 AG
3710780 TGAGGCGGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (39 bp):
AGCAGGCTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGC
Found at i:3710938 original size:128 final size:127
Alignment explanation
Indices: 3710546--3711527 Score: 441
Period size: 128 Copynumber: 7.6 Consensus size: 127
3710536 AAATGACAAA
*
3710546 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCA
* * * * * *
3710611 GTGGAGCAGATTAAAGCCGATA-ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATCGCATCTAG
66 GTGGAGCAGATTAAAACC-A-AGATCTTATCTCTCTAAAGTTGCAG-AGAGCGGATCGCATCTAG
** ** *
3710675 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAG-TAAGCAAGTCTTATC-CTCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA-CAA-TCCTATCTC-CCTGAAGTT
** * * * *
3710737 GCAGCAG-GCTA-AGT--AAGCAAG-TCTTATC-CTCCTAAAGTTGCAGTGAGGCGGA-CTGAAG
63 GCAGTGGAGC-AGATTAAAACCAAGATCTTATCTCT-CTAAAGTTGCAGAGA-GCGGATC-G--C
* *
3710795 ATGACAAA
122 AT--CTAG
* *
3710803 TCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCCGACAATCCTATCTCCCTGAAGTTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCA
* * * *
3710868 GTGGAGCGGATTAAAATCACAGATCTTATCTCTTTAAAGTTGCAGAGAGCAGATCGCATCTAG
66 GTGGAGCAGATTAAAACCA-AGATCTTATCTCTCTAAAGTTGCAGAGAGCGGATCGCATCTAG
* * ** **
3710931 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAG-TAAGCAAGTTTTATC-CTCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA-CAA-TCCTATCTC-CCTGAAGTT
* * * * * * * *
3710993 GCAGT-GAGGCGGACTGAAGATGA-CAA-ATATTATCTCCCTGAAGTTGTAGTGGAGCAGATTAA
63 GCAGTGGA-GCAGA-TTAA-A--ACCAAGATCTTATCTCTCTAAAGTTGCAG-AGAGCGGA-T--
* *
3711055 AGCCGA-C-AA
119 CG-C-ATCTAG
* * ** *
3711064 TC-TATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAATC-ACAGATCTTATCTCTCC-GAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACA-ATCCTATCTC-CCTGAAGTTG
* *** * * * * * * *** *
3711126 CAG-AGAGCAGA-TCGCATCTAG-TCTTATCTCCCTGAAGCTGCAGTGGAGCGGATTAAATTCAC
64 CAGTGGAGCAGATTAAAACCAAGATCTTATCTCTCTAAAGTTGCAG-AGAGCGGATCGCA-TC-T
3711188 AG
126 AG
* * * * * *
3711190 ATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T--CG-C-ATCTATTCTTATCTCCCTGAAGTT
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA-C-AATCCTATCTCCCTGAAGTT
* ** * * *
3711249 GCAGTGGAGCAGACTAAGTAGGCAAG-TCTTATC-CTCCTGAAGTTGCAGTGAGGCAGA-CTGAA
63 GCAGTGGAGCAGATTAA--AACCAAGATCTTATCTCT-CTAAAGTTGCAGAGA-GCGGATC-G--
* * *
3711311 GATGGCAAA
121 CAT--CTAG
* * * * *
3711320 TCTTATCTTCCTGAAGTTGCACTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTAAAATTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCA
* * * * *
3711385 GTGGAGCAGATTATAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATTGCGTCTAG
66 GTGGAGCAGATTAAAACCA-AGATCTTATCTCTCTAAAGTTGCAGAGAGCGGATCGCATCTAG
* * ** * ** *
3711448 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGTTGGCAAATATTATCTTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAC-AATCCTATCTCCCTGAAGTTGC
3711512 AGTGGAGCAGATTAAA
65 AGTGGAGCAGATTAAA
3711528 GCTGATAATC
Statistics
Matches: 645, Mismatches: 133, Indels: 151
0.69 0.14 0.16
Matches are distributed among these distances:
122 1 0.00
123 8 0.01
124 44 0.07
125 9 0.01
126 10 0.02
127 54 0.08
128 221 0.34
129 104 0.16
130 21 0.03
131 16 0.02
132 63 0.10
133 84 0.13
134 8 0.01
135 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (127 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAAAACCAAGATCTTATCTCTCTAAAGTTGCAGAGAGCGGATCGCATCTAG
Found at i:3711110 original size:216 final size:216
Alignment explanation
Indices: 3710593--3711174 Score: 813
Period size: 216 Copynumber: 2.7 Consensus size: 216
3710583 CCGATAATCC
* *
3710593 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGAAGTG
* *** * * * * * * * *
3710658 GAGTGGA-TCGCATC-TAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGT
66 GAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCA-GAT-CG-CATCTAGT
* *
3710720 CTTATC-CTCCTGAA--GT--TGCAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAG
127 CTTATCTC-CCTGAAGTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAG
*
3710780 TGAGGCGGACTGAAGATGACAAATCT
191 TGAGGCGGACTGAAGATGACAAATAT
*
3710806 TATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCCGACAATCCTATCTCCCTGAAGTTGAAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGAAGTG
* *
3710871 GAGCGGATTAAAATCACAGATCTTATCTCTTTAAAGTTGCAGAGAGCAGATCGCATCTAGTCTTA
66 GAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTA
* *
3710936 TCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTTTTATCCTCCTGAAGTTGCAGTGAG
131 TCTCCCTGAAG-TGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAG
3711001 GCGGACTGAAGATGACAAATAT
195 GCGGACTGAAGATGACAAATAT
*
3711023 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGACAAT-CTATCTCCCTGAAGTTGAAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGAAGTG
*
3711087 GAGCGGATTAAAATCACAGATCTTATCTCTCCGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTA
66 GAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTA
*
3711152 TCTCCCTGAAGCTGCAGTGGAGC
131 TCTCCCTGAAG-TGTAGTGGAGC
3711175 GGATTAAATT
Statistics
Matches: 331, Mismatches: 29, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
212 17 0.05
213 70 0.21
214 6 0.02
215 9 0.03
216 124 0.37
217 105 0.32
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (216 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGAAGTG
GAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTA
TCTCCCTGAAGTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGG
CGGACTGAAGATGACAAATAT
Found at i:3711151 original size:40 final size:41
Alignment explanation
Indices: 3711107--3711261 Score: 154
Period size: 40 Copynumber: 3.8 Consensus size: 41
3711097 AAATCACAGA
3711107 TCTTATCTCTCC-GAAGTTGCAG-AGAGCAGATCGCATCTAG
1 TCTTATCTC-CCTGAAGTTGCAGTAGAGCAGATCGCATCTAG
* * * *** *
3711147 TCTTATCTCCCTGAAGCTGCAGTGGAGCGGATTAAATTCACAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGCA-TC-TAG
* * *
3711190 ATCTTATCTCTCTGAAGTTGCAG-AGAGTAGATCGCATCTAT
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGCATCTAG
*
3711231 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
3711262 CTAAGTAGGC
Statistics
Matches: 89, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
39 2 0.02
40 39 0.44
41 15 0.17
42 4 0.04
43 9 0.10
44 20 0.22
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGCATCTAG
Found at i:3711173 original size:300 final size:301
Alignment explanation
Indices: 3710850--3711475 Score: 1011
Period size: 300 Copynumber: 2.1 Consensus size: 301
3710840 CCGACAATCC
* *
3710850 TATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTAAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAG
* *
3710915 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTTTTA
66 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
* * *
3710980 TCCTCCTGAAGTTGCAGTGAGGCGGACTGAAGATGACAAATATTATCTCCCTGAAGTTGTAGTGG
131 TCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATATTATCTCCCTGAAGTTGCACTGG
* * *
3711045 AGCAGATTAAAGCCGACAAT-CTATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAATCACAGATC
196 AGCAGATTAAAGCCGACAATCCTATCTCCCTAAAATTGAAGTGGAGCAGATTAAAATCACAGATC
*
3711109 TTATCTCTCCGAAGTTGCAGAGAGCAGATCGCATCTAGTCT
261 TTATCTCTCCAAAGTTGCAGAGAGCAGATCGCATCTAGTCT
* * *
3711150 TATCTCCCTGAAGCTGCAGTGGAGCGGATTAAATTCACAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAG
* * *
3711215 AGTAGATCGCATCTATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTA
66 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
* * *
3711280 TCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTTCCTGAAGTTGCACTGG
131 TCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATATTATCTCCCTGAAGTTGCACTGG
* *
3711345 AGCAGATTAAAGCCGACAATCCTATCTCCCTAAAATTGTAGTGGAGCAGATTATAATCACAGATC
196 AGCAGATTAAAGCCGACAATCCTATCTCCCTAAAATTGAAGTGGAGCAGATTAAAATCACAGATC
* * *
3711410 TTATCTCTCTAAAGTTGCAGAGAGCAGATTGCGTCTAGTCT
261 TTATCTCTCCAAAGTTGCAGAGAGCAGATCGCATCTAGTCT
*
3711451 TATCTCCCTGAAGTTGCAATGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
3711476 AGACTAAGTT
Statistics
Matches: 298, Mismatches: 27, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
300 199 0.67
301 99 0.33
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (301 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAG
AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
TCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATATTATCTCCCTGAAGTTGCACTGG
AGCAGATTAAAGCCGACAATCCTATCTCCCTAAAATTGAAGTGGAGCAGATTAAAATCACAGATC
TTATCTCTCCAAAGTTGCAGAGAGCAGATCGCATCTAGTCT
Found at i:3711281 original size:84 final size:84
Alignment explanation
Indices: 3711066--3711258 Score: 332
Period size: 84 Copynumber: 2.3 Consensus size: 84
3711056 GCCGACAATC
* *
3711066 TATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCCGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
3711131 AGCAGATCGCATCTAGTCT
66 AGCAGATCGCATCTAGTCT
* *
3711150 TATCTCCCTGAAGCTGCAGTGGAGCGGATTAAATTCACAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
* *
3711215 AGTAGATCGCATCTATTCT
66 AGCAGATCGCATCTAGTCT
3711234 TATCTCCCTGAAGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
3711259 AGACTAAGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 102 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
AGCAGATCGCATCTAGTCT
Found at i:3711289 original size:84 final size:84
Alignment explanation
Indices: 3711066--3711305 Score: 317
Period size: 84 Copynumber: 2.8 Consensus size: 84
3711056 GCCGACAATC
*
3711066 TATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCC-GAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATC-CTCCTGAAGTTGCAGA
3711130 GAGCAGATCGCATCTAGTCT
65 GAGCAGATCGCATCTAGTCT
* *
3711150 TATCTCCCTGAAGCTGCAGTGGAGCGGATTAAATTCACAGATCTTAT-CTCTCTGAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCCTC-CTGAAGTTGCAGA
* *
3711214 GAGTAGATCGCATCTATTCT
65 GAGCAGATCGCATCTAGTCT
* * **
3711234 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCA-AG-TCTTATCCTCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AATCACAGATCTTATCCTCCTGAAGTTGCAG
*
3711297 TGAGGCAGA
64 AGA-GCAGA
3711306 CTGAAGATGG
Statistics
Matches: 138, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
82 3 0.02
83 1 0.01
84 122 0.88
85 9 0.07
86 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCCTCCTGAAGTTGCAGAG
AGCAGATCGCATCTAGTCT
Found at i:3716553 original size:11 final size:11
Alignment explanation
Indices: 3716533--3716576 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
3716523 TTCAACAACA
3716533 TAAATCTTGTT
1 TAAATCTTGTT
*
3716544 TAAATTTTGTT
1 TAAATCTTGTT
3716555 TAAATCTTGTT
1 TAAATCTTGTT
3716566 TAAATCTTGTT
1 TAAATCTTGTT
3716577 CAACAACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (11 bp):
TAAATCTTGTT
Found at i:3728049 original size:24 final size:24
Alignment explanation
Indices: 3728022--3728140 Score: 130
Period size: 24 Copynumber: 5.0 Consensus size: 24
3728012 TTTATTGCAA
* *
3728022 TATTGAGTGGCTTGTCCATAACGT
1 TATTGAGTGGCTTGTCCACAACGC
* *
3728046 TATTGAGTGGTTTGTCCATAACGC
1 TATTGAGTGGCTTGTCCACAACGC
* *
3728070 TATTGAGTGGTTTGTCCACAAAGC
1 TATTGAGTGGCTTGTCCACAACGC
* * *
3728094 TATTGAGTGTCTTGGCCACAACGT
1 TATTGAGTGGCTTGTCCACAACGC
* * *
3728118 TAATGAGTGGTTTGACCACAACG
1 TATTGAGTGGCTTGTCCACAACG
3728141 ATGCAGTTTG
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (24 bp):
TATTGAGTGGCTTGTCCACAACGC
Found at i:3728189 original size:64 final size:64
Alignment explanation
Indices: 3728107--3728245 Score: 206
Period size: 64 Copynumber: 2.2 Consensus size: 64
3728097 TGAGTGTCTT
** ** *
3728107 GGCCACAACGTTAATGAGTGGTTTGACCACAACGATGCAGTTTGACTGTGATATTAAGTGGCTC
1 GGCCACAACGTTAATGAGTGGTTTGACCACAACGATGCAACTTGACTGCAATATTAAGTGGCTA
* * *
3728171 TGCCACAACGTTATTGAGTGGTTTGACCACAACGATGCAACTTGACTGCAATATTGAGTGGCTA
1 GGCCACAACGTTAATGAGTGGTTTGACCACAACGATGCAACTTGACTGCAATATTAAGTGGCTA
3728235 GGCCACAACGT
1 GGCCACAACGT
3728246 AGTGTGTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (64 bp):
GGCCACAACGTTAATGAGTGGTTTGACCACAACGATGCAACTTGACTGCAATATTAAGTGGCTA
Found at i:3728190 original size:24 final size:24
Alignment explanation
Indices: 3728158--3728204 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3728148 TTGACTGTGA
3728158 TATTAAGTGGCTCTG-CCACAACGT
1 TATTAAGTGG-TCTGACCACAACGT
* *
3728182 TATTGAGTGGTTTGACCACAACG
1 TATTAAGTGGTCTGACCACAACG
3728205 ATGCAACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (24 bp):
TATTAAGTGGTCTGACCACAACGT
Found at i:3729705 original size:48 final size:48
Alignment explanation
Indices: 3729634--3729752 Score: 168
Period size: 48 Copynumber: 2.5 Consensus size: 48
3729624 TTTACTGTAA
*
3729634 TATTGAGTGGCTTGACCACAACGTT-TGTGAGTGGCTTGACCACAATGC
1 TATTGAGTGGCTTGACCACAACGTTAT-TGAGTGGCTTGACCAAAATGC
*
3729682 TATTGAGTGGCTTGACCACAACGTTATTGAGTGGCTTGTCCAAAATGC
1 TATTGAGTGGCTTGACCACAACGTTATTGAGTGGCTTGACCAAAATGC
* ***
3729730 TACTGAGCAACTTGACCACAACG
1 TATTGAGTGGCTTGACCACAACG
3729753 ATGCAGCTTG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 63 0.98
49 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (48 bp):
TATTGAGTGGCTTGACCACAACGTTATTGAGTGGCTTGACCAAAATGC
Found at i:3729736 original size:24 final size:24
Alignment explanation
Indices: 3729634--3729750 Score: 128
Period size: 24 Copynumber: 4.9 Consensus size: 24
3729624 TTTACTGTAA
*
3729634 TATTGAGTGGCTTGACCACAACG-
1 TATTGAGTGGCTTGACCACAATGC
*
3729657 TTTGTGAGTGGCTTGACCACAATGC
1 TAT-TGAGTGGCTTGACCACAATGC
* *
3729682 TATTGAGTGGCTTGACCACAACGT
1 TATTGAGTGGCTTGACCACAATGC
* *
3729706 TATTGAGTGGCTTGTCCAAAATGC
1 TATTGAGTGGCTTGACCACAATGC
* ***
3729730 TACTGAGCAACTTGACCACAA
1 TATTGAGTGGCTTGACCACAA
3729751 CGATGCAGCT
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
23 2 0.03
24 73 0.95
25 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAATGC
Found at i:3730042 original size:180 final size:180
Alignment explanation
Indices: 3729740--3730077 Score: 559
Period size: 180 Copynumber: 1.9 Consensus size: 180
3729730 TACTGAGCAA
* * * * *
3729740 CTTGACCACAACGATGCAGCTTGACTACGATATTGAGTGGCTTTGCCACAACGTGGTGTGTTATT
1 CTTGACCACAACAATGCAACTTGACTACGATATTGAGTGGCTTGGCCACAACATGGTATGTTATT
* * *
3729805 GGATGGACAAGTTTTGGGGAACTCTTTATTGGTGTGTAGAGGAGATGGGTAGGAATGTTTTTGTA
66 GGATGGACAAGTTCTGGGGAACTCTTTATTGGTGTGTAGAGGAAATGAGTAGGAATGTTTTTGTA
*
3729870 AAACTTGCACTGATTTCTAGAAAAAGCTCTGCCACAATGTTATTGAGTGG
131 AAACTTGCACTAATTTCTAGAAAAAGCTCTGCCACAATGTTATTGAGTGG
3729920 CTTGACCACAACAATGCAACTTGACTACGATATTGAGTGGCTTGGCCACAACATGGTATGTTATT
1 CTTGACCACAACAATGCAACTTGACTACGATATTGAGTGGCTTGGCCACAACATGGTATGTTATT
*
3729985 GGATGGACGAGTTCTGGGGAACTCTTTATTGGTGTGTAGAGGAAATGAGTAGGAATGTTTTTGTA
66 GGATGGACAAGTTCTGGGGAACTCTTTATTGGTGTGTAGAGGAAATGAGTAGGAATGTTTTTGTA
* * *
3730050 AACCTTGCACTAATTTTTGGAAAAAGCT
131 AAACTTGCACTAATTTCTAGAAAAAGCT
3730078 TTGTATTGAC
Statistics
Matches: 145, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
180 145 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (180 bp):
CTTGACCACAACAATGCAACTTGACTACGATATTGAGTGGCTTGGCCACAACATGGTATGTTATT
GGATGGACAAGTTCTGGGGAACTCTTTATTGGTGTGTAGAGGAAATGAGTAGGAATGTTTTTGTA
AAACTTGCACTAATTTCTAGAAAAAGCTCTGCCACAATGTTATTGAGTGG
Found at i:3737993 original size:114 final size:114
Alignment explanation
Indices: 3737793--3738547 Score: 1035
Period size: 114 Copynumber: 6.6 Consensus size: 114
3737783 GGCGCCTTTT
* * ** * *
3737793 ATATCTTAACCAAAACCCAACGTACGATCTTGAGGTATATTAGAATTAGAGGCGCTTATGCAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
* * *
3737858 ACGCCGCTAAAGCATAGTATTAGCGGCGCCTTATAAAAGGCGCCGCAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* * ** *
3737907 ATATCTTAACCAAAACCCAACGTACGATCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
* * **
3737972 ATGCCGCTAAAGCACAGTATTAGCGGCGCACTATATTAAGCGCCGCAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* * *
3738021 ATAGCTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
* * *
3738086 ACGCCGCTAAATCACTGTATTAGCGGTGCATTATAAAAAGCGCCGCAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* * * *
3738135 ATAGCTTAACCAAAACACAGCGTTTGGTCTTGAGATATATTAGAATTAGTGGCGCTTATGAAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
* * * *
3738200 ACGTCGCTAAATCACTGTATTAGCGGCGCATTAT-AAAAGCGCCACAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* * *
3738248 ATATCTTAACCAAAACGCAGCGTTTTGTCTTGAAGTATATTAGAATTAGTGGCGCTTATGAAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
* ** *
3738313 ATGCCGCTAAAGCTTAGTATTAGCGGCGCAATATAAAAAGCGCCGCAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* * * *
3738362 ATAGCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGATTTAGTGGCGCTTATTCGAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
* * * * *
3738427 ACGCTGCTAAAGTACAGTATTAGCGGCTCCTTATAAAAAGCACCGCAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* * *
3738476 ATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATTAGAATTGGTGGCACTTATGCAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
*
3738541 GCGCCGC
66 ACGCCGC
3738548 AAAATTGTTA
Statistics
Matches: 576, Mismatches: 64, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
113 100 0.17
114 476 0.83
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (114 bp):
ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
Found at i:3738430 original size:341 final size:342
Alignment explanation
Indices: 3737797--3738547 Score: 1089
Period size: 341 Copynumber: 2.2 Consensus size: 342
3737787 CCTTTTATAT
* * ** * *
3737797 CTTAACCAAAACCCAACGTACGATCTTGAGGTATATTAGAATTAGAGGCGCTTATGCAAAAACGC
1 CTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAAACGC
* *
3737862 CGCTAAAGCATAGTATTAGCGGCGCCTTATAAAAGGCGCCGCAAAATATCTTAACCAAAACCCAA
66 CGCTAAAGCATAGTATTAGCGGCGCATTATAAAAGGCGCCACAAAATATCTTAACCAAAACCCAA
* *
3737927 CGTACGATCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAAATGCCGCTAAAGCACAGTAT
131 CGTACGATCTTGAAGTATATTAGAATTAGTGGCGCTTATGAAAAAATGCCGCTAAAGCACAGTAT
* **
3737992 TAGCGGCGCACTATATTAAGCGCCGCAAAATAGCTTAACCAAAACACAGCGTTTGGTCTTGAGGT
196 TAGCGGCGCAATATAAAAAGCGCCGCAAAATAGCTTAACCAAAACACAGCGTTTGGTCTTGAGGT
*
3738057 ATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAA-TCACTGTATTAGCGG-TGCATTAT
261 ATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAAGT-ACAGTATTAGCGGCT-CATTAT
*
3738120 AAAAAGCGCCGCAAAATAG
324 AAAAAGCACCGCAAAATAG
* * *
3738139 CTTAACCAAAACACAGCGTTTGGTCTTGAGATATATTAGAATTAGTGGCGCTTATGAAAAAACGT
1 CTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAAACGC
* *
3738204 CGCTAAATCACT-GTATTAGCGGCGCATTATAAAA-GCGCCACAAAATATCTTAACCAAAACGCA
66 CGCTAAAGCA-TAGTATTAGCGGCGCATTATAAAAGGCGCCACAAAATATCTTAACCAAAACCCA
* ** **
3738267 GCGTTTTG-TCTTGAAGTATATTAGAATTAGTGGCGCTTATGAAAAAATGCCGCTAAAGCTTAGT
130 ACG-TACGATCTTGAAGTATATTAGAATTAGTGGCGCTTATGAAAAAATGCCGCTAAAGCACAGT
*
3738331 ATTAGCGGCGCAATATAAAAAGCGCCGCAAAATAGCTTAACCAAAACGCAGCGTTTGGTCTTGAG
194 ATTAGCGGCGCAATATAAAAAGCGCCGCAAAATAGCTTAACCAAAACACAGCGTTTGGTCTTGAG
* *** * *
3738396 GTATATTAGATTTAGTGGCGCTTATTCGAAAACGCTGCTAAAGTACAGTATTAGCGGCTCCTTAT
259 GTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAAGTACAGTATTAGCGGCTCATTAT
*
3738461 AAAAAGCACCGCAAAATAT
324 AAAAAGCACCGCAAAATAG
* * * * *
3738480 CTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATTAGAATTGGTGGCACTTATGCAAAAGCGC
1 CTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAAACGC
3738545 CGC
66 CGC
3738548 AAAATTGTTA
Statistics
Matches: 364, Mismatches: 41, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
341 273 0.75
342 90 0.25
343 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (342 bp):
CTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAAACGC
CGCTAAAGCATAGTATTAGCGGCGCATTATAAAAGGCGCCACAAAATATCTTAACCAAAACCCAA
CGTACGATCTTGAAGTATATTAGAATTAGTGGCGCTTATGAAAAAATGCCGCTAAAGCACAGTAT
TAGCGGCGCAATATAAAAAGCGCCGCAAAATAGCTTAACCAAAACACAGCGTTTGGTCTTGAGGT
ATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAAGTACAGTATTAGCGGCTCATTATAA
AAAGCACCGCAAAATAG
Found at i:3739006 original size:22 final size:21
Alignment explanation
Indices: 3738981--3739023 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3738971 TTGTGGTTAT
*
3738981 TGTTTGTGGTCTATGGGTTTAA
1 TGTTTATGGTCTA-GGGTTTAA
*
3739003 TGTTTATGGTTTAGGGTTTAA
1 TGTTTATGGTCTAGGGTTTAA
3739024 GATTTACGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.16, C:0.02, G:0.30, T:0.51
Consensus pattern (21 bp):
TGTTTATGGTCTAGGGTTTAA
Found at i:3739029 original size:21 final size:21
Alignment explanation
Indices: 3738995--3739034 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3738985 TGTGGTCTAT
*
3738995 GGGTTTAATGTTTATGGTTTA
1 GGGTTTAATGTTTACGGTTTA
3739016 GGGTTTAA-GATTTACGGTT
1 GGGTTTAATG-TTTACGGTT
3739035 AATGTTTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (21 bp):
GGGTTTAATGTTTACGGTTTA
Found at i:3739143 original size:14 final size:14
Alignment explanation
Indices: 3739117--3739148 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3739107 AAGGTTTACA
3739117 GTTTGGGATTTAGG
1 GTTTGGGATTTAGG
*
3739131 GTTTGGGGTTTAGG
1 GTTTGGGATTTAGG
3739145 GTTT
1 GTTT
3739149 ATAGTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.44, T:0.47
Consensus pattern (14 bp):
GTTTGGGATTTAGG
Found at i:3739155 original size:7 final size:7
Alignment explanation
Indices: 3739145--3739169 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3739135 GGGGTTTAGG
3739145 GTTTATA
1 GTTTATA
3739152 GTTTATA
1 GTTTATA
3739159 GTTTATA
1 GTTTATA
3739166 GTTT
1 GTTT
3739170 GGGGTTTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (7 bp):
GTTTATA
Found at i:3739155 original size:14 final size:14
Alignment explanation
Indices: 3739138--3739177 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3739128 AGGGTTTGGG
3739138 GTTTAGGGTTTATA
1 GTTTAGGGTTTATA
**
3739152 GTTTATAGTTTATA
1 GTTTAGGGTTTATA
*
3739166 GTTTGGGGTTTA
1 GTTTAGGGTTTA
3739178 CGGTTTACGG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (14 bp):
GTTTAGGGTTTATA
Found at i:3739823 original size:72 final size:72
Alignment explanation
Indices: 3739742--3739987 Score: 219
Period size: 72 Copynumber: 3.4 Consensus size: 72
3739732 TTTGCTTTTG
*
3739742 GTGGCGCTTTTTTGTAAA-CGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGTAT
1 GTGGCGCTTTCTT-TAAAGCGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGTAT
3739806 TGTCTGTA
65 TGTCTGTA
* * ** * * ** *
3739814 GTGGCGCTTTCATTAAAGCGCCGCAAATA-TGTTTTATGTTTTACATAAACGGTGTCGTTTTCTC
1 GTGGCGCTTTCTTTAAAGCGCCGCAAA-AGTGTATTATGAGTTA-AGAAACTGTGTCGTTTGGTA
* ** *
3739878 TATATAAGTT
64 T-TGTCTGTA
** * * * *
3739888 GTGGCATTTTTTTTGTAAA-CGTCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCTTTTGGCA
1 GTGGC-GCTTTCTT-TAAAGCGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGTA
*
3739952 TTGTCTATA
64 TTGTCTGTA
*
3739961 GTGGCGCTTTCCTTAAAGCGCCGCAAA
1 GTGGCGCTTTCTTTAAAGCGCCGCAAA
3739988 TATGTTTTAT
Statistics
Matches: 127, Mismatches: 39, Indels: 16
0.70 0.21 0.09
Matches are distributed among these distances:
71 8 0.06
72 43 0.34
73 25 0.20
74 24 0.19
75 23 0.18
76 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (72 bp):
GTGGCGCTTTCTTTAAAGCGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGTATT
GTCTGTA
Found at i:3740022 original size:147 final size:147
Alignment explanation
Indices: 3739749--3740046 Score: 524
Period size: 147 Copynumber: 2.0 Consensus size: 147
3739739 TTGGTGGCGC
* *
3739749 TTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGTATTGTCTGTA
1 TTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGCATTGTCTATA
* *
3739814 GTGGCGCTTTCATTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGTCGTTTTCTCT
66 GTGGCGCTTTCATTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCATTTTCTCT
*
3739879 ATATAAGTTGTGGCATT
131 ATATAAGTTGTGGAATT
* *
3739896 TTTTTTGTAAACGTCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCTTTTGGCATTGTCTATA
1 TTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGCATTGTCTATA
*
3739961 GTGGCGCTTTCCTTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCATTTTCTCT
66 GTGGCGCTTTCATTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCATTTTCTCT
3740026 ATATAAGTTGTGGAATT
131 ATATAAGTTGTGGAATT
3740043 TTTT
1 TTTT
3740047 AAAAATGCCA
Statistics
Matches: 143, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
147 143 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (147 bp):
TTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGCATTGTCTATA
GTGGCGCTTTCATTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCATTTTCTCT
ATATAAGTTGTGGAATT
Found at i:3741969 original size:20 final size:20
Alignment explanation
Indices: 3741941--3742109 Score: 156
Period size: 20 Copynumber: 8.8 Consensus size: 20
3741931 TTCTAATTAC
*
3741941 ATAAAATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
*
3741961 ATAATATTAAGATTACTTAT
1 ATAATATTAAGATAACTTAT
*
3741981 ATAATATTAAGATAAAATT-T
1 ATAATATTAAGAT-AACTTAT
* *
3742001 CT-A-ATT-ACATAACTTAT
1 ATAATATTAAGATAACTTAT
3742018 ATAATATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
* *
3742038 ATAATATTAGGATAAAATT-T
1 ATAATATTAAGAT-AACTTAT
* * **
3742058 CT-A-ATT-ACATAACTCGT
1 ATAATATTAAGATAACTTAT
*
3742075 TTAATATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
3742095 ATAATATTAAGATAA
1 ATAATATTAAGATAA
3742110 AATTTCTAAT
Statistics
Matches: 118, Mismatches: 21, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
16 7 0.06
17 9 0.08
18 8 0.07
19 8 0.07
20 79 0.67
21 7 0.06
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAATATTAAGATAACTTAT
Found at i:3742129 original size:57 final size:57
Alignment explanation
Indices: 3741962--3742141 Score: 315
Period size: 57 Copynumber: 3.2 Consensus size: 57
3741952 ATAACTTATA
* ** *
3741962 TAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATA
1 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTT
*
3742019 TAATATTAAGATAACTTATATAATATTAGGATAAAATTTCTAATTACATAACTCGTT
1 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTT
3742076 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTT
1 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTT
3742133 TAATATTAA
1 TAATATTAA
3742142 TTTCTAAGTA
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 117 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (57 bp):
TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTT
Found at i:3742226 original size:87 final size:84
Alignment explanation
Indices: 3742053--3742246 Score: 223
Period size: 87 Copynumber: 2.2 Consensus size: 84
3742043 ATTAGGATAA
* * *
3742053 AATTTCTAATTACATAACTCGTT-TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCT
1 AATTTCTAATAACATAA-T--TTCTAAT-TTTAGATAACTTATACAATATTAAGATAAAATTTCT
*
3742117 AATTACATAACTCGTTTAATATT
62 AATTACATAACTCATTTAATATT
3742140 AATTTCTAAGTACACATCAATTTCTAATTTTAGATAACTTATACAATATTAAGATAAAATTT-TG
1 AATTTCTAA-TA-ACAT-AATTTCTAATTTTAGATAACTTATACAATATTAAGATAAAATTTCT-
*
3742204 AATTACATAACTTATATT-ATATT
62 AATTACATAACTCAT-TTAATATT
**
3742227 CCTTTCTAATAACATAATTT
1 AATTTCTAATAACATAATTT
3742247 ACTTAATACA
Statistics
Matches: 94, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
84 5 0.05
85 4 0.04
86 3 0.03
87 68 0.72
88 7 0.07
89 5 0.05
90 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (84 bp):
AATTTCTAATAACATAATTTCTAATTTTAGATAACTTATACAATATTAAGATAAAATTTCTAATT
ACATAACTCATTTAATATT
Found at i:3747845 original size:21 final size:21
Alignment explanation
Indices: 3747815--3747861 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3747805 CTACAACTTA
* * *
3747815 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAAAGGCAGCAACGAGAG
*
3747836 AAGCAAAGGCTGCAACGAGAG
1 AAGCAAAGGCAGCAACGAGAG
3747857 AAGCA
1 AAGCA
3747862 GAGGTTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.38, T:0.02
Consensus pattern (21 bp):
AAGCAAAGGCAGCAACGAGAG
Found at i:3748577 original size:41 final size:41
Alignment explanation
Indices: 3748481--3748596 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 41
3748471 GTTGTAAAAC
**
3748481 CGCCGCTAAAGAACATGACCCCTAGCGGCGTGTTTCTTGAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGT-TTTCTTGAAG
* * * * * *
3748523 CGTCACTAAAGAACATGATCTTTAGCGTCGTTTTTTTTAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTCTTGAAG
*
3748564 CGCCGCTAAAGAACAAGACCTTTAGCGGCGTTT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
3748597 ATTTCTGTAA
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
41 36 0.59
42 25 0.41
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTCTTGAAG
Found at i:3751253 original size:44 final size:44
Alignment explanation
Indices: 3751064--3751494 Score: 506
Period size: 44 Copynumber: 9.8 Consensus size: 44
3751054 CACCAGTATG
* * * * *
3751064 GAAGACAAGATCTGCTACCTTTGATATATTTCACGCCGATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * *
3751108 GAAGACAAGATCTGCTTTCTTCTATCTACTT--CGCCAATACAC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * * ***
3751150 GAAGATAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
3751195 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
**
3751239 GAAGACAAGATCTGCTATCTTTTATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
3751283 GAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * *
3751327 GAAGACAAGATCTGCTATCTTTGATCTACTTCATGCTAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * ***
3751371 GAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
3751416 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * *
3751460 GAAGACAAGATTTACTTTCTTTGATCTACTTCACG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACG
3751495 ACAACCCAGG
Statistics
Matches: 330, Mismatches: 53, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
42 37 0.11
44 224 0.68
45 69 0.21
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:3751448 original size:221 final size:219
Alignment explanation
Indices: 3751064--3751494 Score: 693
Period size: 221 Copynumber: 2.0 Consensus size: 219
3751054 CACCAGTATG
* * *
3751064 GAAGACAAGATCTGCTACCTTTGATATATTTCACGCCGATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTACCTTTGATATACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
*
3751129 CTATCTACTTCGCCAATACACGAAGATAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATG
66 CTATCTACTTCGCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATG
*
3751194 GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCT
131 GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCT
*
3751259 TTTATCTACTTCACGCCAATACAT
196 TTGATCTACTTCACGCCAATACAT
* * *
3751283 GAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATCTT
1 GAAGACAAGATCTGCTACCTTTGATATACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
* * * *
3751348 -TGATCTACTTCATGCTAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGT
66 CT-ATCTACTTC--GCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGT
* *
3751412 ATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTACTT
128 ATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTA
3751477 TCTTTGATCTACTTCACG
193 TCTTTGATCTACTTCACG
3751495 ACAACCCAGG
Statistics
Matches: 194, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
218 1 0.01
219 68 0.35
221 125 0.64
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (219 bp):
GAAGACAAGATCTGCTACCTTTGATATACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
CTATCTACTTCGCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATG
GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCT
TTGATCTACTTCACGCCAATACAT
Found at i:3751559 original size:221 final size:219
Alignment explanation
Indices: 3751063--3751569 Score: 660
Period size: 221 Copynumber: 2.3 Consensus size: 219
3751053 CCACCAGTAT
* * * * ** * *
3751063 GGAAGACAAGATCTGCTACCTTTGATATATTTCACGCCGATACATGAAGACAAGATCTGCTTTCT
1 GGAAGACAAGAGCTGCTATCTTTGATCTACTTCATACCAATACATGAAGACAAGATCTGCTATCT
*
3751128 TCTATCTACTTCGCCAATACACGAAGATAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTAT
66 TCTATCTACTTCGCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTAT
*
3751193 GGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
131 GGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATC
* * *
3751258 TTTTATCTACTTCACGCCAATACA
196 TTTGATCTACTTCACGACAACACA
* * *
3751282 TGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATCT
1 GGAAGACAAGAGCTGCTATCTTTGATCTACTTCATACCAATACATGAAGACAAGATCTGCTATCT
* * * *
3751347 T-TGATCTACTTCATGCTAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAG
66 TCT-ATCTACTTC--GCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAG
*
3751411 TATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTACT
128 TATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACT
* *
3751476 TTCTTTGATCTACTTCACGACAACCCA
193 ATCTTTGATCTACTTCACGACAACACA
* * * * * * ** *
3751503 GGGAGGCAAG-GCTGGTGTCTTTGATCTGCTTCACTATCGGTAC-TGGAAGGCAAGATCTGCTAT
1 GGAAGACAAGAGCTGCTATCTTTGATCTACTTCA-TACCAATACAT-GAAGACAAGATCTGCTAT
3751566 CTTC
64 CTTC
3751570 AACCTGCTCC
Statistics
Matches: 251, Mismatches: 31, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
218 1 0.00
219 68 0.27
220 20 0.08
221 162 0.65
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (219 bp):
GGAAGACAAGAGCTGCTATCTTTGATCTACTTCATACCAATACATGAAGACAAGATCTGCTATCT
TCTATCTACTTCGCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTAT
GGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATC
TTTGATCTACTTCACGACAACACA
Found at i:3751599 original size:88 final size:88
Alignment explanation
Indices: 3751495--3752394 Score: 1126
Period size: 88 Copynumber: 10.2 Consensus size: 88
3751485 CTACTTCACG
* * * *
3751495 ACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTATCGGTACTGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
3751560 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* *
3751583 ACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACATGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* *
3751648 TGATATCTTCAACCTGCTCTACT
66 TGCTATCTTCAACCTGCTCCACT
* * * * * *
3751671 TCGACCCAAGGAGGCAAGGCTGGTATCTTCGATCTACTTCACTGTTGGTACAGGAAGGTAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
3751736 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* *
3751759 ACAACCCAGAGAGGCAAGGTTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
3751824 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * ** * * *
3751847 ACGACCAAAAGAGGCAAGGCTAGTATCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
*
3751912 TGTTAT-TCTCAACCTGCTCCACT
66 TGCTATCT-TCAACCTGCTCCACT
* * * *
3751935 ACGACCCAGTGAGGCAAGGCTGGTATCTTCGATCTGCCTCACTGTCGGTACAAGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
*
3752000 TGCTATCTTCAATCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * *
3752023 ACAACCCAGGGAGGCAAGGCTCGTATCTTCGATTTGCTTCGCTGTCGATGTA-A-GAAGGCAAGA
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCG--GTACAGGAAGGCAAGA
* * *
3752086 TCAGCTATCTTTAACTTGCTCCACT
64 TCTGCTATCTTCAACCTGCTCCACT
* * * * *
3752111 ACAACCCAGAGAGGCAAGGCTGGTACCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * * *
3752176 TGCTATTTTTAGCCTGCTCCGC-
66 TGCTATCTTCAACCTGCTCCACT
* * * * * * *
3752198 ATAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCCCTGTCGATGCAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * * *
3752263 TACTATTTTCAGCCTGCTCCGCT
66 TGCTATCTTCAACCTGCTCCACT
* * * * * ** *
3752286 ACAACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTATCGGTGTAGAAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * *
3752351 TG-TAATTTTTAACCTGCTCCGCT
66 TGCT-ATCTTCAACCTGCTCCACT
*
3752374 GCAACCCAGGGAGGCAAGGCT
1 ACAACCCAGGGAGGCAAGGCT
3752395 TTATGATTTC
Statistics
Matches: 716, Mismatches: 88, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
86 2 0.00
87 79 0.11
88 630 0.88
89 2 0.00
90 3 0.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (88 bp):
ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
TGCTATCTTCAACCTGCTCCACT
Found at i:3752329 original size:43 final size:43
Alignment explanation
Indices: 3752200--3752329 Score: 100
Period size: 44 Copynumber: 3.0 Consensus size: 43
3752190 TGCTCCGCAT
* * * *
3752200 AACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCCCTGTC
1 AACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCT-AC
* ** * * * * * * *
3752244 GATGCAGGAAGGCAAGATCTACTAT-TTTCAGCCTGCTCCGCTAC
1 AACCCAGGGAGGCAAG-GCTAGTGTCTTTGA-TCTGCTTCGCTAC
3752288 AACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTA
1 AACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTA
3752330 TCGGTGTAGA
Statistics
Matches: 59, Mismatches: 24, Indels: 7
0.66 0.27 0.08
Matches are distributed among these distances:
43 15 0.25
44 32 0.54
45 12 0.20
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (43 bp):
AACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTAC
Found at i:3758972 original size:21 final size:21
Alignment explanation
Indices: 3758935--3758989 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
3758925 AATCATATCT
3758935 TCCAAGATTGC--ATATCATA
1 TCCAAGATTGCATATATCATA
3758954 TCCAAGATTGCATATATCATA
1 TCCAAGATTGCATATATCATA
*
3758975 TCTAAGATTGCATAT
1 TCCAAGATTGCATAT
3758990 CCTTTAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 11 0.33
21 22 0.67
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
TCCAAGATTGCATATATCATA
Found at i:3761559 original size:97 final size:98
Alignment explanation
Indices: 3761441--3761618 Score: 288
Period size: 97 Copynumber: 1.8 Consensus size: 98
3761431 AGTTTGAGAA
* *
3761441 AAGATCAGTCACGTTTACCTTCCTTAGCTGAACTATGGCCGGAGCGTAAAATATATT-AAAAACA
1 AAGATCAGTCACGTTTACCTTCCTTAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAACA
3761505 TTATACACGTGGAAATCATTGTTGGATTGAGGC
66 TTATACACGTGGAAATCATTGTTGGATTGAGGC
* *
3761538 AAGATC-GTTCACGTTTTCCTTCCTTAGCTGAACTATAGCAGGCGCGTAAAATATATTAAAAAAC
1 AAGATCAG-TCACGTTTACCTTCCTTAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAAC
*
3761602 ATTATACATGTGGAAAT
65 ATTATACACGTGGAAAT
3761619 AAAAATAGAC
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
96 1 0.01
97 51 0.69
98 22 0.30
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (98 bp):
AAGATCAGTCACGTTTACCTTCCTTAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAACA
TTATACACGTGGAAATCATTGTTGGATTGAGGC
Found at i:3762073 original size:20 final size:20
Alignment explanation
Indices: 3762038--3762083 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
3762028 TTTCTATATA
*
3762038 TTTTTAAATTTATTATTGCAT
1 TTTTTAAATATATTA-TGCAT
*
3762059 TTTTTAAATAT-TTATGTAT
1 TTTTTAAATATATTATGCAT
3762078 TTTTTA
1 TTTTTA
3762084 TATTTCTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 3 0.13
21 10 0.43
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTAAATATATTATGCAT
Found at i:3764295 original size:5 final size:5
Alignment explanation
Indices: 3764285--3764504 Score: 354
Period size: 5 Copynumber: 44.0 Consensus size: 5
3764275 GGGGTAGGAC
3764285 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
3764335 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
3764385 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* * * *
3764435 ATGAT ATGAT ATGAT -TCGAT ATAAC ATGAT ATGAT ACGAT -TCAAT ATGAT
1 ATGAT ATGAT ATGAT AT-GAT ATGAT ATGAT ATGAT ATGAT AT-GAT ATGAT
* *
3764485 ATGAT ATGTT AAGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT
3764505 TCGTATAAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
4 1 0.01
5 196 0.98
6 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (5 bp):
ATGAT
Found at i:3764746 original size:20 final size:21
Alignment explanation
Indices: 3764707--3764746 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3764697 TTAAGCATCG
**
3764707 TGGACTTTTATTTGTTTATTA
1 TGGACTTTTATTACTTTATTA
3764728 TGGACTTTT-TTACTTTATT
1 TGGACTTTTATTACTTTATT
3764747 GGGTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.17, C:0.07, G:0.12, T:0.62
Consensus pattern (21 bp):
TGGACTTTTATTACTTTATTA
Found at i:3765239 original size:17 final size:16
Alignment explanation
Indices: 3765210--3765244 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
3765200 ATAAAATATG
3765210 TATAATAAAATTAAAA
1 TATAATAAAATTAAAA
*
3765226 TATATATAATATTAAAA
1 TATA-ATAAAATTAAAA
3765243 TA
1 TA
3765245 AAAATTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TATAATAAAATTAAAA
Found at i:3765246 original size:22 final size:20
Alignment explanation
Indices: 3765199--3765247 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
3765189 TGATGGAGGT
*
3765199 AATAAAATATGTATAATAAA
1 AATAAAATATATATAATAAA
*
3765219 ATTAAAATATATATAATATTAA
1 AATAAAATATATATAATA--AA
3765241 AATAAAA
1 AATAAAA
3765248 ATTTAGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.67
22 8 0.33
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AATAAAATATATATAATAAA
Found at i:3774968 original size:16 final size:16
Alignment explanation
Indices: 3774947--3774979 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3774937 AAGTAAACTA
3774947 TGAAAATT-TTTCTAAG
1 TGAAAATTGTTT-TAAG
3774963 TGAAAATTGTTTTAAG
1 TGAAAATTGTTTTAAG
3774979 T
1 T
3774980 AAAGTTACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (16 bp):
TGAAAATTGTTTTAAG
Found at i:3775741 original size:15 final size:15
Alignment explanation
Indices: 3775721--3775749 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3775711 TAAAGTTAAC
3775721 ATATATATAATATAT
1 ATATATATAATATAT
3775736 ATATATATAATATA
1 ATATATATAATATA
3775750 CAAATGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATATAATATAT
Found at i:3777914 original size:69 final size:70
Alignment explanation
Indices: 3777788--3777985 Score: 245
Period size: 69 Copynumber: 2.8 Consensus size: 70
3777778 AAATCATTGG
* * *** *
3777788 TGTGCCCAACACTAGTCAAACGAATCGACAAATTATTGTGCATGGCGCTAGTTGGATAACCAACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCAACG
*
3777853 ATAGT
66 ATAGC
* * * * *
3777858 TGTGCCCAGCACTAGTCGAAC-AATCAAAAAATTATTATGCCCAGTGCTAGTCGGATAACCGACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCAACG
3777922 ATAGC
66 ATAGC
** * *
3777927 TGTGCCCAACACTAGTCGGGCGAATCAACAAATTATTGCGCCCAGCGCTAGTCAGATAA
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAA
3777986 TCGATGATAG
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
69 56 0.52
70 51 0.48
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (70 bp):
TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCAACG
ATAGC
Found at i:3777985 original size:70 final size:70
Alignment explanation
Indices: 3777788--3777995 Score: 247
Period size: 70 Copynumber: 3.0 Consensus size: 70
3777778 AAATCATTGG
* * *** * *
3777788 TGTGCCCAACACTAGTCAAACGAATCGACAAATTATTGTGCATGGCGCTAGTTGGATAACCAACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
*
3777853 ATAGT
66 ATAGC
* * * *
3777858 TGTGCCCAGCACTAGTCGAAC-AATCAAAAAATTATTATGCCCAGTGCTAGTCGGATAACCGACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
3777922 ATAGC
66 ATAGC
** * * * *
3777927 TGTGCCCAACACTAGTCGGGCGAATCAACAAATTATTGCGCCCAGCGCTAGTCAGATAATCGATG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
3777992 ATAG
66 ATAG
3777996 TTACTCAATA
Statistics
Matches: 115, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
69 56 0.49
70 59 0.51
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (70 bp):
TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
ATAGC
Found at i:3778520 original size:16 final size:16
Alignment explanation
Indices: 3778499--3778549 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
3778489 TTAATCCTTG
3778499 AATTTATCATTCTCAT
1 AATTTATCATTCTCAT
*
3778515 AATTTA--A-TC-CTT
1 AATTTATCATTCTCAT
3778527 GAATTTATCATTCTCAT
1 -AATTTATCATTCTCAT
3778544 AATTTA
1 AATTTA
3778550 ATCCTTGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
12 2 0.07
13 8 0.29
14 1 0.04
15 1 0.04
16 14 0.50
17 2 0.07
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (16 bp):
AATTTATCATTCTCAT
Found at i:3778528 original size:29 final size:29
Alignment explanation
Indices: 3778486--3778558 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
3778476 ATTAAATCAC
3778486 AATTTAATCCTTGAATTTATCATTCTCAT
1 AATTTAATCCTTGAATTTATCATTCTCAT
3778515 AATTTAATCCTTGAATTTATCATTCTCAT
1 AATTTAATCCTTGAATTTATCATTCTCAT
3778544 AATTTAATCCTTGAA
1 AATTTAATCCTTGAA
3778559 CCTTAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.47
Consensus pattern (29 bp):
AATTTAATCCTTGAATTTATCATTCTCAT
Found at i:3778999 original size:19 final size:19
Alignment explanation
Indices: 3778949--3779002 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
3778939 AAAATAAAAT
3778949 AAAATAAAAATAAATTTGAA
1 AAAAT-AAAATAAATTTGAA
3778969 ATTAAA-AAAATAAATTT-AA
1 A--AAATAAAATAAATTTGAA
3778988 GAAAATAAAATAAAT
1 -AAAATAAAATAAAT
3779003 GGGTAAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
18 3 0.10
19 11 0.37
20 13 0.43
22 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAATAAAATAAATTTGAA
Found at i:3779872 original size:13 final size:13
Alignment explanation
Indices: 3779854--3779896 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
3779844 TAGATTTTTC
3779854 CTAAATATTATCA
1 CTAAATATTATCA
3779867 CTAAATA--ATC-
1 CTAAATATTATCA
3779877 CTAAATATTATCA
1 CTAAATATTATCA
3779890 CTAAATA
1 CTAAATA
3779897 ATTCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:3779879 original size:23 final size:23
Alignment explanation
Indices: 3779852--3779898 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
3779842 GCTAGATTTT
3779852 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
3779875 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
3779898 T
1 T
3779899 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:3779905 original size:23 final size:23
Alignment explanation
Indices: 3779856--3779905 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
3779846 GATTTTTCCT
*
3779856 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
3779879 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
3779902 AAAT
1 AAAT
3779906 TTACAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:3781877 original size:19 final size:19
Alignment explanation
Indices: 3781853--3781889 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3781843 CCTAGTGCCA
3781853 CCTTAGAGGAGTTATGATT
1 CCTTAGAGGAGTTATGATT
*
3781872 CCTTAGAGGCGTTATGAT
1 CCTTAGAGGAGTTATGAT
3781890 CCATATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (19 bp):
CCTTAGAGGAGTTATGATT
Found at i:3782675 original size:6 final size:6
Alignment explanation
Indices: 3782664--3782697 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
3782654 AAATATACTA
3782664 TTATTT TTATTT TTATTT ATATATTT TTATTT TT
1 TTATTT TTATTT TTATTT -T-TATTT TTATTT TT
3782698 TTCCAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.73
7 2 0.08
8 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:3789769 original size:23 final size:23
Alignment explanation
Indices: 3789739--3789788 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
3789729 GATTTTTCCT
*
3789739 AAATATTATCATTAAATAATCCA
1 AAATATTATCACTAAATAATCCA
*
3789762 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
3789785 AAAT
1 AAAT
3789789 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:3814239 original size:20 final size:21
Alignment explanation
Indices: 3814209--3814266 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
3814199 TAACTTTGTC
* *
3814209 TTTTGTTTTCTTTTC-CTCTT
1 TTTTTTTTTCTTTTCTCCCTT
3814229 TCTTTTTTTCTCTTTTCTCCC-T
1 T-TTTTTTT-TCTTTTCTCCCTT
3814251 TTTTTTTTTCTTTTCT
1 TTTTTTTTTCTTTTCT
3814267 TTTCATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 9 0.27
21 13 0.39
22 9 0.27
23 2 0.06
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTTTTCTTTTCTCCCTT
Found at i:3814242 original size:22 final size:23
Alignment explanation
Indices: 3814207--3814261 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
3814197 TTTAACTTTG
*
3814207 TCTTTTGTTT-TCTTTTC-CTCTT
1 TCTTTT-TTTCTCTTTTCTCCCTT
3814229 TCTTTTTTTCTCTTTTCTCCCTT
1 TCTTTTTTTCTCTTTTCTCCCTT
3814252 T-TTTTTTTCT
1 TCTTTTTTTCT
3814262 TTTCTTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 3 0.10
22 22 0.73
23 5 0.17
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.75
Consensus pattern (23 bp):
TCTTTTTTTCTCTTTTCTCCCTT
Found at i:3825088 original size:26 final size:25
Alignment explanation
Indices: 3825055--3825149 Score: 70
Period size: 26 Copynumber: 3.6 Consensus size: 25
3825045 TTTTAAAGTT
3825055 TTTTTTATATATTTTTACAATTTTTA
1 TTTTTTATA-ATTTTTACAATTTTTA
*
3825081 TTTTTTATAAAATTTT-C-ATTTTT-
1 TTTTTTAT-AATTTTTACAATTTTTA
* *
3825104 TTAATTTTATAGTTTTTATAATTTTTAA
1 TT--TTTTATAATTTTTACAATTTTT-A
3825132 TAATTTCTTATAATTTTT
1 T--TTT-TTATAATTTTT
3825150 TTAAAAATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
23 2 0.04
24 11 0.20
25 7 0.13
26 19 0.35
27 1 0.02
28 3 0.06
29 10 0.19
30 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (25 bp):
TTTTTTATAATTTTTACAATTTTTA
Found at i:3825110 original size:9 final size:9
Alignment explanation
Indices: 3825056--3825149 Score: 79
Period size: 9 Copynumber: 10.6 Consensus size: 9
3825046 TTTAAAGTTT
3825056 TTTTTATATA
1 TTTTTATA-A
*
3825066 TTTTTACAA
1 TTTTTATAA
3825075 TTTTTAT--
1 TTTTTATAA
3825082 TTTTTATAA
1 TTTTTATAA
** *
3825091 AATTT-TCA
1 TTTTTATAA
*
3825099 TTTTTTTAA
1 TTTTTATAA
*
3825108 -TTTTATAG
1 TTTTTATAA
3825116 TTTTTATAA
1 TTTTTATAA
3825125 TTTTTAATAA
1 TTTTT-ATAA
3825135 TTTCTTATAA
1 TTT-TTATAA
3825145 TTTTT
1 TTTTT
3825150 TTAAAAATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
7 7 0.10
8 11 0.16
9 26 0.39
10 21 0.31
11 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:3825514 original size:28 final size:29
Alignment explanation
Indices: 3825462--3825517 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
3825452 GATTGATGTA
*
3825462 ATTTTATAATTTTATTATTATTTTTTATG
1 ATTTTATAATTTTATTATTAATTTTTATG
3825491 ATTTTA-AATTTT-TTATTTAATTTTTAT
1 ATTTTATAATTTTATTA-TTAATTTTTAT
3825518 TAGACTGACG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 3 0.12
28 16 0.64
29 6 0.24
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (29 bp):
ATTTTATAATTTTATTATTAATTTTTATG
Found at i:3827639 original size:51 final size:51
Alignment explanation
Indices: 3827583--3827692 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 51
3827573 ACCCTTAAAG
* *
3827583 TTTACATATTCTGTCAACTTGGTCTTGTTTTAACAAATTCAGTCTT-CAACA
1 TTTACATATTCTATCAACTTGGTCTTGATTTAACAAATTCAG-CTTGCAACA
** * * *
3827634 TTTACATATTCTATCATTTTGGTTTTGATTTAACAAATTTAGCTTGTAACA
1 TTTACATATTCTATCAACTTGGTCTTGATTTAACAAATTCAGCTTGCAACA
3827685 TTTACATA
1 TTTACATA
3827693 GGATATATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 3 0.06
51 48 0.94
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.46
Consensus pattern (51 bp):
TTTACATATTCTATCAACTTGGTCTTGATTTAACAAATTCAGCTTGCAACA
Found at i:3829476 original size:15 final size:16
Alignment explanation
Indices: 3829456--3829503 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
3829446 TTAATTTTTG
3829456 TAATTTTTTTAGAAAT
1 TAATTTTTTTAGAAAT
* *
3829472 T-ATTTTTATAGTAAT
1 TAATTTTTTTAGAAAT
*
3829487 TAATATTTTTTATAAAT
1 TAAT-TTTTTTAGAAAT
3829504 ATAAATTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 13 0.52
16 3 0.12
17 9 0.36
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (16 bp):
TAATTTTTTTAGAAAT
Found at i:3832628 original size:2 final size:2
Alignment explanation
Indices: 3832621--3832657 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3832611 ATGTTAGCAA
*
3832621 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3832658 AATCAAGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3835864 original size:29 final size:30
Alignment explanation
Indices: 3835832--3835893 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
3835822 GTTTCACATG
* * *
3835832 TATAATT-ATATTAATTTAAAATTTATATA
1 TATAATTAACATTAAATCAAAATTTATATA
3835861 TATAATTACACATTAAATCAAAATTTATATA
1 TATAATTA-ACATTAAATCAAAATTTATATA
3835892 TA
1 TA
3835894 ATTTTAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 7 0.25
31 21 0.75
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (30 bp):
TATAATTAACATTAAATCAAAATTTATATA
Found at i:3842458 original size:3 final size:3
Alignment explanation
Indices: 3842450--3842484 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
3842440 AGGCGAAATT
3842450 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
3842485 CATCTTCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:3842603 original size:13 final size:13
Alignment explanation
Indices: 3842585--3842628 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
3842575 TAAATTTAAT
3842585 AAATTTAATTATA
1 AAATTTAATTATA
3842598 AAATTT-A--AT-
1 AAATTTAATTATA
3842607 AAATTTAATTATA
1 AAATTTAATTATA
3842620 AAATTTAAT
1 AAATTTAAT
3842629 ATTATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.22
10 3 0.11
12 3 0.11
13 15 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTTAATTATA
Found at i:3842604 original size:22 final size:22
Alignment explanation
Indices: 3842572--3842629 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
3842562 ATTTTATATT
3842572 TTAT-AAATTTAATAAATTTAA
1 TTATAAAATTTAATAAATTTAA
3842593 TTATAAAATTTAATAAATTTAA
1 TTATAAAATTTAATAAATTTAA
3842615 TTATAAAATTTAATA
1 TTATAAAATTTAATA
3842630 TTATTTAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.11
22 32 0.89
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTATAAAATTTAATAAATTTAA
Found at i:3847028 original size:11 final size:11
Alignment explanation
Indices: 3847012--3847038 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3847002 TCAAATGGTC
3847012 ATTTGCCAACA
1 ATTTGCCAACA
3847023 ATTTGCCAACA
1 ATTTGCCAACA
3847034 ATTTG
1 ATTTG
3847039 ATTTGCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (11 bp):
ATTTGCCAACA
Found at i:3848127 original size:16 final size:17
Alignment explanation
Indices: 3848106--3848149 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
3848096 AGGTATTTGA
3848106 TATTTGGGTTAATT-TT
1 TATTTGGGTTAATTATT
*
3848122 TATTTGGGTTAGTTATT
1 TATTTGGGTTAATTATT
*
3848139 TAGTTGGGTTA
1 TATTTGGGTTA
3848150 TTGAAGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (17 bp):
TATTTGGGTTAATTATT
Found at i:3848145 original size:17 final size:16
Alignment explanation
Indices: 3848109--3848149 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
3848099 TATTTGATAT
*
3848109 TTGGGTTAATTTTTAT
1 TTGGGTTAATTTTTAG
*
3848125 TTGGGTTAGTTATTTAG
1 TTGGGTTAATT-TTTAG
3848142 TTGGGTTA
1 TTGGGTTA
3848150 TTGAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (16 bp):
TTGGGTTAATTTTTAG
Found at i:3848643 original size:21 final size:21
Alignment explanation
Indices: 3848602--3848643 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
3848592 AGAGCCAAAG
* *
3848602 TAAACTTTAAAAATTGGAATT
1 TAAACTTTAAAAATAGAAATT
3848623 TAAA-TTTAAAAATAAGAAATT
1 TAAACTTTAAAAAT-AGAAATT
3848644 AGGGGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
TAAACTTTAAAAATAGAAATT
Found at i:3854926 original size:20 final size:20
Alignment explanation
Indices: 3854875--3854920 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
3854865 AATACAGAGA
*
3854875 AAAATGAGGATAACAGAAAAAG
1 AAAATGA-GA-AAAAGAAAAAG
*
3854897 GAAATGAGAAAAAGAAAAAG
1 AAAATGAGAAAAAGAAAAAG
3854917 AAAA
1 AAAA
3854921 ATAGAATAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.70, C:0.02, G:0.22, T:0.07
Consensus pattern (20 bp):
AAAATGAGAAAAAGAAAAAG
Found at i:3855784 original size:3 final size:3
Alignment explanation
Indices: 3855776--3855822 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
3855766 AATTAGTTAC
* *
3855776 ATT ATT ATT ATC ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
3855823 ATATCGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:3855900 original size:23 final size:21
Alignment explanation
Indices: 3855874--3855926 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
3855864 TATTATAGAC
*
3855874 TATTATTTTAAGTTGTTTTATA
1 TATTATTTTAAGTT-TATTATA
3855896 TTATTA-TTTAAGTTTATTATA
1 -TATTATTTTAAGTTTATTATA
3855917 TATTATTTTA
1 TATTATTTTA
3855927 TTAAACCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 5 0.18
21 10 0.36
22 8 0.29
23 5 0.18
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (21 bp):
TATTATTTTAAGTTTATTATA
Found at i:3862723 original size:30 final size:29
Alignment explanation
Indices: 3862686--3862803 Score: 101
Period size: 30 Copynumber: 3.8 Consensus size: 29
3862676 TCAAATATTG
*
3862686 AGTCTTCTCAAGCTCCTGAACGAGATATC
1 AGTCTTCTCAAGCTCCTGAATGAGATATC
*
3862715 ATGTCTTCTCAATCCCAATATCCTGAATGAGATATC
1 A-GTCTTCTCAA--GC----TCCTGAATGAGATATC
* *
3862751 GAGTTTTCCCAAGCTCCTGAATGAGATATC
1 -AGTCTTCTCAAGCTCCTGAATGAGATATC
* *
3862781 AAGTTTTCTCAAGTTCCTGAATG
1 -AGTCTTCTCAAGCTCCTGAATG
3862804 TCCTCATAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
29 1 0.01
30 46 0.63
32 1 0.01
34 1 0.01
36 23 0.32
37 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (29 bp):
AGTCTTCTCAAGCTCCTGAATGAGATATC
Found at i:3864304 original size:2 final size:2
Alignment explanation
Indices: 3864297--3864383 Score: 174
Period size: 2 Copynumber: 43.5 Consensus size: 2
3864287 TAAAGTAAAA
3864297 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3864339 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3864381 AG A
1 AG A
3864384 AAAGAATAAG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3871007 original size:11 final size:11
Alignment explanation
Indices: 3870988--3871027 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
3870978 ATTAATAGGT
3870988 ATTATAATAAA
1 ATTATAATAAA
*
3870999 ATTACAATAAA
1 ATTATAATAAA
3871010 ATTATAATAAA
1 ATTATAATAAA
*
3871021 ATAATAA
1 ATTATAA
3871028 AAACAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
ATTATAATAAA
Done.