Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 14 of 170
Found at i:4056382 original size:50 final size:50
Alignment explanation
Indices: 4056303--4056408 Score: 196
Period size: 50 Copynumber: 2.1 Consensus size: 50
4056293 AGTTACACAA
4056303 TTTG-TTTTCATTCATTTATTAAAATATTATTTTACCGATTAAGTCTTAG
1 TTTGATTTTCATTCATTTATTAAAATATTATTTTACCGATTAAGTCTTAG
4056352 TTTGATTTTCATTCATTTATTAAAATATTATTTTACCGATTAAGTCTTAG
1 TTTGATTTTCATTCATTTATTAAAATATTATTTTACCGATTAAGTCTTAG
*
4056402 TTCGATT
1 TTTGATT
4056409 GAACGTGTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.53
Consensus pattern (50 bp):
TTTGATTTTCATTCATTTATTAAAATATTATTTTACCGATTAAGTCTTAG
Found at i:4058087 original size:27 final size:27
Alignment explanation
Indices: 4058049--4058103 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
4058039 TAATACTATG
4058049 TTTATATATTATGTTAGTAGTTTATAA
1 TTTATATATTATGTTAGTAGTTTATAA
4058076 TTTATATATTATGTTAGTAGTTTATAA
1 TTTATATATTATGTTAGTAGTTTATAA
4058103 T
1 T
4058104 ATTGGAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (27 bp):
TTTATATATTATGTTAGTAGTTTATAA
Found at i:4058380 original size:73 final size:73
Alignment explanation
Indices: 4058298--4058436 Score: 278
Period size: 73 Copynumber: 1.9 Consensus size: 73
4058288 CACTTAACAA
4058298 TAAATAATGTGCAAAAAAGGAGTAAATAAAATGACACAAGGATTATGTGGTTCCTTTAATTTATT
1 TAAATAATGTGCAAAAAAGGAGTAAATAAAATGACACAAGGATTATGTGGTTCCTTTAATTTATT
4058363 ATGGTATT
66 ATGGTATT
4058371 TAAATAATGTGCAAAAAAGGAGTAAATAAAATGACACAAGGATTATGTGGTTCCTTTAATTTATT
1 TAAATAATGTGCAAAAAAGGAGTAAATAAAATGACACAAGGATTATGTGGTTCCTTTAATTTATT
4058436 A
66 A
4058437 CGTGGTTTGG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.33
Consensus pattern (73 bp):
TAAATAATGTGCAAAAAAGGAGTAAATAAAATGACACAAGGATTATGTGGTTCCTTTAATTTATT
ATGGTATT
Found at i:4061532 original size:27 final size:28
Alignment explanation
Indices: 4061473--4061532 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
4061463 AAACCAAAAG
*
4061473 CAAACAGTCCAGAGAGTCCCAAAAATTA
1 CAAACAGTCCAAAGAGTCCCAAAAATTA
4061501 CAAACAGTCCAAAGAGTCCC-AAAATTA
1 CAAACAGTCCAAAGAGTCCCAAAAATTA
4061528 CAAAC
1 CAAAC
4061533 TCTCAAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 12 0.39
28 19 0.61
ACGTcount: A:0.48, C:0.27, G:0.12, T:0.13
Consensus pattern (28 bp):
CAAACAGTCCAAAGAGTCCCAAAAATTA
Found at i:4070061 original size:34 final size:30
Alignment explanation
Indices: 4070012--4070085 Score: 78
Period size: 34 Copynumber: 2.3 Consensus size: 30
4070002 TTTTAATTTC
* *
4070012 ATTCATTCTTATTATATTATAATATATACATTA
1 ATTCATT-TTATTATAATA-AACATA-ACATTA
4070045 GATTCATTTTATTTATAATAAACATAACATTA
1 -ATTCATTTTA-TTATAATAAACATAACATTA
4070077 ATTC-TTTTA
1 ATTCATTTTA
4070086 ACCTATGACC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
30 5 0.14
31 4 0.11
32 6 0.16
33 8 0.22
34 14 0.38
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.50
Consensus pattern (30 bp):
ATTCATTTTATTATAATAAACATAACATTA
Found at i:4093321 original size:27 final size:26
Alignment explanation
Indices: 4093273--4093391 Score: 69
Period size: 27 Copynumber: 4.3 Consensus size: 26
4093263 GTGCTTTAGT
**
4093273 AAAAAAA-TATAAGTATGTAATTAGGAC
1 AAAAAAACTA-AAGTATCAAATT-GGAC
* *
4093300 AAAAAAACTAAAGTATCAAATTGAAT
1 AAAAAAACTAAAGTATCAAATTGGAC
* *
4093326 ATTAAAGCTAAACTCAAGTACTTAAATTGGGAC
1 A--AAA---AAACTAAAGTA-TCAAATT-GGAC
* * *
4093359 AAAAAAACTCAAGTATCAAATTGAAA
1 AAAAAAACTAAAGTATCAAATTGGAC
4093385 AAAAAAA
1 AAAAAAA
4093392 TTCATGTACT
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
26 12 0.16
27 23 0.32
28 16 0.22
31 13 0.18
32 6 0.08
33 3 0.04
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (26 bp):
AAAAAAACTAAAGTATCAAATTGGAC
Found at i:4101669 original size:13 final size:14
Alignment explanation
Indices: 4101641--4101673 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4101631 TTCTAACATC
*
4101641 AAAAAGGAAGAGAG
1 AAAAAGGAAGAAAG
4101655 AAAAAGGAA-AAAG
1 AAAAAGGAAGAAAG
4101668 AAAAAG
1 AAAAAG
4101674 AGATTAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AAAAAGGAAGAAAG
Found at i:4104053 original size:21 final size:21
Alignment explanation
Indices: 4104029--4104068 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4104019 TAAAAATATA
*
4104029 ATAACAATGGTAATAATAAAG
1 ATAACAATGATAATAATAAAG
*
4104050 ATAAGAATGATAATAATAA
1 ATAACAATGATAATAATAA
4104069 CAGCGAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.12, T:0.25
Consensus pattern (21 bp):
ATAACAATGATAATAATAAAG
Found at i:4104745 original size:13 final size:13
Alignment explanation
Indices: 4104723--4104756 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
4104713 TTTTCTTTCG
4104723 AAAA-TAAAAAAA
1 AAAAGTAAAAAAA
*
4104735 AAAAGTAAAAACA
1 AAAAGTAAAAAAA
4104748 AAAAGTAAA
1 AAAAGTAAA
4104757 TAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (13 bp):
AAAAGTAAAAAAA
Found at i:4104921 original size:21 final size:21
Alignment explanation
Indices: 4104897--4104964 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
4104887 TATCCTATTT
4104897 TTTTGTTATTATCTCCTACTA
1 TTTTGTTATTATCTCCTACTA
* * *
4104918 TTTTCTCTCTATAGGACTCCT--T-
1 TTTTGT-TAT-TA--TCTCCTACTA
4104940 TTTTGTTATTATCTCCTACTA
1 TTTTGTTATTATCTCCTACTA
4104961 TTTT
1 TTTT
4104965 CTCTCTATGG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
18 5 0.15
20 3 0.09
21 11 0.32
22 7 0.21
23 3 0.09
25 5 0.15
ACGTcount: A:0.16, C:0.21, G:0.06, T:0.57
Consensus pattern (21 bp):
TTTTGTTATTATCTCCTACTA
Found at i:4104956 original size:43 final size:43
Alignment explanation
Indices: 4104895--4104991 Score: 176
Period size: 43 Copynumber: 2.3 Consensus size: 43
4104885 ATTATCCTAT
4104895 TTTTTTGTTATTATCTCCTACTATTTTCTCTCTATAGGACTCC
1 TTTTTTGTTATTATCTCCTACTATTTTCTCTCTATAGGACTCC
*
4104938 TTTTTTGTTATTATCTCCTACTATTTTCTCTCTATGGGACTCC
1 TTTTTTGTTATTATCTCCTACTATTTTCTCTCTATAGGACTCC
*
4104981 CTTTTTGTTAT
1 TTTTTTGTTAT
4104992 CCGGGCTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.14, C:0.22, G:0.08, T:0.56
Consensus pattern (43 bp):
TTTTTTGTTATTATCTCCTACTATTTTCTCTCTATAGGACTCC
Found at i:4104964 original size:22 final size:22
Alignment explanation
Indices: 4104896--4104964 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
4104886 TTATCCTATT
4104896 TTTTTGTTATTATCTCCTACTA
1 TTTTTGTTATTATCTCCTACTA
* *** *
4104918 TTTTCTCTCTA-TA-GGACTCCT-
1 TTTT-TGT-TATTATCTCCTACTA
4104939 TTTTTGTTATTATCTCCTACTA
1 TTTTTGTTATTATCTCCTACTA
4104961 TTTT
1 TTTT
4104965 CTCTCTATGG
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 2 0.06
20 4 0.12
21 8 0.25
22 12 0.38
23 4 0.12
24 2 0.06
ACGTcount: A:0.16, C:0.20, G:0.06, T:0.58
Consensus pattern (22 bp):
TTTTTGTTATTATCTCCTACTA
Found at i:4106472 original size:37 final size:37
Alignment explanation
Indices: 4106418--4106527 Score: 115
Period size: 37 Copynumber: 3.0 Consensus size: 37
4106408 TTATTCTAAA
*
4106418 ATTAATATTATTTTAATAGTTTAATATTTAATTTAAT
1 ATTAATATTATCTTAATAGTTTAATATTTAATTTAAT
*
4106455 -TTAATACTTATCTTAATAGTATT-TTA-TTAATTTAAT
1 ATTAATA-TTATCTTAATAGT-TTAATATTTAATTTAAT
4106491 ATTAAAGTGATTATCTTAATA--TTAA-ATTTAATTTAAT
1 ATT-AA-T-ATTATCTTAATAGTTTAATATTTAATTTAAT
4106528 GTTTATCTAG
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
36 19 0.31
37 26 0.42
38 4 0.06
39 12 0.19
40 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.54
Consensus pattern (37 bp):
ATTAATATTATCTTAATAGTTTAATATTTAATTTAAT
Found at i:4108059 original size:27 final size:27
Alignment explanation
Indices: 4107987--4108062 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
4107977 TTGTGGTGGC
*
4107987 GGTATAACACCAGTAGGTCTGGCAAGAT
1 GGTAT-ACGCCAGTAGGTCTGGCAAGAT
* ** * **
4108015 GGT-TACGTCAACAAGTCTGGTTAGAT
1 GGTATACGCCAGTAGGTCTGGCAAGAT
4108041 GGTATACGCCAGTAGGTCTGGC
1 GGTATACGCCAGTAGGTCTGGC
4108063 GAGTTAGTAT
Statistics
Matches: 35, Mismatches: 12, Indels: 3
0.70 0.24 0.06
Matches are distributed among these distances:
26 18 0.51
27 14 0.40
28 3 0.09
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (27 bp):
GGTATACGCCAGTAGGTCTGGCAAGAT
Found at i:4116711 original size:25 final size:27
Alignment explanation
Indices: 4116650--4116713 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
4116640 TAAAGCACAT
*
4116650 GATCGGGAAGCCCTCTCTCGAGCCATA
1 GATCGGGAAGCTCTCTCTCGAGCCATA
* * *
4116677 GAACGAGAAGCTCT-TGT-GAGCCATA
1 GATCGGGAAGCTCTCTCTCGAGCCATA
*
4116702 TATCGGGAAGCT
1 GATCGGGAAGCT
4116714 TATCCAGGCT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
25 17 0.57
26 2 0.07
27 11 0.37
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (27 bp):
GATCGGGAAGCTCTCTCTCGAGCCATA
Found at i:4116928 original size:26 final size:27
Alignment explanation
Indices: 4116846--4116928 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 27
4116836 CAAGCGAGCC
*
4116846 ATATC-AGGAAGCTC-TGGAGAGCCAT
1 ATATCGAGGAAGCTCATGAAGAGCCAT
**
4116871 CA-ATC-AGGAAGCTCACAAAGAGCC-T
1 -ATATCGAGGAAGCTCATGAAGAGCCAT
*
4116896 TTAATCGA-GAAGCTCATGAAGAGCCAT
1 AT-ATCGAGGAAGCTCATGAAGAGCCAT
4116923 ATATCG
1 ATATCG
4116929 GGACTGTCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
25 13 0.29
26 29 0.64
27 3 0.07
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
ATATCGAGGAAGCTCATGAAGAGCCAT
Found at i:4124971 original size:24 final size:24
Alignment explanation
Indices: 4124940--4124985 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
4124930 AAATGCAGCT
4124940 TGATTAATTTGATTTAATTCAACC
1 TGATTAATTTGATTTAATTCAACC
4124964 TGATTAATTTGATTTAATTCAA
1 TGATTAATTTGATTTAATTCAA
4124986 GTTTTAGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (24 bp):
TGATTAATTTGATTTAATTCAACC
Found at i:4125850 original size:31 final size:29
Alignment explanation
Indices: 4125815--4125888 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
4125805 TCAACGGCTC
4125815 AGTGACTAAAATGTTACAACATGTT-AACATA
1 AGTGACTAAAATGTT--AACAT-TTAAACATA
* *
4125846 AGTGACTAAAACG-TAATATTTCAAACATA
1 AGTGACTAAAATGTTAACATTT-AAACATA
4125875 AGTGACTAAAATGT
1 AGTGACTAAAATGT
4125889 AATATAAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 2 0.05
28 4 0.11
29 18 0.49
30 1 0.03
31 12 0.32
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (29 bp):
AGTGACTAAAATGTTAACATTTAAACATA
Found at i:4128682 original size:19 final size:20
Alignment explanation
Indices: 4128658--4128698 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
4128648 GAATTTAGGC
*
4128658 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
4128677 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
4128697 AA
1 AA
4128699 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:4131340 original size:31 final size:30
Alignment explanation
Indices: 4131284--4131343 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
4131274 TTAGTAATGG
**
4131284 TAAAATTATATTTTATCATTTTAAAAATAA
1 TAAAATTATATTTTATCATCATAAAAATAA
4131314 TAAAATTATATTTT-TACTATCATAAAAATA
1 TAAAATTATATTTTAT-C-ATCATAAAAATA
4131344 TACAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.04
30 15 0.58
31 10 0.38
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (30 bp):
TAAAATTATATTTTATCATCATAAAAATAA
Found at i:4132991 original size:42 final size:41
Alignment explanation
Indices: 4132883--4133010 Score: 175
Period size: 42 Copynumber: 3.0 Consensus size: 41
4132873 TTCCAACAAG
* * *
4132883 AAGAACCAAACCAAGCTTGTTAAACCATCAAATGTATCCACC
1 AAGAACCAAACCAAGCTTGTTAAATCAT-GAATGTATCAACC
* *
4132925 AAGAACCAAACCAAGCTGGTTAAATCAGTGAATGTATCGACC
1 AAGAACCAAACCAAGCTTGTTAAATCA-TGAATGTATCAACC
*
4132967 AAGAACCAAACCAAGCTTGTTAAATCACTGGATGTATCAACC
1 AAGAACCAAACCAAGCTTGTTAAATCA-TGAATGTATCAACC
4133009 AA
1 AA
4133011 AACGTCGAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 76 0.99
43 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (41 bp):
AAGAACCAAACCAAGCTTGTTAAATCATGAATGTATCAACC
Found at i:4134042 original size:3 final size:3
Alignment explanation
Indices: 4134034--4134058 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4134024 GGGGGAGTAC
4134034 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
4134059 AATTAGTCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:4150842 original size:6 final size:6
Alignment explanation
Indices: 4150831--4150859 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4150821 AATCATATTT
4150831 AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAAT
4150860 TCTTTTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:4152176 original size:26 final size:27
Alignment explanation
Indices: 4152115--4152176 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
4152105 CACATAGAAA
4152115 TTATAATAAATATAAAAATCAATAAAAT
1 TTATAA-AAATATAAAAATCAATAAAAT
** * *
4152143 AAATTAAAAATATAAAAAT-ATTAAATT
1 TTA-TAAAAATATAAAAATCAATAAAAT
4152170 TTATAAA
1 TTATAAA
4152177 TGATATAACA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
26 4 0.15
27 7 0.26
28 13 0.48
29 3 0.11
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
TTATAAAAATATAAAAATCAATAAAAT
Found at i:4166990 original size:14 final size:13
Alignment explanation
Indices: 4166971--4167003 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
4166961 AACCTATAAG
4166971 TTAAAAAAATATTT
1 TTAAAAAAATA-TT
4166985 TTAAAAAAATATT
1 TTAAAAAAATATT
4166998 TTAAAA
1 TTAAAA
4167004 CTTGTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAAAAAAATATT
Found at i:4170440 original size:3 final size:3
Alignment explanation
Indices: 4170432--4170465 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4170422 CCAAGAAAAG
4170432 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
4170466 AAGGGTGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:4181326 original size:37 final size:36
Alignment explanation
Indices: 4181240--4181365 Score: 126
Period size: 39 Copynumber: 3.3 Consensus size: 36
4181230 TGACAAAGAT
* * * *
4181240 CAAAAATCACAATTAGCCCCAATGGCAATTGGTCGGAA
1 CAAAAATCACAATTA-ACCCAGTGAC-ATTGGTCAGAA
*
4181278 CAAAAACCACAATTAACCCAGTGACATTGTGTCAGAA
1 CAAAAATCACAATTAACCCAGTGACATTG-GTCAGAA
* * *
4181315 CAAAAATCACAAATCAACCCCAGTAACATTGAGTCAAAA
1 CAAAAATCAC-AATTAA-CCCAGTGACATTG-GTCAGAA
4181354 CAAAAATCACAA
1 CAAAAATCACAA
4181366 ATCAACCTAG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
36 4 0.05
37 22 0.29
38 21 0.28
39 28 0.37
ACGTcount: A:0.47, C:0.25, G:0.12, T:0.17
Consensus pattern (36 bp):
CAAAAATCACAATTAACCCAGTGACATTGGTCAGAA
Found at i:4181356 original size:39 final size:39
Alignment explanation
Indices: 4181276--4181372 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
4181266 AATTGGTCGG
* * * * *
4181276 AACAAAAACCAC-AATTAA-CCCAGTGACATTGTGTCAG
1 AACAAAAATCACAAATCAACCCCAGTAACATTGAGTCAA
4181313 AACAAAAATCACAAATCAACCCCAGTAACATTGAGTCAA
1 AACAAAAATCACAAATCAACCCCAGTAACATTGAGTCAA
4181352 AACAAAAATCACAAATCAACC
1 AACAAAAATCACAAATCAACC
4181373 TAGTAGCACT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
37 11 0.21
38 5 0.09
39 37 0.70
ACGTcount: A:0.51, C:0.26, G:0.08, T:0.15
Consensus pattern (39 bp):
AACAAAAATCACAAATCAACCCCAGTAACATTGAGTCAA
Found at i:4181393 original size:39 final size:39
Alignment explanation
Indices: 4181308--4181391 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
4181298 GTGACATTGT
* * *
4181308 GTCAGAACAAAAATCACAAATCAACCCCAGTAACATTGA
1 GTCAAAACAAAAATCACAAATCAACCCCAGTAACACTAA
* *
4181347 GTCAAAACAAAAATCACAAATCAA-CCTAGTAGCACTAA
1 GTCAAAACAAAAATCACAAATCAACCCCAGTAACACTAA
4181385 GTCAAAA
1 GTCAAAA
4181392 ACCACTATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 17 0.43
39 23 0.57
ACGTcount: A:0.51, C:0.24, G:0.10, T:0.15
Consensus pattern (39 bp):
GTCAAAACAAAAATCACAAATCAACCCCAGTAACACTAA
Found at i:4183148 original size:17 final size:18
Alignment explanation
Indices: 4183122--4183155 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4183112 TTCTGTTCCT
*
4183122 TTTTTTCTTTTT-ATTTG
1 TTTTTCCTTTTTCATTTG
4183139 TTTTTCCTTTTTCATTT
1 TTTTTCCTTTTTCATTT
4183156 TCCATCTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTCCTTTTTCATTTG
Found at i:4183984 original size:27 final size:27
Alignment explanation
Indices: 4183934--4183995 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
4183924 TATGTATGCG
*
4183934 TATATACTTTTATAATATTTATATGTTT
1 TATATA-TTTTATAATATTAATATGTTT
* *
4183962 TCTATATTTTATAAT-TTAAATATTTTT
1 TATATATTTTATAATATT-AATATGTTT
4183989 TATATAT
1 TATATAT
4183996 ATACGTATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 2 0.07
27 22 0.76
28 5 0.17
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (27 bp):
TATATATTTTATAATATTAATATGTTT
Found at i:4188521 original size:17 final size:18
Alignment explanation
Indices: 4188496--4188541 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4188486 TATAAGAATA
*
4188496 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
4188513 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
4188531 ATTAAATTATA
1 ATTAAATTATA
4188542 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:4188592 original size:119 final size:120
Alignment explanation
Indices: 4188444--4188683 Score: 385
Period size: 121 Copynumber: 2.0 Consensus size: 120
4188434 TAGATTATAT
* *
4188444 ATTATTTTTATATTATTATATATTATGATTTTAGTAAATTCATATAAGAATA-ATTATATTAAGA
1 ATTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATATTATAGTAAGA
* *
4188508 -ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 TATATTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
* * **
4188562 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTTATAGTATT
1 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATATTATAGTAAG
4188627 ATATATTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
65 ATATATTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
4188683 A
1 A
4188684 ATATGATTAA
Statistics
Matches: 111, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
118 5 0.05
119 45 0.41
120 8 0.07
121 53 0.48
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
ATTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATATTATAGTAAGA
TATATTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
Found at i:4188635 original size:15 final size:15
Alignment explanation
Indices: 4188624--4188663 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 15
4188614 ATTTTATAGT
4188624 ATTATATATTATTAA
1 ATTATATATTATTAA
4188639 ATTATATATTTTTATTAA
1 ATTATATA---TTATTAA
4188657 ATTATAT
1 ATTATAT
4188664 TTAATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
18 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTATATATTATTAA
Found at i:4188911 original size:45 final size:44
Alignment explanation
Indices: 4188822--4188914 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
4188812 ATTACAATAT
**
4188822 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACACCTCTATTC
*
4188866 CATTCCATTCAACCAAACA-ATTGAATTACTATTACACCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACACCTCTATTC
4188911 CATT
1 CATT
4188915 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACACCTCTATTC
Found at i:4188917 original size:16 final size:16
Alignment explanation
Indices: 4188896--4188933 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
4188886 TTGAATTACT
4188896 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
4188912 ATTACAGCTCTATTCC
1 ATTACACCTCTATTCC
4188928 ATTACA
1 ATTACA
4188934 ACGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:4191539 original size:23 final size:23
Alignment explanation
Indices: 4191512--4191558 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4191502 ATTTTGTTTA
*
4191512 AATTAACA-AAATATTGAATAATT
1 AATTAA-ATAAATATTGAAAAATT
*
4191535 AATTAAATTAATATTGAAAAATT
1 AATTAAATAAATATTGAAAAATT
4191558 A
1 A
4191559 GAATAACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
AATTAAATAAATATTGAAAAATT
Found at i:4191569 original size:23 final size:23
Alignment explanation
Indices: 4191521--4191569 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
4191511 AAATTAACAA
* * *
4191521 AATATTGAATAATTAATTAAATT
1 AATATTGAAAAATTAAATAAACT
4191544 AATATTGAAAAATTAGAAT-AACT
1 AATATTGAAAAATTA-AATAAACT
4191567 AAT
1 AAT
4191570 TAACTGAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (23 bp):
AATATTGAAAAATTAAATAAACT
Found at i:4192690 original size:21 final size:23
Alignment explanation
Indices: 4192640--4192694 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
4192630 TTTTGCTTAT
*
4192640 TCAAATAAAATCATAATTTATACA
1 TCAAATAAAAT-ATAATCTATACA
4192664 TCAAATAAAAT-TAATCTA-ACA
1 TCAAATAAAATATAATCTATACA
*
4192685 TGAAATAAAA
1 TCAAATAAAA
4192695 CACGGCGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 12 0.41
22 6 0.21
24 11 0.38
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (23 bp):
TCAAATAAAATATAATCTATACA
Found at i:4192933 original size:16 final size:16
Alignment explanation
Indices: 4192914--4192956 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
4192904 AATAGCTTCG
4192914 AAAAAAAATAAAGAGA
1 AAAAAAAATAAAGAGA
*
4192930 AAAAATAAA-AAATAGA
1 AAAAA-AAATAAAGAGA
4192946 AAAAGAAAATA
1 AAAA-AAAATA
4192957 GATATACCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAAAAATAAAGAGA
Found at i:4193574 original size:85 final size:83
Alignment explanation
Indices: 4193475--4193837 Score: 236
Period size: 85 Copynumber: 4.2 Consensus size: 83
4193465 TAGTAGATCT
* * *
4193475 TATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGTAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCGAATCCAGTCTTATCTCCCTAAAGTTGCAGTG-AG
*
4193540 CAGACGAAAGAAATCAATCC
65 CAGACTAAAG-AATCAATCC
* * * * * * * *
4193560 TATCTCCCTGAAGTTACGGTGGAGCGGATCAAAACCATAGATCTTATCTCTCTAAAGTTGTAGTA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCGAATCC--AG-TCTTATCTCCCTAAAGTTGCAGT-
* * * *
4193625 GAGCAGA-T--CGTATCCAGTCT
62 GAGCAGACTAAAGAAT-CAATCC
* * ** * * * *
4193645 TATCTTCCTGAAGTTGCAGTGGAGCGGACGAAAGAAAT-CAATCCTATCTCCCTGAAGTTACAGT
1 TATCTCCCTGAAGTTGCAGTAGAGC--A-GATCG-AATCCAGTCTTATCTCCCTAAAGTTGCAGT
* * *
4193709 GGAGCGGATTAAA-ACCA-CAGATCT
62 -GAGCAGACTAAAGA--ATCA-ATCC
* *
4193733 TATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGAAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCGAATCCAGTCTTATCTCCCTAAAGTTGCAGTG-AG
* *
4193798 TAGA-TAGAAGAAGCTAATCC
65 CAGACTA-AAGAATC-AATCC
4193818 TATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGT
4193838 GGAACGGATT
Statistics
Matches: 208, Mismatches: 49, Indels: 42
0.70 0.16 0.14
Matches are distributed among these distances:
84 8 0.04
85 133 0.64
86 5 0.02
87 4 0.02
88 54 0.26
89 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (83 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATCGAATCCAGTCTTATCTCCCTAAAGTTGCAGTGAGC
AGACTAAAGAATCAATCC
Found at i:4193608 original size:44 final size:44
Alignment explanation
Indices: 4193431--4193762 Score: 168
Period size: 44 Copynumber: 7.7 Consensus size: 44
4193421 GCTTTAATCC
* * * * **
4193431 TATCTCCTTGAAGTTGCAGAGGAGCGGAT-TAAAGTAGTAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAACCA-TAGATCT
* * * * ** *
4193475 TATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC--AG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAACCATAGATCT
* * * * *
4193516 TATCTCCCTGAAGTTGCAGTGTAGCAGA-CGAAAGA-AATCA-ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCGGATC-AAA-ACCAT-AGATCT
*
4193560 TATCTCCCTGAAGTTACGGTGGAGCGGATCAAAACCATAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAACCATAGATCT
* * ** * * ** *
4193604 TATCTCTCTAAAGTTGTAGTAGAGCAGATCGTATCC--AG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAACCATAGATCT
* * * *
4193645 TATCTTCCTGAAGTTGCAGTGGAGCGGA-CGAAAGA-AATCA-ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCGGATC-AAA-ACCAT-AGATCT
* *
4193689 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAACCATAGATCT
* * * *
4193733 TATCTCTCTGAAGTTGCAGTAGAGCAGATC
1 TATCTCCCTGAAGTTACAGTGGAGCGGATC
4193763 GCATCCAGTC
Statistics
Matches: 213, Mismatches: 56, Indels: 38
0.69 0.18 0.12
Matches are distributed among these distances:
40 2 0.01
41 55 0.26
42 4 0.02
43 4 0.02
44 146 0.69
45 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAACCATAGATCT
Found at i:4193656 original size:129 final size:129
Alignment explanation
Indices: 4193426--4193883 Score: 620
Period size: 129 Copynumber: 3.6 Consensus size: 129
4193416 ATTGGGCTTT
* * * **
4193426 AATCCTATCTCCTTGAAGTTGCAGAGGAGCGGATT-AAAGTAGTAGATCTTATCTCTCTGAAGTT
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCA-TAGATCTTATCTCTCTGAAGTT
*
4193490 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGTAGCAGACGAAAGAAATC
65 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACGAAAGAAATC
* * *
4193555 AATCCTATCTCCCTGAAGTTACGGTGGAGCGGATCAAAACCATAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTTG
* * * * *
4193620 TAGTAGAGCAGATCGTATCCAGTCTTATCTTCCTGAAGTTGCAGTGGAGCGGACGAAAGAAATC
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACGAAAGAAATC
*
4193684 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTTG
* * * *
4193749 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGAAGTAGA-TAGAAG-AAGC
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACGA-AAGAAATC
* * ** *
4193812 TAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAATGAT-GAATCCTATAC-CTCTGAAG
1 -AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCATAG-ATCTTAT-CTCTCTGAAG
4193875 TTGCAGTAG
63 TTGCAGTAG
4193884 GTCGGATTAA
Statistics
Matches: 292, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
128 5 0.02
129 282 0.97
130 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACGAAAGAAATC
Found at i:4195531 original size:41 final size:41
Alignment explanation
Indices: 4195486--4195577 Score: 157
Period size: 41 Copynumber: 2.2 Consensus size: 41
4195476 ACTGGCACTT
*
4195486 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCA
* *
4195527 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
1 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCA
4195568 AGCCTGCTAG
1 AGCCTGCTAG
4195578 GCACCGAGCC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCA
Found at i:4195591 original size:41 final size:41
Alignment explanation
Indices: 4195486--4195591 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
4195476 ACTGGCACTT
* * *
4195486 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACACAAAGCCTGAAATGTTTCACCGGCATCA
** * *
4195527 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
1 AGCCTGCTAGACACAAAGCCTGAAATGTTTCACCGGCATCA
* **
4195568 AGCCTGCTAGGCACCGAGCCTGAA
1 AGCCTGCTAGACACAAAGCCTGAA
4195592 CACTCAATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACACAAAGCCTGAAATGTTTCACCGGCATCA
Found at i:4197569 original size:53 final size:53
Alignment explanation
Indices: 4197511--4197617 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
4197501 TGCGCCCCGC
4197511 CGTCACTTCATCAGTGCAAGTGGCCACCTACTCTCTGCCACCGCCCTACTGCT
1 CGTCACTTCATCAGTGCAAGTGGCCACCTACTCTCTGCCACCGCCCTACTGCT
4197564 CGTCACTTCATCAGTGCAAGTGGCCACCTACTCTCTGCCACCGCCCTACTGCT
1 CGTCACTTCATCAGTGCAAGTGGCCACCTACTCTCTGCCACCGCCCTACTGCT
4197617 C
1 C
4197618 ACCTGCAAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.17, C:0.42, G:0.17, T:0.24
Consensus pattern (53 bp):
CGTCACTTCATCAGTGCAAGTGGCCACCTACTCTCTGCCACCGCCCTACTGCT
Found at i:4198557 original size:24 final size:25
Alignment explanation
Indices: 4198525--4198589 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
4198515 TATATATACA
4198525 TTTTT-TATATATATACAAATA-TT
1 TTTTTATATATATATACAAATACTT
* *
4198548 TTTTTATATACT-TACACACATACTT
1 TTTTTATATA-TATATACAAATACTT
*
4198573 TTTGTAATATATATATA
1 TTT-TTATATATATATA
4198590 TATACACTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
23 5 0.15
24 12 0.36
25 7 0.21
26 9 0.27
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (25 bp):
TTTTTATATATATATACAAATACTT
Found at i:4199390 original size:112 final size:110
Alignment explanation
Indices: 4199013--4199671 Score: 1061
Period size: 110 Copynumber: 6.0 Consensus size: 110
4199003 TATCAAAAAC
* *
4199013 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGTCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
4199078 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
* *
4199123 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTCGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
*
4199188 GAGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
* *
4199233 AAAAATTTTAAAATAACGCAATGTTTTGCGTTTGGGAAATTCGAGAGAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
*
4199298 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
**
4199343 AAAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAGGACGTGCCCTAAGGTG
1 -AAAAA-TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTG
*
4199408 CTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
64 CTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
* * * *
4199455 AAAAAATTTTCGAAATAACGCAATGTTTTGCATTTGGGAAATTTGAGAAAACGTGCCCTAAGGTG
1 -AAAAATTTT-AAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTG
*
4199520 CTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
64 CTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
* * *
4199567 AAAAA-TTTAAAATAAGACAATGTTTTGCGTTT-GAAAATTCGAGAAAACGTGCCCTAAGGTTCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* * * *
4199630 GGGTGTCGATTTTTCTCATTTAACCGAATAGCCAAATATCCT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCT
4199672 CTTGAATTGC
Statistics
Matches: 517, Mismatches: 29, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
108 65 0.13
109 20 0.04
110 214 0.41
111 14 0.03
112 204 0.39
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (110 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
Found at i:4199634 original size:332 final size:331
Alignment explanation
Indices: 4199013--4199671 Score: 1090
Period size: 332 Copynumber: 2.0 Consensus size: 331
4199003 TATCAAAAAC
* *
4199013 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGTCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
*
4199078 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTCAAATAAGGCA
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTCAAATAACGCA
*
4199143 ATGTTTTGCGTTCGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGAGTGTCGATTTTTCTCATT
131 ATGTTTTGCATTCGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGAGTGTCGATTTTTCTCATT
*
4199208 CAACCAAATGGCTAAATATCCTTTTAAAAATTTTAAAATAACGCAATGTTTTGCGTTTGGGAAAT
196 CAACCAAATGGCTAAATATCCTTTTAAAAATTTTAAAATAACGCAATGTTTTGCGTTTGGAAAAT
* * * *
4199273 TCGAGAGAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATC
261 TCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATAGCCAAATATC
4199338 CTTTTA
326 CTTTTA
**
4199344 AAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAGGACGTGCCCTAAGGTGC
1 AAAAA-TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGC
*
4199409 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTCGAAATAAC
65 TGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-AAAAATTTTC-AAATAAC
* * *
4199474 GCAATGTTTTGCATTTGGGAAATTTGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
128 GCAATGTTTTGCATTCGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGAGTGTCGATTTTTCTC
*
4199539 GTTCAACCAAATGGCTAAATATCCTTTTAAAAA-TTTAAAATAA-GACAATGTTTTGCGTTT-GA
193 ATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTAAAATAACG-CAATGTTTTGCGTTTGGA
* * *
4199601 AAATTCGAGAAAACGTGCCCTAAGGTTCTGGGTGTCGATTTTTCTCATTTAACCGAATAGCCAAA
257 AAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATAGCCAAA
4199666 TATCCT
322 TATCCT
4199672 CTTGAATTGC
Statistics
Matches: 305, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
331 5 0.02
332 166 0.54
333 35 0.11
334 99 0.32
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (331 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTCAAATAACGCA
ATGTTTTGCATTCGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGAGTGTCGATTTTTCTCATT
CAACCAAATGGCTAAATATCCTTTTAAAAATTTTAAAATAACGCAATGTTTTGCGTTTGGAAAAT
TCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATAGCCAAATATC
CTTTTA
Found at i:4200985 original size:3 final size:3
Alignment explanation
Indices: 4200977--4201004 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4200967 TATTCCATTC
4200977 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
4201005 ACGCTTCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:4209407 original size:23 final size:22
Alignment explanation
Indices: 4209380--4209422 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
4209370 GACCTAAATT
4209380 TTAAACTATGAAAAGTAAAAAAA
1 TTAAACTATGAAAA-TAAAAAAA
* *
4209403 TTAAATTATTAAAATAAAAA
1 TTAAACTATGAAAATAAAAA
4209423 TATAGAGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (22 bp):
TTAAACTATGAAAATAAAAAAA
Found at i:4210039 original size:15 final size:14
Alignment explanation
Indices: 4210019--4210069 Score: 77
Period size: 15 Copynumber: 3.6 Consensus size: 14
4210009 GCCGGTGAGT
4210019 GAAGGAGAAGAAATA
1 GAAGGAGAAGAAA-A
4210034 GAAGGAGAAGAAAA
1 GAAGGAGAAGAAAA
4210048 GAA-GAGAAGAAGAA
1 GAAGGAGAAGAA-AA
4210062 GAAGGAGA
1 GAAGGAGA
4210070 GGGCGGGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.24
14 9 0.26
15 17 0.50
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (14 bp):
GAAGGAGAAGAAAA
Found at i:4210111 original size:13 final size:13
Alignment explanation
Indices: 4210087--4210121 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4210077 AAGGGAAGGG
4210087 AAAAAAGA-AAGA
1 AAAAAAGAGAAGA
4210099 AAAAAAGAGAAGA
1 AAAAAAGAGAAGA
*
4210112 GAAAAAGAGA
1 AAAAAAGAGA
4210122 GAGGGAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAAAGAGAAGA
Found at i:4210127 original size:45 final size:46
Alignment explanation
Indices: 4210078--4210164 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
4210068 GAGGGCGGGA
*
4210078 AGGGAAGG-GAAAAAAGAAAG-AAAAAAAGAGAAGAGAAAAAGAGAG
1 AGGGAAGGAG-AAAAAGAAAGAAAAAAAAGAGAAAAGAAAAAGAGAG
* * *
4210123 AGGGAAGGAGAAAGAGAAGGAAAAAAAATAGAAAAGAAAAAG
1 AGGGAAGGAGAAAAAGAAAGAAAAAAAAGAGAAAAGAAAAAG
4210165 GTATTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 16 0.44
46 20 0.56
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (46 bp):
AGGGAAGGAGAAAAAGAAAGAAAAAAAAGAGAAAAGAAAAAGAGAG
Found at i:4216534 original size:37 final size:36
Alignment explanation
Indices: 4216493--4216568 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
4216483 CAAATTCATT
*
4216493 AATAGTAATTATTTAGATAATTATTA-AAATTATAAAA
1 AATAGTAATTA-TTA-ATAATTATAAGAAATTATAAAA
* *
4216530 AATAGTAGTTATTAATAATTATAAGAAATTATTAAA
1 AATAGTAATTATTAATAATTATAAGAAATTATAAAA
4216566 AAT
1 AAT
4216569 TATAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 9 0.26
36 16 0.46
37 10 0.29
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (36 bp):
AATAGTAATTATTAATAATTATAAGAAATTATAAAA
Found at i:4216551 original size:10 final size:10
Alignment explanation
Indices: 4216538--4216598 Score: 63
Period size: 10 Copynumber: 6.1 Consensus size: 10
4216528 AAAATAGTAG
*
4216538 TTATTAATAA
1 TTATTAAAAA
4216548 TTA-TAAGAAA
1 TTATTAA-AAA
4216558 TTATTAAAAA
1 TTATTAAAAA
*
4216568 TTATAAAAAAA
1 TTAT-TAAAAA
*
4216579 TTA-TAGAAA
1 TTATTAAAAA
4216588 TTATTAAAAA
1 TTATTAAAAA
4216598 T
1 T
4216599 GATCTTCATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 10 0.24
10 21 0.50
11 11 0.26
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:4216588 original size:20 final size:21
Alignment explanation
Indices: 4216511--4216597 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 21
4216501 TTATTTAGAT
4216511 AATTATT-AAAATTATAAAAAA
1 AATTATTAAAAATTAT-AAAAA
* *
4216532 TAGTAGTTATTAATAATTAT-AAGA
1 -A--A-TTATTAAAAATTATAAAAA
4216556 AATTATTAAAAATTATAAAAA
1 AATTATTAAAAATTATAAAAA
* *
4216577 AATTA-TAGAAATTATTAAAA
1 AATTATTAAAAATTATAAAAA
4216597 A
1 A
4216598 TGATCTTCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
20 27 0.50
21 9 0.17
22 1 0.02
23 1 0.02
24 4 0.07
25 5 0.09
26 7 0.13
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AATTATTAAAAATTATAAAAA
Found at i:4223354 original size:39 final size:39
Alignment explanation
Indices: 4223217--4223354 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 39
4223207 GGCGTTTGGA
*
4223217 ACAAAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTT
1 ACAAAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTT
* * ** *
4223256 AGCCAAAGCGCCACTAAAGGTAGAGCATCAGCGGCGATTT
1 A-CAAAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTT
* * * * *
4223296 CCAAGAAGCACCACTAAAAATAG-GAATTAGCGGCGTTTT
1 ACAA-AAGCGCCACAAAAAATAGAGCATTAGCGGCGATTT
*
4223335 ATATAAAGCGCCACAAAAAA
1 ACA-AAAGCGCCACAAAAAA
4223355 CCTAAGACCA
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
39 30 0.38
40 48 0.62
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (39 bp):
ACAAAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTT
Found at i:4223448 original size:41 final size:41
Alignment explanation
Indices: 4223391--4223571 Score: 249
Period size: 41 Copynumber: 4.4 Consensus size: 41
4223381 GATTTTTAAA
4223391 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
* *
4223432 CCTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATGCTC-GG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
* * *
4223472 ATCTTTAGCGGCGTTTTTATCTATGCGCCACTAATTCTCTGG
1 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
* * * *
4223514 CCTTTAGCGGCGTTTGTATCTAAGCGCCGCTAATGCATTTAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTC-TCTGG
4223556 -CTTTAGCGGCGTTTTT
1 CCTTTAGCGGCGTTTTT
4223572 GCCGAAGCAC
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
40 2 0.02
41 115 0.94
42 5 0.04
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
Found at i:4223588 original size:82 final size:82
Alignment explanation
Indices: 4223392--4223571 Score: 281
Period size: 82 Copynumber: 2.2 Consensus size: 82
4223382 ATTTTTAAAC
*
4223392 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGGCCTTTAGCAGCGTTTTTATCTAAGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGGCCTTTAGCAGCGTTTGTATCTAAGC
*
4223457 GCCGCTAATGCTCGGAT
66 GCCGCTAATGCTCGGAG
* * *
4223474 CTTTAGCGGCGTTTTTATCTATGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTGTATCTAAGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGGCCTTTAGCAGCGTTTGTATCTAAGC
**
4223539 GCCGCTAATGCAT-TTAG
66 GCCGCTAATGC-TCGGAG
4223556 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
4223572 GCCGAAGCAC
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
82 89 0.99
83 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.37
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGGCCTTTAGCAGCGTTTGTATCTAAGC
GCCGCTAATGCTCGGAG
Found at i:4226359 original size:27 final size:27
Alignment explanation
Indices: 4226329--4226380 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
4226319 AATAAACAAA
* *
4226329 TAAATAAGTAAGTAATTATTTATTTGT
1 TAAATAAATAAGTAATTAATTATTTGT
**
4226356 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATAAGTAATTAATTATTT
4226381 AAATGTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (27 bp):
TAAATAAATAAGTAATTAATTATTTGT
Found at i:4230461 original size:21 final size:21
Alignment explanation
Indices: 4230435--4230503 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
4230425 CAACTTAAAA
* * *
4230435 CAGAGGCGGCAGCAAGGGAAG
1 CAGAGGCCGCAGCGAGAGAAG
* *
4230456 CAGAGGCTGCAGTGAGAGAAG
1 CAGAGGCCGCAGCGAGAGAAG
* *
4230477 TAGAGGCCGCAGCGAGAGATG
1 CAGAGGCCGCAGCGAGAGAAG
4230498 CAGAGG
1 CAGAGG
4230504 TTCAAAAGAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.32, C:0.17, G:0.45, T:0.06
Consensus pattern (21 bp):
CAGAGGCCGCAGCGAGAGAAG
Found at i:4230971 original size:43 final size:43
Alignment explanation
Indices: 4230924--4231055 Score: 221
Period size: 43 Copynumber: 3.1 Consensus size: 43
4230914 ATCATATAGT
* *
4230924 GGCGTTTGTGAAAT-AAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTGT-AGATGAAGCGCCACTAAAGAACACTACTTTTAGC
4230967 GGCGTTTGTAGATGAAGCGCCACTAAAGAACACTACTTTTAGC
1 GGCGTTTGTAGATGAAGCGCCACTAAAGAACACTACTTTTAGC
*
4231010 GGCGTTTGTAGATGAAGCGCCACTAAAGAACATTACTTTTAGC
1 GGCGTTTGTAGATGAAGCGCCACTAAAGAACACTACTTTTAGC
4231053 GGC
1 GGC
4231056 ATTTTTTTCC
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
42 3 0.04
43 82 0.96
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTAGATGAAGCGCCACTAAAGAACACTACTTTTAGC
Found at i:4231079 original size:43 final size:43
Alignment explanation
Indices: 4231048--4231193 Score: 238
Period size: 43 Copynumber: 3.4 Consensus size: 43
4231038 AACATTACTT
* * *
4231048 TTAGCGGCATTTTTTTCCAAAGTGCTGCTAAAGAACATGATCA
1 TTAGCGGCGTTTTTTTCCTAAGCGCTGCTAAAGAACATGATCA
4231091 TTAGCGGCGTTTTTTTCCTAAGCGCTGCTAAAGAACATGATCA
1 TTAGCGGCGTTTTTTTCCTAAGCGCTGCTAAAGAACATGATCA
* * *
4231134 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTTTTTCCTAAGCGCTGCTAAAGAACATGATCA
4231177 TTAGCGGCGTTTTTTTC
1 TTAGCGGCGTTTTTTTC
4231194 TGTAAGCACC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTTCCTAAGCGCTGCTAAAGAACATGATCA
Found at i:4231079 original size:86 final size:85
Alignment explanation
Indices: 4230981--4231188 Score: 215
Period size: 86 Copynumber: 2.4 Consensus size: 85
4230971 TTTGTAGATG
* * *
4230981 AAGCGCCACTAAAGAACACT-ACTTTTAGCGGCGTTTGTAGATGAAGCGCCACTAAAGAACATTA
1 AAGCGCCGCTAAAGAACA-TGACTTTTAGCGGCGTTTGTACAT-AAGCGCCACTAAAGAACATGA
*
4231045 -CTTTTAGCGGCATTTTTTTCCA
64 TC-ATTAGCGGCATTTTTTTCCA
* * * * * * **
4231067 AAGTGCTGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCCTAAGCGCTGCTAAAGAACATGA
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCG-TTTGTACATAAGCGCCACTAAAGAACATGA
* *
4231131 TCATTAGCGGCGTTTTTTTCCT
64 TCATTAGCGGCATTTTTTTCCA
*
4231153 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTT
4231189 TTTTCTGTAA
Statistics
Matches: 99, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
85 5 0.05
86 88 0.89
87 6 0.06
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTGTACATAAGCGCCACTAAAGAACATGATC
ATTAGCGGCATTTTTTTCCA
Found at i:4243384 original size:111 final size:112
Alignment explanation
Indices: 4243182--4243385 Score: 284
Period size: 111 Copynumber: 1.8 Consensus size: 112
4243172 TTTTCTCTTT
* *
4243182 TTTTTTTGCTTAAGAATATATTGAACCTTTTGACACGAAGAAAGATGACAACCAAACACCCCACC
1 TTTTTTTGCTTAAGAATATATTAAACCTTTTGACACGAAGAAAGATAACAACCAAACACCCCACC
* *
4243247 CCGGTTACTCAGCCCAACATACTCCTAATTTATTATATTTATATATA
66 CCGGTTACCCAGCCCAACACACTCCTAATTTATTATATTTATATATA
* * * ** *
4243294 TTTTTTT-CTTAAGAATATATTAAACCTTTTGACACGAAGAGAGATAACAGCCAAGCACCTTAGC
1 TTTTTTTGCTTAAGAATATATTAAACCTTTTGACACGAAGAAAGATAACAACCAAACACCCCACC
* * *
4243358 TCGGTTACCCTGCCCAACACATTCCTAA
66 CCGGTTACCCAGCCCAACACACTCCTAA
4243386 AAATTTTTTG
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
111 72 0.91
112 7 0.09
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (112 bp):
TTTTTTTGCTTAAGAATATATTAAACCTTTTGACACGAAGAAAGATAACAACCAAACACCCCACC
CCGGTTACCCAGCCCAACACACTCCTAATTTATTATATTTATATATA
Found at i:4244407 original size:19 final size:19
Alignment explanation
Indices: 4244364--4244407 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4244354 GATGTTTAGC
* *
4244364 TATAGGGTAGGTGTTTGGG
1 TATAGGGAAGGTGTTTGGA
*
4244383 TGTAGGGAAGGTGTTTGGA
1 TATAGGGAAGGTGTTTGGA
4244402 TATAGG
1 TATAGG
4244408 TTTTGGGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.34
Consensus pattern (19 bp):
TATAGGGAAGGTGTTTGGA
Found at i:4244575 original size:7 final size:7
Alignment explanation
Indices: 4244556--4244663 Score: 103
Period size: 7 Copynumber: 14.3 Consensus size: 7
4244546 ATCCAAACAA
4244556 AATAAAGT
1 AATAAA-T
4244564 AATAAAT
1 AATAAAT
4244571 AATAAAAT
1 AAT-AAAT
4244579 AAAATAAAGT
1 --AATAAA-T
4244589 AATAAAT
1 AATAAAT
*
4244596 AAGAAAAT
1 AA-TAAAT
4244604 AAAATAAAGT
1 --AATAAA-T
4244614 AATAAAT
1 AATAAAT
4244621 AAT-AA-
1 AATAAAT
4244626 AATAAAAT
1 AAT-AAAT
4244634 AATAAAT
1 AATAAAT
4244641 AATAAAT
1 AATAAAT
4244648 AATAAAT
1 AATAAAT
4244655 AATAAAT
1 AATAAAT
4244662 AA
1 AA
4244664 AGAAAAATAA
Statistics
Matches: 87, Mismatches: 2, Indels: 23
0.78 0.02 0.21
Matches are distributed among these distances:
5 3 0.03
6 2 0.02
7 40 0.46
8 29 0.33
9 6 0.07
10 7 0.08
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (7 bp):
AATAAAT
Found at i:4244581 original size:5 final size:5
Alignment explanation
Indices: 4244571--4244635 Score: 53
Period size: 5 Copynumber: 13.0 Consensus size: 5
4244561 AGTAATAAAT
* * * * *
4244571 AATAA AATAA AATAA AGTAA TAA-AT AAGAA AATAA AATAA AGTAA TAA-AT
1 AATAA AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA -AATAA
4244621 AATAA AATAA AATAA
1 AATAA AATAA AATAA
4244636 TAAATAATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
4 4 0.09
5 41 0.87
6 2 0.04
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:4244582 original size:25 final size:25
Alignment explanation
Indices: 4244554--4244673 Score: 165
Period size: 25 Copynumber: 4.8 Consensus size: 25
4244544 ATATCCAAAC
4244554 AAAATAAAGTAATAAATAATAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
*
4244579 AAAATAAAGTAATAAATAAGAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
4244604 AAAATAAAGTAATAAATAATAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
*
4244629 AAAATAATAAATAATAAATAAT-AAAT
1 AAAAT-A-AAGTAATAAATAATAAAAT
4244655 AATAAATAAAG-AA-AAATAA
1 -A-AAATAAAGTAATAAATAA
4244674 AAATTGGGTT
Statistics
Matches: 87, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
24 6 0.07
25 55 0.63
26 7 0.08
27 15 0.17
28 4 0.05
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAATAAAGTAATAAATAATAAAAT
Found at i:4244664 original size:45 final size:43
Alignment explanation
Indices: 4244554--4244664 Score: 125
Period size: 45 Copynumber: 2.4 Consensus size: 43
4244544 ATATCCAAAC
* *
4244554 AAAATAAAGTAATAAATAATAAAATAAAATAAAGTAATAAATAAG
1 AAAATAAA-TAATAAATAA-AAAATAAAATAAAATAATAAATAAA
*
4244599 AAAATAAAATAA-AGTAATAAATAATAAAATAAAATAATAAATAATA
1 AAAAT-AAATAATA--AATAAAAAATAAAATAAAATAATAAATAA-A
4244645 AATAATAAATAATAAATAAA
1 AA-AATAAATAATAAATAAA
4244665 GAAAAATAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
44 1 0.02
45 36 0.63
46 16 0.28
47 4 0.07
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (43 bp):
AAAATAAATAATAAATAAAAAATAAAATAAAATAATAAATAAA
Found at i:4244676 original size:7 final size:7
Alignment explanation
Indices: 4244554--4244676 Score: 61
Period size: 7 Copynumber: 16.4 Consensus size: 7
4244544 ATATCCAAAC
4244554 AAAATAA
1 AAAATAA
*
4244561 AGTAATAA
1 A-AAATAA
*
4244569 ATAATAA
1 AAAATAA
4244576 AATAA-AA
1 AA-AATAA
*
4244583 TAAAGTAA
1 -AAAATAA
*
4244591 TAAATAA
1 AAAATAA
4244598 GAAAATAAA
1 -AAAAT-AA
4244607 ATAAAGTAA
1 A-AAA-TAA
*
4244616 TAAATAA
1 AAAATAA
4244623 TAAAATAA
1 -AAAATAA
4244631 AATAATAA
1 AA-AATAA
*
4244639 ATAATAA
1 AAAATAA
*
4244646 ATAATAA
1 AAAATAA
*
4244653 ATAATAA
1 AAAATAA
*
4244660 ATAAA-GA
1 A-AAATAA
4244667 AAAATAA
1 AAAATAA
4244674 AAA
1 AAA
4244677 TTGGGTTGCC
Statistics
Matches: 92, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
6 3 0.03
7 47 0.51
8 34 0.37
9 7 0.08
10 1 0.01
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (7 bp):
AAAATAA
Found at i:4252086 original size:18 final size:19
Alignment explanation
Indices: 4252052--4252088 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
4252042 ATTTTTCTGA
4252052 ATTTTTATATATATTTTTT
1 ATTTTTATATATATTTTTT
4252071 ATTTTTA-ATA-ATTTTTT
1 ATTTTTATATATATTTTTT
4252088 A
1 A
4252089 AGATTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTATATATATTTTTT
Found at i:4261000 original size:22 final size:21
Alignment explanation
Indices: 4260963--4261006 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
4260953 AATGCCACCT
4260963 CATACTCCTCCTTACCTCTTC
1 CATACTCCTCCTTACCTCTTC
4260984 CATATCTCCTTCC-TACCTCTTC
1 CATA-CTCC-TCCTTACCTCTTC
4261006 C
1 C
4261007 CTTGTTGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 14 0.67
23 3 0.14
ACGTcount: A:0.14, C:0.48, G:0.00, T:0.39
Consensus pattern (21 bp):
CATACTCCTCCTTACCTCTTC
Found at i:4266062 original size:60 final size:60
Alignment explanation
Indices: 4265998--4266128 Score: 156
Period size: 60 Copynumber: 2.2 Consensus size: 60
4265988 TTTTAGGGGT
* * * * *
4265998 TGCTCACATAAAAGCCAAACCTTTCAAAATACTCATATAAGGACCTAA-CATTTACAAAAG
1 TGCTCAAATAAAAGACAAACATTTCAAAATACTCAAATAAGGACCAAAGCATTTAC-AAAG
* * * * *
4266058 TGCTCAAATGAAAGACAAACATTTCAAAGTTCTCAAATAAGGACCAAAGCTTTTTCAAAG
1 TGCTCAAATAAAAGACAAACATTTCAAAATACTCAAATAAGGACCAAAGCATTTACAAAG
4266118 TGCTCAAATAA
1 TGCTCAAATAA
4266129 GAATCAAATC
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 54 0.92
61 5 0.08
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (60 bp):
TGCTCAAATAAAAGACAAACATTTCAAAATACTCAAATAAGGACCAAAGCATTTACAAAG
Found at i:4266092 original size:29 final size:29
Alignment explanation
Indices: 4265998--4266128 Score: 104
Period size: 31 Copynumber: 4.4 Consensus size: 29
4265988 TTTTAGGGGT
* * *
4265998 TGCTCACATAAA-AGCCAAACCTTTCAAAA
1 TGCTCAAATAAAGA-CCAAACATTTCAAAG
* * * *
4266027 TACTCATATAAGGACCTAACATTTACAAAAG
1 TGCTCAAATAAAGACCAAACATTT-C-AAAG
4266058 TGCTCAAATGAAAGA-CAAACATTTCAAAG
1 TGCTCAAAT-AAAGACCAAACATTTCAAAG
* * *
4266087 TTCTCAAATAAGGACCAAAGCTTTTTCAAAG
1 TGCTCAAATAAAGACCAAA-C-ATTTCAAAG
4266118 TGCTCAAATAA
1 TGCTCAAATAA
4266129 GAATCAAATC
Statistics
Matches: 81, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
28 4 0.05
29 33 0.41
30 4 0.05
31 36 0.44
32 4 0.05
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (29 bp):
TGCTCAAATAAAGACCAAACATTTCAAAG
Found at i:4266129 original size:31 final size:30
Alignment explanation
Indices: 4266019--4266161 Score: 110
Period size: 31 Copynumber: 4.7 Consensus size: 30
4266009 AAGCCAAACC
* * * * *
4266019 TTTCAAAATACTCATATAAGGACCTAACAT
1 TTTCAAAGTGCTCAAATAAGGACCAAACTT
* * *
4266049 TTACAAAAGTGCTCAAATGAAAGA-CAAAC-A
1 TTTC-AAAGTGCTCAAAT-AAGGACCAAACTT
*
4266079 TTTCAAAGTTCTCAAATAAGGACCAAAGCTT
1 TTTCAAAGTGCTCAAATAAGGACCAAA-CTT
* *
4266110 TTTCAAAGTGCTCAAATAAGAATCAAATCTTT
1 TTTCAAAGTGCTCAAATAAGGACCAAA-C-TT
* *
4266142 TTTGAAAGGGCTCAAATAAG
1 TTTCAAAGTGCTCAAATAAG
4266162 AGCTTCTCAA
Statistics
Matches: 90, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
28 4 0.04
29 16 0.18
30 7 0.08
31 39 0.43
32 24 0.27
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (30 bp):
TTTCAAAGTGCTCAAATAAGGACCAAACTT
Found at i:4266639 original size:40 final size:40
Alignment explanation
Indices: 4266577--4266669 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 40
4266567 TTAAAATTAA
* * *
4266577 AAATATTAAAATATATATTTTATACTTTTTTT-AATAATTTT
1 AAATTTTAAAAAATATATTTTATAATTTTTTTGAAT--TTTT
*
4266618 AATTTTTAAAAAATATA-TTTATAATTTTTTTGAATTTTT
1 AAATTTTAAAAAATATATTTTATAATTTTTTTGAATTTTT
*
4266657 AAATTTAAAAAAA
1 AAATTTTAAAAAA
4266670 ATACTTAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 15 0.33
40 13 0.29
41 17 0.38
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (40 bp):
AAATTTTAAAAAATATATTTTATAATTTTTTTGAATTTTT
Found at i:4266670 original size:40 final size:40
Alignment explanation
Indices: 4266584--4266672 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
4266574 TAAAAATATT
* * **
4266584 AAAATATATATTTTATACTTTTTTTAATAATTTTAATTTTT
1 AAAAAATATATTTTATAATTTTTTTAAT-ATTTTAATTTAA
4266625 AAAAAATATA-TTTATAATTTTTTTGAAT-TTTTAAATTTAA
1 AAAAAATATATTTTATAATTTTTTT-AATATTTT-AATTTAA
4266665 AAAAAATA
1 AAAAAATA
4266673 CTTAATTGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
39 4 0.10
40 26 0.62
41 12 0.29
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (40 bp):
AAAAAATATATTTTATAATTTTTTTAATATTTTAATTTAA
Found at i:4268385 original size:20 final size:20
Alignment explanation
Indices: 4268360--4268410 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
4268350 TTTATTAAGA
*
4268360 AATATTTATTTTAATATTTT
1 AATATTTATTTTAATATATT
4268380 AATATTTA-TTT-ATATATT
1 AATATTTATTTTAATATATT
*
4268398 -ATATATATTTTAA
1 AATATTTATTTTAA
4268411 AAATAGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.22
18 9 0.33
19 4 0.15
20 8 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AATATTTATTTTAATATATT
Found at i:4271324 original size:66 final size:69
Alignment explanation
Indices: 4271190--4271326 Score: 199
Period size: 66 Copynumber: 2.0 Consensus size: 69
4271180 GACTAGCTAC
4271190 GTTTATGAATTGATACATATGTTGTCATAATCTCTTAATTATTCAACAATTAATTATAAAAAAAA
1 GTTTATGAATTGATACATATGTTGTCATAATCTCTTAATTATTCAACAATTAATTATAAAAAAAA
4271255 TTCT
66 TTCT
* ** * * *
4271259 GTTTATGGATTGATGGATATGTTGTCATAAT-T-TT-TTTATTCAACAATTATTTATAAAAAAGA
1 GTTTATGAATTGATACATATGTTGTCATAATCTCTTAATTATTCAACAATTAATTATAAAAAAAA
4271321 TTCT
66 TTCT
4271325 GT
1 GT
4271327 CAATTTTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
66 31 0.50
67 2 0.03
68 1 0.02
69 28 0.45
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (69 bp):
GTTTATGAATTGATACATATGTTGTCATAATCTCTTAATTATTCAACAATTAATTATAAAAAAAA
TTCT
Found at i:4275891 original size:29 final size:29
Alignment explanation
Indices: 4275854--4275921 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
4275844 GAGTTTCACG
*
4275854 TGTAT-AATTG-CATCAAATTAAAATTCA
1 TGTATAAATTGACATCAAATCAAAATTCA
* *
4275881 TTTATACAATTGCACATTAAATCAAAATTCA
1 TGTATA-AATTG-ACATCAAATCAAAATTCA
4275912 TGTATAAATT
1 TGTATAAATT
4275922 TGAGATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
27 4 0.12
29 5 0.15
30 4 0.12
31 20 0.61
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (29 bp):
TGTATAAATTGACATCAAATCAAAATTCA
Found at i:4278505 original size:18 final size:18
Alignment explanation
Indices: 4278482--4278521 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4278472 AGATAATTTT
*
4278482 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
4278500 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
4278518 AAAA
1 AAAA
4278522 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:4278648 original size:30 final size:30
Alignment explanation
Indices: 4278604--4278666 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
4278594 ACTTAACAAG
*
4278604 CAAATGCTTCTAAAATAATAACAAAATTAA
1 CAAATGCTTCTAAAAAAATAACAAAATTAA
* * *
4278634 CAAATGTTTTTAAAAAAATAACAAAATTGA
1 CAAATGCTTCTAAAAAAATAACAAAATTAA
4278664 CAA
1 CAA
4278667 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCTTCTAAAAAAATAACAAAATTAA
Found at i:4278716 original size:14 final size:14
Alignment explanation
Indices: 4278697--4278726 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4278687 ATCCAAACAA
4278697 TAGCAACAAAATAG
1 TAGCAACAAAATAG
*
4278711 TAGCAACATAATAG
1 TAGCAACAAAATAG
4278725 TA
1 TA
4278727 AAATGATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (14 bp):
TAGCAACAAAATAG
Found at i:4285432 original size:9 final size:10
Alignment explanation
Indices: 4285412--4285440 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
4285402 ATTACATGTT
4285412 TGAATAGAAA
1 TGAATAGAAA
4285422 TGAAT-GAAA
1 TGAATAGAAA
4285431 TGAATAGAAA
1 TGAATAGAAA
4285441 AAGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:4285538 original size:6 final size:6
Alignment explanation
Indices: 4285527--4285567 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
4285517 TAGGTTTCTA
* *
4285527 GAAATG GAAATG GAAATG GAAATG AAAATG AAAATG GAAAT
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAAT
4285568 TTGTAATCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (6 bp):
GAAATG
Found at i:4287970 original size:69 final size:69
Alignment explanation
Indices: 4287859--4288043 Score: 214
Period size: 69 Copynumber: 2.7 Consensus size: 69
4287849 AGACTCAGCA
* *
4287859 TCTTTAAAATGTGTTCATTTACATTCTATTTAAATGCTTAATGTGCTGTTGCAAAGGGCTGATTT
1 TCTTTAAAATGTGATCATTTACATTCCATTTAAATGCTTAATGTGCTGTTGCAAAGGGCTGATTT
4287924 GTAT
66 GTAT
* * * ***
4287928 TCTTTAAAATGTGATCATTTACATTCCATTTAAGTTCTTAATGTGTTGTTGTGTAGGGCTGATTT
1 TCTTTAAAATGTGATCATTTACATTCCATTTAAATGCTTAATGTGCTGTTGCAAAGGGCTGATTT
4287993 GT-T
66 GTAT
* * * *
4287996 GTC-TTAAAACTGTGTTCTTTTACGTT-AATTTTAAATGCTTAATGTGCT
1 -TCTTTAAAA-TGTGATCATTTACATTCCA-TTTAAATGCTTAATGTGCT
4288044 TTCCAAAAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
68 8 0.08
69 90 0.92
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.47
Consensus pattern (69 bp):
TCTTTAAAATGTGATCATTTACATTCCATTTAAATGCTTAATGTGCTGTTGCAAAGGGCTGATTT
GTAT
Found at i:4290506 original size:108 final size:108
Alignment explanation
Indices: 4290241--4290559 Score: 450
Period size: 108 Copynumber: 3.0 Consensus size: 108
4290231 AGGTTTTGCT
* * * *
4290241 AAATAAGGCAATATTTCGCGTTCGAAAAATCGA-GAAAGCGTGCCCTAACGTGCTGGGTTTCGAT
1 AAATAAGGCAATACTTCGCGTTTGGAAAATCGAGGAAA-CGTGCCCTAACGTGTTGGGTTTCGAT
*
4290305 TTCTCGTTCGACCAAATCA-CCAAATATCATTTTT-AAACTTTTA
65 TTCTCGTTCGACCAAAT-AGCCAAATATCCTTTTTAAAACTTTTA
* ** * *
4290348 AAATAAGGCAATATCTT-GCGTTTGGAAAATTGAGGAATTGTGCCCTAACGTGTTAGGTTTCAAT
1 AAATAAGGCAATA-CTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGAT
*
4290412 TTCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAAACTTTTA
65 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAACTTTTA
*
4290456 AAATAAGGCAATACTTCGCGTTTGGAAAATCGAGGAAACATGCCCTAACGTGTTGGGTTTCGATT
1 AAATAAGGCAATACTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGATT
* *
4290521 TCTCGTTCGACTAAATAGCCAAATATCC-TCTTAAAACTT
66 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAACTT
4290560 CAAAGTATGG
Statistics
Matches: 187, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
106 1 0.01
107 91 0.49
108 95 0.51
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (108 bp):
AAATAAGGCAATACTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGATT
TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAACTTTTA
Found at i:4293405 original size:17 final size:16
Alignment explanation
Indices: 4293377--4293437 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 16
4293367 AGTGGAGGCA
4293377 AAAAAAACAAAAACAAC
1 AAAAAAA-AAAAACAAC
4293394 AAAAATAAAAAAACAAC
1 AAAAA-AAAAAAACAAC
*
4293411 AAAAAAAAACAAA-AAT
1 AAAAAAAAA-AAACAAC
4293427 AAAAGAAAAAA
1 AAAA-AAAAAA
4293438 CCTCTACCGG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 11 0.28
17 27 0.68
18 2 0.05
ACGTcount: A:0.85, C:0.10, G:0.02, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAAACAAC
Found at i:4293406 original size:27 final size:26
Alignment explanation
Indices: 4293376--4293438 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 26
4293366 CAGTGGAGGC
4293376 AAAAAAAACAAAAACAACAAAAATAAA
1 AAAAAAAACAAAAA-AACAAAAATAAA
4293403 AAAACAACAA-AAAAAAACAAAAATAAA
1 AAAA-AA-AACAAAAAAACAAAAATAAA
*
4293430 AGAAAAAAC
1 AAAAAAAAC
4293439 CTCTACCGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 2 0.06
26 2 0.06
27 19 0.59
28 7 0.22
29 2 0.06
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.03
Consensus pattern (26 bp):
AAAAAAAACAAAAAAACAAAAATAAA
Found at i:4293437 original size:21 final size:21
Alignment explanation
Indices: 4293377--4293425 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
4293367 AGTGGAGGCA
* *
4293377 AAAAAAACAAAAACAACAAAAAT
1 AAAAAAACAACAA-AA-AAAAAC
4293400 AAAAAAACAACAAAAAAAAAC
1 AAAAAAACAACAAAAAAAAAC
4293421 AAAAA
1 AAAAA
4293426 TAAAAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 2 0.08
23 12 0.50
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (21 bp):
AAAAAAACAACAAAAAAAAAC
Found at i:4293889 original size:10 final size:10
Alignment explanation
Indices: 4293871--4293930 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 10
4293861 AACTTCACTT
4293871 GAAAAAAAAA
1 GAAAAAAAAA
*
4293881 GAAACAAAAA
1 GAAAAAAAAA
*
4293891 G--AAAAAAG
1 GAAAAAAAAA
4293899 GAAAAGAAAAA
1 GAAAA-AAAAA
4293910 CGAAAAAGAAAA
1 -GAAAAA-AAAA
4293922 GAGAAAAAA
1 GA-AAAAAA
4293931 GAGAGGCCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 6 0.15
10 12 0.30
11 9 0.22
12 13 0.32
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:4293896 original size:20 final size:19
Alignment explanation
Indices: 4293871--4293932 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 19
4293861 AACTTCACTT
4293871 GAAAAAAAAAGAAACAAAAA
1 GAAAAAAAAAGAAA-AAAAA
* *
4293891 GAAAAAAGGAAA-AGAAAAAC
1 GAAAAAA--AAAGAAAAAAAA
*
4293911 GAAAAAGAAAAGAGAAAAAA
1 GAAAAA-AAAAGAAAAAAAA
4293931 GA
1 GA
4293933 GAGGCCAAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.09
20 26 0.74
21 3 0.09
22 3 0.09
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAGAAAAAAAA
Found at i:4293898 original size:7 final size:7
Alignment explanation
Indices: 4293886--4293932 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
4293876 AAAAAGAAAC
4293886 AAAAAGA
1 AAAAAGA
4293893 AAAAAG-
1 AAAAAGA
*
4293899 GAAAAGA
1 AAAAAGA
*
4293906 AAAACG-
1 AAAAAGA
4293912 AAAAAGA
1 AAAAAGA
*
4293919 AAAGAGA
1 AAAAAGA
4293926 AAAAAGA
1 AAAAAGA
4293933 GAGGCCAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
6 10 0.31
7 22 0.69
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:4293903 original size:13 final size:13
Alignment explanation
Indices: 4293871--4293929 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
4293861 AACTTCACTT
*
4293871 GAAAAAAAAAGAAA
1 GAAAAAGAAA-AAA
*
4293885 CAAAAAGAAAAAA
1 GAAAAAGAAAAAA
* *
4293898 GGAAAAGAAAAAC
1 GAAAAAGAAAAAA
*
4293911 GAAAAAGAAAAGA
1 GAAAAAGAAAAAA
4293924 GAAAAA
1 GAAAAA
4293930 AGAGAGGCCA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
13 29 0.78
14 8 0.22
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:4293920 original size:18 final size:18
Alignment explanation
Indices: 4293875--4293928 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
4293865 TCACTTGAAA
*
4293875 AAAAAAG-AAACAAAAAG
1 AAAAAAGAAAAGAAAAAG
4293892 AAAAAAGGAAAAGAAAAACG
1 AAAAAA-GAAAAGAAAAA-G
4293912 -AAAAAGAAAAGAGAAAA
1 AAAAAAGAAAAGA-AAAA
4293929 AAGAGAGGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.19
18 8 0.25
19 17 0.53
20 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAGAAAAAG
Found at i:4295002 original size:87 final size:87
Alignment explanation
Indices: 4294833--4295009 Score: 264
Period size: 87 Copynumber: 2.0 Consensus size: 87
4294823 ATCAATGAAA
** * *
4294833 ATCGAAAGTAAAATCTTGCCTCCATCGGTTGTAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCT
1 ATCGAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCT
* *
4294898 TCCTGCATTAACAGCGAAGCAG
66 TCCTACACTAACAGCGAAGCAG
*
4294920 ATCGAAAACAAAACCTTGCCTTCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCT
1 ATCGAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCT
* * *
4294985 TCCTATACTGACGGCGAAGCAG
66 TCCTACACTAACAGCGAAGCAG
4295007 ATC
1 ATC
4295010 AAAGAAGCTA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (87 bp):
ATCGAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCT
TCCTACACTAACAGCGAAGCAG
Found at i:4295025 original size:44 final size:45
Alignment explanation
Indices: 4294963--4295112 Score: 155
Period size: 44 Copynumber: 3.3 Consensus size: 45
4294953 GTGGAGCTGG
*
4294963 TCAAAGATAGCAGATCTTGCCTTCCTATACTGACGGCGAAGCAGA
1 TCAAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGA
* *
4295008 TCAAAGA-AGCTAG-TCTTGCCTTCCTGTACTGACAGCGGAGCAGA
1 TCAAAGATAGC-AGATCTTGCCTTCCTATACTGACAGCGAAGCAGA
* * * *
4295052 CTGAAA-ATTA-CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGA
1 -TCAAAGA-TAGCAGATCTTGCCTTCCTATA-CTGACAGCGAAGCAGA
* *
4295098 TCGAAGATGGCAGAT
1 TCAAAGATAGCAGAT
4295113 TTTACCTCCC
Statistics
Matches: 87, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
44 34 0.39
45 33 0.38
46 20 0.23
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (45 bp):
TCAAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGA
Found at i:4295078 original size:45 final size:44
Alignment explanation
Indices: 4294876--4295104 Score: 150
Period size: 44 Copynumber: 5.2 Consensus size: 44
4294866 GTGGAGCTGG
* * *
4294876 TCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
1 TCAAAGA-AGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
* * * * * * * *
4294921 TCGAA-AA-CAAAACCTTGCCTTCATCGGT--TG-CAGTGGAGCTGG
1 TCAAAGAAGC-AGATCTTGCCTTC--CTGTACTGACAGCGAAGCAGA
* *
4294963 TCAAAGATAGCAGATCTTGCCTTCCTATACTGACGGCGAAGCAGA
1 TCAAAGA-AGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
*
4295008 TCAAAGAAGCTAG-TCTTGCCTTCCTGTACTGACAGCGGAGCAGA
1 TCAAAGAAGC-AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
* * *
4295052 CTGAAA-ATTA-CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGA
1 -TCAAAGA--AGCAGATCTTGCCTTCCTGTA-CTGACAGCGAAGCAGA
*
4295098 TCGAAGA
1 TCAAAGA
4295105 TGGCAGATTT
Statistics
Matches: 139, Mismatches: 29, Indels: 31
0.70 0.15 0.16
Matches are distributed among these distances:
42 15 0.11
43 14 0.10
44 49 0.35
45 46 0.33
46 15 0.11
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (44 bp):
TCAAAGAAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
Found at i:4295329 original size:95 final size:95
Alignment explanation
Indices: 4295095--4296594 Score: 1316
Period size: 95 Copynumber: 16.0 Consensus size: 95
4295085 GCAGCGAAGC
* * * *
4295095 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTATAGTGGAGTACATTGAAGCTGATAACTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
* *
4295160 ATCTCCCTGTATTCGGTAGTGG---A-ATT--
66 ATCTCCCTG-GTT-GGCAGTGGAATAGATTGA
* * *
4295186 -GATCGAAGATAGCAGATTTTACCTCTCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
4295250 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
* * * * *
4295280 ATATTAAAGATGGTAGATTTTACCTCCCTGTAACTACAGTGGAGTACATTGAAGCCAATAATTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
4295345 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
* * *
4295375 AGATTGAAGATGACAGATTTTACCTCCCTGTGACTACAGTAGAGTACATTGAAGCCGATAACTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
*
4295440 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
66 ATCTCCCTG--GTTGGCAGTGGAATAGATTGA
* * * * * * * * * * * ** *
4295472 ATATT----A---CAGATCTTGCCTTCCTAT-ATTTGGCAGCGAAGCAGATTGAAGATGGTAGAT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGA-CT-ACAGTGGAGTACATTGAAGCCGATA-AT
* * * * * *
4295529 TTTACCTCCCTGTGACT-ACAGTGGAGTACATTG-
63 TCTATCTCCCTG-G-TTGGCAGTGGAATAGATTGA
** * * * * * **
4295562 A-A--GCCGAT---A-ATTCTATCTCCCTGGTTG-GT--AGTGGAATAGATTGATGATCGAAGAT
1 AGATTGAAGATGGCAGATTTTACCTCCCT-G-TGACTACAGTGGAGTACATTGA--A--GCCGAT
* * * * * *
4295617 GACAGATTTTACCTCCCTGTGACT-ACAGTGGAGTACATTG-
60 ---A-ATTCTATCTCCCTG-G-TTGGCAGTGGAATAGATTGA
** * * * * * * * * *
4295657 A-A--GCCGAT---A-ACTCTATCTCTCTGT-ATTTGGCAGTGGAATAGATTGAA---GAT--TG
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGA-CT-ACAGTGGAGTACATTGAAGCCGATAATT
* ** ** * * * ** * *
4295709 CAGATCTTGGCTTCTT-GTATTTGGCAGCGA-AGC
64 C-TATC-TCCCTGGTTGGCA-GTGGAATAGATTGA
*
4295742 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTATATTGAAGCCGATAATTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
4295807 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
* *
4295837 AGATTGAAGATGGTAGATTTTACCTCCCTATGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
* *
4295902 ATCTCTCTGGTTGGCAGTGGAATAGATTAA
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
* *
4295932 AGATTGAAGATGACAGATTTTACCTGCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
* *
4295997 ATTTCCCTGGTTGGCAGTAGAATAGATTGA
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
* * **
4296027 AGATTAAAAATGGCAGATTTTACCTTACTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
*
4296092 ATCTCCCTGGTTAGCAGTGGAATAGATTGA
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
** * * * *
4296122 AGATCAAATATGGTAAATTTTACCTCCC--TGACTACAGTGGAATACATTGAAGCCGATAATTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
* * *
4296185 ATCTCCCTGATTAGTAGTGGAATAGATTGA
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
* ** * * *
4296215 ATATCAAAGATGGCAGATTTTACCTCCC--TAACTACAGTGGAGTACATTAAAACCGATAATTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
* *
4296278 ATCTTCCTGGTTAGCAGTGGAATAGATTGA
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
*
4296308 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
* *
4296373 ATCTCCTTGGTTGGCAGTGGAATAGATTAA
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
*
4296403 AGATTAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
** *
4296468 ATCTCCCTGGTTGGCAGTGGAATAGAAAGC
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
* * * *
4296498 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCC-AGTAGTTC
1 AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGA-TAATTC
****
4296562 TATCTCCCTGGGCAACAGTGGAATAGATTGA
65 TATCTCCCTGGTTGGCAGTGGAATAGATTGA
4296593 AG
1 AG
4296595 GTTACAGATC
Statistics
Matches: 1180, Mismatches: 174, Indels: 106
0.81 0.12 0.07
Matches are distributed among these distances:
84 4 0.00
85 7 0.01
86 4 0.00
88 22 0.02
89 4 0.00
90 96 0.08
91 49 0.04
92 32 0.03
93 173 0.15
94 17 0.01
95 731 0.62
96 2 0.00
97 39 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (95 bp):
AGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
ATCTCCCTGGTTGGCAGTGGAATAGATTGA
Found at i:4295534 original size:231 final size:231
Alignment explanation
Indices: 4295286--4295936 Score: 1108
Period size: 231 Copynumber: 2.8 Consensus size: 231
4295276 TTGAATATTA
* *
4295286 AAGATGGTAGATTTTACCTCCCTGTAACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCC
1 AAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
*
4295351 CTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGACAGATTTTACCTCCCTGTGACTACAGTA
66 CTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGACAGATTTTACCTCCCTGTGACTACAGTG
* *
4295416 GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAATATTACAG
131 GAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGGAATAGATTGAAGATTACAG
4295481 ATCTTGCCTTCCTATATTTGGCAGCGAAGCAGATTG
196 ATCTTGCCTTCCTATATTTGGCAGCGAAGCAGATTG
4295517 AAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
1 AAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* * *
4295582 CTGGTTGGTAGTGGAATAGATTGATGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTG
66 CTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGACAGATTTTACCTCCCTGTGACTACAGTG
*
4295647 GAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAG
131 GAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGGAATAGATTGAAGATTACAG
* * *
4295712 ATCTTGGCTTCTTGTATTTGGCAGCGAAGCAGATTG
196 ATCTTGCCTTCCTATATTTGGCAGCGAAGCAGATTG
* *
4295748 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTATATTGAAGCCGATAATTCTATCTCC
1 AAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
** *
4295813 CTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGGTAGATTTTACCTCCCTATGACTACAGTG
66 CTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGACAGATTTTACCTCCCTGTGACTACAGTG
* * *
4295878 GAGTACATTGAAGCCGATAATTCTATCTCTCTG--GTTGGCAGTGGAATAGATTAAAGATT
131 GAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGGAATAGATTGAAGATT
4295937 GAAGATGACA
Statistics
Matches: 397, Mismatches: 23, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
229 24 0.06
231 373 0.94
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (231 bp):
AAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
CTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGACAGATTTTACCTCCCTGTGACTACAGTG
GAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGGAATAGATTGAAGATTACAG
ATCTTGCCTTCCTATATTTGGCAGCGAAGCAGATTG
Found at i:4295584 original size:44 final size:44
Alignment explanation
Indices: 4295534--4295680 Score: 102
Period size: 44 Copynumber: 3.2 Consensus size: 44
4295524 TAGATTTTAC
4295534 CTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 CTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
* * * ** * *
4295578 CTCCCTGGTTG-GT--AGTGGAATAGATTGATGATCGAAGATGACAGATTTTAC
1 CTCCCT-G-TGACTACAGTGGAGTACATTGA--A--GCCGAT---A-ATTCTAT
*
4295629 CTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 CTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
*
4295673 CTCTCTGT
1 CTCCCTGT
4295681 ATTTGGCAGT
Statistics
Matches: 74, Mismatches: 16, Indels: 26
0.64 0.14 0.22
Matches are distributed among these distances:
43 13 0.18
44 17 0.23
45 4 0.05
46 2 0.03
47 4 0.05
48 4 0.05
49 2 0.03
50 4 0.05
51 11 0.15
52 13 0.18
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
CTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
Found at i:4295843 original size:326 final size:318
Alignment explanation
Indices: 4295053--4296031 Score: 1100
Period size: 326 Copynumber: 3.0 Consensus size: 318
4295043 CGGAGCAGAC
* * *
4295053 TGAAAATTACAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTAC
1 TGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATTGAAGATGGCAGATTTTAC
* *
4295118 CTCCCTGTGACTATAGTGGAGTACATTGAAGCTGATAACTCTATCTCCCTGTATTCGGTAGTGGA
66 CTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAA-TCTATCTCCCTG-ATT-GGCAGTGGA
* * * *
4295183 ATT--GATCGAAGATAGCAGATTTTACCTCTCTGTGACTACAGTGGAGTACATTGAAGCCGATAA
128 ATTGAGATTGAAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAA
* **
4295246 TTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAT-ATTAAAGATGGTAGATTTTACCTCCCTG
193 TTCTATCTCCCTGGTTGGCAGTGGAATAGATTG-ATGATTGAAGATGACAGATTTTACCTCCCTG
* *
4295310 TAACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGTTGGCAGTGGAATAGAT
257 TGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGAT
* * * * * * * * ** **
4295372 TGAAGATTGAAGATGACAGATTTTACCTCCCTGTGA-CT-ACAG-TAGAGTACATTGAAGCCGAT
1 TGAAGA-T-----TG-CAGATCTTGCCTTCCTGT-ATTTGGCAGCGA-AGCAGATTGAAGATGGC
* * * * * * * ** * * * *
4295434 A-ACTCTATCTCCCTGT-ATTTGGCAGTGGAATAGATTGAATATTACAGATCT-TGCCTTCCTAT
57 AGATTTTACCTCCCTGTGA-CT-ACAGTGGAGTACATTGAAGCTGATA-ATCTAT--CTCCCT-G
*
4295496 ATTTGGCAG-CGAA--GCAGATTGAAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTAC
116 A-TTGGCAGTGGAATTG-AGATTGAAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTAC
* *
4295558 ATTGAAGCCGATAATTCTATCTCCCTGGTTGGTAGTGGAATAGATTGATGATCGAAGATGACAGA
179 ATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGATGATTGAAGATGACAGA
* * *
4295623 TTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGC
244 TTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTG--GTTGGC
4295688 AGTGGAATAGAT
307 AGTGGAATAGAT
* *
4295700 TGAAGATTGCAGATCTTGGCTTCTTGTATTTGGCAGCGAAGCAGATTGAAGATGGCAGATTTTAC
1 TGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATTGAAGATGGCAGATTTTAC
* * *
4295765 CTCCCTGTGACTACAGTGGAGTATATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAAT
66 CTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAA-TCTATCTCCCTGATTGGCAGTGG---
*
4295830 AGATTGAAGATTGAAGATGGTAGATTTTACCTCCCTATGACTACAGTGGAGTACATTGAAGCCGA
127 A-ATTG-AGATTGAAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGA
* * * *
4295895 TAATTCTATCTCTCTGGTTGGCAGTGGAATAGATTAAAGATTGAAGATGACAGATTTTACCTGCC
190 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGATGATTGAAGATGACAGATTTTACCTCCC
* *
4295960 TGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATTTCCCTGGTTGGCAGTAGAATAGAT
255 TGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGAT
4296024 TGAAGATT
1 TGAAGATT
4296032 AAAAATGGCA
Statistics
Matches: 536, Mismatches: 88, Indels: 67
0.78 0.13 0.10
Matches are distributed among these distances:
319 12 0.02
320 3 0.01
321 20 0.04
322 37 0.07
323 17 0.03
324 41 0.08
325 40 0.07
326 339 0.63
327 4 0.01
328 23 0.04
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (318 bp):
TGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATTGAAGATGGCAGATTTTAC
CTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAATCTATCTCCCTGATTGGCAGTGGAATT
GAGATTGAAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTC
TATCTCCCTGGTTGGCAGTGGAATAGATTGATGATTGAAGATGACAGATTTTACCTCCCTGTGAC
TACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGAT
Found at i:4296396 original size:231 final size:233
Alignment explanation
Indices: 4295221--4296405 Score: 742
Period size: 231 Copynumber: 5.1 Consensus size: 233
4295211 TCTGTGACTA
* * * * * * *
4295221 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAATATTA
1 CAGTGGAATAGATTGAAGACGATAATTCTATCTCCCTGATTAGTAGTGGAATAGATTGAAGATTA
* *
4295286 AAGATGGTAGATTTTACCTCCCTGTAACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCC
66 AAGATGGCAGATTTTACCTCCC-GTAACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* *
4295351 CTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGACAGATTTTACCTCCCTGTGACTACAGTA
130 CTGGTTGGCAGTGGAATAGATTGAAGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTG
* **
4295416 GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
195 GAGTACATTGAAGCCGATAATTCTATCT-CCTGTGGTTGG
* ** * * * * ** * *
4295456 CAGTGGAATAGATTGAATATTACAGA-TCT-TGCCTTCCT-A-TA-T-TTGGCAGCGA-AGCAGA
1 CAGTGGAATAGATTGAAGACGATA-ATTCTAT--CTCCCTGATTAGTAGTGGAATAGATTGAAGA
* * *
4295514 TTGAAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATC
63 TTAAAGATGGCAGATTTTACCTCCC-GTAACTACAGTGGAGTACATTGAAGCCGATAATTCTATC
* *
4295579 TCCCTGGTTGGTAGTGGAATAGATTGATGATCGAAGATGACAGATTTTACCTCCCTGTGACTACA
127 TCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAGATGACAGATTTTACCTCCCTGTGACTACA
* **
4295644 GTGGAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGG
192 GTGGAGTACATTGAAGCCGATAATTCTATCTC-CTGTGGTTGG
* * * * * * ** * *
4295687 CAGTGGAATAGATTGAAGATTGCA-GA-TCT-TGGCTTCTTG--TA-T-TTGGCAGCGA-AGCAG
1 CAGTGGAATAGATTGAAGA-CG-ATAATTCTAT--CTCCCTGATTAGTAGTGGAATAGATTGAAG
* * *
4295744 ATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTATATTGAAGCCGATAATTCTAT
62 ATTAAAGATGGCAGATTTTACCTCCC-GTAACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
* ** *
4295809 CTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGGTAGATTTTACCTCCCTATGACTAC
126 CTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAGATGACAGATTTTACCTCCCTGTGACTAC
*
4295874 AGTGGAGTACATTGAAGCCGATAATTCTATCT-CTCTGGTTGG
191 AGTGGAGTACATTGAAGCCGATAATTCTATCTCCTGTGGTTGG
* * * * * * * * *
4295916 CAGTGGAATAGATTAAAGATTGAAGATGACAGATTTTACCTGCCTGTGACTA-CAGTGGAGTACA
1 CAGTGG---A-A-T--AGATTGAAGACGATA-ATTCTATCT-CC-CTGATTAGTAGTGGAATAGA
** * ** *** * * * * ***
4295980 TTGAAG----CCGAT---A-ATTCTATTTCCC-TGGTTGGCAGTAGAATAGATTGAAGATTAAAA
56 TTGAAGATTAAAGATGGCAGATTTTACCTCCCGTAACT-ACAGTGGAGTACATTGAAG----CCG
* * ** * * * * * *
4296036 ATGGCAGATTTTACCTTACTGTGACT-ACAGTGGAGTACATTGAAG--C--CGAT---A-ATTCT
116 AT---A-ATTCTATCTCCCTG-G-TTGGCAGTGGAATAGATTGAAGATCGAAGATGACAGATTTT
* * * * * * * * * **
4296092 ATCTCCCTG-G-TTAGCAGTGGAATAGATTGAAGATCAAATATGGTAAATTTTACCTCC-CTGAC
175 ACCTCCCTGTGACTA-CAGTGGAGTACATTGAAG--C-----CGAT-AATTCTATCTCCTGTGGT
*
4296154 T-A
231 TGG
* * * *
4296156 CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGATTAGTAGTGGAATAGATTGAATATCA
1 CAGTGGAATAGATTGAAGACGATAATTCTATCTCCCTGATTAGTAGTGGAATAGATTGAAGATTA
* * *
4296221 AAGATGGCAGATTTTACCTCCC-TAACTACAGTGGAGTACATTAAAACCGATAATTCTATCTTCC
66 AAGATGGCAGATTTTACCTCCCGTAACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCC
* *
4296285 TGGTTAGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGG
131 TGGTTGGCAGTGGAATAGATTGAAGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTGG
4296350 AGTACATTGAAGCCGATAATTCTATCTCCT-TGGTTGG
196 AGTACATTGAAGCCGATAATTCTATCTCCTGTGGTTGG
*
4296387 CAGTGGAATAGATTAAAGA
1 CAGTGGAATAGATTGAAGA
4296406 TTAAAGATGG
Statistics
Matches: 738, Mismatches: 145, Indels: 138
0.72 0.14 0.14
Matches are distributed among these distances:
228 1 0.00
229 30 0.04
230 30 0.04
231 403 0.55
232 20 0.03
233 48 0.07
234 26 0.04
235 29 0.04
236 22 0.03
237 18 0.02
238 39 0.05
239 13 0.02
240 11 0.01
241 26 0.04
242 21 0.03
243 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (233 bp):
CAGTGGAATAGATTGAAGACGATAATTCTATCTCCCTGATTAGTAGTGGAATAGATTGAAGATTA
AAGATGGCAGATTTTACCTCCCGTAACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCC
TGGTTGGCAGTGGAATAGATTGAAGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTGG
AGTACATTGAAGCCGATAATTCTATCTCCTGTGGTTGG
Found at i:4296658 original size:40 final size:40
Alignment explanation
Indices: 4296603--4297096 Score: 484
Period size: 40 Copynumber: 11.9 Consensus size: 40
4296593 AGGTTACAGA
*
4296603 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
* * *
4296643 TCTTATCTCTCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----GAATCAAG
*
4296686 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATC-ACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-ATCAAG
* * * *
4296727 TATTATCTCCCTAAGTAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----GAATCAAG
*
4296770 ATATTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-ATCAAG
* * *
4296811 TCTTATCTCTCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----GAATCAAG
4296854 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-ATCAAG
*
4296895 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAATCAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----G-AATCAAG
* * *
4296939 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAT---CGAATCAAG
*
4296982 ATTTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-ATCAAG
* *
4297023 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGTATCCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
4297063 TCTTATCTCCCTAAGCAGTAGTAGAGCAGA-CGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
4297097 AGAAACCAAT
Statistics
Matches: 381, Mismatches: 37, Indels: 73
0.78 0.08 0.15
Matches are distributed among these distances:
39 7 0.02
40 183 0.48
41 16 0.04
43 17 0.04
44 154 0.40
45 4 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
Found at i:4296791 original size:128 final size:123
Alignment explanation
Indices: 4296599--4297092 Score: 554
Period size: 128 Copynumber: 3.9 Consensus size: 123
4296589 TTGAAGGTTA
* * *
4296599 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCTCTAAGCAGTAG
1 CAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* *
4296664 TGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCA-CATC
66 TGGAGCAGATC---AGAAACCAG-TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAGAAAC
* * * * * *
4296724 AAG-TATTATCTCCCTAAGTAGTAGTGGAGCAGA-CGAAAGAAACCAGATATTATCTCCCTAAGC
1 CAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCTAAGC
* * * * *
4296787 AGTAGTGGAGCAGATCA-CATCAAGTCTTATCTCTCTAAGCAGTAGTGGAGCAGA-CGAAAGAAA
61 AGTAGTGGAGCAGATCAGAAACCAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGATC---AGAAA
4296850 C
123 C
*
4296851 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* * * *
4296916 TGGAGCAGA-CGAAAGAAATCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAAC
66 TGGAGCAGATC---AGAAA-CCAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGAT--CAGAAAC
*
4296979 CAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* *
4297044 TGGAGCAGATC-GTATCCAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGA
66 TGGAGCAGATCAGAAACCAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGA
4297093 CGAAAGAAAC
Statistics
Matches: 314, Mismatches: 34, Indels: 43
0.80 0.09 0.11
Matches are distributed among these distances:
123 3 0.01
124 116 0.37
125 12 0.04
126 4 0.01
127 9 0.03
128 167 0.53
129 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (123 bp):
CAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCAGAAACCAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAGAAAC
Found at i:4297133 original size:84 final size:84
Alignment explanation
Indices: 4296599--4297117 Score: 753
Period size: 84 Copynumber: 6.2 Consensus size: 84
4296589 TTGAAGGTTA
* *
4296599 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCTCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
4296664 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* * *
4296683 CAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCACATCAAGTATTATCTCCCTAAGTAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
4296748 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* *
4296767 CAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCTCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
4296832 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
4296851 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
4296916 TGGAGCAGACGAAAGAAAT
66 TGGAGCAGACGAAAGAAAC
* * * * * *
4296935 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAACCAGATTTTATCTCCCTAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT--CA-CATCAAG-TCTTATCTCCCTAAGCA
* *
4297000 GTAGTGGAGCAGATC---A-CATC
62 GTAGTGGAGCAGA-CGAAAGAAAC
* ** *
4297020 AAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGTATCCAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
4297084 TAGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
*
4297103 CA-ATCCTATCTCCCT
1 CAGATCTTATCTCCCT
4297118 GAAGTTGCAG
Statistics
Matches: 391, Mismatches: 34, Indels: 21
0.88 0.08 0.05
Matches are distributed among these distances:
79 1 0.00
80 28 0.07
81 5 0.01
82 1 0.00
83 14 0.04
84 304 0.78
85 2 0.01
86 2 0.01
87 4 0.01
88 29 0.07
89 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (84 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
TGGAGCAGACGAAAGAAAC
Found at i:4299742 original size:108 final size:107
Alignment explanation
Indices: 4299477--4299795 Score: 466
Period size: 108 Copynumber: 3.0 Consensus size: 107
4299467 AGGTTTTGCT
* * *
4299477 AAATAAGGCAATATTTCGCGTTCGAAAAATCGA-GAAAGCGTGCCCTAACGTGCTGGGTTTCGAT
1 AAATAAGGCAATA-TTCGCGTTTGGAAAATCGAGGAAA-CGTGCCCTAACGTGTTGGGTTTCGAT
*
4299541 TTCTCGTTCT-ACCAAATAGCCAAATATCATTTTT-AAACTTTTA
64 TTCTCGTT-TGACCAAATAGCCAAATATCCTTTTTAAAACTTTTA
* * *
4299584 AAATAAGGCAATATCTCGCGTTTGGAAAATCGAGGAATCGTGCCCTAACGTGTTAGGTTTCAATT
1 AAATAAGGCAATAT-TCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGATT
4299649 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAAACTTTTA
65 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAAACTTTTA
*
4299692 AAATAAGGCAATACTTCGCGTTTGGAAAATCGAGGAAACATGCCCTAACGTGTTGGGTTTCGATT
1 AAATAAGGCAATA-TTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGATT
* * *
4299757 TCTCGTTCGACTAAATAGCCAAATATCC-TCTTAAAACTT
65 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAAACTT
4299796 CAAAGTATGG
Statistics
Matches: 193, Mismatches: 14, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
106 2 0.01
107 93 0.48
108 97 0.50
109 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (107 bp):
AAATAAGGCAATATTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGATTT
CTCGTTTGACCAAATAGCCAAATATCCTTTTTAAAACTTTTA
Found at i:4301699 original size:26 final size:27
Alignment explanation
Indices: 4301670--4301723 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4301660 TGCCTTATTT
*
4301670 ATTGAAATT-ATTTAAAATAAAATAAA
1 ATTGAAATTGAATTAAAATAAAATAAA
* *
4301696 ATTGAAATTGAATTAAATTAAATTAAA
1 ATTGAAATTGAATTAAAATAAAATAAA
4301723 A
1 A
4301724 ATATAAATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (27 bp):
ATTGAAATTGAATTAAAATAAAATAAA
Found at i:4302095 original size:20 final size:20
Alignment explanation
Indices: 4302067--4302110 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
4302057 TTTTGCTGTT
4302067 TGCTGTTTTTTTA-TGGGGC
1 TGCTGTTTTTTTATTGGGGC
*
4302086 TGCTGTTTTTTTATTTGGGC
1 TGCTGTTTTTTTATTGGGGC
4302106 TGCTG
1 TGCTG
4302111 GGCTGCTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.05, C:0.11, G:0.30, T:0.55
Consensus pattern (20 bp):
TGCTGTTTTTTTATTGGGGC
Found at i:4302207 original size:10 final size:10
Alignment explanation
Indices: 4302194--4302227 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
4302184 TTTTTTTGCC
4302194 CTTTTTCTTT
1 CTTTTTCTTT
*
4302204 CTTTTTCCTT
1 CTTTTTCTTT
*
4302214 CTTCTTCTTT
1 CTTTTTCTTT
4302224 CTTT
1 CTTT
4302228 CTTTCTTCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:4302215 original size:14 final size:15
Alignment explanation
Indices: 4302198--4302249 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 15
4302188 TTTGCCCTTT
4302198 TTCTTTCTT-TTTCC
1 TTCTTTCTTCTTTCC
*
4302212 TTC-TTCTTCTTTCT
1 TTCTTTCTTCTTTCC
*
4302226 TTCTTTCTTCTTCCC
1 TTCTTTCTTCTTTCC
4302241 TT-TTTCTTC
1 TTCTTTCTTC
4302250 CTTTTCCGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 5 0.15
14 17 0.52
15 11 0.33
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TTCTTTCTTCTTTCC
Found at i:4302246 original size:18 final size:17
Alignment explanation
Indices: 4302194--4302248 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
4302184 TTTTTTTGCC
*
4302194 CTTT-TTCTTTCTTTTT
1 CTTTCTTCTTCCTTTTT
* *
4302210 CCTTCTTCTTCTTTCTTT
1 CTTTCTTCTTCCTT-TTT
4302228 CTTTCTTCTTCCCTTTTT
1 CTTTCTTCTT-CCTTTTT
4302246 CTT
1 CTT
4302249 CCTTTTCCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 3 0.10
17 7 0.23
18 18 0.58
19 3 0.10
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
CTTTCTTCTTCCTTTTT
Found at i:4302254 original size:10 final size:10
Alignment explanation
Indices: 4302193--4302254 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 10
4302183 TTTTTTTTGC
4302193 CCTTTTTCTT
1 CCTTTTTCTT
*
4302203 TCTTTTTCCTT
1 CCTTTTT-CTT
4302214 CTTCTTCTTTCTT
1 C--CTT-TTTCTT
*
4302227 TCTTTCTTCTT
1 CCTTT-TTCTT
4302238 CCCTTTTTCTT
1 -CCTTTTTCTT
4302249 CCTTTT
1 CCTTTT
4302255 CCGTTCAGCC
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
10 13 0.31
11 16 0.38
12 4 0.10
13 6 0.14
14 3 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
CCTTTTTCTT
Found at i:4302362 original size:14 final size:15
Alignment explanation
Indices: 4302335--4302375 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
4302325 CCTCTTCTCC
4302335 TCTCTTTTTCTTCTT
1 TCTCTTTTTCTTCTT
*
4302350 TTTCTTTTT-TTCTT
1 TCTCTTTTTCTTCTT
*
4302364 TCTCTTTCTCTT
1 TCTCTTTTTCTT
4302376 TTGCTTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTCTTTTTCTTCTT
Found at i:4302366 original size:18 final size:18
Alignment explanation
Indices: 4302335--4302382 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4302325 CCTCTTCTCC
*
4302335 TCTCTTTTTC-TTCTTTT
1 TCTCTTTTTCTTTCTCTT
*
4302352 TCTTTTTTTCTTTCTCTT
1 TCTCTTTTTCTTTCTCTT
*
4302370 TCTCTTTTGCTTT
1 TCTCTTTTTCTTT
4302383 TTGTTTGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (18 bp):
TCTCTTTTTCTTTCTCTT
Found at i:4302463 original size:12 final size:12
Alignment explanation
Indices: 4302442--4302471 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4302432 GGTATTAGGA
*
4302442 CGGTGACGGGTG
1 CGGTGGCGGGTG
4302454 CGGTGGCGGGTG
1 CGGTGGCGGGTG
4302466 CGGTGG
1 CGGTGG
4302472 TGCGGGAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.03, C:0.17, G:0.63, T:0.17
Consensus pattern (12 bp):
CGGTGGCGGGTG
Found at i:4302766 original size:30 final size:29
Alignment explanation
Indices: 4302723--4302869 Score: 114
Period size: 30 Copynumber: 5.0 Consensus size: 29
4302713 TAATGGCAGC
* * *
4302723 AAAACTTTTGGGGTCGAAACGTAATTTTA
1 AAAAGTTTAGGGGTCGAAATGTAATTTTA
*
4302752 AGAAAGTTTAGGGGTCAAAATGTAATTTTGA
1 A-AAAGTTTAGGGGTCGAAATGTAATTTT-A
* ** * *
4302783 GAACTTTTAGGGGTTGAAATGTAATTTCA
1 AAAAGTTTAGGGGTCGAAATGTAATTTTA
* * **
4302812 AAATGTTTAGGGTTTTAAATGTAATTTTGA
1 AAAAGTTTAGGGGTCGAAATGTAATTTT-A
* ** *
4302842 AAAATTTTAGGGGTAAAAATGCAATTTT
1 AAAAGTTTAGGGGTCGAAATGTAATTTT
4302870 CTTAAAACAG
Statistics
Matches: 93, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
29 24 0.26
30 68 0.73
31 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (29 bp):
AAAAGTTTAGGGGTCGAAATGTAATTTTA
Found at i:4302820 original size:59 final size:60
Alignment explanation
Indices: 4302723--4302855 Score: 171
Period size: 59 Copynumber: 2.2 Consensus size: 60
4302713 TAATGGCAGC
*
4302723 AAAACTTTT-GGGGTCGAAACGTAATTTTAAGAAAGTTTAGGGGTCAAAATGTAATTTTG
1 AAAACTTTTAGGGGTCGAAACGTAATTTCAAGAAAGTTTAGGGGTCAAAATGTAATTTTG
* * * * * **
4302782 AGAACTTTTAGGGGTTGAAATGTAATTTCAA-AATGTTTAGGGTTTTAAATGTAATTTTG
1 AAAACTTTTAGGGGTCGAAACGTAATTTCAAGAAAGTTTAGGGGTCAAAATGTAATTTTG
*
4302841 AAAAATTTTAGGGGT
1 AAAACTTTTAGGGGT
4302856 AAAAATGCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 45 0.71
60 18 0.29
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.38
Consensus pattern (60 bp):
AAAACTTTTAGGGGTCGAAACGTAATTTCAAGAAAGTTTAGGGGTCAAAATGTAATTTTG
Done.