Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 205 of 222
Found at i:64937944 original size:50 final size:50
Alignment explanation
Indices: 64937881--64938056 Score: 167
Period size: 50 Copynumber: 3.5 Consensus size: 50
64937871 TGCCATATCT
* * ** * *
64937881 CAGATATGGTCTTACATAGGAGTTCTCATATCAGTGCCCATACCATGTCC
1 CAGACATGGTCTTACAGAGGACCTCTCATATCAGTGCCAACACCATGTCC
* * * * * *
64937931 TAGACATGGTCTTACGGGGGACCTCTTATCTCAGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACAGAGGACCTCTCATATCAGTGCCAACACCATGTCC
* * ** *
64937981 CAGACATGGTCTTACACG-GGACCTCTTATCTTGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACA-GAGGACCTCTCATATCAGTGCCAACACCATGTCC
64938031 CAGACATGGTCTTACATG-GGACCTCT
1 CAGACATGGTCTTACA-GAGGACCTCT
64938057 TTACCCAAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 107 0.99
51 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
CAGACATGGTCTTACAGAGGACCTCTCATATCAGTGCCAACACCATGTCC
Found at i:64938057 original size:50 final size:50
Alignment explanation
Indices: 64937923--64938057 Score: 216
Period size: 50 Copynumber: 2.7 Consensus size: 50
64937913 AGTGCCCATA
* **
64937923 CCATGTCCTAGACATGGTCTTACGGGGGACCTCTTATCTCAGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACACGGGACCTCTTATCTCAGTGCCAACG
**
64937973 CCATGTCCCAGACATGGTCTTACACGGGACCTCTTATCTTGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACACGGGACCTCTTATCTCAGTGCCAACG
*
64938023 CCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 CCATGTCCCAGACATGGTCTTACACGGGACCTCTT
64938058 TACCCAAATG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACGGGACCTCTTATCTCAGTGCCAACG
Found at i:64941416 original size:2 final size:2
Alignment explanation
Indices: 64941409--64941439 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
64941399 TTCAACTCAA
*
64941409 AC AC AC AC AC AC AC AC AC AC AC GC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
64941440 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.48, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:64943476 original size:36 final size:36
Alignment explanation
Indices: 64943429--64943497 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
64943419 TCTAAGCGTC
64943429 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTTGTT
1 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTTGTT
64943465 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTT
1 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTT
64943498 TTCTTTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (36 bp):
GACTGAAGCTGAAAAGAAGGGATACTTTGTTTTGTT
Found at i:64943509 original size:14 final size:15
Alignment explanation
Indices: 64943490--64943519 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
64943480 GAAGGGATAC
64943490 TTTGTTT-TTTCTTT
1 TTTGTTTGTTTCTTT
64943504 TTTGTTTGTTTCTTT
1 TTTGTTTGTTTCTTT
64943519 T
1 T
64943520 ATTAGATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTGTTTGTTTCTTT
Found at i:64947640 original size:25 final size:27
Alignment explanation
Indices: 64947599--64947650 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
64947589 AGTTTTAATC
*
64947599 AATAACTCTTTTATTTA-TAAA-ATAA
1 AATAACTATTTTATTTAGTAAATATAA
64947624 AATAACTATTATT-TTTAGTAAATATAA
1 AATAACTATT-TTATTTAGTAAATATAA
64947651 TTTTTATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 13 0.57
26 6 0.26
27 4 0.17
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (27 bp):
AATAACTATTTTATTTAGTAAATATAA
Found at i:64947861 original size:13 final size:13
Alignment explanation
Indices: 64947843--64947867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64947833 TAAAAGAGTT
64947843 ATTAATTAAAAAG
1 ATTAATTAAAAAG
64947856 ATTAATTAAAAA
1 ATTAATTAAAAA
64947868 TAAAAAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:64948888 original size:14 final size:15
Alignment explanation
Indices: 64948849--64948889 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
64948839 GATTTTTATT
* *
64948849 CTTTTAACATTAT-C
1 CTTTAAACATTTTAC
64948863 CTTTAAACATTTTAC
1 CTTTAAACATTTTAC
64948878 CTTTAAA-ATTTT
1 CTTTAAACATTTT
64948890 GAAAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (15 bp):
CTTTAAACATTTTAC
Found at i:64955969 original size:48 final size:48
Alignment explanation
Indices: 64955913--64956007 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
64955903 TGGATGCGTA
*
64955913 TTTGTTGGGGGTAAAGGAGAGGACTGAATAGTAGGAAAAGCTAGAGTG
1 TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGTG
* * *
64955961 TTTGTTGGGGGTAAAGGAGATGATTGAACAGTAGGAAAGGCTAGAGT
1 TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGT
64956008 ATTAGTGGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.04, G:0.39, T:0.24
Consensus pattern (48 bp):
TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGTG
Found at i:64963916 original size:45 final size:43
Alignment explanation
Indices: 64963841--64963961 Score: 170
Period size: 43 Copynumber: 2.7 Consensus size: 43
64963831 AAGAGGTAGG
64963841 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCT
1 CAACTTTTTTTTTGCGCTGTTTGC--TTTTTTTAAAGATTTTTCT
* **
64963886 CAACTCTTTTTTTTTGCGCTGTTTACTTTTTTTTTAGATTTTTCT
1 CAA--CTTTTTTTTTGCGCTGTTTGCTTTTTTTAAAGATTTTTCT
*
64963931 CAACTTTTTTTTTGCGCTTTTTGCTTTTTTT
1 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTT
64963962 TATTAACTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
43 26 0.38
45 23 0.33
47 20 0.29
ACGTcount: A:0.11, C:0.15, G:0.10, T:0.64
Consensus pattern (43 bp):
CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTAAAGATTTTTCT
Found at i:64963962 original size:45 final size:45
Alignment explanation
Indices: 64963841--64963962 Score: 194
Period size: 47 Copynumber: 2.7 Consensus size: 45
64963831 AAGAGGTAGG
64963841 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCT
1 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCT
*
64963886 CAACTCTTTTTTTTTGCGCTGTTTACTTTTTTTTT--AGATTTTTCT
1 CAA--CTTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCT
*
64963931 CAACTTTTTTTTTGCGCTTTTTGCTTTTTTTT
1 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTT
64963963 ATTAACTAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
43 27 0.38
45 16 0.22
47 29 0.40
ACGTcount: A:0.11, C:0.15, G:0.10, T:0.65
Consensus pattern (45 bp):
CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCT
Found at i:64964584 original size:31 final size:31
Alignment explanation
Indices: 64964491--64964586 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
64964481 GGCAAATTAC
*
64964491 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
64964522 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
64964554 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
64964585 AA
1 AA
64964587 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:64965362 original size:30 final size:25
Alignment explanation
Indices: 64965307--64965356 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
64965297 CATCAAAATG
64965307 TCTCGAGTCTTGATGTCCTTAACAA
1 TCTCGAGTCTTGATGTCCTTAACAA
64965332 TCTCGAGTCTTGATGTCCTTAACAA
1 TCTCGAGTCTTGATGTCCTTAACAA
64965357 CACAATAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (25 bp):
TCTCGAGTCTTGATGTCCTTAACAA
Found at i:64968306 original size:3 final size:3
Alignment explanation
Indices: 64968298--64968338 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
64968288 TTGCGGTCCT
64968298 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
64968339 TGTTTAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:64969089 original size:21 final size:21
Alignment explanation
Indices: 64969063--64969113 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
64969053 GTTGTTATTA
*
64969063 TTATTTTTAATTTT-CACAAT
1 TTATTTTTAATTTTGCAAAAT
*
64969083 TT-TATTTTAATTTTGTAAAAT
1 TTAT-TTTTAATTTTGCAAAAT
64969104 TTATTTTTAA
1 TTATTTTTAA
64969114 AAATATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 12 0.46
22 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTTTAATTTTGCAAAAT
Found at i:64975107 original size:3 final size:3
Alignment explanation
Indices: 64975065--64975089 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
64975055 ACAATAACTA
64975065 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
64975090 GAACATCCAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:64995000 original size:10 final size:10
Alignment explanation
Indices: 64994985--64995083 Score: 67
Period size: 10 Copynumber: 9.7 Consensus size: 10
64994975 AAATATAAAT
64994985 TATAATATTA
1 TATAATATTA
64994995 TATAATATTAA
1 TATAATATT-A
* *
64995006 AACTTAATGTT-
1 TA--TAATATTA
*
64995017 TA-AGTATATA
1 TATAATAT-TA
*
64995027 TATTATATTA
1 TATAATATTA
*
64995037 TATTATATTA
1 TATAATATTA
*
64995047 TATTATATTA
1 TATAATATTA
*
64995057 TATTATATTA
1 TATAATATTA
*
64995067 TATTATATTA
1 TATAATATTA
*
64995077 TAAAATA
1 TATAATA
64995084 AAGAAATAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
8 3 0.04
9 1 0.01
10 58 0.78
11 6 0.08
13 6 0.08
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (10 bp):
TATAATATTA
Found at i:64995035 original size:5 final size:5
Alignment explanation
Indices: 64995021--64995078 Score: 109
Period size: 5 Copynumber: 11.8 Consensus size: 5
64995011 AATGTTTAAG
64995021 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
64995070 TATAT TATA
1 TATAT TATA
64995079 AAATAAAGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.08
5 49 0.92
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:64995110 original size:24 final size:25
Alignment explanation
Indices: 64995078--64995128 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
64995068 ATTATATTAT
* * *
64995078 AAAATAAAGAAATAAAA-GAAATAG
1 AAAAGAAAGAAAGAAAACGAAACAG
64995102 AAAAGAAAGAAAGAAAACGAAACAG
1 AAAAGAAAGAAAGAAAACGAAACAG
64995127 AA
1 AA
64995129 GGGAAAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.75, C:0.04, G:0.16, T:0.06
Consensus pattern (25 bp):
AAAAGAAAGAAAGAAAACGAAACAG
Found at i:64996165 original size:40 final size:40
Alignment explanation
Indices: 64996044--64996183 Score: 144
Period size: 40 Copynumber: 3.5 Consensus size: 40
64996034 GACTTCTAGT
* * * *
64996044 CGATGAGACACTGGGTGTCAATTTATTACTTTGGATATATT
1 CGATGAGGCACTGGGTGTCAAATTATTACTTCGGAT-TATC
* * *
64996085 CGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGC
1 CGATGAGGCACTGGGTGTCAAATTATTACTTCGGATTATC
*
64996122 CGATG-GGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGG-CACTGGGTGTCAAATTATTACTTCGGATTATC
**
64996162 CGATGAGGCACTTAGTGTCAAA
1 CGATGAGGCACTGGGTGTCAAA
64996184 CTGGTGTGTT
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
36 2 0.02
37 16 0.20
38 12 0.15
39 2 0.02
40 31 0.38
41 18 0.22
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
CGATGAGGCACTGGGTGTCAAATTATTACTTCGGATTATC
Found at i:64998008 original size:46 final size:45
Alignment explanation
Indices: 64997910--64998153 Score: 287
Period size: 46 Copynumber: 5.6 Consensus size: 45
64997900 TACGTATGAT
* * * * *
64997910 CACTTATTACTTGTC-CTTAATCAGATAAGCGTAGCT-AGGCTAC
1 CACTTATCACTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
64997953 CACTTATCACTATTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACT-TTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
64997999 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC-TTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
64998045 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG----
1 CACTTATCACTTT-TCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
64998081 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC-TTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
64998127 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTT-TCACTTGATCAGA
64998154 AGTACTCAAA
Statistics
Matches: 176, Mismatches: 8, Indels: 31
0.82 0.04 0.14
Matches are distributed among these distances:
36 25 0.14
37 3 0.02
38 3 0.02
40 3 0.02
42 3 0.02
43 10 0.06
44 6 0.03
45 25 0.14
46 97 0.55
47 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:64998086 original size:36 final size:36
Alignment explanation
Indices: 64998045--64998117 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
64998035 CTAAAGCTAC
*
64998045 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAAATAAGTATAG
* *
64998081 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAAATAAGTATAG
64998117 C
1 C
64998118 TAAAGCTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAAATAAGTATAG
Found at i:64998136 original size:82 final size:82
Alignment explanation
Indices: 64997999--64998153 Score: 283
Period size: 82 Copynumber: 1.9 Consensus size: 82
64997989 CTAAGGCTAC
* *
64997999 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
64998064 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
*
64998081 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
64998146 TGATCAGA
66 TGATCAGA
64998154 AGTACTCAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
TGATCAGATAAGTATAG
Found at i:65004056 original size:27 final size:27
Alignment explanation
Indices: 65004003--65004056 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
65003993 TAAATATATA
**
65004003 TATTTTTTAATTTTAAAATAATTTTTT
1 TATTTTTTAATTTTAAAATAAAGTTTT
*
65004030 TATTTTTTATTTTTAAAATAAAGTTTT
1 TATTTTTTAATTTTAAAATAAAGTTTT
65004057 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TATTTTTTAATTTTAAAATAAAGTTTT
Found at i:65004736 original size:17 final size:17
Alignment explanation
Indices: 65004706--65004739 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65004696 TTTCAAAAAA
*
65004706 ATTAAAAATAATTTTTT
1 ATTAAAAACAATTTTTT
*
65004723 ATTAAAAACGATTTTTT
1 ATTAAAAACAATTTTTT
65004740 TAAATTCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTAAAAACAATTTTTT
Found at i:65006605 original size:37 final size:37
Alignment explanation
Indices: 65006555--65006628 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
65006545 AAATGCTGTG
65006555 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
1 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
65006592 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
1 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
65006629 ATTCCATGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.38
Consensus pattern (37 bp):
TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
Found at i:65016881 original size:19 final size:18
Alignment explanation
Indices: 65016853--65016889 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
65016843 AAATATATAA
*
65016853 TAATATTTTATATTTCTT
1 TAATATTTTATAATTCTT
65016871 TAATGATTTTATAATTCTT
1 TAAT-ATTTTATAATTCTT
65016890 GTTATTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
TAATATTTTATAATTCTT
Found at i:65030533 original size:53 final size:51
Alignment explanation
Indices: 65030435--65030607 Score: 179
Period size: 53 Copynumber: 3.3 Consensus size: 51
65030425 CATACATAAG
* *
65030435 AGGACTATGACTCATCAAACTTTATCAAAAGTAAAGTTCAATAATTTACAAA
1 AGGACAATGACTCATCAAACTTTAT-AAAAGTAAAGTACAATAATTTACAAA
* *
65030487 AGGACAATGACTCACTCATACTTTA-ATAAAGTAAAAGTACAATAATTTACAAG
1 AGGACAATGACTCA-TCAAACTTTATA-AAAGT-AAAGTACAATAATTTACAAA
* * * * * *
65030540 AGGGCGATGACTCATACAAACTTTTATAAAAGTAAAGGATAATAATTTATAAGC
1 AGGACAATGACTCAT-CAAAC-TTTATAAAAGTAAAGTACAATAATTTACAA-A
65030594 A-GACAATGACTCAT
1 AGGACAATGACTCAT
65030608 TCAATTAGTG
Statistics
Matches: 101, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
51 1 0.01
52 19 0.19
53 70 0.69
54 10 0.10
55 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (51 bp):
AGGACAATGACTCATCAAACTTTATAAAAGTAAAGTACAATAATTTACAAA
Found at i:65032400 original size:6 final size:7
Alignment explanation
Indices: 65032381--65032410 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
65032371 AAATATCTAA
65032381 AATTTTT
1 AATTTTT
65032388 AATTTTT
1 AATTTTT
65032395 AATTTTT
1 AATTTTT
65032402 AATTTTT
1 AATTTTT
65032409 AA
1 AA
65032411 AAAAAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
AATTTTT
Found at i:65044850 original size:22 final size:23
Alignment explanation
Indices: 65044820--65044862 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
65044810 AGTATGATTA
65044820 AAAACTATTACGATTAAAAACAC
1 AAAACTATTACGATTAAAAACAC
*
65044843 AAAA-TATTAGGATTAAAAAC
1 AAAACTATTACGATTAAAAAC
65044863 TAAAGTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.58, C:0.12, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAACTATTACGATTAAAAACAC
Found at i:65056623 original size:28 final size:27
Alignment explanation
Indices: 65056592--65056646 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
65056582 AATTAATAAT
*
65056592 GTTA-ATGATCTTATAATAATTTTTTAAA
1 GTTAGATGAT-TTA-AACAATTTTTTAAA
*
65056620 GTTAGATGATTTAAACATTTTTTTAAA
1 GTTAGATGATTTAAACAATTTTTTAAA
65056647 CAATATATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.50
28 7 0.29
29 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (27 bp):
GTTAGATGATTTAAACAATTTTTTAAA
Found at i:65066992 original size:65 final size:65
Alignment explanation
Indices: 65066886--65067030 Score: 161
Period size: 65 Copynumber: 2.2 Consensus size: 65
65066876 TGTTTTAAAA
** *
65066886 AAAATTTTAAAAATATATTAGACTTTTTTAAAAATTATAAAAATAATAAAAACTATTTAAAA-AC
1 AAAATTTT-AAAATATATTAGACAGTTATAAAAATTATAAAAATAATAAAAACTATTTAAAATA-
65066950 TAT
64 T-T
* * * *
65066953 AAAATTTTAAAAT-TATTAGA-AGTTATAAAATATTGTAAAAATTATAAAAATTATTTGAAATAT
1 AAAATTTTAAAATATATTAGACAGTTATAAAA-ATTATAAAAATAATAAAAACTATTTAAAATAT
65067016 T
65 T
*
65067017 AAAATTTAAAAATA
1 AAAATTTTAAAATA
65067031 GTAAAAATAG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
64 20 0.30
65 33 0.49
66 6 0.09
67 8 0.12
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (65 bp):
AAAATTTTAAAATATATTAGACAGTTATAAAAATTATAAAAATAATAAAAACTATTTAAAATATT
Found at i:65067005 original size:9 final size:9
Alignment explanation
Indices: 65066914--65067006 Score: 73
Period size: 9 Copynumber: 10.1 Consensus size: 9
65066904 TAGACTTTTT
65066914 TAAAAATTA
1 TAAAAATTA
*
65066923 TAAAAATAA
1 TAAAAATTA
*
65066932 TAAAAACTATT
1 TAAAAA-T-TA
*
65066943 TAAAAACTA
1 TAAAAATTA
65066952 T-AAAATT-
1 TAAAAATTA
*
65066959 TTAAAATTA
1 TAAAAATTA
* *
65066968 TTAGAAGTTA
1 -TAAAAATTA
*
65066978 TAAAATATTG
1 TAAAA-ATTA
65066988 TAAAAATTA
1 TAAAAATTA
65066997 TAAAAATTA
1 TAAAAATTA
65067006 T
1 T
65067007 TTGAAATATT
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
7 1 0.02
8 11 0.17
9 33 0.51
10 14 0.22
11 6 0.09
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:65067013 original size:19 final size:18
Alignment explanation
Indices: 65066954--65067022 Score: 52
Period size: 18 Copynumber: 3.7 Consensus size: 18
65066944 AAAAACTATA
* *
65066954 AAATTTTAAAATTATTAG
1 AAATTATAAAATTATTTG
* *
65066972 AAGTTATAAAA-TATTGTAA
1 AAATTATAAAATTATT-T-G
65066991 AAATTATAAAAATTATTTG
1 AAATTAT-AAAATTATTTG
65067010 AAA-TATTAAAATT
1 AAATTA-TAAAATT
65067023 TAAAAATAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
17 4 0.10
18 17 0.43
19 10 0.25
20 5 0.12
21 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
AAATTATAAAATTATTTG
Found at i:65067036 original size:35 final size:38
Alignment explanation
Indices: 65066953--65067038 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 38
65066943 TAAAAACTAT
* *
65066953 AAAATT-TTAAAATTATTAGAAGTTATAAAATATTGTA
1 AAAATTATAAAAATTATTAGAAGATATAAAATATTGTA
* *
65066990 AAAATTATAAAAATTATTTGAA-ATATTAAA-ATT-TA
1 AAAATTATAAAAATTATTAGAAGATATAAAATATTGTA
65067025 AAAA-TAGTAAAAAT
1 AAAATTA-TAAAAAT
65067039 AGTTATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
34 2 0.05
35 13 0.30
36 3 0.07
37 12 0.28
38 13 0.30
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (38 bp):
AAAATTATAAAAATTATTAGAAGATATAAAATATTGTA
Found at i:65067737 original size:17 final size:17
Alignment explanation
Indices: 65067715--65067747 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65067705 TTTGTAAATT
65067715 TTTTTTATAA-ATTTTTA
1 TTTTTTA-AAGATTTTTA
65067732 TTTTTTAAAGATTTTT
1 TTTTTTAAAGATTTTT
65067748 TTATGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTTTAAAGATTTTTA
Found at i:65067747 original size:50 final size:48
Alignment explanation
Indices: 65067625--65067739 Score: 142
Period size: 50 Copynumber: 2.4 Consensus size: 48
65067615 TAAAATATTA
* *
65067625 AAATTTTTATTTTTTTAATTTTTAGTAAATTTTATAAATTTTTTTTTTG
1 AAATTTTTA-TTTTTTAATTTTTAATAAATTTTATAAATTTTTTTTATG
* * * *
65067674 TAATTTTACATTTTTTATATTTTTAATAAGTTTTGTAAATTTTTTTTAT-
1 AAATTTT-TATTTTTTA-ATTTTTAATAAATTTTATAAATTTTTTTTATG
65067723 AAATTTTTATTTTTTAA
1 AAATTTTTATTTTTTAA
65067740 AGATTTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
47 1 0.02
48 8 0.14
49 19 0.34
50 28 0.50
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (48 bp):
AAATTTTTATTTTTTAATTTTTAATAAATTTTATAAATTTTTTTTATG
Found at i:65070510 original size:19 final size:19
Alignment explanation
Indices: 65070486--65070536 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
65070476 ACAGTCGTGT
65070486 GTCCAGGCCGTGTGACGGA
1 GTCCAGGCCGTGTGACGGA
65070505 GTCCAGGCCGTGTGACGGA
1 GTCCAGGCCGTGTGACGGA
* *
65070524 GTCTAGCCCGTGT
1 GTCCAGGCCGTGT
65070537 AACTTCAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.14, C:0.27, G:0.39, T:0.20
Consensus pattern (19 bp):
GTCCAGGCCGTGTGACGGA
Found at i:65071564 original size:40 final size:40
Alignment explanation
Indices: 65071509--65071616 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
65071499 AGAGCATTCT
* * * *
65071509 TTTCAATAAATTCAGTAGGTATGGCTTAAGAGT-GCATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTCAA-AATCGCATACG
* *
65071549 TTTTAGTAGATTCAGTAGGTATGGCTCAAAATCGCATATG
1 TTTCAGTAGATTCAGTAGGTATGGCTCAAAATCGCATACG
*
65071589 TTTCAGTAGATTCAGTAGGTATGACTCA
1 TTTCAGTAGATTCAGTAGGTATGGCTCA
65071617 TCTGAGCACC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
39 2 0.03
40 57 0.97
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (40 bp):
TTTCAGTAGATTCAGTAGGTATGGCTCAAAATCGCATACG
Found at i:65073418 original size:30 final size:30
Alignment explanation
Indices: 65073379--65073436 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
65073369 GAGTTGGGAG
*
65073379 GGGAGAGGAGTAAAAGTTTTTGGGGGAAAGT
1 GGGAGAGGAGTAAAAG-TTTTGAGGGAAAGT
65073410 GGGA-AGGAGTAAAAGTTTTGAGGGAAA
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAA
65073437 AGTAAAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.42
30 11 0.42
31 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.43, T:0.21
Consensus pattern (30 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAGT
Found at i:65073439 original size:30 final size:31
Alignment explanation
Indices: 65073379--65073439 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
65073369 GAGTTGGGAG
*
65073379 GGGAGAGGAGTAAAAGTTTTTGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTTGGGGAAAAGT
65073410 GGGA-AGGAGTAAAAG-TTTTGAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTTG-GGGAAAAGT
65073440 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 5 0.18
30 19 0.68
31 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.43, T:0.21
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTTGGGGAAAAGT
Found at i:65073502 original size:9 final size:9
Alignment explanation
Indices: 65073488--65073524 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
65073478 TATAGTTTGA
65073488 TATTCGAAT
1 TATTCGAAT
65073497 TATTCGAAT
1 TATTCGAAT
**
65073506 TATTCGTGT
1 TATTCGAAT
65073515 TATTCGAAT
1 TATTCGAAT
65073524 T
1 T
65073525 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:65077160 original size:16 final size:16
Alignment explanation
Indices: 65077139--65077171 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
65077129 CAGTCCAAAT
65077139 AGCCCAAGTCACAACA
1 AGCCCAAGTCACAACA
65077155 AGCCCAAGTCACAACA
1 AGCCCAAGTCACAACA
65077171 A
1 A
65077172 CAAACAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.36, G:0.12, T:0.06
Consensus pattern (16 bp):
AGCCCAAGTCACAACA
Found at i:65084906 original size:15 final size:14
Alignment explanation
Indices: 65084886--65084917 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
65084876 TGTTGTTCTC
65084886 CATTTCTTTTCTTTT
1 CATTTCTTTT-TTTT
65084901 CATTTCTTTTTTTT
1 CATTTCTTTTTTTT
65084915 CAT
1 CAT
65084918 ATACAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (14 bp):
CATTTCTTTTTTTT
Found at i:65090652 original size:17 final size:17
Alignment explanation
Indices: 65090617--65090701 Score: 50
Period size: 17 Copynumber: 4.9 Consensus size: 17
65090607 AATGAAAATG
* *
65090617 AAAATGAAAAAAA-ATC
1 AAAATAAAAAAAAGAAC
65090633 AAAATAAAAAAAAGAAC
1 AAAATAAAAAAAAGAAC
65090650 AAAA-AGAAGAAAGAAGAA-
1 AAAATA-AA-AAA-AAGAAC
** *
65090668 AAAATTAAAATCAAGATC
1 AAAA-TAAAAAAAAGAAC
* *
65090686 AAAATGAAAATAAGAA
1 AAAATAAAAAAAAGAA
65090702 AAAGAAAGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
16 13 0.25
17 20 0.38
18 12 0.23
19 7 0.13
20 1 0.02
ACGTcount: A:0.74, C:0.05, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAATAAAAAAAAGAAC
Found at i:65090679 original size:47 final size:50
Alignment explanation
Indices: 65090627--65090721 Score: 117
Period size: 50 Copynumber: 1.9 Consensus size: 50
65090617 AAAATGAAAA
65090627 AAAATCAAAAT-AAAA-AAAAGAACAAAAAG-AAGAAAGAA-GAAAAAATT
1 AAAATCAAAATCAAAAGAAAAGAACAAAAAGAAAG-AAGAATGAAAAAATT
* * *
65090674 AAAATCAAGATCAAAATGAAAATAAGAAAAAGAAAGAAGAATGAAAAA
1 AAAATCAAAATCAAAA-GAAAAGAACAAAAAGAAAGAAGAATGAAAAA
65090722 GGAGAAATCT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
47 10 0.25
48 4 0.10
50 17 0.43
51 9 0.22
ACGTcount: A:0.74, C:0.04, G:0.13, T:0.09
Consensus pattern (50 bp):
AAAATCAAAATCAAAAGAAAAGAACAAAAAGAAAGAAGAATGAAAAAATT
Found at i:65092864 original size:43 final size:43
Alignment explanation
Indices: 65092814--65092954 Score: 185
Period size: 43 Copynumber: 3.3 Consensus size: 43
65092804 AATATTGCAG
*
65092814 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCCAAGCT-ATGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCCAAG-TGACGA
* * *
65092857 ATCTTATCTTCTCCAGGAGTAGGGAAACAGATCTAAGTGCCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCCAAGTGACGA
* * * *
65092900 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCGAAGACGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCCAAG-TGACGA
65092944 ATCTTATCTTC
1 ATCTTATCTTC
65092955 AAGTGTAAGG
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 71 0.82
44 15 0.17
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (43 bp):
ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCCAAGTGACGA
Found at i:65093073 original size:50 final size:50
Alignment explanation
Indices: 65093019--65093383 Score: 303
Period size: 50 Copynumber: 7.3 Consensus size: 50
65093009 GCCGTGGAAC
* *
65093019 AGATTAAAACCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAA
** * * * * * * ** *
65093069 AGATTAAAGATACAACAGCGAATCTTACCT-CCTAAGCGA-TGCAGTGGAAT
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGA-C-ATTGCAGTTCAAA
65093119 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAA
* * * * ** * ** *
65093169 AGATTAAAGCTACATCAGCGAATCTTACCTT-CAGGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACATCGGTGAATCTT-GCTTCCCTGAC-ATTGCAGTTCAAA
*
65093219 AGATTAAAGCCACATCGGTGAATCTTACTTCCCTGACATTGCAGTTCAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAA
* * * * * * *
65093269 AGATTAAAGCTACATCGGTGAATCTTACCTT-CCAGGCAGTGCAG-TGAAGC
1 AGATTAAAGCCACATCGGTGAATCTT-GCTTCCCTGACATTGCAGTTCAA-A
* * *
65093319 ATATTAAAGCCACATCGGTGAATCTTGCTT-CCTCGACATTGTAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCT-GACATTGCAGTTCAAA
65093369 ATGATTAAAGCCACA
1 A-GATTAAAGCCACA
65093384 ATGGCGAATC
Statistics
Matches: 241, Mismatches: 61, Indels: 25
0.74 0.19 0.08
Matches are distributed among these distances:
49 16 0.07
50 198 0.82
51 27 0.11
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAA
Found at i:65093142 original size:100 final size:99
Alignment explanation
Indices: 65092969--65093397 Score: 547
Period size: 100 Copynumber: 4.3 Consensus size: 99
65092959 GTAAGGAAGC
* * * * ** * *
65092969 AGATTAAAGCCACAACGGCGAATCCTACTTCTTTGGCGATGCCGTGGAACAGATTAAAACCACAT
1 AGATTAAAGCTACAACAGCGAATCTTACCTC-CAGGCGATGCAGTGGAACAGATTAAAGCCACAT
65093034 CGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
65 CGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
* * *
65093069 AGATTAAAGATACAACAGCGAATCTTACCTCCTAAGCGATGCAGTGGAATAGATTAAAGCCACAT
1 AGATTAAAGCTACAACAGCGAATCTTACCTCC-AGGCGATGCAGTGGAACAGATTAAAGCCACAT
*
65093134 CGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAA
65 CGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
* *
65093169 AGATTAAAGCTACATCAGCGAATCTTACCTTCAGGGCGATGCAGTGGAACAGATTAAAGCCACAT
1 AGATTAAAGCTACAACAGCGAATCTTACCTCCA-GGCGATGCAGTGGAACAGATTAAAGCCACAT
* *
65093234 CGGTGAATCTTACTTCCCTGACATTGCAGTTCAAA
65 CGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
* * * *
65093269 AGATTAAAGCTACATCGGTGAATCTTACCTTCCAGGC-AGTGCAGT-GAAGCATATTAAAGCCAC
1 AGATTAAAGCTACAACAGCGAATCTTACC-TCCAGGCGA-TGCAGTGGAA-CAGATTAAAGCCAC
* * *
65093332 ATCGGTGAATCTTGCTTCCTCGACATTGTAGTTAAAA
63 ATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
* **
65093369 ATGATTAAAGCCACAATGGCGAATCTTAC
1 A-GATTAAAGCTACAACAGCGAATCTTAC
65093398 TACCAAAAAT
Statistics
Matches: 292, Mismatches: 31, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
99 5 0.02
100 261 0.89
101 26 0.09
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (99 bp):
AGATTAAAGCTACAACAGCGAATCTTACCTCCAGGCGATGCAGTGGAACAGATTAAAGCCACATC
GGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
Found at i:65102424 original size:2 final size:2
Alignment explanation
Indices: 65102419--65102498 Score: 51
Period size: 2 Copynumber: 46.5 Consensus size: 2
65102409 TAAAGTTAAA
*
65102419 AT AT AT AT -T AT A- AT AT -T AT A- AT AT -T AT A- AT AT TT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
65102454 AG A- AT AT AT AT -T AT AT AT AT -T AT AT AT AT -T AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65102491 AT -T AT AT A
1 AT AT AT AT A
65102499 ATAATAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 26
0.69 0.02 0.29
Matches are distributed among these distances:
1 13 0.21
2 50 0.79
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
AT
Found at i:65102444 original size:16 final size:17
Alignment explanation
Indices: 65102419--65102496 Score: 92
Period size: 16 Copynumber: 4.7 Consensus size: 17
65102409 TAAAGTTAAA
65102419 ATATATATTATAATATT
1 ATATATATTATAATATT
65102436 ATA-ATATTATAATATT
1 ATATATATTATAATATT
* *
65102452 -TA-AGAATAT-ATATT
1 ATATATATTATAATATT
65102466 ATATATATTATATATATT
1 ATATATATTATA-ATATT
65102484 ATATTATATTATA
1 ATA-TATATTATA
65102497 TAATAATAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
14 5 0.10
15 9 0.17
16 18 0.35
17 3 0.06
18 8 0.15
19 9 0.17
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (17 bp):
ATATATATTATAATATT
Found at i:65102449 original size:28 final size:28
Alignment explanation
Indices: 65102418--65102501 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 28
65102408 TTAAAGTTAA
65102418 AATATATATTATAATATTATAATATTAT
1 AATATATATTATAATATTATAATATTAT
* **
65102446 AATATTTAAGAATATATATTATATATATTAT
1 AATATAT-ATTATA-ATATTATA-ATATTAT
*
65102477 ATATATTATATTATATTA-TATAATA
1 A-ATA-TATATTATAATATTATAATA
65102502 ATAAAAAAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
28 6 0.14
29 7 0.16
30 12 0.27
31 10 0.23
32 7 0.16
33 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
AATATATATTATAATATTATAATATTAT
Found at i:65102477 original size:5 final size:5
Alignment explanation
Indices: 65102422--65102497 Score: 63
Period size: 5 Copynumber: 16.0 Consensus size: 5
65102412 AGTTAAAATA
* * * * *
65102422 TATAT TATAA TATTAT AATAT TATAA TAT-T TA-AG AATA- TATAT TATA-
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
65102469 TATAT TATA- TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
65102498 AATAATAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
4 14 0.25
5 39 0.70
6 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:65102820 original size:24 final size:24
Alignment explanation
Indices: 65102793--65102839 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
65102783 ATTGAAATGG
65102793 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
65102817 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
65102840 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:65111938 original size:37 final size:37
Alignment explanation
Indices: 65111860--65112034 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
65111850 TTTGAGTACT
65111860 TCTGATCAAGAAACAAAGTGATAA-TGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
65111896 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
65111933 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
65111970 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
65112007 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
65112035 TAGCTTCAGC
Statistics
Matches: 133, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
36 24 0.18
37 109 0.82
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:65112106 original size:45 final size:46
Alignment explanation
Indices: 65111997--65112120 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
65111987 GTGATAAGTG
* *
65111997 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
65112043 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
65112088 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
65112121 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:65119577 original size:37 final size:37
Alignment explanation
Indices: 65119536--65119711 Score: 307
Period size: 37 Copynumber: 4.8 Consensus size: 37
65119526 TTTGAGTACT
65119536 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
65119573 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
65119610 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
65119647 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
65119684 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
65119712 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:65119783 original size:45 final size:46
Alignment explanation
Indices: 65119674--65119797 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
65119664 GTGATAAGTG
* *
65119674 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
65119720 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
65119765 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
65119798 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:65135781 original size:2 final size:2
Alignment explanation
Indices: 65135776--65135854 Score: 56
Period size: 2 Copynumber: 45.5 Consensus size: 2
65135766 TAAAGTTAAA
* *
65135776 AT AT AT AT -T AT AT AT -T AT A- AT AT -T AT A- AT AT TT A- AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65135812 A- AT AT AT AT -T AT AT AT AT -T AT AT AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65135849 -T AT AT A
1 AT AT AT A
65135855 ATAATAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 24
0.71 0.02 0.27
Matches are distributed among these distances:
1 12 0.19
2 51 0.81
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (2 bp):
AT
Found at i:65135794 original size:5 final size:5
Alignment explanation
Indices: 65135779--65135853 Score: 63
Period size: 5 Copynumber: 16.0 Consensus size: 5
65135769 AGTTAAAATA
* * * *
65135779 TATAT TATA- TATTAT AATAT TATAA TAT-T TA-AG AATA- TATAT TATA-
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
65135825 TATAT TATA- TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
65135854 AATAATAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
4 16 0.29
5 39 0.70
6 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:65135854 original size:7 final size:7
Alignment explanation
Indices: 65135777--65135843 Score: 61
Period size: 7 Copynumber: 9.7 Consensus size: 7
65135767 AAAGTTAAAA
65135777 TATATAT
1 TATATAT
65135784 TATATAT
1 TATATAT
65135791 TATAATAT
1 TAT-ATAT
65135799 TATAATAT
1 TAT-ATAT
* *
65135807 T-TAAGAA
1 TAT-ATAT
65135814 TATATAT
1 TATATAT
65135821 TATATA-
1 TATATAT
65135827 TAT-TA-
1 TATATAT
65135832 TATATAT
1 TATATAT
65135839 TATAT
1 TATAT
65135844 TATATTATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
5 5 0.10
6 5 0.10
7 28 0.54
8 14 0.27
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (7 bp):
TATATAT
Found at i:65136175 original size:24 final size:24
Alignment explanation
Indices: 65136148--65136194 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
65136138 ATTGAAATGG
65136148 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
65136172 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
65136195 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:65136207 original size:17 final size:14
Alignment explanation
Indices: 65136170--65136227 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 14
65136160 TGTGATGAAT
65136170 TTATTGAATTTATA
1 TTATTGAATTTATA
65136184 TTGATTGAATTGGTATA
1 TT-ATTGAATT--TATA
*
65136201 TATATTGAATATATTGA
1 T-TATTGAATTTA-T-A
65136218 TTATTGAATT
1 TTATTGAATT
65136228 GAAATGAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 2 0.06
15 10 0.28
16 9 0.25
17 14 0.39
18 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TTATTGAATTTATA
Found at i:65145290 original size:37 final size:37
Alignment explanation
Indices: 65145249--65145424 Score: 280
Period size: 37 Copynumber: 4.8 Consensus size: 37
65145239 TTTGAGTACT
* *
65145249 TCTGATCAAGAAACAAAGTGACAAGTGGCTACATTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
65145286 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
65145323 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
65145360 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
65145397 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
65145425 TAGCTTCAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:65145496 original size:45 final size:46
Alignment explanation
Indices: 65145387--65145510 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
65145377 GTGATAAGTG
* *
65145387 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
65145433 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
65145478 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
65145511 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:65152980 original size:37 final size:37
Alignment explanation
Indices: 65152939--65153114 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
65152929 TTTGAGTACT
65152939 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
65152976 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
65153013 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
65153050 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
65153087 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
65153115 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:65153186 original size:45 final size:46
Alignment explanation
Indices: 65153077--65153200 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
65153067 GTGATAAGTG
* *
65153077 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
65153123 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
65153168 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
65153201 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:65155347 original size:88 final size:88
Alignment explanation
Indices: 65155191--65155405 Score: 322
Period size: 88 Copynumber: 2.4 Consensus size: 88
65155181 TAGATTGAAG
* *
65155191 AAGATTGTAGATTTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTCC
1 AAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTCC
* *
65155256 CTGAGCAGCAGTGGAGTAGGTTG
66 CTGAACAGCAGTGGAGTAGGTTA
* * * * * *
65155279 AATATTGTAGATCTTGTCTTCCTGTACTAGCAATGAAGCAGATCGAAAACACCAGTCTTATTTTC
1 AAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTCC
65155344 CTGAACAGCAGTGGAGTAGGTTA
66 CTGAACAGCAGTGGAGTAGGTTA
**
65155367 AAGATTACAGATCTTGTCTTCCTGTACTGGCAGTGAAGC
1 AAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGC
65155406 CTTCCTGTAC
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 112 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (88 bp):
AAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTCC
CTGAACAGCAGTGGAGTAGGTTA
Found at i:65155412 original size:22 final size:22
Alignment explanation
Indices: 65155384--65155427 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
65155374 CAGATCTTGT
65155384 CTTCCTGTACTGGCAGTGAAGC
1 CTTCCTGTACTGGCAGTGAAGC
65155406 CTTCCTGTACTGGCAGTGAAGC
1 CTTCCTGTACTGGCAGTGAAGC
65155428 AGATCGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
CTTCCTGTACTGGCAGTGAAGC
Found at i:65155489 original size:110 final size:110
Alignment explanation
Indices: 65155296--65155515 Score: 368
Period size: 110 Copynumber: 2.0 Consensus size: 110
65155286 TAGATCTTGT
* *
65155296 CTTCCTGTACTAGCAATGAAGCAGATCGAAAACACCAGTCTTATTTTCCTGAACAGCAGTGGAGT
1 CTTCCTGTACTAGCAATGAAGCAGATCGAAAACACCAGCCTTATCTTCCTGAACAGCAGTGGAGT
*
65155361 AGGTTAAAGATTACAGATCTTGTCTTCCTGTACTGGCAGTGAAGC
66 AGGTTAAAGATTACAGATCTTGTCTTCCTGTACTGGCAATGAAGC
* * *
65155406 CTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTTCCTGAGCAGCAGTGGAGT
1 CTTCCTGTACTAGCAATGAAGCAGATCGAAAACACCAGCCTTATCTTCCTGAACAGCAGTGGAGT
* *
65155471 AGGTTGAAGATTACAGATCTTGTCTTCCTGTATTGGCAATGAAGC
66 AGGTTAAAGATTACAGATCTTGTCTTCCTGTACTGGCAATGAAGC
65155516 AGATCAAAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (110 bp):
CTTCCTGTACTAGCAATGAAGCAGATCGAAAACACCAGCCTTATCTTCCTGAACAGCAGTGGAGT
AGGTTAAAGATTACAGATCTTGTCTTCCTGTACTGGCAATGAAGC
Found at i:65155497 original size:44 final size:44
Alignment explanation
Indices: 65155449--65155587 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 44
65155439 ACCAGCCTTA
65155449 TCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTG
1 TCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTG
*** * * * * * * * * * *
65155493 TCTTCCTGTATTGGCAATGAAGCA-GATCAAAATAACAAACCTTA
1 TCTTCCTG-AGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTG
* **
65155537 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTG
1 TCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTG
65155581 TCTTCCT
1 TCTTCCT
65155588 TTACTGGCAG
Statistics
Matches: 63, Mismatches: 30, Indels: 4
0.65 0.31 0.04
Matches are distributed among these distances:
43 9 0.14
44 45 0.71
45 9 0.14
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (44 bp):
TCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTG
Found at i:65155553 original size:198 final size:198
Alignment explanation
Indices: 65155208--65155603 Score: 614
Period size: 198 Copynumber: 2.0 Consensus size: 198
65155198 TAGATTTTGT
*
65155208 CTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGT
1 CTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGT
* ** * * **
65155273 AGGTTGAATATTGTAGATCTTGTCTTCCTGTACTAGCAATGAAGCAGATCGAAAACACCAGTCTT
66 AGGTTGAAGATTACAGATCTTGTCTTCCTGTACTAGCAATGAAGCAGATCGAAAAAACAAACCTT
* *
65155338 ATTTTCCTGAACAGCAGTGGAGTAGGTTAAAGATTACAGATCTTGTCTTCCTGTACTGGCAGTGA
131 ATCTCCCTGAACAGCAGTGGAGTAGGTTAAAGATTACAGATCTTGTCTTCCTGTACTGGCAGTGA
65155403 AGC
196 AGC
*
65155406 CTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTTCCTGAGCAGCAGTGGAGT
1 CTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGT
* *
65155471 AGGTTGAAGATTACAGATCTTGTCTTCCTGTATTGGCAATGAAGCAGATC-AAAATAACAAACCT
66 AGGTTGAAGATTACAGATCTTGTCTTCCTGTACTAGCAATGAAGCAGATCGAAAA-AACAAACCT
* * ** *
65155535 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTTCCTTTACTGGCAGTG
130 TATCTCCCTGAACAGCAGTGGAGTAGGTTAAAGATTACAGATCTTGTCTTCCTGTACTGGCAGTG
65155600 AAGC
195 AAGC
65155604 AGATCGAAAA
Statistics
Matches: 179, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
197 4 0.02
198 175 0.98
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (198 bp):
CTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGT
AGGTTGAAGATTACAGATCTTGTCTTCCTGTACTAGCAATGAAGCAGATCGAAAAAACAAACCTT
ATCTCCCTGAACAGCAGTGGAGTAGGTTAAAGATTACAGATCTTGTCTTCCTGTACTGGCAGTGA
AGC
Found at i:65155555 original size:88 final size:88
Alignment explanation
Indices: 65155406--65155834 Score: 430
Period size: 88 Copynumber: 4.8 Consensus size: 88
65155396 GCAGTGAAGC
* * * * *
65155406 CTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTTCCTGAGCAGCAGTGGAGT
1 CTTCCTGTATTGGCAGTGAAGCAGATCGAAAAAACAAACCTTATCTCCCTGAGCAGCAGTGGAGT
*
65155471 AGGTTGAAGATTACAGATCTTGT
66 AGGTTGAAGATTATAGATCTTGT
*
65155494 CTTCCTGTATTGGCAATGAAGCAGATC-AAAATAACAAACCTTATCTCCCTGAGCAGCAGTGGAG
1 CTTCCTGTATTGGCAGTGAAGCAGATCGAAAA-AACAAACCTTATCTCCCTGAGCAGCAGTGGAG
*
65155558 TAGGTTGAAGATTGTAGATCTTGT
65 TAGGTTGAAGATTATAGATCTTGT
* * * * * * *
65155582 CTTCCTTTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTTCCTAAGCAGCAGTGGAGT
1 CTTCCTGTATTGGCAGTGAAGCAGATCGAAAAAACAAACCTTATCTCCCTGAGCAGCAGTGGAGT
*
65155647 AGGTTTCAGTAGGTTTAAGATTGTAGATCTTGT
66 AGG--T---T--G---AAGATTATAGATCTTGT
* ** * * * **
65155680 CTTCTTGTATTAACAGTGAAGCAGATCGAAATAACAAACCTTATCTCCTTGAACAGTTGTGGAGT
1 CTTCCTGTATTGGCAGTGAAGCAGATCGAAAAAACAAACCTTATCTCCCTGAGCAGCAGTGGAGT
65155745 AGGTTGAAGA-TAGTAGATCTTGT
66 AGGTTGAAGATTA-TAGATCTTGT
* * * * * * ** * *
65155768 CTTCTTGTATTGGCAGCGAAGTAGATCGAAGACACCAGTCTTATCTCCTTAAGCAGCAGTGGAGT
1 CTTCCTGTATTGGCAGTGAAGCAGATCGAAAAAACAAACCTTATCTCCCTGAGCAGCAGTGGAGT
65155833 AG
66 AG
65155835 TGTAACACCC
Statistics
Matches: 282, Mismatches: 46, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
87 5 0.02
88 197 0.70
89 4 0.01
90 1 0.00
91 1 0.00
93 2 0.01
95 1 0.00
96 1 0.00
98 70 0.25
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (88 bp):
CTTCCTGTATTGGCAGTGAAGCAGATCGAAAAAACAAACCTTATCTCCCTGAGCAGCAGTGGAGT
AGGTTGAAGATTATAGATCTTGT
Found at i:65155796 original size:186 final size:186
Alignment explanation
Indices: 65155468--65155834 Score: 540
Period size: 186 Copynumber: 2.0 Consensus size: 186
65155458 GCAGCAGTGG
**
65155468 AGTAGGTTGAAGATTACAGATCTTGTCTTCCTGTATTGGCAATGAAGCAGATCAAAATAACAAAC
1 AGTAGGTTGAAGATTACAGATCTTGTCTTCCTGTATTAACAATGAAGCAGATCAAAATAACAAAC
* *
65155533 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTTCCTTTACTGGCAG
66 CTTATCTCCCTGAACAGCAGTGGAGTAGGTTGAAGATAGTAGATCTTGTCTTCCTTTACTGGCAG
*
65155598 TGAAGCAGATCGAAAACACCAGCCTTATCTTCC-TAAGCAGCAGTGGAGTAGGTTTC
131 CGAAGCAGATCGAAAACACCAGCCTTATC-TCCTTAAGCAGCAGTGGAGTAGGTTTC
* ** * * *
65155654 AGTAGGTTTAAGATTGTAGATCTTGTCTTCTTGTATTAACAGTGAAGCAGATCGAAATAACAAAC
1 AGTAGGTTGAAGATTACAGATCTTGTCTTCCTGTATTAACAATGAAGCAGATCAAAATAACAAAC
* ** *
65155719 CTTATCTCCTTGAACAGTTGTGGAGTAGGTTGAAGATAGTAGATCTTGTCTT-CTTGTATTGGCA
66 CTTATCTCCCTGAACAGCAGTGGAGTAGGTTGAAGATAGTAGATCTTGTCTTCCTT-TACTGGCA
* * *
65155783 GCGAAGTAGATCGAAGACACCAGTCTTATCTCCTTAAGCAGCAGTGGAGTAG
130 GCGAAGCAGATCGAAAACACCAGCCTTATCTCCTTAAGCAGCAGTGGAGTAG
65155835 TGTAACACCC
Statistics
Matches: 161, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
185 6 0.04
186 155 0.96
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (186 bp):
AGTAGGTTGAAGATTACAGATCTTGTCTTCCTGTATTAACAATGAAGCAGATCAAAATAACAAAC
CTTATCTCCCTGAACAGCAGTGGAGTAGGTTGAAGATAGTAGATCTTGTCTTCCTTTACTGGCAG
CGAAGCAGATCGAAAACACCAGCCTTATCTCCTTAAGCAGCAGTGGAGTAGGTTTC
Found at i:65158171 original size:22 final size:23
Alignment explanation
Indices: 65158122--65158176 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
65158112 ACCTACTTTC
*
65158122 TTACTGTAGTAATTTTCGGAGTA
1 TTACAGTAGTAATTTTCGGAGTA
*
65158145 TTACAGTAGTAATTTTTGGA-TA
1 TTACAGTAGTAATTTTCGGAGTA
65158167 TTACAAGTAG
1 TTAC-AGTAG
65158177 GTTGAAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGAGTA
Found at i:65160433 original size:3 final size:3
Alignment explanation
Indices: 65160425--65160491 Score: 86
Period size: 3 Copynumber: 22.7 Consensus size: 3
65160415 TTACTTTTTC
*
65160425 ATT ATT ATT A-T ATT ATT A-T ATT -TT ACT ATT AGCTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT ATT ATT
65160469 ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
65160492 ATTTCTATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
2 6 0.11
3 48 0.84
5 3 0.05
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:65167975 original size:21 final size:20
Alignment explanation
Indices: 65167929--65167976 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
65167919 TTATACCCAC
*
65167929 ATTTTTAATTTGTTTACTAT
1 ATTTTTAATTTGTTTACAAT
65167949 AGTTTTTAATATTGCTTTA-AAT
1 A-TTTTTAAT-TTG-TTTACAAT
65167971 ATTTTT
1 ATTTTT
65167977 TCTGGTAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 13 0.54
22 6 0.25
23 4 0.17
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.62
Consensus pattern (20 bp):
ATTTTTAATTTGTTTACAAT
Found at i:65167976 original size:22 final size:21
Alignment explanation
Indices: 65167930--65167977 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
65167920 TATACCCACA
*
65167930 TTTTTAATTTGTTTACTATAG
1 TTTTTAATTTGTTTACAATAG
*
65167951 TTTTTAATATTGCTTTA-AATAT
1 TTTTTAAT-TTG-TTTACAATAG
65167973 TTTTT
1 TTTTT
65167978 CTGGTAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 11 0.48
23 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (21 bp):
TTTTTAATTTGTTTACAATAG
Found at i:65183662 original size:24 final size:24
Alignment explanation
Indices: 65183577--65183664 Score: 88
Period size: 25 Copynumber: 3.6 Consensus size: 24
65183567 ATACACCGTA
* *
65183577 GCTCTTATGAGCGTCCCGATATATG
1 GCTCTTATGAGCTTCCCG-TTTATG
*
65183602 GCTC-TATGGAGCTACCCGTTATATG
1 GCTCTTAT-GAGCTTCCCGTT-TATG
* **
65183627 GTTCTTGCGAGCTTCCCGTTTATG
1 GCTCTTATGAGCTTCCCGTTTATG
65183651 GCTCTTATGAGCTT
1 GCTCTTATGAGCTT
65183665 TTCGATAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 19 0.38
25 30 0.60
26 1 0.02
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGTTTATG
Found at i:65183728 original size:50 final size:50
Alignment explanation
Indices: 65183649--65183746 Score: 110
Period size: 50 Copynumber: 2.0 Consensus size: 50
65183639 TTCCCGTTTA
* * *
65183649 TGGCTCTTATGAGCTTTTCGATAATTGGCTTTTCAGAGCTTCGCGATAAC
1 TGGCTCTTATGAGCTTTCCGATAATTGGCTCTCCAGAGCTTCGCGATAAC
* * *
65183699 TGGCTCTTGTGAG-TTTCCTGATTAA-TGGCTCTCCGGAGCTTCTCGATA
1 TGGCTCTTATGAGCTTTCC-GA-TAATTGGCTCTCCAGAGCTTCGCGATA
65183747 TTGGCTCGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.10
50 33 0.82
51 3 0.08
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (50 bp):
TGGCTCTTATGAGCTTTCCGATAATTGGCTCTCCAGAGCTTCGCGATAAC
Found at i:65183827 original size:25 final size:25
Alignment explanation
Indices: 65183799--65183874 Score: 93
Period size: 25 Copynumber: 3.0 Consensus size: 25
65183789 CTATTATACA
*
65183799 GCTCGAATGAGCTTCCCATTTCATG
1 GCTCGAATGAGCTTCCCGTTTCATG
65183824 GCTC-ACATGAGCTTCCCGTTAT-ATG
1 GCTCGA-ATGAGCTTCCCGTT-TCATG
*
65183849 GCTCGAAAGAGCTTCCCGTTTACATG
1 GCTCGAATGAGCTTCCCGTTT-CATG
65183875 TTGGCAATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
24 2 0.05
25 37 0.84
26 5 0.11
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (25 bp):
GCTCGAATGAGCTTCCCGTTTCATG
Found at i:65186091 original size:48 final size:51
Alignment explanation
Indices: 65186011--65186153 Score: 127
Period size: 48 Copynumber: 2.8 Consensus size: 51
65186001 AATTGCTCCA
* * *
65186011 AAGAGCC-ATTAATC-AGGAAGCTTTGGATAGCCATATATCGAGAAGTTCAAG
1 AAGAGCCTA-TAATCGA-GAAGCTCTGGAGAGCCATATATCGAGAAGCTCAAG
* * *
65186062 -CGAGCC-AT-ATCGAGAAGCTCTGGAGAGCCAT-TGATCAAGAAGCTCACG
1 AAGAGCCTATAATCGAGAAGCTCTGGAGAGCCATAT-ATCGAGAAGCTCAAG
* * *
65186110 AAGAGCCTTTAATCGAGAAGCTCATGAAGAGCCATATAACGAGA
1 AAGAGCCTATAATCGAGAAGCTC-TGGAGAGCCATATATCGAGA
65186154 CTCTTATAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
47 1 0.01
48 31 0.42
49 7 0.09
50 7 0.09
51 12 0.16
52 15 0.20
53 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (51 bp):
AAGAGCCTATAATCGAGAAGCTCTGGAGAGCCATATATCGAGAAGCTCAAG
Found at i:65186128 original size:26 final size:26
Alignment explanation
Indices: 65186011--65186153 Score: 104
Period size: 26 Copynumber: 5.7 Consensus size: 26
65186001 AATTGCTCCA
*
65186011 AAGAGCCATTAATC-AGGAAGCT-TTG
1 AAGAGCCATTAATCGA-GAAGCTCATG
* * * *
65186036 GATAGCCA-TATATCGAGAAGTTCAAG
1 AAGAGCCATTA-ATCGAGAAGCTCATG
*
65186062 -CGAGCCA-T-ATCGAGAAGCTC-TG
1 AAGAGCCATTAATCGAGAAGCTCATG
* * * *
65186084 GAGAGCCATTGATCAAGAAGCTCACG
1 AAGAGCCATTAATCGAGAAGCTCATG
*
65186110 AAGAGCCTTTAATCGAGAAGCTCATG
1 AAGAGCCATTAATCGAGAAGCTCATG
65186136 AAGAGCCATATAA-CGAGA
1 AAGAGCCAT-TAATCGAGA
65186154 CTCTTATAAG
Statistics
Matches: 92, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
22 1 0.01
23 17 0.18
24 3 0.03
25 31 0.34
26 37 0.40
27 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGAGCCATTAATCGAGAAGCTCATG
Found at i:65195343 original size:16 final size:18
Alignment explanation
Indices: 65195312--65195348 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
65195302 ATATTTCATT
*
65195312 TAAAATTTTTATAATTTA
1 TAAAATTTTTATAATTAA
65195330 TAAAA-TTTTA-AATTAA
1 TAAAATTTTTATAATTAA
65195346 TAA
1 TAA
65195349 TAAATTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 5 0.28
18 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTTTTATAATTAA
Found at i:65195697 original size:27 final size:25
Alignment explanation
Indices: 65195662--65195711 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
65195652 ATGTTACTAT
65195662 TTTAATAATATATATATTTCATCATTA
1 TTTAATAATA-A-ATATTTCATCATTA
*
65195689 TTTAATAATAAATGTTTCATCAT
1 TTTAATAATAAATATTTCATCAT
65195712 AGAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 1 0.05
27 10 0.45
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTAATAATAAATATTTCATCATTA
Found at i:65198959 original size:17 final size:17
Alignment explanation
Indices: 65198937--65198977 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
65198927 TATTTTCTTT
65198937 CAAAGTTAACTAATAGA
1 CAAAGTTAACTAATAGA
**
65198954 CAAAGTTGGCTAATAGA
1 CAAAGTTAACTAATAGA
*
65198971 TAAAGTT
1 CAAAGTT
65198978 GGAGAAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (17 bp):
CAAAGTTAACTAATAGA
Found at i:65198978 original size:17 final size:17
Alignment explanation
Indices: 65198946--65198979 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65198936 TCAAAGTTAA
65198946 CTAATAGACAAAGTTGG
1 CTAATAGACAAAGTTGG
*
65198963 CTAATAGATAAAGTTGG
1 CTAATAGACAAAGTTGG
65198980 AGAAGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (17 bp):
CTAATAGACAAAGTTGG
Found at i:65199221 original size:14 final size:15
Alignment explanation
Indices: 65199191--65199225 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
65199181 CAAACCCGAG
*
65199191 GCCCAACAATCTCAA
1 GCCCAACAATCTAAA
65199206 GCCCAA-AATCTAAA
1 GCCCAACAATCTAAA
65199220 GCCCAA
1 GCCCAA
65199226 TACCCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.43, C:0.37, G:0.09, T:0.11
Consensus pattern (15 bp):
GCCCAACAATCTAAA
Found at i:65199875 original size:22 final size:21
Alignment explanation
Indices: 65199846--65199897 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
65199836 AAAATTTTAT
65199846 ATTA-TTATGGTTATTATTATC
1 ATTATTTATGGTTATTA-TATC
* * *
65199867 ATTTTTTATTGTTATTATATT
1 ATTATTTATGGTTATTATATC
65199888 ATTATTTATG
1 ATTATTTATG
65199898 TAAATATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (21 bp):
ATTATTTATGGTTATTATATC
Found at i:65211714 original size:104 final size:104
Alignment explanation
Indices: 65211523--65211717 Score: 302
Period size: 104 Copynumber: 1.9 Consensus size: 104
65211513 TTTTTGAATC
* * * *
65211523 TTAGCAAAATTTGTTATCCTGATTAATTTATTCATCTCGAGCTTTGCTTTAAATAAAATTTCATT
1 TTAGCAAAATTTGCTATCCTGATTAACTTATTCATCTCAAGCTTTGCTTTAAATAAAATTTCATC
*
65211588 TTGTCCATTGTAATAATCTTTTTCAACTTATTTCGTATA
66 TTGTCCATTGTAACAATCTTTTTCAACTTATTTCGTATA
*
65211627 TTAGCAAAATTTGCTATCCTGATTAACTTATTCATCTCAAGCTTTG-TTCTCAATAAAATTTCAT
1 TTAGCAAAATTTGCTATCCTGATTAACTTATTCATCTCAAGCTTTGCTT-TAAATAAAATTTCAT
* *
65211691 CTTGTCCATTGTGACAATTTTTTTCAA
65 CTTGTCCATTGTAACAATCTTTTTCAA
65211718 ACGTTTTTCA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 2 0.02
104 80 0.98
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (104 bp):
TTAGCAAAATTTGCTATCCTGATTAACTTATTCATCTCAAGCTTTGCTTTAAATAAAATTTCATC
TTGTCCATTGTAACAATCTTTTTCAACTTATTTCGTATA
Found at i:65212885 original size:227 final size:227
Alignment explanation
Indices: 65212484--65212975 Score: 675
Period size: 227 Copynumber: 2.2 Consensus size: 227
65212474 AATCACCACA
* * * * * *
65212484 AATCCTATCTTCTTGAAGTTACAGCGGAGTAGATTAAAGATATCAAATCTTATTTCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTAAAGTT
* * * * *
65212549 GTAGTGGAATAGATTAAATCTACCATAACATATCTCATCTCTCTGAAGTTGCAGTAGAGCAGGTT
66 GCAGTGGAACAAATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGCAGTAGAGCAGGTT
* * * *
65212614 GAAATAGCAAATCTTATCCCCATGAAGTTGCAGTGGGGCAAGTTGAAGTTACTAA-TCCTA-CGT
131 AAAATAGCAAACCTTATCCCCATGAAGTTGCAGTGGGACAAGTTGAAGATAC-AAGTCCTATC-T
* *
65212677 CTCTGAAGTTACAGTGGAGCAGATTAAAATGA-T
194 CCCTGAAATTACAGTGGAGCAGATTAAAATGACT
* *
65212710 GGATCCTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGATAGCAAATCTTATTTCCCTAAAGT
1 -AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTAAAGT
*
65212775 TGCAGTGGAACAAATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGGT
65 TGCAGTGGAACAAATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGCAGTAGAGCAGGT
* *
65212840 TAAAATAGTAAACCTTATCCCCATGAAGTTGCAGTGGGACAAGTTGAAGATACAAGTCTTATCTC
130 TAAAATAGCAAACCTTATCCCCATGAAGTTGCAGTGGGACAAGTTGAAGATACAAGTCCTATCTC
* * * *
65212905 CCTGAAATTATAGTGGAGCAGATTGAAGTTACT
195 CCTGAAATTACAGTGGAGCAGATTAAAATGACT
* * *
65212938 AATCCTACCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
65212976 ATGATGGATC
Statistics
Matches: 231, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
226 2 0.01
227 227 0.98
228 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (227 bp):
AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTAAAGTT
GCAGTGGAACAAATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGCAGTAGAGCAGGTT
AAAATAGCAAACCTTATCCCCATGAAGTTGCAGTGGGACAAGTTGAAGATACAAGTCCTATCTCC
CTGAAATTACAGTGGAGCAGATTAAAATGACT
Found at i:65212931 original size:44 final size:44
Alignment explanation
Indices: 65212883--65212972 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 44
65212873 GTGGGACAAG
* * *
65212883 TTGAAGATAC-AAGTCTTATCTCCCTGAAATTATAGTGGAGCAGA
1 TTGAAGATACTAA-TCCTACCTCCCTGAAATTACAGTGGAGCAGA
* * * *
65212927 TTGAAGTTACTAATCCTACCTCCCTGAAGTTGCAGTGGAGCGGA
1 TTGAAGATACTAATCCTACCTCCCTGAAATTACAGTGGAGCAGA
65212971 TT
1 TT
65212973 AAAATGATGG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 36 0.95
45 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
TTGAAGATACTAATCCTACCTCCCTGAAATTACAGTGGAGCAGA
Found at i:65213075 original size:271 final size:271
Alignment explanation
Indices: 65212592--65213238 Score: 785
Period size: 271 Copynumber: 2.4 Consensus size: 271
65212582 CTCATCTCTC
* * * *
65212592 TGAAGTTGCAGTAGAGCAGGTTGAAATAGCAAATCTTATCCCCATGAAGTTGCAGTGGGGCAAGT
1 TGAAGTTGCAGTAGAGCAAGTTGAAATAGCAAATCTTATCCCCATGAAATTACAGTGGAGCAAGT
* *
65212657 TGAAGTTACTAATCCTACGTCTCTGAAGTTACAGTGGAGCAGATTAAAATGATGGATCCTATCTC
66 TGAAGTTACTAATCCTACCTCCCTGAAGTTACAGTGGAGCAGATTAAAATGATGGATCCTATCTC
*
65212722 CCTGAAGTTACAGTGGAACAGATTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACA
131 CCTGAAGTTACAGAGGAACAGATTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACA
65212787 AATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGGTTAAAATAGTAAA
196 AATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGGTTAAAATAGTAAA
65212852 CCTTATCCCCA
261 CCTTATCCCCA
* * *
65212863 TGAAGTTGCAGT-GGGACAAGTTGAAGATA-CAAGTCTTATCTCCC-TGAAATTATAGTGGAGC-
1 TGAAGTTGCAGTAGAG-CAAGTTGAA-ATAGCAAATCTTATC-CCCATGAAATTACAGTGGAGCA
* *
65212924 AGATTGAAGTTACTAATCCTACCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGATGGATCCTA
63 AG-TTGAAGTTACTAATCCTACCTCCCTGAAGTTACAGTGGAGCAGATTAAAATGATGGATCCTA
* ** * * **
65212989 TCTCCCTGAAGTTGCAGAGGAGTAGATTAAAGATAGCAAATCTTATTTCGCTGAAGTTTTAGTGG
127 TCTCCCTGAAGTTACAGAGGAACAGATTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGG
* * ** * **
65213054 AACAGATTAAATCTACCATAACAGATCTCATCTCTCTGAAGTTACAATAGAGCA-G--ATCATA-
192 AACAAATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGGTTAAAATAG
* * *
65213115 TCAAACTTTTTCTCTC-
257 T-AAACCTTATC-CCCA
* * * *
65213131 TGAAGTTGCAGTAGAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTTGCAGT-GAGGCAAG
1 TGAAGTTGCAGTAGAGCAAGTTGAAATAGCAAATCTTATCCCCATGAAATTACAGTGGA-GCAAG
* * * * ** *
65213195 TTAAAGATAC-AAGTCTTATCTCATTGAAGTTGCAGTGGAGCAGA
65 TTGAAGTTACTAA-TCCTACCTCCCTGAAGTTACAGTGGAGCAGA
65213239 CTGAAGATAG
Statistics
Matches: 321, Mismatches: 43, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
267 11 0.03
268 86 0.27
269 6 0.02
270 5 0.02
271 207 0.64
272 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (271 bp):
TGAAGTTGCAGTAGAGCAAGTTGAAATAGCAAATCTTATCCCCATGAAATTACAGTGGAGCAAGT
TGAAGTTACTAATCCTACCTCCCTGAAGTTACAGTGGAGCAGATTAAAATGATGGATCCTATCTC
CCTGAAGTTACAGAGGAACAGATTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACA
AATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGGTTAAAATAGTAAA
CCTTATCCCCA
Found at i:65213179 original size:44 final size:44
Alignment explanation
Indices: 65213131--65213270 Score: 146
Period size: 44 Copynumber: 3.2 Consensus size: 44
65213121 TTTTTCTCTC
* *
65213131 TGAAGTTGCAGTAGAGCAGGTTGAA-ATAGCAAACCTTATCCCCA
1 TGAAGTTGCAGT-GAGCAGGTTGAAGATAGCAAATCTTATCCTCA
* * *
65213175 TGAAGTTGCAGTGAGGCAAGTTAAAGATA-CAAGTCTTAT-CTCA
1 TGAAGTTGCAGTGA-GCAGGTTGAAGATAGCAAATCTTATCCTCA
**
65213218 TTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTA-CCTC-
1 -TGAAGTTGCAGT-GAGCAGGTTGAAGATAGCAAATCTTATCCTCA
65213262 TGAAGTTGC
1 TGAAGTTGC
65213271 GTCGCAGCAA
Statistics
Matches: 80, Mismatches: 10, Indels: 13
0.78 0.10 0.13
Matches are distributed among these distances:
43 14 0.17
44 50 0.62
45 16 0.20
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (44 bp):
TGAAGTTGCAGTGAGCAGGTTGAAGATAGCAAATCTTATCCTCA
Found at i:65221954 original size:19 final size:21
Alignment explanation
Indices: 65221930--65221982 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 21
65221920 GAATTTATAA
65221930 ATTATAAAATTTATT-AA-AT
1 ATTATAAAATTTATTGAATAT
*
65221949 ATTATAAAATATTTTTGAATAT
1 ATTATAAAAT-TTATTGAATAT
65221971 ATTATGAAAATT
1 ATTAT-AAAATT
65221983 ATGAAAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.34
20 4 0.14
21 2 0.07
22 8 0.28
23 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
ATTATAAAATTTATTGAATAT
Found at i:65222343 original size:20 final size:20
Alignment explanation
Indices: 65222320--65222384 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
65222310 AAGCTTTTAG
65222320 AAATTATTAAAATATTATAA
1 AAATTATTAAAATATTATAA
*
65222340 AAA-TGTTAAAA-ATTATAGA
1 AAATTATTAAAATATTATA-A
*
65222359 AAATTATATAAATTATTA-AA
1 AAATTAT-TAAAATATTATAA
65222379 AAATTA
1 AAATTA
65222385 GAAATTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 6 0.16
19 11 0.29
20 12 0.32
21 5 0.13
22 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
AAATTATTAAAATATTATAA
Found at i:65223399 original size:22 final size:21
Alignment explanation
Indices: 65223374--65223417 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
65223364 ATTTCAACTA
* *
65223374 AAACCTTATTTATTTTTAACAT
1 AAACCTTATATATATTT-ACAT
*
65223396 AAACTTTATATATATTTACAT
1 AAACCTTATATATATTTACAT
65223417 A
1 A
65223418 TTTGTTTCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (21 bp):
AAACCTTATATATATTTACAT
Found at i:65230743 original size:9 final size:9
Alignment explanation
Indices: 65230727--65230777 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
65230717 GGTATTTTTC
65230727 GGTAATTCG
1 GGTAATTCG
*
65230736 GTTAATTC-
1 GGTAATTCG
65230744 GGTAATTCG
1 GGTAATTCG
65230753 GGTAATTCG
1 GGTAATTCG
65230762 GGTAATTCG
1 GGTAATTCG
65230771 GGTAATT
1 GGTAATT
65230778 TTAACCAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
8 7 0.18
9 32 0.82
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:65230767 original size:18 final size:17
Alignment explanation
Indices: 65230724--65230777 Score: 90
Period size: 17 Copynumber: 3.1 Consensus size: 17
65230714 TCGGGTATTT
*
65230724 TTCGGTAATTCGGTTAA
1 TTCGGTAATTCGGGTAA
65230741 TTCGGTAATTCGGGTAA
1 TTCGGTAATTCGGGTAA
65230758 TTCGGGTAATTCGGGTAA
1 TTC-GGTAATTCGGGTAA
65230776 TT
1 TT
65230778 TTAACCAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
17 19 0.54
18 16 0.46
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (17 bp):
TTCGGTAATTCGGGTAA
Found at i:65236663 original size:9 final size:9
Alignment explanation
Indices: 65236639--65236688 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
65236629 AAATTACCCA
65236639 TACCCGAAT
1 TACCCGAAT
65236648 TACCCCGAAT
1 TA-CCCGAAT
65236658 TACCCGAAT
1 TACCCGAAT
*
65236667 TAACCGAAT
1 TACCCGAAT
*
65236676 TAACCGAAT
1 TACCCGAAT
65236685 TACC
1 TACC
65236689 GAAAAATACC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
9 29 0.76
10 9 0.24
ACGTcount: A:0.36, C:0.32, G:0.10, T:0.22
Consensus pattern (9 bp):
TACCCGAAT
Found at i:65236703 original size:19 final size:17
Alignment explanation
Indices: 65236638--65236704 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 17
65236628 AAAATTACCC
65236638 ATACCCGAATTACCCCGAA
1 ATACCCGAATTA--CCGAA
*
65236657 TTACCCGAATTAACCGAA
1 ATACCCGAATT-ACCGAA
* *
65236675 TTAACCGAATTACCGAAAA
1 ATACCCGAATTACCG--AA
65236694 ATACCCGAATT
1 ATACCCGAATT
65236705 TTTTTTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.10
18 15 0.37
19 21 0.51
20 1 0.02
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.21
Consensus pattern (17 bp):
ATACCCGAATTACCGAA
Found at i:65249419 original size:89 final size:90
Alignment explanation
Indices: 65249318--65249497 Score: 244
Period size: 89 Copynumber: 2.0 Consensus size: 90
65249308 TATTTTATGA
* *
65249318 ATATAATTTAAAATAA-TAATAATTACATATAATTTAATAATTAATAT-TAAATTTCATAAAATT
1 ATATAATTTAAAATAATTAAT-ATTAAATATAATTTAAT-AGTAATATAT-AATTTCATAAAATT
* *
65249381 C-TGATAAT-AAAT-TTTTATATGAATTT
63 CTTAATAATAAAATGTCTTATAT-AATTT
*
65249407 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCATAAAATTCTT
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAGTAATATATAATTTCATAAAATTCTT
65249472 AATAATAAAATGTCTTATATAATTT
66 AATAATAAAATGTCTTATATAATTT
65249497 A
1 A
65249498 CTAAATCAAT
Statistics
Matches: 81, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
88 21 0.26
89 39 0.48
90 14 0.17
91 7 0.09
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (90 bp):
ATATAATTTAAAATAATTAATATTAAATATAATTTAATAGTAATATATAATTTCATAAAATTCTT
AATAATAAAATGTCTTATATAATTT
Found at i:65249481 original size:15 final size:17
Alignment explanation
Indices: 65249461--65249494 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
65249451 ATATAATTTC
65249461 ATAAAAT-TCTTA-ATA
1 ATAAAATGTCTTATATA
65249476 ATAAAATGTCTTATATA
1 ATAAAATGTCTTATATA
65249493 AT
1 AT
65249495 TTACTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 5 0.29
17 5 0.29
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (17 bp):
ATAAAATGTCTTATATA
Found at i:65252455 original size:12 final size:12
Alignment explanation
Indices: 65252438--65252462 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65252428 GGTGTTCATT
65252438 CGGTTAACCGAC
1 CGGTTAACCGAC
65252450 CGGTTAACCGAC
1 CGGTTAACCGAC
65252462 C
1 C
65252463 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:65252635 original size:9 final size:9
Alignment explanation
Indices: 65252621--65252687 Score: 100
Period size: 9 Copynumber: 7.4 Consensus size: 9
65252611 TTTTGGTTAA
65252621 AATTACCCG
1 AATTACCCG
65252630 AATTACCCG
1 AATTACCCG
65252639 AATTACCCG
1 AATTACCCG
65252648 AATTACCCG
1 AATTACCCG
*
65252657 AATTAACCG
1 AATTACCCG
65252666 AATTA-CCG
1 AATTACCCG
*
65252674 AAAATACCCG
1 -AATTACCCG
65252684 AATT
1 AATT
65252688 TTTTTTTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
8 3 0.06
9 47 0.89
10 3 0.06
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:65260084 original size:22 final size:21
Alignment explanation
Indices: 65260046--65260089 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
65260036 GTGAAACAAA
* *
65260046 TATGTAAATATATATAAAGTT
1 TATGTAAAAATAAATAAAGTT
*
65260067 TATGTTAAAAATAAATAAGGTT
1 TATG-TAAAAATAAATAAAGTT
65260089 T
1 T
65260090 TAGTTGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (21 bp):
TATGTAAAAATAAATAAAGTT
Found at i:65261477 original size:9 final size:10
Alignment explanation
Indices: 65261465--65261522 Score: 57
Period size: 9 Copynumber: 5.9 Consensus size: 10
65261455 TTTATAATTC
65261465 TTTCATAAT-
1 TTTCATAATA
65261474 TTTCATAATA
1 TTTCATAATA
*
65261484 TATTCAAAATA
1 T-TTCATAATA
*
65261495 TTTTATAATA
1 TTTCATAATA
*
65261505 TTTAATAA-A
1 TTTCATAATA
*
65261514 TTTTATAAT
1 TTTCATAAT
65261523 TTATAAATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
9 17 0.41
10 15 0.37
11 9 0.22
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTCATAATA
Found at i:65261516 original size:19 final size:20
Alignment explanation
Indices: 65261471--65261522 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 20
65261461 ATTCTTTCAT
65261471 AATTTTCATAATATATTCAAA
1 AATTTT-ATAATATATTCAAA
65261492 ATATTTTATAATAT-TT-AATA
1 A-ATTTTATAATATATTCAA-A
65261512 AATTTTATAAT
1 AATTTTATAAT
65261523 TTATAAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 8 0.28
22 5 0.17
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTTATAATATATTCAAA
Found at i:65270224 original size:44 final size:42
Alignment explanation
Indices: 65270120--65270263 Score: 123
Period size: 44 Copynumber: 3.3 Consensus size: 42
65270110 TTGCTGCGAC
* * **
65270120 GCAACTTCA-GAGGTAAGATTTGCTATCTTCAGTCTGCTCCACT
1 GCAACTTCATGAGATAAGACTTGCTAT-TTCAACCTGCT-CACT
* *
65270163 GCAACTTCAATGAGATAAGACTTG-TATCTTTAACTTGCCTCACT
1 GCAACTTC-ATGAGATAAGACTTGCTAT-TTCAACCTG-CTCACT
* **
65270207 GCAACTTCATGGGGATAAGGTTTGCTATTTCAACCTGCTCTACT
1 GCAACTTCAT-GAGATAAGACTTGCTATTTCAACCTGCTC-ACT
65270251 GCAACTTCA-GAGA
1 GCAACTTCATGAGA
65270264 GAAAAAGTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
42 3 0.04
43 13 0.16
44 51 0.61
45 16 0.19
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (42 bp):
GCAACTTCATGAGATAAGACTTGCTATTTCAACCTGCTCACT
Found at i:65270471 original size:44 final size:44
Alignment explanation
Indices: 65270326--65270803 Score: 194
Period size: 44 Copynumber: 10.7 Consensus size: 44
65270316 TTATGGTAGA
* ** * * * * *
65270326 TTTAATCTGTTCCACTAAAACTTCAGCGAAATAAGATTTGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAAC
* * * * *
65270371 TTTAATCTACTCCTCTGCAACTTCAGGGAGATAGGATCCA-TCAT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TAGTAAC
* *
65270415 TTTAATCCGCTCCACTGCAACTTCAGGGAGGTAGGATTAGTAAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAAC
* ** * * *
65270459 TTCAATCTGCTCCACTATAATTTCAGGGAGATAAGACTT-GTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTAGTAAC
* * * * *
65270503 TTCAA-CTTG-TCCCACTGCAACTTCATGG-GATAAGGTTTACT-AT
1 TTTAATC-TGCT-CCACTGCAACTTCAGGGAGAT-AGGATTAGTAAC
* * * * *
65270546 TTTAACCTGCTCTACTACAACTTTAGAGAGAT-GAGATCTGTTATGGTAGA-
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAG-GA----TTA--GTA-AC
* * * * * * *
65270596 TTTAATTTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAAC
* * * *
65270641 TTTAATCTGTTCCACTGTAACTTCAGGGAGATAGGATCCA-TCA-
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TAGTAAC
* * *
65270684 TTTTATCTGCTCCACTGTAACTTCAGAGACG-TAGGATTAGTAAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGA-GATAGGATTAGTAAC
* * * *
65270728 TTCAA-CTTGCCCCACTGCAACTTCATGGG-GATAAGATTTGCT-A-
1 TTTAATC-TGCTCCACTGCAACTTCA-GGGAGATAGGATTAG-TAAC
* * *
65270771 TTTCAACCTGCTCTACTGCAACTTCAGAGAGAT
1 TTT-AATCTGCTCCACTGCAACTTCAGGGAGAT
65270804 GAGATATGTT
Statistics
Matches: 320, Mismatches: 80, Indels: 67
0.69 0.17 0.14
Matches are distributed among these distances:
42 2 0.01
43 67 0.21
44 148 0.46
45 69 0.22
46 2 0.01
47 3 0.01
49 1 0.00
50 27 0.08
51 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAAC
Found at i:65270634 original size:270 final size:269
Alignment explanation
Indices: 65270155--65270796 Score: 777
Period size: 270 Copynumber: 2.4 Consensus size: 269
65270145 TCTTCAGTCT
* * * * *
65270155 GCTCCACTGCAACTTCA-ATGA-GATAAGACTT-GTATCTTTAACTTGCCTCACTGCAACTTCAT
1 GCTCCACTGCAACTTCAGA-GACG-TAGGA-TTAGTAACTTCAACTTGCCCCACTACAACTTCAT
** * * *
65270217 GGGGATAAGGTTTGCTATTTCAACCTGCTCTACTGCAACTTCA-GAGAGAAAAAGTTTGA-TA--
63 GGGGATAAGACTTGCTATTTCAACCTGCTCCACTGCAACTTCATG-G-GATAAGGTTT-ACTATT
* * * **
65270278 -TGATCTGCTCTATTGTAACTTCAGAGAGATGAGATCTGTTATGGTAGATTTAATCTGTTCCACT
125 TTAACCTGCTCTACTACAACTTCAGAGAGATGAGATCTGTTATGGTAGATTTAATCTGTTCCACT
*
65270342 AAAACTTCAGCGAAATAAGATTTGCTATCTTTAATCTACTCCTCTGCAACTTCAGGGAGATAGGA
190 AAAACTTCAGCGAAATAAGATTTGCTATCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGA
65270407 TCCATCATTTTAATCC
255 TCCATCATTTT-ATCC
* * * * *
65270423 GCTCCACTGCAACTTCAGGGAGGTAGGATTAGTAACTTCAA-TCTGCTCCACTATAATTTCA-GG
1 GCTCCACTGCAACTTCAGAGACGTAGGATTAGTAACTTCAACT-TGCCCCACTACAACTTCATGG
*
65270486 GAGATAAGACTTG-TATCTTCAACTTG-TCCCACTGCAACTTCATGGGATAAGGTTTACTATTTT
65 G-GATAAGACTTGCTAT-TTCAACCTGCT-CCACTGCAACTTCATGGGATAAGGTTTACTATTTT
* * **
65270549 AACCTGCTCTACTACAACTTTAGAGAGATGAGATCTGTTATGGTAGATTTAATTTGTTCCACTGC
127 AACCTGCTCTACTACAACTTCAGAGAGATGAGATCTGTTATGGTAGATTTAATCTGTTCCACTAA
* * ** *
65270614 AACTTTAGGGAAATAAGATTTGCTATCTTTAATCTGTTCCACTGTAACTTCAGGGAGATAGGATC
192 AACTTCAGCGAAATAAGATTTGCTATCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATC
*
65270679 CATCATTTTATCT
257 CATCATTTTATCC
* *
65270692 GCTCCACTGTAACTTCAGAGACGTAGGATTAGTAACTTCAACTTGCCCCACTGCAACTTCATGGG
1 GCTCCACTGCAACTTCAGAGACGTAGGATTAGTAACTTCAACTTGCCCCACTACAACTTCATGGG
* *
65270757 GATAAGATTTGCTATTTCAACCTGCTCTACTGCAACTTCA
66 GATAAGACTTGCTATTTCAACCTGCTCCACTGCAACTTCA
65270797 GAGAGATGAG
Statistics
Matches: 317, Mismatches: 41, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
266 1 0.00
267 20 0.06
268 75 0.24
269 88 0.28
270 133 0.42
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (269 bp):
GCTCCACTGCAACTTCAGAGACGTAGGATTAGTAACTTCAACTTGCCCCACTACAACTTCATGGG
GATAAGACTTGCTATTTCAACCTGCTCCACTGCAACTTCATGGGATAAGGTTTACTATTTTAACC
TGCTCTACTACAACTTCAGAGAGATGAGATCTGTTATGGTAGATTTAATCTGTTCCACTAAAACT
TCAGCGAAATAAGATTTGCTATCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATCCATC
ATTTTATCC
Found at i:65270873 original size:225 final size:225
Alignment explanation
Indices: 65270463--65270902 Score: 634
Period size: 225 Copynumber: 2.0 Consensus size: 225
65270453 AGTAACTTCA
* * * *
65270463 ATCTGCTCCACTATAATTTCAGGGAGATAAGACTTGTATCTTCAACTTGTCCCACTGCAACTTCA
1 ATCTGCTCCACTATAACTTCAGAGAGATAAGACTTGTAACTTCAACTTGCCCCACTGCAACTTCA
* * * *
65270528 TGGGATAAGGTTTACTATTTTAACCTGCTCTACTACAACTTTAGAGAGATGAGATCTGTTATGGT
66 TGGGATAAGATTTACTATTTCAACCTGCTCTACTACAACTTCAGAGAGATGAGATATGTTATGGT
* * * * * **
65270593 AGATTTAATTTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTTAATCTGTTCCACTG
131 AGATTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTTGATATCTTTAATCTACTCCACTG
* *
65270658 TAACTTCAGGGAGATAGGATCCATCATTTT
196 TAACTTCAAGAAGATAGGATCCATCATTTT
* *
65270688 ATCTGCTCCACTGTAACTTCAGAGACG-TAGGA-TTAGTAACTTCAACTTGCCCCACTGCAACTT
1 ATCTGCTCCACTATAACTTCAGAGA-GATAAGACTT-GTAACTTCAACTTGCCCCACTGCAACTT
* *
65270751 CATGGGGATAAGATTTGCTATTTCAACCTGCTCTACTGCAACTTCAGAGAGATGAGATATGTTAT
64 CAT-GGGATAAGATTTACTATTTCAACCTGCTCTACTACAACTTCAGAGAGATGAGATATGTTAT
*
65270816 GGTAGATTTAATCTATTCCACTACAACTTCA-GGAAATAAGATTTGATATCTTTAATCTACTCCG
128 GGTAGATTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTTGATATCTTTAATCTACTCCA
65270880 CTGTAACTTCAAGAAGATAGGAT
193 CTGTAACTTCAAGAAGATAGGAT
65270903 TTGTGGTGAT
Statistics
Matches: 190, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
224 2 0.01
225 105 0.55
226 83 0.44
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (225 bp):
ATCTGCTCCACTATAACTTCAGAGAGATAAGACTTGTAACTTCAACTTGCCCCACTGCAACTTCA
TGGGATAAGATTTACTATTTCAACCTGCTCTACTACAACTTCAGAGAGATGAGATATGTTATGGT
AGATTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTTGATATCTTTAATCTACTCCACTG
TAACTTCAAGAAGATAGGATCCATCATTTT
Found at i:65286527 original size:25 final size:25
Alignment explanation
Indices: 65286488--65286535 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65286478 GTTCCATTAT
65286488 TAGCTCTCATAAGCATCCCGATTCA
1 TAGCTCTCATAAGCATCCCGATTCA
* * *
65286513 TAGCTCTTATGAGCATCCTGATT
1 TAGCTCTCATAAGCATCCCGATT
65286536 GGTTGTGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (25 bp):
TAGCTCTCATAAGCATCCCGATTCA
Found at i:65286644 original size:24 final size:25
Alignment explanation
Indices: 65286617--65286722 Score: 80
Period size: 24 Copynumber: 4.3 Consensus size: 25
65286607 TTCCGTTATA
65286617 TGGCTCTTGC-GAGCTTT-CGATAAC
1 TGGCTCTT-CAGAGCTTTCCGATAAC
65286641 TGGCTCTTCAGAGCTTTCCGATAAC
1 TGGCTCTTCAGAGCTTTCCGATAAC
* * *
65286666 TAGCT-TTTATAAGC-TTCCTGATTAA-
1 TGGCTCTTCA-GAGCTTTCC-GA-TAAC
* * *
65286691 TGGCTCTCCAGAGCTTCCCGAT-AT
1 TGGCTCTTCAGAGCTTTCCGATAAC
65286715 TGGCTCTT
1 TGGCTCTT
65286723 GAACTTCCTG
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
23 2 0.03
24 30 0.46
25 25 0.38
26 8 0.12
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (25 bp):
TGGCTCTTCAGAGCTTTCCGATAAC
Found at i:65286776 original size:24 final size:25
Alignment explanation
Indices: 65286744--65286806 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
65286734 TATTGGCTCG
*
65286744 ATGAGCTTCCTGTTACAT-GCTCAC
1 ATGAGCTTCCTGTTACATGGCTCAA
*
65286768 ATGAGCTTCCTGTTATATGGCTCAA
1 ATGAGCTTCCTGTTACATGGCTCAA
*
65286793 AAGAGCTTCCTGTT
1 ATGAGCTTCCTGTT
65286807 TATGTGCTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 17 0.49
25 18 0.51
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCTGTTACATGGCTCAA
Found at i:65286798 original size:25 final size:25
Alignment explanation
Indices: 65286746--65286815 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
65286736 TTGGCTCGAT
* * *
65286746 GAGCTTCCTGTTACAT-GCTCACAT
1 GAGCTTCCTGTTATATGGCTCAAAA
65286770 GAGCTTCCTGTTATATGGCTCAAAA
1 GAGCTTCCTGTTATATGGCTCAAAA
65286795 GAGCTTCCTGTT-TATGTGCTC
1 GAGCTTCCTGTTATATG-GCTC
65286816 GTATGAGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (25 bp):
GAGCTTCCTGTTATATGGCTCAAAA
Found at i:65298327 original size:16 final size:16
Alignment explanation
Indices: 65298306--65298341 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
65298296 TTTGGTTCGC
65298306 TGTATTAGATTAGAGG
1 TGTATTAGATTAGAGG
*
65298322 TGTATTGGATTAGAGG
1 TGTATTAGATTAGAGG
65298338 TGTA
1 TGTA
65298342 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTAGATTAGAGG
Found at i:65301020 original size:16 final size:16
Alignment explanation
Indices: 65300983--65301024 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
65300973 TTAATCATAT
*
65300983 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
65300999 TT-AAATATATTATAA
1 TTAAAATATATTATAA
65301014 TTAAAATATAT
1 TTAAAATATAT
65301025 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:65301031 original size:14 final size:15
Alignment explanation
Indices: 65300992--65301033 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
65300982 TTTAAACATA
*
65300992 ATTATTATTAAATAT
1 ATTATAATTAAATAT
65301007 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
65301021 A-TATAATTTAATA
1 ATTATAATTAAATA
65301034 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:65301240 original size:43 final size:43
Alignment explanation
Indices: 65301139--65301240 Score: 100
Period size: 43 Copynumber: 2.3 Consensus size: 43
65301129 TTTAATTAAA
* * *
65301139 ATATATGATTTAATAAAATTTAAAATAATTATAACTAATAAATT
1 ATATAT-AATTAATATAATTTAAAATAATAATAACTAATAAATT
* * * *
65301183 ATATTTTATGAATATAATTTAAAATAATAATAATTACATATAATT
1 ATATATAATTAATATAATTTAAAATAATAATAACTA-ATA-AATT
65301228 -TA-ATAATTAATAT
1 ATATATAATTAATAT
65301241 TAAATTTCAT
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
43 32 0.70
44 10 0.22
45 4 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (43 bp):
ATATATAATTAATATAATTTAAAATAATAATAACTAATAAATT
Done.