Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 65 of 125
Found at i:19891545 original size:15 final size:15
Alignment explanation
Indices: 19891525--19891624 Score: 96
Period size: 15 Copynumber: 6.7 Consensus size: 15
19891515 CACAACTTCA
19891525 CTATAGTTTCAAAAT
1 CTATAGTTTCAAAAT
19891540 CTATAGTTTTCAAAAT
1 CTATAG-TTTCAAAAT
* * *
19891556 CTAAAGTTTCACAGT
1 CTATAGTTTCAAAAT
* *
19891571 CTATTTGTTTC--AGT
1 CTA-TAGTTTCAAAAT
*
19891585 CTATAGTTTCATAAT
1 CTATAGTTTCAAAAT
*
19891600 CTATAGTTTCACAAT
1 CTATAGTTTCAAAAT
*
19891615 CTAAAGTTTC
1 CTATAGTTTC
19891625 GATATATCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
13 6 0.08
14 6 0.08
15 41 0.57
16 19 0.26
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (15 bp):
CTATAGTTTCAAAAT
Found at i:19895655 original size:21 final size:21
Alignment explanation
Indices: 19895629--19895680 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
19895619 TGAGATAATA
*
19895629 CTACCGATACAAGT-GTGACTT
1 CTACCGATACAAGTCATG-CTT
* *
19895650 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
19895671 CTACCGATAC
1 CTACCGATAC
19895681 TAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:19899899 original size:21 final size:21
Alignment explanation
Indices: 19899873--19899925 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
19899863 ATTTCAATTC
19899873 ACATATAATAAGACTCTGTAA
1 ACATATAATAAGACTCTGTAA
19899894 ACATATAATAAGACTCTGTAA
1 ACATATAATAAGACTCTGTAA
* *
19899915 ATATTTAATAA
1 ACATATAATAA
19899926 AAACATTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (21 bp):
ACATATAATAAGACTCTGTAA
Found at i:19905853 original size:3 final size:3
Alignment explanation
Indices: 19905845--19905883 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
19905835 AAAATTCCAA
19905845 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
19905884 CCAAAATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19906980 original size:20 final size:19
Alignment explanation
Indices: 19906952--19907022 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 19
19906942 TCAAAAAAAG
19906952 TCAACGGTCAAAGTCAGCGA
1 TCAACGGTCAAAGTCA-CGA
* *
19906972 TCAATGGTCAACGGTCAC-A
1 TCAACGGTCAA-AGTCACGA
* *
19906991 GTCAACAGTCAAAGTCAACGG
1 -TCAACGGTCAAAGTC-ACGA
*
19907012 TCAATGGTCAA
1 TCAACGGTCAA
19907023 CGGTCAAAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
19 4 0.10
20 31 0.79
21 4 0.10
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (19 bp):
TCAACGGTCAAAGTCACGA
Found at i:19906987 original size:7 final size:7
Alignment explanation
Indices: 19906951--19907029 Score: 65
Period size: 7 Copynumber: 11.7 Consensus size: 7
19906941 TTCAAAAAAA
19906951 GTCAACG
1 GTCAACG
*
19906958 GTCAA-A
1 GTCAACG
*
19906964 GTCAGCG
1 GTCAACG
* *
19906971 ATCAATG
1 GTCAACG
19906978 GTCAACG
1 GTCAACG
*
19906985 GTC-ACA
1 GTCAACG
*
19906991 GTCAACA
1 GTCAACG
*
19906998 GTCAA-A
1 GTCAACG
19907004 GTCAACG
1 GTCAACG
*
19907011 GTCAATG
1 GTCAACG
19907018 GTCAACG
1 GTCAACG
19907025 GTCAA
1 GTCAA
19907030 AGTCAATAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
6 15 0.26
7 42 0.74
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:19907005 original size:40 final size:40
Alignment explanation
Indices: 19906948--19907042 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
19906938 TTTTTCAAAA
* *
19906948 AAAGTCAACGGTCAAAGTCAGCGATCAATGGTCAACGGTC
1 AAAGTCAACAGTCAAAGTCAACGATCAATGGTCAACGGTC
* *
19906988 ACAGTCAACAGTCAAAGTCAACGGTCAATGGTCAACGGTC
1 AAAGTCAACAGTCAAAGTCAACGATCAATGGTCAACGGTC
*
19907028 AAAGTCAATAGTCAA
1 AAAGTCAACAGTCAA
19907043 TTGCTAACGG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (40 bp):
AAAGTCAACAGTCAAAGTCAACGATCAATGGTCAACGGTC
Found at i:19907021 original size:27 final size:25
Alignment explanation
Indices: 19906949--19907035 Score: 84
Period size: 27 Copynumber: 3.3 Consensus size: 25
19906939 TTTTCAAAAA
* *
19906949 AAGTCAACGGTCAAAGTCAGCGATC
1 AAGTCAACGGTCAAAGTCAACGGTC
* *
19906974 AATGGTCAACGGTCACAGTCAACAGTC
1 AA--GTCAACGGTCAAAGTCAACGGTC
*
19907001 AAAGTCAACGGTCAATGGTCAACGGTC
1 -AAGTCAACGGTCAA-AGTCAACGGTC
19907028 AAAGTCAA
1 -AAGTCAA
19907036 TAGTCAATTG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
25 2 0.04
26 11 0.22
27 36 0.71
28 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (25 bp):
AAGTCAACGGTCAAAGTCAACGGTC
Found at i:19907041 original size:27 final size:27
Alignment explanation
Indices: 19906991--19907063 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
19906981 AACGGTCACA
* *
19906991 GTCAACAGTCAAAGTCAACGGTCAATG
1 GTCAACGGTCAAAGTCAACAGTCAATG
* *
19907018 GTCAACGGTCAAAGTCAATAGTCAATT
1 GTCAACGGTCAAAGTCAACAGTCAATG
19907045 G-CTAACGGTCAAAGTCAAC
1 GTC-AACGGTCAAAGTCAAC
19907064 GACAGGTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.03
27 39 0.98
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
GTCAACGGTCAAAGTCAACAGTCAATG
Found at i:19907043 original size:7 final size:7
Alignment explanation
Indices: 19906978--19907042 Score: 55
Period size: 7 Copynumber: 9.7 Consensus size: 7
19906968 GCGATCAATG
*
19906978 GTCAACG
1 GTCAACA
19906985 GTC-ACA
1 GTCAACA
19906991 GTCAACA
1 GTCAACA
19906998 GTCAA-A
1 GTCAACA
*
19907004 GTCAACG
1 GTCAACA
**
19907011 GTCAATG
1 GTCAACA
*
19907018 GTCAACG
1 GTCAACA
19907025 GTCAA-A
1 GTCAACA
*
19907031 GTCAATA
1 GTCAACA
19907038 GTCAA
1 GTCAA
19907043 TTGCTAACGG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
6 16 0.32
7 34 0.68
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (7 bp):
GTCAACA
Found at i:19907108 original size:22 final size:22
Alignment explanation
Indices: 19907048--19907108 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
19907038 GTCAATTGCT
*
19907048 AACGGTCAAAGTCAACGACAGGTC
1 AACGGTC--AGTCAACGACAAGTC
* * *
19907072 AACGATCGGTTAACGACAAGTC
1 AACGGTCAGTCAACGACAAGTC
19907094 AACGGTCAGTCAACG
1 AACGGTCAGTCAACG
19907109 GTTTAACTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 24 0.80
24 6 0.20
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.15
Consensus pattern (22 bp):
AACGGTCAGTCAACGACAAGTC
Found at i:19912455 original size:15 final size:17
Alignment explanation
Indices: 19912435--19912477 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
19912425 ATCGGGCACA
19912435 TCCTCAACAGG-A-GCC
1 TCCTCAACAGGTAGGCC
*
19912450 TCCTCAGCAGGTAGGCC
1 TCCTCAACAGGTAGGCC
19912467 TCCTCCAACAG
1 TCCT-CAACAG
19912478 TTGGCTGTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 10 0.43
16 1 0.04
17 7 0.30
18 5 0.22
ACGTcount: A:0.23, C:0.40, G:0.21, T:0.16
Consensus pattern (17 bp):
TCCTCAACAGGTAGGCC
Found at i:19913127 original size:3 final size:3
Alignment explanation
Indices: 19913119--19913148 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
19913109 AAAATTCCAA
19913119 AAT AAT AAT AAT AAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
19913149 CCAAAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:19914231 original size:20 final size:20
Alignment explanation
Indices: 19914205--19914303 Score: 92
Period size: 20 Copynumber: 4.8 Consensus size: 20
19914195 TCAAAAAAAA
19914205 AGTCAACGATCAACGGTCAAC
1 AGTCAACG-TCAACGGTCAAC
19914226 -GTCAACGATCAACGGTCAAC
1 AGTCAACG-TCAACGGTCAAC
* **
19914246 AGTCAAAGTCAACTATCAAC
1 AGTCAACGTCAACGGTCAAC
* * *
19914266 GGTCAACGGTTAACGGTCAAT
1 AGTCAAC-GTCAACGGTCAAC
* *
19914287 TGTCAAAGTCAACGGTC
1 AGTCAACGTCAACGGTC
19914304 GGTCAACGGT
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
20 44 0.69
21 20 0.31
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AGTCAACGTCAACGGTCAAC
Found at i:19914237 original size:27 final size:27
Alignment explanation
Indices: 19914207--19914285 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
19914197 AAAAAAAAAG
*
19914207 TCAACGATCAACGGTCAACGTCAACGA
1 TCAACGGTCAACGGTCAACGTCAACGA
* * *
19914234 TCAACGGTCAACAGTCAAAGTCAACTA
1 TCAACGGTCAACGGTCAACGTCAACGA
*
19914261 TCAACGGTCAACGGTTAACGGTCAA
1 TCAACGGTCAACGGTCAAC-GTCAA
19914286 TTGTCAAAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 39 0.89
28 5 0.11
ACGTcount: A:0.37, C:0.27, G:0.19, T:0.18
Consensus pattern (27 bp):
TCAACGGTCAACGGTCAACGTCAACGA
Found at i:19914271 original size:41 final size:40
Alignment explanation
Indices: 19914221--19914299 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 40
19914211 CGATCAACGG
19914221 TCAACGTCAACGATCAACGGTCAACAGTCAAAGTCAACTA
1 TCAACGTCAACGATCAACGGTCAACAGTCAAAGTCAACTA
* * **
19914261 TCAACGGTCAACGGTTAACGGTCAATTGTCAAAGTCAAC
1 TCAAC-GTCAACGATCAACGGTCAACAGTCAAAGTCAAC
19914300 GGTCGGTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (40 bp):
TCAACGTCAACGATCAACGGTCAACAGTCAAAGTCAACTA
Found at i:19914274 original size:7 final size:7
Alignment explanation
Indices: 19914206--19914326 Score: 89
Period size: 7 Copynumber: 18.6 Consensus size: 7
19914196 CAAAAAAAAA
19914206 GTCAACG
1 GTCAACG
*
19914213 ATCAACG
1 GTCAACG
19914220 GTCAAC-
1 GTCAACG
19914226 GTCAACG
1 GTCAACG
*
19914233 ATCAACG
1 GTCAACG
*
19914240 GTCAACA
1 GTCAACG
*
19914247 GTCAA-A
1 GTCAACG
*
19914253 GTCAACT
1 GTCAACG
*
19914260 ATCAACG
1 GTCAACG
19914267 GTCAACG
1 GTCAACG
*
19914274 GTTAACG
1 GTCAACG
**
19914281 GTCAATT
1 GTCAACG
*
19914288 GTCAA-A
1 GTCAACG
19914294 GTCAACG
1 GTCAACG
19914301 GT---CG
1 GTCAACG
19914305 GTCAACG
1 GTCAACG
19914312 GT--A-G
1 GTCAACG
19914316 GTCAACG
1 GTCAACG
19914323 GTCA
1 GTCA
19914327 GTCAATGGCC
Statistics
Matches: 90, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
4 7 0.08
5 1 0.01
6 18 0.20
7 64 0.71
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:19914310 original size:11 final size:11
Alignment explanation
Indices: 19914294--19914331 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
19914284 AATTGTCAAA
19914294 GTCAACGGTCG
1 GTCAACGGTCG
*
19914305 GTCAACGGTAG
1 GTCAACGGTCG
*
19914316 GTCAACGGTCA
1 GTCAACGGTCG
19914327 GTCAA
1 GTCAA
19914332 TGGCCGATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.32, T:0.18
Consensus pattern (11 bp):
GTCAACGGTCG
Found at i:19924315 original size:59 final size:59
Alignment explanation
Indices: 19924236--19924391 Score: 244
Period size: 59 Copynumber: 2.6 Consensus size: 59
19924226 AGTAAATAAA
* * *
19924236 AATTCCTAGTTGAAACCAATTTAAATTCTAAAAGATAACT-GCAATTAAATCTAAACAGT
1 AATTCCTAATTGGATCCAATTTAAATTCTAAAAGATAACTAG-AATTAAATCTAAACAGT
19924295 AATTCCTAATTGGATCCAATTTAAACTT-TAAAAGATAACTAGAATTAAATCTAAACAGT
1 AATTCCTAATTGGATCCAATTTAAA-TTCTAAAAGATAACTAGAATTAAATCTAAACAGT
*
19924354 AATTCCTAATTGGATCCAATTTAAACTCTAAAAGATAA
1 AATTCCTAATTGGATCCAATTTAAATTCTAAAAGATAA
19924392 ATCTAAAAAG
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
58 1 0.01
59 86 0.96
60 3 0.03
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (59 bp):
AATTCCTAATTGGATCCAATTTAAATTCTAAAAGATAACTAGAATTAAATCTAAACAGT
Found at i:19924379 original size:29 final size:29
Alignment explanation
Indices: 19924287--19924379 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
19924277 CAATTAAATC
19924287 TAAACAGTAATTCCTAATTGGATCCAATT
1 TAAACAGTAATTCCTAATTGGATCCAATT
** **** * * ** *
19924316 TAAACTTTAAAAGATAACTAGAATTAAATC
1 TAAACAGTAATTCCTAA-TTGGATCCAATT
19924346 TAAACAGTAATTCCTAATTGGATCCAATT
1 TAAACAGTAATTCCTAATTGGATCCAATT
19924375 TAAAC
1 TAAAC
19924380 TCTAAAAGAT
Statistics
Matches: 41, Mismatches: 22, Indels: 2
0.63 0.34 0.03
Matches are distributed among these distances:
29 23 0.56
30 18 0.44
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (29 bp):
TAAACAGTAATTCCTAATTGGATCCAATT
Found at i:19924400 original size:14 final size:14
Alignment explanation
Indices: 19924383--19924412 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19924373 TTTAAACTCT
*
19924383 AAAAGATAAATCTA
1 AAAAGATAAATATA
19924397 AAAAGATAAATATA
1 AAAAGATAAATATA
19924411 AA
1 AA
19924413 TTAAATATAT
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:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:19925091 original size:106 final size:106
Alignment explanation
Indices: 19924871--19925092 Score: 230
Period size: 106 Copynumber: 2.1 Consensus size: 106
19924861 TATTTTGTCG
* * * * *
19924871 ATTTTCTCTTTTTTTTTCCTTTAAGAATATATTGGACCTTTTGACGCGAAATGAAATGACACTCA
1 ATTTTTTCTTTTTCTTT-CTTTAAGAATATATTAGACCTTTTGACACGAAATGAAATGACAATCA
* * * * **
19924936 AACACTCCATCTTGGTTACTCAGCCCAACATGCTCCCAATTA
65 AACACTCCACCCTAGTTACTCAACCCAACACACTCCCAATTA
* * * * *
19924978 TTCTTTTTCTTTTTCTTT-TTTAAGAATGTGTTAGCCCTTTTGACACGAAATGAAATGATAATCA
1 AT-TTTTTCTTTTTCTTTCTTTAAGAATATATTAGACCTTTTGACACGAAATGAAATGACAATCA
* * * *
19925042 AGCACTCCACCCTAGTTACTCAATCTAACACACTCCGAATTTA
65 AACACTCCACCCTAGTTACTCAACCCAACACACTCCCAA-TTA
19925085 ATTTTTTC
1 ATTTTTTC
19925093 ATAATTCCGG
Statistics
Matches: 92, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
106 74 0.80
107 5 0.05
108 13 0.14
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (106 bp):
ATTTTTTCTTTTTCTTTCTTTAAGAATATATTAGACCTTTTGACACGAAATGAAATGACAATCAA
ACACTCCACCCTAGTTACTCAACCCAACACACTCCCAATTA
Found at i:19930914 original size:12 final size:12
Alignment explanation
Indices: 19930897--19930927 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
19930887 TTTAAAATTA
19930897 GTTTATTGGCTC
1 GTTTATTGGCTC
19930909 GTTTATTGGCTC
1 GTTTATTGGCTC
*
19930921 ATTTATT
1 GTTTATT
19930928 TATTAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.13, G:0.19, T:0.55
Consensus pattern (12 bp):
GTTTATTGGCTC
Found at i:19940573 original size:16 final size:14
Alignment explanation
Indices: 19940541--19940585 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
19940531 ATAGCACAAT
19940541 TTAT-AATTTT-T-
1 TTATAAATTTTATA
19940552 TTATAAATCTTATATA
1 TTATAAAT-TT-TATA
19940568 TTATAAATTTTATA
1 TTATAAATTTTATA
19940582 TTAT
1 TTAT
19940586 TTTTAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.14
12 3 0.10
13 2 0.07
14 9 0.31
15 3 0.10
16 8 0.28
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:19940651 original size:16 final size:16
Alignment explanation
Indices: 19940630--19940665 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
19940620 TAACTTAGCA
19940630 TAAGCATTCTTTAAAT
1 TAAGCATTCTTTAAAT
19940646 TAAGCATTCTTTAAAT
1 TAAGCATTCTTTAAAT
19940662 TAAG
1 TAAG
19940666 TTTATATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (16 bp):
TAAGCATTCTTTAAAT
Found at i:19951471 original size:14 final size:13
Alignment explanation
Indices: 19951446--19951479 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
19951436 CTTCGAAAAG
*
19951446 AAAGACAAGGGAA
1 AAAGAAAAGGGAA
19951459 AAGAGAAAAGGGAA
1 AA-AGAAAAGGGAA
19951473 AAAGAAA
1 AAAGAAA
19951480 GAAGAACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGGGAA
Found at i:19953598 original size:29 final size:29
Alignment explanation
Indices: 19953556--19953611 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
19953546 TATTGCGTCT
*
19953556 TAATATTGTCAGCGCAGGAGCTCAGCCCA
1 TAATATTGTCAGCGCAAGAGCTCAGCCCA
19953585 TAATATTGTCAGCGCAAGAGCTCAGCC
1 TAATATTGTCAGCGCAAGAGCTCAGCC
19953612 AAGAAGGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (29 bp):
TAATATTGTCAGCGCAAGAGCTCAGCCCA
Found at i:19957927 original size:24 final size:24
Alignment explanation
Indices: 19957881--19957927 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19957871 TGAATTGCAA
* *
19957881 GTATCGGTAGTTATGTGTTTTGTT
1 GTATCGGTAGTTATGTATCTTGTT
19957905 GTATCGGTAGTT-TGTATACTTGT
1 GTATCGGTAGTTATGTAT-CTTGT
19957928 ATCGGTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.15, C:0.06, G:0.28, T:0.51
Consensus pattern (24 bp):
GTATCGGTAGTTATGTATCTTGTT
Found at i:19959524 original size:20 final size:20
Alignment explanation
Indices: 19959499--19959547 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
19959489 CGAAAATGTA
*
19959499 AACATATAT-TTAGCAATATC
1 AACATATATATTAGCAA-AGC
*
19959519 AACATAT-TATTATCAAAGC
1 AACATATATATTAGCAAAGC
19959538 AACATATATA
1 AACATATATA
19959548 AAAAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (20 bp):
AACATATATATTAGCAAAGC
Found at i:19960523 original size:26 final size:25
Alignment explanation
Indices: 19960484--19960540 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
19960474 TAATAAAAAA
*
19960484 AAAAAAATGTAAATTAAATAAAA-GGC
1 AAAAAAATG-AAAATAAA-AAAATGGC
19960510 AAAAAAATGAAAATAAAAAAATGGC
1 AAAAAAATGAAAATAAAAAAATGGC
*
19960535 ATAAAA
1 AAAAAA
19960541 TAACAACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.14
25 15 0.54
26 9 0.32
ACGTcount: A:0.70, C:0.04, G:0.11, T:0.16
Consensus pattern (25 bp):
AAAAAAATGAAAATAAAAAAATGGC
Found at i:19960592 original size:26 final size:26
Alignment explanation
Indices: 19960537--19960610 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
19960527 AAAATGGCAT
* * *
19960537 AAAATAACAACATATAAGTAAAAAAC
1 AAAATAACAATAAATAAATAAAAAAC
19960563 AAAATAACAATAAATAAATAAAATTAA-
1 AAAATAACAATAAATAAATAAAA--AAC
* *
19960590 AAATTAA-AATAAAAAAATAAA
1 AAAATAACAATAAATAAATAAA
19960611 TACAAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 33 0.80
27 6 0.15
28 2 0.05
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.19
Consensus pattern (26 bp):
AAAATAACAATAAATAAATAAAAAAC
Found at i:19960599 original size:13 final size:13
Alignment explanation
Indices: 19960563--19960624 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
19960553 AGTAAAAAAC
19960563 AAAATAACAATAAA
1 AAAATAA-AATAAA
* *
19960577 TAAATAAAATTAA
1 AAAATAAAATAAA
*
19960590 AAATTAAAATAAA
1 AAAATAAAATAAA
19960603 AAAAT-AAATACAA
1 AAAATAAAATA-AA
*
19960616 ATAATAAAA
1 AAAATAAAA
19960625 ATAACAGGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 5 0.13
13 25 0.64
14 9 0.23
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:19960602 original size:12 final size:12
Alignment explanation
Indices: 19960563--19960624 Score: 54
Period size: 14 Copynumber: 4.8 Consensus size: 12
19960553 AGTAAAAAAC
19960563 AAAATAACAATAA
1 AAAATAA-AATAA
19960576 ATAAATAAAATTAA
1 A-AAATAAAA-TAA
*
19960590 AAATTAAAATAA
1 AAAATAAAATAA
19960602 AAAA-ATAAATACA
1 AAAATA-AAATA-A
19960615 AATAATAAAA
1 AA-AATAAAA
19960625 ATAACAGGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
11 1 0.02
12 11 0.27
13 13 0.32
14 15 0.37
15 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:19967570 original size:14 final size:13
Alignment explanation
Indices: 19967551--19967581 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
19967541 GATGGATTCG
19967551 TATAATTCTTATCA
1 TATAATTCTTAT-A
19967565 TATAATTCTTATA
1 TATAATTCTTATA
19967578 TATA
1 TATA
19967582 TTGTACAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAATTCTTATA
Found at i:19974151 original size:18 final size:18
Alignment explanation
Indices: 19974128--19974173 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
19974118 TTGATGATAT
19974128 CGATATTGATGCTAGTGA
1 CGATATTGATGCTAGTGA
19974146 CGATATTGATGCTAGTGA
1 CGATATTGATGCTAGTGA
*
19974164 CGCTATTGAT
1 CGATATTGAT
19974174 CATGACCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (18 bp):
CGATATTGATGCTAGTGA
Found at i:19979185 original size:25 final size:23
Alignment explanation
Indices: 19979157--19979202 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
19979147 GTTGGATCCA
19979157 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
19979182 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
19979203 TCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:20008666 original size:20 final size:20
Alignment explanation
Indices: 20008626--20008712 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
20008616 ATTTTGAAAC
*
20008626 AATTTTAAAATCAAGTTAAAAT
1 AATTTT-AAA-CAAGTCAAAAT
20008648 AATTTTAAACAAGTCAAAAT
1 AATTTTAAACAAGTCAAAAT
* * *
20008668 GATTTCAACCAAGTCAAAAT
1 AATTTTAAACAAGTCAAAAT
*
20008688 CATTTTAATAC-A-TCAAAAT
1 AATTTTAA-ACAAGTCAAAAT
*
20008707 GATTTT
1 AATTTT
20008713 TAATCAAGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
19 12 0.21
20 34 0.61
21 4 0.07
22 6 0.11
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.34
Consensus pattern (20 bp):
AATTTTAAACAAGTCAAAAT
Found at i:20008721 original size:40 final size:40
Alignment explanation
Indices: 20008634--20008721 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
20008624 ACAATTTTAA
*
20008634 AATCAAGTTAAAATAATTTTAAACAAGTCAAAATGATTTC
1 AATCAAGTCAAAATAATTTTAAACAAGTCAAAATGATTTC
* * *
20008674 AACCAAGTCAAAATCATTTTAATAC-A-TCAAAATGATTTTT
1 AATCAAGTCAAAATAATTTTAA-ACAAGTCAAAATGA-TTTC
20008714 AATCAAGT
1 AATCAAGT
20008722 TAGAATAGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 9 0.22
40 30 0.73
41 2 0.05
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (40 bp):
AATCAAGTCAAAATAATTTTAAACAAGTCAAAATGATTTC
Found at i:20023073 original size:30 final size:30
Alignment explanation
Indices: 20023016--20023073 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
20023006 CAACTTTGCC
* *
20023016 AGAACCAAAACCAGTTTTGCTAGAACCAAT
1 AGAACCAAAACCAGTTTTACCAGAACCAAT
* * *
20023046 AGAACCAGAACTAGTTTTACCATAACCA
1 AGAACCAAAACCAGTTTTACCAGAACCA
20023074 GAAGTGGTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.21
Consensus pattern (30 bp):
AGAACCAAAACCAGTTTTACCAGAACCAAT
Found at i:20042412 original size:12 final size:12
Alignment explanation
Indices: 20042381--20042413 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
20042371 CTATTTTTGA
*
20042381 CCTAAACCAAGC
1 CCTAAACCAAAC
20042393 CC-AAACCAAAC
1 CCTAAACCAAAC
20042404 CCTAAACCAA
1 CCTAAACCAA
20042414 TTCAGGTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.48, C:0.42, G:0.03, T:0.06
Consensus pattern (12 bp):
CCTAAACCAAAC
Found at i:20049441 original size:27 final size:29
Alignment explanation
Indices: 20049399--20049453 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
20049389 ACCCAAACCC
*
20049399 TTTTGAACCAATACCAAACTC-AAACTAT
1 TTTTGAACCAATACCAAACCCTAAACTAT
*
20049427 TTTTGACCCAA-ACCAAACCCTAAACTA
1 TTTTGAACCAATACCAAACCCTAAACTA
20049454 ATTCAGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.42, C:0.29, G:0.04, T:0.25
Consensus pattern (29 bp):
TTTTGAACCAATACCAAACCCTAAACTAT
Found at i:20057314 original size:28 final size:30
Alignment explanation
Indices: 20057267--20057325 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
20057257 GAATTTTTTG
* *
20057267 TAAAATTTGGTTGTTAA-TTTTGTGAATAT
1 TAAAATTTGGCTGTTAATTTTTGTAAATAT
*
20057296 TAAAA-TTGGCTGTTCATTTTTGTAAATAT
1 TAAAATTTGGCTGTTAATTTTTGTAAATAT
20057325 T
1 T
20057326 TTCAAAACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (30 bp):
TAAAATTTGGCTGTTAATTTTTGTAAATAT
Found at i:20058201 original size:17 final size:16
Alignment explanation
Indices: 20058162--20058202 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
20058152 TCATCTTCTA
20058162 ATTTTTAAATTTTAAT
1 ATTTTTAAATTTTAAT
*
20058178 TTATTTTAAATTGTTAAT
1 AT-TTTTAAATT-TTAAT
20058196 ATTTTTA
1 ATTTTTA
20058203 CTAATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.67
18 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTTTAAATTTTAAT
Found at i:20059091 original size:21 final size:21
Alignment explanation
Indices: 20059047--20059092 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
20059037 GACTCTATTA
**
20059047 AAGAAGAAGAAGATCTTGAAG
1 AAGAAGAAGAAGATCTCCAAG
20059068 AAGAAGAAGAAGATC-CCAAGG
1 AAGAAGAAGAAGATCTCCAA-G
20059089 AAGA
1 AAGA
20059093 TCTTGTGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.54, C:0.09, G:0.28, T:0.09
Consensus pattern (21 bp):
AAGAAGAAGAAGATCTCCAAG
Found at i:20060389 original size:13 final size:13
Alignment explanation
Indices: 20060370--20060405 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
20060360 AATGATGCTC
20060370 AGAAAAAGAGAAA
1 AGAAAAAGAGAAA
*
20060383 TGAAAAAGA-AAA
1 AGAAAAAGAGAAA
20060395 AGAAAAAGAGA
1 AGAAAAAGAGA
20060406 GCATCTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (13 bp):
AGAAAAAGAGAAA
Found at i:20060395 original size:6 final size:6
Alignment explanation
Indices: 20060370--20060403 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
20060360 AATGATGCTC
*
20060370 AGAAAA AGAGAAA TGAAAA AGAAAA AGAAAA AGA
1 AGAAAA AGA-AAA AGAAAA AGAAAA AGAAAA AGA
20060404 GAGCATCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (6 bp):
AGAAAA
Found at i:20078871 original size:7 final size:7
Alignment explanation
Indices: 20078859--20078893 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
20078849 AAATCAAGCA
20078859 TACCAAT
1 TACCAAT
20078866 TACCAAT
1 TACCAAT
20078873 TACCAAT
1 TACCAAT
20078880 TACCAAT
1 TACCAAT
*
20078887 TATCAAT
1 TACCAAT
20078894 GTTCATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (7 bp):
TACCAAT
Found at i:20084684 original size:36 final size:36
Alignment explanation
Indices: 20084608--20084677 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
20084598 ACATAATTAG
* **
20084608 TCACATGGCATGAAGAACATACCCACATATTTTCTA
1 TCACATGGCATGAAGAACATACCAACATATTCACTA
**
20084644 TCACATGGCATGATTAACATACCAACATATTCAC
1 TCACATGGCATGAAGAACATACCAACATATTCAC
20084678 ATTCACAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.27
Consensus pattern (36 bp):
TCACATGGCATGAAGAACATACCAACATATTCACTA
Found at i:20086569 original size:23 final size:23
Alignment explanation
Indices: 20086543--20086611 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 23
20086533 ACATATATAA
20086543 CATAATATATGTATAACACCACG
1 CATAATATATGTATAACACCACG
* *
20086566 CAT-ATATA-GTTATCAACCCCACT
1 CATAATATATG-TAT-AACACCACG
*
20086589 CATATATATTATATATAACACCA
1 CATA-ATA-TATGTATAACACCA
20086612 AATTATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
21 1 0.03
22 8 0.22
23 13 0.36
25 9 0.25
26 5 0.14
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.30
Consensus pattern (23 bp):
CATAATATATGTATAACACCACG
Found at i:20086661 original size:29 final size:29
Alignment explanation
Indices: 20086615--20086695 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
20086605 AACACCAAAT
* **
20086615 TATATATACTATATAATAAAGCCCATGCA
1 TATATATACTATAAAATAAAGCCCACACA
20086644 TATATATTAC-ATAAAATAAAGCCCACACA
1 TATATA-TACTATAAAATAAAGCCCACACA
*
20086673 TATATAATATCTATATAATAAAG
1 TATAT-ATA-CTATAAAATAAAG
20086696 TCACGCGTAC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
29 29 0.66
30 5 0.11
31 10 0.23
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (29 bp):
TATATATACTATAAAATAAAGCCCACACA
Found at i:20088393 original size:13 final size:13
Alignment explanation
Indices: 20088361--20088401 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
20088351 AAATATCCAC
20088361 ATTATTATTAT-T
1 ATTATTATTATAT
20088373 ATTATTATTATAT
1 ATTATTATTATAT
* *
20088386 ATTTTTATCATAT
1 ATTATTATTATAT
20088399 ATT
1 ATT
20088402 CACTGCACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTATTATTATAT
Found at i:20088514 original size:36 final size:36
Alignment explanation
Indices: 20088438--20088507 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
20088428 ATATAATCAG
**
20088438 TCACATGGCATGAAGAACATACCCACATATTTTCTA
1 TCACATGGCATGAAGAACATACCCACATATTCACTA
** *
20088474 TCACATGGCATGATTAACATACCCATATATTCAC
1 TCACATGGCATGAAGAACATACCCACATATTCAC
20088508 ATTCACAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (36 bp):
TCACATGGCATGAAGAACATACCCACATATTCACTA
Found at i:20095251 original size:14 final size:14
Alignment explanation
Indices: 20095232--20095262 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20095222 TTACATAATC
20095232 ATATACAAATATAT
1 ATATACAAATATAT
*
20095246 ATATACACATATAT
1 ATATACAAATATAT
20095260 ATA
1 ATA
20095263 CATACTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATACAAATATAT
Found at i:20098354 original size:23 final size:24
Alignment explanation
Indices: 20098328--20098377 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
20098318 TATGTGTTTT
20098328 TTTTTAATT-TATTAAATAATA-TA
1 TTTTT-ATTCTATTAAATAATATTA
*
20098351 TTTTTATTCTATTAATTAATATTA
1 TTTTTATTCTATTAAATAATATTA
20098375 TTT
1 TTT
20098378 GAATATAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 3 0.12
23 16 0.67
24 5 0.21
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTATTCTATTAAATAATATTA
Found at i:20102917 original size:16 final size:16
Alignment explanation
Indices: 20102896--20102927 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
20102886 CAATGATACT
20102896 CAATTCTGCAAAAACG
1 CAATTCTGCAAAAACG
20102912 CAATTCTGCAAAAACG
1 CAATTCTGCAAAAACG
20102928 AAGATAGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (16 bp):
CAATTCTGCAAAAACG
Found at i:20116371 original size:12 final size:12
Alignment explanation
Indices: 20116354--20116395 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 12
20116344 AATGAATCTA
20116354 TAGAGAAATTTT
1 TAGAGAAATTTT
20116366 TAGAGAAATTTTT
1 TAGAGAAA-TTTT
20116379 ATAGAGAAAATTTT
1 -TAGAG-AAATTTT
20116393 TAG
1 TAG
20116396 CTAGATTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
14 9 0.33
15 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (12 bp):
TAGAGAAATTTT
Found at i:20116385 original size:14 final size:14
Alignment explanation
Indices: 20116352--20116394 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 14
20116342 TTAATGAATC
20116352 TATAGAGAAA-TTT
1 TATAGAGAAATTTT
20116365 T-TAGAGAAATTTT
1 TATAGAGAAATTTT
20116378 TATAGAGAAAATTTT
1 TATAGAG-AAATTTT
20116393 TA
1 TA
20116395 GCTAGATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 8 0.30
13 5 0.19
14 5 0.19
15 9 0.33
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (14 bp):
TATAGAGAAATTTT
Found at i:20116942 original size:90 final size:89
Alignment explanation
Indices: 20116789--20116972 Score: 269
Period size: 90 Copynumber: 2.1 Consensus size: 89
20116779 GAATTTTCCC
* * *
20116789 AGGGTAAATTAATTATCGTGGGTGGATCGATGTTCATTAATTGACAACTGTGTTTGATTATCGGC
1 AGGGTAAATTAAATATCGTGGGTGGATCAATGTTCATTAATTGACAACTGTGTCTGATTATCGGC
*
20116854 TACGAATCTGGGTATGATTCTGATT
66 TACGAATCTAGGTATGATTC-GATT
* * * *
20116879 AGGGTAAATTAAATATTGTGGGTGGATCAATGTTCATTCATTGACGATTGTGTCTGATTATCGGC
1 AGGGTAAATTAAATATCGTGGGTGGATCAATGTTCATTAATTGACAACTGTGTCTGATTATCGGC
*
20116944 TACGAATCTAGGTATGGTTCGATT
66 TACGAATCTAGGTATGATTCGATT
*
20116968 GGGGT
1 AGGGT
20116973 GCTGGAGCTT
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 8 0.10
90 76 0.90
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (89 bp):
AGGGTAAATTAAATATCGTGGGTGGATCAATGTTCATTAATTGACAACTGTGTCTGATTATCGGC
TACGAATCTAGGTATGATTCGATT
Found at i:20124550 original size:21 final size:21
Alignment explanation
Indices: 20124498--20124539 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
20124488 ACCTCTAAAA
*
20124498 AGATAAAAATTTGATTTAATT
1 AGATAAAAATTTAATTTAATT
20124519 AGATAAAAATTTAATTTAATT
1 AGATAAAAATTTAATTTAATT
20124540 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
AGATAAAAATTTAATTTAATT
Found at i:20126947 original size:35 final size:35
Alignment explanation
Indices: 20126907--20126980 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
20126897 TTTTCTTTTG
* *
20126907 AAAAAATTTAAATTCAATTTAAAAAGTCAAAAATA
1 AAAAAATTCAAATTCAATTTAAAAAATCAAAAATA
* *
20126942 AAAAAATTCAAATTCAATTTAAAAAATTAAAAATC
1 AAAAAATTCAAATTCAATTTAAAAAATCAAAAATA
20126977 AAAA
1 AAAA
20126981 TGAAAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.65, C:0.07, G:0.01, T:0.27
Consensus pattern (35 bp):
AAAAAATTCAAATTCAATTTAAAAAATCAAAAATA
Found at i:20136560 original size:158 final size:158
Alignment explanation
Indices: 20136271--20136572 Score: 471
Period size: 158 Copynumber: 1.9 Consensus size: 158
20136261 AAATGATGCC
* * * *
20136271 TAAATAATTCTAATAAAATACTTTAAATTCTTAAAATTAATTCTATTTTAGAATCCTAAAAACCC
1 TAAATAATTCTAATAAAATACCTTAAATTCTTAAAATTAATTCTATTTTACAATCATAAAAAACC
* *
20136336 TAAAAAATTTACTGATGAATTAAAAGAAATATTAAAATTCATCTACAACTTATTCGATCTTTTAT
66 T-AAAAAGTTACTAATGAATTAAAAGAAATATTAAAATTCATCTACAACTTATTCGATCTTTTAT
*
20136401 CATTACTCTGATTTACTTGTAAAGATACT
130 CATTACTATGATTTACTTGTAAAGATACT
* *
20136430 TAAATAATTCTAGTAAAATACCTTCAATTCTTAAAATTAATTCTATTTTACAATCATAAAAAAAC
1 TAAATAATTCTAATAAAATACCTTAAATTCTTAAAATTAATTCTATTTTACAATCAT-AAAAAAC
* *
20136495 CT-AAAAGTTACTAATGAATTAAGAGAAATATTAAAATTCATCTATAACTTATTCGATCTTTTAT
65 CTAAAAAGTTACTAATGAATTAAAAGAAATATTAAAATTCATCTACAACTTATTCGATCTTTTAT
*
20136559 CATTATTATGATTT
130 CATTACTATGATTT
20136573 TAAAAGATCT
Statistics
Matches: 130, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
158 70 0.54
159 52 0.40
160 8 0.06
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.39
Consensus pattern (158 bp):
TAAATAATTCTAATAAAATACCTTAAATTCTTAAAATTAATTCTATTTTACAATCATAAAAAACC
TAAAAAGTTACTAATGAATTAAAAGAAATATTAAAATTCATCTACAACTTATTCGATCTTTTATC
ATTACTATGATTTACTTGTAAAGATACT
Found at i:20137946 original size:146 final size:149
Alignment explanation
Indices: 20137596--20138241 Score: 776
Period size: 146 Copynumber: 4.4 Consensus size: 149
20137586 TGATTAAAAC
* * * * *
20137596 AAAATCACTATTTTATTTCAAAATCAAAACTTTTATTTCAAAATAGTTAAAGAAATCAAAACTTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCAAAATAGTTAAAAAAATCAAAACTTT
* * * * *
20137661 GTTTAAAAATTTAAACTTTTTCTATAAAATCACTAAAAAACAAATTTTTATTTTTTAAAAATCTA
66 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTA-TTTTTAAAAATATA
* *
20137726 AACCTTCTTTTTTTTTAATG
130 AACTTTCTCTTTTTTTAATG
* * * *
20137746 AAAATAATTACTTTATTTAAAAATCTAAACTTTTATTTCAAAATAATTAAAAAAATCAAAACTTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCAAAATAGTTAAAAAAATCAAAACTTT
*
20137811 ATTTAAAAATTTAAAC-TTCTCTTTAAAATAACTAAAAAACAGATTTTTATTTTT-AAAATATAA
66 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATATAA
*
20137874 ATTTTCTCTTTTTTTAATG
131 ACTTTCTCTTTTTTTAATG
* * * *
20137893 AAAATCGCTACTTT-CTTAAAAATTTAAACTTTTACTTCAAAATAGTTAAAAAAATCAAAATTTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCAAAATAGTTAAAAAAATCAAAACTTT
*
20137957 A-TTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAAAGATTTTTATTTTTAAAAATATAA
66 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATATAA
* *
20138021 ACTTTCTC-CTTTTTAAAG
131 ACTTTCTCTTTTTTTAATG
*
20138039 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCTAAATAGTTAAAAAAAATC-AAACTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCAAAATAGTT-AAAAAAATCAAAACTT
* *
20138103 TATTTTAAAAATTTAAA-TTTTTC-------T-A--AAAAAATAGATTTTTATTTTTAAAAATCT
65 TA-TTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATAT
* * *
20138157 AAA-ATT-TCTATTTTTAAAG
129 AAACTTTCTCTTTTTTTAATG
* * * *
20138176 AAAATCACTACTTTACTT-AAAATC-AAAGATTTTATTTCGAAATTGTTTAAAAAAAACTAAAAC
1 AAAATCACTACTTTACTTAAAAATCTAAA-CTTTTATTTCAAAATAG-TTAAAAAAATC-AAAAC
20138239 TTT
63 TTT
20138242 TACCAAAATC
Statistics
Matches: 443, Mismatches: 42, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
135 3 0.01
136 30 0.07
137 31 0.07
138 37 0.08
140 1 0.00
141 1 0.00
145 14 0.03
146 103 0.23
147 88 0.20
148 20 0.05
149 42 0.09
150 73 0.16
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (149 bp):
AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCAAAATAGTTAAAAAAATCAAAACTTT
ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATATAA
ACTTTCTCTTTTTTTAATG
Found at i:20138188 original size:137 final size:138
Alignment explanation
Indices: 20137988--20138241 Score: 390
Period size: 137 Copynumber: 1.8 Consensus size: 138
20137978 TTTAAAATAA
* *
20137988 CTAAAAAAAAGATTTTTATTTTTAAAAATATAAACTTTCTCCTTTTTAAAGAAAATCACTACTTT
1 CTAAAAAAAAGATTTTTATTTTTAAAAATATAAAATTTCTCATTTTTAAAGAAAATCACTACTTT
* * *
20138053 ACTTAAAAATCTAAA-CTTTTATTTCTAAATAG-TTAAAAAAAA-TCAAACTTTATTTTAAAAAT
66 ACTT-AAAATC-AAAGATTTTATTTCGAAATAGTTTAAAAAAAACTAAAACTTTATTTTAAAAAT
20138115 TTAAATTTTT
129 TTAAATTTTT
*
20138125 CTAAAAAAATAGATTTTTATTTTTAAAAATCTAAAATTTCT-ATTTTTAAAGAAAATCACTACTT
1 CTAAAAAAA-AGATTTTTATTTTTAAAAATATAAAATTTCTCATTTTTAAAGAAAATCACTACTT
*
20138189 TACTTAAAATCAAAGATTTTATTTCGAAATTGTTTAAAAAAAACTAAAACTTT
65 TACTTAAAATCAAAGATTTTATTTCGAAATAGTTTAAAAAAAACTAAAACTTT
20138242 TACCAAAATC
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
135 3 0.03
136 20 0.19
137 46 0.43
138 37 0.35
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (138 bp):
CTAAAAAAAAGATTTTTATTTTTAAAAATATAAAATTTCTCATTTTTAAAGAAAATCACTACTTT
ACTTAAAATCAAAGATTTTATTTCGAAATAGTTTAAAAAAAACTAAAACTTTATTTTAAAAATTT
AAATTTTT
Found at i:20139201 original size:42 final size:42
Alignment explanation
Indices: 20139153--20139379 Score: 355
Period size: 42 Copynumber: 5.4 Consensus size: 42
20139143 CTACGCTTAT
* *
20139153 GCCTCTAAATGCAATAAAAAGTAAATGGACCTCCACACCTGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
* * * * *
20139195 GACTCTAAATGCAATGAAAAGTAAATGGGCCTCCATACTTGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
*
20139237 GCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTGA
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
* *
20139279 GCCTCTAAATGTAATGAAAAGTAAATGGACCTCCACACTTGA
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
*
20139321 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCTCACCTGA
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
20139363 GCCTCTAAATGCAATGA
1 GCCTCTAAATGCAATGA
20139380 CTGCTTTCCT
Statistics
Matches: 170, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 170 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (42 bp):
GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
Found at i:20139802 original size:9 final size:10
Alignment explanation
Indices: 20139782--20139826 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
20139772 TTGCTCTCTC
20139782 TTTCTATTTT
1 TTTCTATTTT
20139792 TTTCT-TTTT
1 TTTCTATTTT
*
20139801 TTTCTTCTTTT
1 TTTC-TATTTT
*
20139812 TTTGTATTTT
1 TTTCTATTTT
20139822 TTTCT
1 TTTCT
20139827 TGATTTAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 8 0.27
10 15 0.50
11 7 0.23
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTCTATTTT
Found at i:20139813 original size:22 final size:22
Alignment explanation
Indices: 20139783--20139824 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20139773 TGCTCTCTCT
* *
20139783 TTCTATTTTTTTCTTTTTTTTC
1 TTCTATTTTTGTATTTTTTTTC
*
20139805 TTCTTTTTTTGTATTTTTTT
1 TTCTATTTTTGTATTTTTTT
20139825 CTTGATTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (22 bp):
TTCTATTTTTGTATTTTTTTTC
Found at i:20139825 original size:21 final size:20
Alignment explanation
Indices: 20139788--20139827 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
20139778 TCTCTTTCTA
20139788 TTTTTTTCTTTTTTTTCTTC
1 TTTTTTTCTTTTTTTTCTTC
*
20139808 TTTTTTTGTATTTTTTTCTT
1 TTTTTTTCT-TTTTTTTCTT
20139828 GATTTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (20 bp):
TTTTTTTCTTTTTTTTCTTC
Found at i:20148051 original size:4 final size:4
Alignment explanation
Indices: 20148027--20148081 Score: 74
Period size: 4 Copynumber: 13.8 Consensus size: 4
20148017 ACAAATGAGC
* * * *
20148027 GAAT GAGT GAAT GACT GAAT GAAT GAAT GAGT GAGT GAAT GAAT GAAT
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT
20148075 GAAT GAA
1 GAAT GAA
20148082 ATTGGGGCAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.44, C:0.02, G:0.31, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:20151776 original size:159 final size:160
Alignment explanation
Indices: 20151472--20151786 Score: 526
Period size: 159 Copynumber: 2.0 Consensus size: 160
20151462 ATAAGAATCC
*
20151472 TAAAGGATACCTAAATAATTCTAGTAAAATACTTTCAATTCTTAAAATTAATTCTATTTTAGAAT
1 TAAAGGATACCTAAATAATTCTAGTAAAATACTTTCAATTCATAAAATTAATTCTATTTTAGAAT
*
20151537 CCTAAAAAATCCTAAAAAAATTACTAATGAATTAAGAGAAATATTAAAATTCATCTACAACTTAT
66 CCTAAAAAAACCT-AAAAAATTACTAATGAATTAAGAGAAATATTAAAATTCATCTACAACTTAT
* *
20151602 TCGATATTTTATCATTACTCTGATTTACTTG
130 TCAATATTTTATCATTACTATGATTTACTTG
*
20151633 TAAA-GATACTTAAATAATTCTAGTAAAATACTTTCAATTCATAAAATTAATTCTATTTTAGAAT
1 TAAAGGATACCTAAATAATTCTAGTAAAATACTTTCAATTCATAAAATTAATTCTATTTTAGAAT
*
20151697 CCTAAAAAAAACCT-AAAAGTTACTAATGAATTAAGAGAAATATTAAAATTCATCTACAACTTAT
66 CCT-AAAAAAACCTAAAAAATTACTAATGAATTAAGAGAAATATTAAAATTCATCTACAACTTAT
* *
20151761 TCAATCTTTTATCATTATTATGATTT
130 TCAATATTTTATCATTACTATGATTT
20151787 TAAAAGATTT
Statistics
Matches: 145, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
159 71 0.49
160 61 0.42
161 13 0.09
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (160 bp):
TAAAGGATACCTAAATAATTCTAGTAAAATACTTTCAATTCATAAAATTAATTCTATTTTAGAAT
CCTAAAAAAACCTAAAAAATTACTAATGAATTAAGAGAAATATTAAAATTCATCTACAACTTATT
CAATATTTTATCATTACTATGATTTACTTG
Found at i:20152999 original size:52 final size:52
Alignment explanation
Indices: 20152784--20153148 Score: 174
Period size: 52 Copynumber: 7.2 Consensus size: 52
20152774 TTTCTTTTGA
* *
20152784 TTAAAACAAAATCACTACTTTACTTT-AAAATCAAAACTTTTATTTCGAAATAG
1 TTAAAA-AAAATCACTATTTTA-TTTAAAAATCTAAACTTTTATTTCGAAATAG
** * * * **
20152837 TT-AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTTCTTTAAAATCAG
1 TTAAAAAAAATCACTATTTTATTTAAAAATCTAAACTTTTAT-TTCGAAAT-AG
* *** * * ** **
20152890 -TAAAAATAGATTTTTATTTT-TTT-AAAATCTGAAC-TTTCTTTC--TTTTT
1 TTAAAAA-AAATCACTATTTTATTTAAAAATCTAAACTTTTATTTCGAAATAG
**
20152937 TTAATGAAAATCACTATTTTATTTAAAAATCTAAACTTTTATTTCGAAATAG
1 TTAAAAAAAATCACTATTTTATTTAAAAATCTAAACTTTTATTTCGAAATAG
** * * ** *
20152989 TTAAAAAAAATCAAAACTTTATTTAAAAATTTAAACTTTT-TCTTTAAAATAA
1 TTAAAAAAAATCACTATTTTATTTAAAAATCTAAACTTTTAT-TTCGAAATAG
* * * * *
20153041 CTAAAAAACA-GA-T-TTTTATTTTTAAAAAATATAAACTTTCTCTTT-----T--
1 TTAAAAAAAATCACTATTTTA--TTT-AAAAATCTAAACTTT-TATTTCGAAATAG
* * * *
20153087 TTAAAGAAAATCACTACTTTACTTAAAAATCTGAACTTTTATTTCGAAATAG
1 TTAAAAAAAATCACTATTTTATTTAAAAATCTAAACTTTTATTTCGAAATAG
20153139 TTAAAAAAAA
1 TTAAAAAAAA
20153149 ATCAAAACTT
Statistics
Matches: 226, Mismatches: 59, Indels: 55
0.66 0.17 0.16
Matches are distributed among these distances:
45 4 0.02
46 20 0.09
47 12 0.05
48 10 0.04
49 18 0.08
50 13 0.06
51 34 0.15
52 92 0.41
53 14 0.06
54 9 0.04
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (52 bp):
TTAAAAAAAATCACTATTTTATTTAAAAATCTAAACTTTTATTTCGAAATAG
Found at i:20153029 original size:152 final size:150
Alignment explanation
Indices: 20152791--20153297 Score: 584
Period size: 153 Copynumber: 3.4 Consensus size: 150
20152781 TGATTAAAAC
* *
20152791 AAAATCACTACTTTACTTT-AAAATCAAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAATT
1 AAAATCACTACTTTA-TTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACT
* * * **
20152854 TTGTTTAAAAATTTAAACTTTTTTCTTTAAAATCAGT-AAAAATAGATTTTTATTTTTTTAAAAT
65 TTGTTTAAAAATTTAAAC-TTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAAAT
* * *
20152918 CTGAACTTTCTTTCTTTTTTTAATG
129 ATAAACTTTC--TC-TTTTTTAAAG
*
20152943 AAAATCACTATTTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTACTTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
*
20153008 TATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAAATAT
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAAATAT
20153073 AAACTTTCTCTTTTTTAAAG
131 AAACTTTCTCTTTTTTAAAG
* *
20153093 AAAATCACTACTTTACTTAAAAATCTGAACTTTTATTTCGAAATAGTTAAAAAAAAATCAAAACT
1 AAAATCACTACTTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTT-AAAAAAAATCAAAACT
*
20153158 TTGTTTAAAAATTTAGAC-TTTTC--TAAAA-AA-T-------AGATTTTGTATTTTT-AAAAAT
65 TTGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTT-TATTTTTAAAAAAT
*
20153210 CTAAACTTTCTCTTTTTTAAAG
129 ATAAACTTTCTCTTTTTTAAAG
* * * * * * *
20153232 AAAATTATTATTTTAATT-AAAAT-TAAAGTTTTTATTTCAAAATTGTTTAAAAAAAA-CTAAAA
1 AAAATCACTACTTTATTTAAAAATCTAAA-CTTTTATTTCGAAATAG-TTAAAAAAAATC-AAAA
20153294 CTTT
63 CTTT
20153298 TACCAAAATC
Statistics
Matches: 321, Mismatches: 26, Indels: 30
0.85 0.07 0.08
Matches are distributed among these distances:
137 4 0.01
138 35 0.11
139 50 0.16
140 7 0.02
146 1 0.00
147 2 0.01
148 5 0.02
150 59 0.18
151 37 0.12
152 58 0.18
153 63 0.20
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (150 bp):
AAAATCACTACTTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAAATAT
AAACTTTCTCTTTTTTAAAG
Found at i:20153209 original size:139 final size:138
Alignment explanation
Indices: 20153041--20153297 Score: 358
Period size: 139 Copynumber: 1.9 Consensus size: 138
20153031 TTTAAAATAA
20153041 CTAAAAAACAGATTTTTATTTTTAAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTACTT
1 CTAAAAAACAGATTTTTATTTTTAAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTACTT
* * *
20153106 TACTTAAAAATCTGAA-CTTTTATTTCGAAATAGTTAAAAAAAAA-TCAAAACTTTGTTTAAAAA
66 TAATT-AAAAT-TAAAGCTTTTATTTCAAAATAGTTAAAAAAAAACT-AAAACTTTGTTTAAAAA
20153169 TTTAGACTTTT
128 TTTAGACTTTT
* * * * *
20153180 CTAAAAAATAGATTTTGTATTTTT-AAAAATCTAAACTTTCTCTTTTTTAAAGAAAATTATTATT
1 CTAAAAAACAGATTTT-TATTTTTAAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTACT
* * *
20153244 TTAATTAAAATTAAAGTTTTTATTTCAAAATTGTTTAAAAAAAACTAAAACTTT
65 TTAATTAAAATTAAAGCTTTTATTTCAAAATAGTTAAAAAAAAACTAAAACTTT
20153298 TACCAAAATC
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
137 3 0.03
138 37 0.36
139 57 0.55
140 7 0.07
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (138 bp):
CTAAAAAACAGATTTTTATTTTTAAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTACTT
TAATTAAAATTAAAGCTTTTATTTCAAAATAGTTAAAAAAAAACTAAAACTTTGTTTAAAAATTT
AGACTTTT
Found at i:20153724 original size:3 final size:3
Alignment explanation
Indices: 20153716--20153755 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
20153706 CATGAAACCT
* * *
20153716 TAA TAA TAA TAA AAA TAA TAA TAG TAA TGA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
20153756 TTGGCCTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20154943 original size:15 final size:16
Alignment explanation
Indices: 20154917--20154947 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
20154907 TATTTTGGAT
20154917 ATAAAGATTAAAATTA
1 ATAAAGATTAAAATTA
20154933 ATAAA-ATTAAAATTA
1 ATAAAGATTAAAATTA
20154948 TGTTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAGATTAAAATTA
Found at i:20158002 original size:17 final size:17
Alignment explanation
Indices: 20157982--20158053 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
20157972 AATAAGTTTG
20157982 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* * * *
20157999 AATTCATTTTGAGTTTG
1 AATTTATTTTAAATTTA
* *
20158016 AATTTACTTTAATTTTA
1 AATTTATTTTAAATTTA
* * *
20158033 AATTTATATTCAATTAA
1 AATTTATTTTAAATTTA
20158050 AATT
1 AATT
20158054 AATTAAAAAG
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:20158305 original size:25 final size:25
Alignment explanation
Indices: 20158276--20158335 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
20158266 ACAACCAAGT
*
20158276 TGCCACCACCAGCTTCAACTTGCTC
1 TGCCACCACCAGCTTCAACCTGCTC
20158301 TGCCACCACCAGCTTCAACCTGCTC
1 TGCCACCACCAGCTTCAACCTGCTC
*
20158326 TGCCATCACC
1 TGCCACCACC
20158336 GCCACTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.47, G:0.12, T:0.22
Consensus pattern (25 bp):
TGCCACCACCAGCTTCAACCTGCTC
Found at i:20159952 original size:30 final size:29
Alignment explanation
Indices: 20159918--20160061 Score: 102
Period size: 29 Copynumber: 4.9 Consensus size: 29
20159908 CAAAAATCAT
* *
20159918 ATTTTGAACACTAAACTTTTCTAAAATTCC
1 ATTTTGAACCCTAAAC-TTTCTAAAATTAC
*
20159948 ATTTTTG-ACCCTGAACTTTCTAAAAATTAC
1 A-TTTTGAACCCTAAACTTTCT-AAAATTAC
* * * * *
20159978 ATTTTTACCCCCAAACTTTCCAAAATTTC
1 ATTTTGAACCCTAAACTTTCTAAAATTAC
20160007 ATTTTG-ACCCTGAAAC-TTCTAAAAATTACC
1 ATTTTGAACCCT-AAACTTTCT-AAAATTA-C
*
20160037 ATTTT--ACCCTCAAAC-TTCCAAAATT
1 ATTTTGAACCCT-AAACTTTCTAAAATT
20160062 TCCATTTTTT
Statistics
Matches: 92, Mismatches: 16, Indels: 14
0.75 0.13 0.11
Matches are distributed among these distances:
28 12 0.13
29 43 0.47
30 32 0.35
31 5 0.05
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTTTGAACCCTAAACTTTCTAAAATTAC
Found at i:20160040 original size:59 final size:59
Alignment explanation
Indices: 20159930--20160572 Score: 449
Period size: 59 Copynumber: 10.9 Consensus size: 59
20159920 TTTGAACACT
* *
20159930 AAACTTTTCTAAAATTCCATTTTTGACCCTG-AACTTTCTAAAAATTA-CATTTTTACCCCC
1 AAAC-TTTCCAAAATTCCATTTTTGACCCTGAAAC-TTCCAAAAATTACCA-TTTTACCCCC
* * *
20159990 AAACTTTCCAAAATTTCA-TTTTGACCCTGAAACTTCTAAAAATTACCATTTTACCCTC
1 AAACTTTCCAAAATTCCATTTTTGACCCTGAAACTTCCAAAAATTACCATTTTACCCCC
* *** *
20160048 AAAC-TTCCAAAATTTCCATTTTT-TCCCTTGACTTTTCCAAAAATTACCATATTACCCCC
1 AAACTTTCCAAAA-TTCCATTTTTGACCC-TGAAACTTCCAAAAATTACCATTTTACCCCC
* ** * ** * **
20160107 GAA-TGACCAAAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCTT
1 AAACTTTCC-AAAATTCCATTTTTGACCCTGAAACTTCCAAAAATTACCATTTTACCCCC
* * * * *
20160166 GAA-TGTCCAAAAACTCCAGTTTTGACCTTGAAACTTCCAAAAATTACCATTTTACCCCC
1 AAACTTTCC-AAAATTCCATTTTTGACCCTGAAACTTCCAAAAATTACCATTTTACCCCC
* * * * * * *
20160225 GAA-TGTCTAAAAATTCCATTTTTGAGCCC-GAATCATCCAAAAATAACCATTTTACCCCT
1 AAACTTTC-CAAAATTCCATTTTTGA-CCCTGAAACTTCCAAAAATTACCATTTTACCCCC
** * * *
20160284 AAACTTTCCAAAATTCCATTTTT-ATCCCCAAAACTTCCAAGAATTACCATTTTAGCCTC
1 AAACTTTCCAAAATTCCATTTTTGA-CCCTGAAACTTCCAAAAATTACCATTTTACCCCC
* * * * * *
20160343 GAA-TGTCCAAAAATTCCATTTTTTTA-TCTCGAACCTTCCAAAAATTACCATTTTACCCTC
1 AAACTTTCC-AAAATTCCA-TTTTTGACCCT-GAAACTTCCAAAAATTACCATTTTACCCCC
* * * * * * *
20160403 GAA-TGTCTAAAAACTCCATTTTTCA-TCTCGAACCTTCCAAAAATTACCATTTTACCCCC
1 AAACTTTC-CAAAATTCCATTTTTGACCCT-GAAACTTCCAAAAATTACCATTTTACCCCC
* * * * * * *
20160462 GAA-TGTCTAAAAACTCTATTTTTGATCCC-GAACCTTCC-AAAATTATCATTTTACCCCC
1 AAACTTTC-CAAAATTCCATTTTTGA-CCCTGAAACTTCCAAAAATTACCATTTTACCCCC
* * * * *
20160520 GAA-TATCTAAAAATTCCATTTTTGACCCCGAACCTTCCAAAAATTACCATTTT
1 AAACTTTC-CAAAATTCCATTTTTGACCCTGAAACTTCCAAAAATTACCATTTT
20160573 TCCCTTAAAT
Statistics
Matches: 488, Mismatches: 74, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
57 11 0.02
58 101 0.21
59 312 0.64
60 62 0.13
61 2 0.00
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (59 bp):
AAACTTTCCAAAATTCCATTTTTGACCCTGAAACTTCCAAAAATTACCATTTTACCCCC
Found at i:20160051 original size:29 final size:29
Alignment explanation
Indices: 20159969--20160459 Score: 234
Period size: 29 Copynumber: 16.7 Consensus size: 29
20159959 TGAACTTTCT
*
20159969 AAAAATTA-CATTTTTACCCCCAAACTTTCC
1 AAAAATTACCA-TTTTACCCTCAAAC-TTCC
* * *
20159999 -AAAATT-TCATTTTGACCCTGAAACTTCT
1 AAAAATTACCATTTT-ACCCTCAAACTTCC
20160027 AAAAATTACCATTTTACCCTCAAACTTCC
1 AAAAATTACCATTTTACCCTCAAACTTCC
* * **
20160056 -AAAATTTCCATTTTTTCCCT-TGACTTTTCC
1 AAAAATTACCA-TTTTACCCTCAAAC--TTCC
* * * *
20160086 AAAAATTACCATATTACCCCCGAA-TGACC
1 AAAAATTACCATTTTACCCTCAAACT-TCC
*
20160115 AAAAATT-CCATTTTTAACCC-CAAAACTTTC
1 AAAAATTACCA-TTTT-ACCCTC-AAACTTCC
**
20160145 AAAAATTACCATTTTACCCTTGAA-TGTCC
1 AAAAATTACCATTTTACCCTCAAACT-TCC
* * *
20160174 AAAAACT-CCAGTTTTGACCTTGAAACTTCC
1 AAAAATTACCA-TTTT-ACCCTCAAACTTCC
* * *
20160204 AAAAATTACCATTTTACCCCCGAA-TGTCT
1 AAAAATTACCATTTTACCCTCAAACT-TCC
* * *
20160233 AAAAATT-CCATTTTTGAGCCC-GAATCATCC
1 AAAAATTACCA-TTTT-A-CCCTCAAACTTCC
*
20160263 AAAAATAACCATTTTACCC-CTAAACTTTCC
1 AAAAATTACCATTTTACCCTC-AAAC-TTCC
20160293 -AAAATT-CCATTTTTATCCC-CAAAACTTCC
1 AAAAATTACCA-TTTTA-CCCTC-AAACTTCC
* * *
20160322 AAGAATTACCATTTTAGCCTCGAA-TGTCC
1 AAAAATTACCATTTTACCCTCAAACT-TCC
* *
20160351 AAAAATT-CCATTTTTTTA-TCTCGAACCTTCC
1 AAAAATTACCA---TTTTACCCTC-AAACTTCC
* *
20160382 AAAAATTACCATTTTACCCTCGAA-TGTCT
1 AAAAATTACCATTTTACCCTCAAACT-TCC
* * * *
20160411 AAAAACT-CCATTTTTCATCTCGAACCTTCC
1 AAAAATTACCATTTTAC-CCTC-AAACTTCC
20160441 AAAAATTACCATTTTACCC
1 AAAAATTACCATTTTACCC
20160460 CCGAATGTCT
Statistics
Matches: 349, Mismatches: 65, Indels: 94
0.69 0.13 0.19
Matches are distributed among these distances:
28 49 0.14
29 139 0.40
30 105 0.30
31 52 0.15
32 4 0.01
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCTCAAACTTCC
Found at i:20160071 original size:118 final size:115
Alignment explanation
Indices: 20159940--20160592 Score: 515
Period size: 118 Copynumber: 5.6 Consensus size: 115
20159930 AAACTTTTCT
* * *
20159940 AAAATTCCATTTTTGACCCTGAACTTTCTAAAAATTA-CATTTTTACCCCCAAACTTTCCAAAAT
1 AAAATTCCATTTTTGACCCTGAACTTTCCAAAAATTACCA-TTTTACCCCCGAA-TGTCCAAAAT
*
20160004 TTCA-TTTTGACCCTGAAACTTCTAAAAATTACCATTTTACCCTCAAACTTCC
64 TCCATTTTTGACCC-GAAACTTCTAAAAATTACCATTTTACCCTCAAACTTCC
* * *
20160056 AAAATTTCCATTTTT-TCCCTTG-ACTTTTCCAAAAATTACCATATTACCCCCGAATGACCAAAA
1 AAAA-TTCCATTTTTGACCC-TGAAC-TTTCCAAAAATTACCATTTTACCCCCGAATGTCC-AAA
* * **
20160119 ATTCCATTTTTAACCCCAAAACTT-TCAAAAATTACCATTTTACCCTTGAA-TGTCC
62 ATTCCATTTTTGA-CCCGAAACTTCT-AAAAATTACCATTTTACCCTCAAACT-TCC
* * * *
20160174 AAAAACTCCAGTTTTGACCTTGAAAC-TTCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAA
1 -AAAATTCCATTTTTGACCCTG-AACTTTCCAAAAATTACCATTTTACCCCCGAATGTC-CAAAA
* * * *
20160238 TTCCATTTTTGAGCCCGAATCATCCAAAAATAACCATTTTACCC-CTAAACTTTCC
63 TTCCATTTTTGA-CCCGAAACTTCTAAAAATTACCATTTTACCCTC-AAAC-TTCC
** * * *
20160293 AAAATTCCATTTTT-ATCCCCAAAAC-TTCCAAGAATTACCATTTTAGCCTCGAATGTCCAAAAA
1 AAAATTCCATTTTTGA--CCCTGAACTTTCCAAAAATTACCATTTTACCCCCGAATGTCC-AAAA
* * * * * *
20160356 TTCCATTTTTTTATCTCGAACCTTCCAAAAATTACCATTTTACCCTCGAA-TGTCTA
63 TTCCA-TTTTTGA-CCCGAAACTTCTAAAAATTACCATTTTACCCTCAAACT-TC-C
* * * * * *
20160412 AAAACTCCATTTTTCA-TCTCGAACCTTCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAAC
1 AAAATTCCATTTTTGACCCT-GAACTTTCCAAAAATTACCATTTTACCCCCGAATGTC-CAAAAT
* * * * * * *
20160476 TCTATTTTTGATCCCGAACCTTC-CAAAATTATCATTTTACCCCCGAA-TATCTA
64 TCCATTTTTGA-CCCGAAACTTCTAAAAATTACCATTTTACCCTCAAACT-TC-C
* * * ***
20160529 AAAATTCCATTTTTGACCCCGAACCTTCCAAAAATTACCATTTTTCCCTTAAATGTCCAAAATT
1 AAAATTCCATTTTTGACCCTGAACTTTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAATT
20160593 AGTTTTACCC
Statistics
Matches: 437, Mismatches: 70, Indels: 60
0.77 0.12 0.11
Matches are distributed among these distances:
116 17 0.04
117 121 0.28
118 196 0.45
119 98 0.22
120 5 0.01
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (115 bp):
AAAATTCCATTTTTGACCCTGAACTTTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAATTC
CATTTTTGACCCGAAACTTCTAAAAATTACCATTTTACCCTCAAACTTCC
Found at i:20160202 original size:177 final size:176
Alignment explanation
Indices: 20159940--20160590 Score: 629
Period size: 177 Copynumber: 3.7 Consensus size: 176
20159930 AAACTTTTCT
* ** * *
20159940 AAAATTCCATTTTTGA-CCCTGAACTTTCTAAAAATTA-CATTTTTACCCCCAAACTTTCC-AAA
1 AAAATTCCATTTTTAACCCCAAAACTTTC-AAAAATTACCA-TTTTACCCCCGAA-TGTCCAAAA
* * * *
20160002 ATTTCA-TTTTGACCCTGAAACTTCTAAAAATTACCATTTTACCCTCAAACT-TCCAAAATTTCC
63 ATTCCATTTTTGACCCCGAAACTTCCAAAAATTACCATTTTACCCTCAAA-TGTCCAAAAATTCC
* * *
20160065 ATTTTTTCCCTTGACTTTTCCAAAAATTACCATATTACCCCCGAATGACCA
127 ATTTTTTCCC-TGACTCTTCCAAAAATTACCATTTTACCCCCGAATGTCCA
** *
20160116 AAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCTTGAATGTCCAAAAACT
1 AAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATT
* ** * * *
20160181 CCAGTTTTGACCTTGAAACTTCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTT
66 CCATTTTTGACCCCGAAACTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCCATTT
* * * * ** *
20160246 TTGAGCCC-GAATCATCCAAAAATAACCATTTTACCCCTAAACTTTCC-
131 TT--TCCCTGACTCTTCCAAAAATTACCATTTTACCCCCGAA-TGTCCA
* * * * *
20160293 AAAATTCCATTTTTATCCCCAAAACTTCCAAGAATTACCATTTTAGCCTCGAATGTCCAAAAATT
1 AAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATT
* * * * * * *
20160358 CCATTTTTTTATCTCGAACCTTCCAAAAATTACCATTTTACCCTCGAATGTCTAAAAACTCCA-T
66 CCA-TTTTTGACCCCGAAACTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCCATT
* *
20160422 TTTTCATCTCGAAC-CTTCCAAAAATTACCATTTTACCCCCGAATGTCTA
130 TTTTC-CCT-G-ACTCTTCCAAAAATTACCATTTTACCCCCGAATGTCCA
* * * * * * * * * *
20160471 AAAACTCTATTTTTGATCCC-GAACCTTCCAAAATTATCATTTTACCCCCGAATATCTAAAAATT
1 AAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATT
* * *
20160535 CCATTTTTGACCCCGAACCTTCCAAAAATTACCATTTTTCCCTTAAATGTCCAAAA
66 CCATTTTTGACCCCGAAACTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAA
20160591 TTAGTTTTAC
Statistics
Matches: 392, Mismatches: 69, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
175 5 0.01
176 88 0.22
177 199 0.51
178 96 0.24
179 4 0.01
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (176 bp):
AAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATT
CCATTTTTGACCCCGAAACTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCCATTT
TTTCCCTGACTCTTCCAAAAATTACCATTTTACCCCCGAATGTCCA
Found at i:20160513 original size:29 final size:29
Alignment explanation
Indices: 20159940--20160572 Score: 134
Period size: 29 Copynumber: 21.5 Consensus size: 29
20159930 AAACTTTTCT
* * *
20159940 AAAATT-CCATTTTTGACCCTGAACTTTCTA
1 AAAATTACCA-TTTTGACCCCGAACCTTC-C
* * *
20159970 AAAATTA-CATTTTTACCCCCAAACTTTCC
1 AAAATTACCATTTTGA-CCCCGAACCTTCC
* * * *
20159999 AAAATT-TCATTTTGACCCTGAAACTTCTA
1 AAAATTACCATTTTGACCCCGAACCTTC-C
*
20160028 AAAATTACCATTTT-ACCCTC-AAACTTCC
1 AAAATTACCATTTTGACCC-CGAACCTTCC
* ** * *
20160056 AAAATTTCCATTTTTTCCCTTG-ACTTTTCC
1 AAAATTACCATTTTGACCC-CGAAC-CTTCC
* *
20160086 AAAAATTACCATATT-ACCCCCGAA--TGACC
1 -AAAATTACCATTTTGA-CCCCGAACCT-TCC
* * * *
20160115 AAAAATT-CCATTTTTAACCCCAAAACTTTCA
1 -AAAATTACCA-TTTTGACCCC-GAACCTTCC
*
20160146 AAAATTACCATTTT-ACCCTTGAA--TGTCC
1 AAAATTACCATTTTGACCC-CGAACCT-TCC
* ** *
20160174 AAAAACT-CCAGTTTTGACCTTGAAACTTCC
1 -AAAATTACCA-TTTTGACCCCGAACCTTCC
*
20160204 AAAAATTACCATTTT-ACCCCCGAA--TGTCTA
1 -AAAATTACCATTTTGA-CCCCGAACCT-TC-C
* * *
20160234 AAAATT-CCATTTTTGAGCCCGAATCATCC
1 AAAATTACCA-TTTTGACCCCGAACCTTCC
* * *
20160263 AAAAATAACCATTTT-ACCCCTAAACTTTCC
1 -AAAATTACCATTTTGACCCC-GAACCTTCC
* * *
20160293 AAAATT-CCATTTTTATCCCCAAAACTTCC
1 AAAATTACCATTTTGA-CCCCGAACCTTCC
*
20160322 AAGAATTACCATTTT-AGCCTCGAA--TGTCC
1 AA-AATTACCATTTTGA-CCCCGAACCT-TCC
* * *
20160351 AAAAATT-CCATTTTTTTATCTCGAACCTTCC
1 -AAAATTACCA--TTTTGACCCCGAACCTTCC
*
20160382 AAAAATTACCATTTT-ACCCTCGAA--TGTCTA
1 -AAAATTACCATTTTGACCC-CGAACCT-TC-C
* * * *
20160412 AAAACT-CCATTTTTCATCTCGAACCTTCC
1 AAAATTACCA-TTTTGACCCCGAACCTTCC
*
20160441 AAAAATTACCATTTT-ACCCCCGAA--TGTCT
1 -AAAATTACCATTTTGA-CCCCGAACCT-TCC
*
20160470 AAAA--ACTCTATTTTTGATCCCGAACCTTCC
1 AAAATTAC-C-A-TTTTGACCCCGAACCTTCC
* *
20160500 AAAATTATCATTTT-ACCCCCGAA--TATCTA
1 AAAATTACCATTTTGA-CCCCGAACCT-TC-C
20160529 AAAATT-CCATTTTTGACCCCGAACCTTCC
1 AAAATTACCA-TTTTGACCCCGAACCTTCC
20160558 AAAAATTACCATTTT
1 -AAAATTACCATTTT
20160573 TCCCTTAAAT
Statistics
Matches: 456, Mismatches: 70, Indels: 154
0.67 0.10 0.23
Matches are distributed among these distances:
26 2 0.00
27 3 0.01
28 60 0.13
29 177 0.39
30 153 0.34
31 55 0.12
32 6 0.01
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTGACCCCGAACCTTCC
Found at i:20162745 original size:7 final size:7
Alignment explanation
Indices: 20162733--20162757 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20162723 TATTTCTTTT
20162733 AAAAGTC
1 AAAAGTC
20162740 AAAAGTC
1 AAAAGTC
20162747 AAAAGTC
1 AAAAGTC
20162754 AAAA
1 AAAA
20162758 CCCAATTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAGTC
Found at i:20163079 original size:5 final size:5
Alignment explanation
Indices: 20163062--20163093 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
20163052 CCTGCAAAAC
20163062 AGAAA AGGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA A-GAAA AGAAA AGAAA AGAAA AGAAA A
20163094 TGTAATCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:20163716 original size:42 final size:39
Alignment explanation
Indices: 20163640--20163759 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 39
20163630 GCTAAAGAAG
* *
20163640 TTTTATATTTAGAAATATGGTTAAACTGATTTTTTCCTTAC
1 TTTT-TATTTA-AAAAATGGTTAAAATGATTTTTTCCTTAC
* *
20163681 TTTTTAATTTATATAGA-GGCTTAAAATGATTTTTTTCCTTAC
1 TTTTT-ATTTA-AAAAATGG-TTAAAATGA-TTTTTTCCTTAC
*
20163723 TTTTTTTTTAAAAAATGGTTAAAATGATTTTTTCCTT
1 TTTTTATTTAAAAAATGGTTAAAATGATTTTTTCCTT
20163760 TTAGGATCCA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
39 10 0.15
40 15 0.22
41 26 0.38
42 17 0.25
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.53
Consensus pattern (39 bp):
TTTTTATTTAAAAAATGGTTAAAATGATTTTTTCCTTAC
Found at i:20164143 original size:14 final size:15
Alignment explanation
Indices: 20164114--20164148 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
20164104 AATGCGCCAC
20164114 TTTATTTTATATTTTA
1 TTTA-TTTATATTTTA
20164130 TTTATTTA-ATTTTA
1 TTTATTTATATTTTA
20164144 TTTAT
1 TTTAT
20164149 GCTTACTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 4 0.21
16 4 0.21
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTATATTTTA
Found at i:20164339 original size:3 final size:3
Alignment explanation
Indices: 20164325--20164378 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
20164315 TACAATTTTC
*
20164325 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20164373 ATT ATT
1 ATT ATT
20164379 TTGTTTATGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:20164425 original size:9 final size:8
Alignment explanation
Indices: 20164335--20164426 Score: 69
Period size: 9 Copynumber: 10.6 Consensus size: 8
20164325 ATTATCATTA
20164335 TTATTATT
1 TTATTATT
20164343 ATTATTATT
1 -TTATTATT
20164352 ATTATTATT
1 -TTATTATT
20164361 ATTATTATT
1 -TTATTATT
20164370 ATTATTATT
1 -TTATTATT
* *
20164379 TTGTTTATG
1 TT-ATTATT
20164388 TTATTAATT
1 TTATT-ATT
*
20164397 GTATTA-T
1 TTATTATT
*
20164404 TTATTAGTG
1 TTATTA-TT
20164413 TTATTTATT
1 TTA-TTATT
20164422 TTATT
1 TTATT
20164427 CTATTTTTCA
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
7 6 0.09
8 7 0.10
9 54 0.77
10 3 0.04
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (8 bp):
TTATTATT
Found at i:20178783 original size:6 final size:6
Alignment explanation
Indices: 20178774--20178818 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
20178764 CATTATTAAT
*
20178774 ATTACC ATTACC ATTACC ATTACC ATTACC ATTACT ATTACC ATT
1 ATTACC ATTACC ATTACC ATTACC ATTACC ATTACC ATTACC ATT
20178819 TTTATTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (6 bp):
ATTACC
Found at i:20178789 original size:18 final size:18
Alignment explanation
Indices: 20178768--20178818 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
20178758 CATCATCATT
*
20178768 ATTAATATTACCATTACC
1 ATTACTATTACCATTACC
*
20178786 ATTACCATTACCATTACC
1 ATTACTATTACCATTACC
20178804 ATTACTATTACCATT
1 ATTACTATTACCATT
20178819 TTTATTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTACTATTACCATTACC
Found at i:20178824 original size:12 final size:12
Alignment explanation
Indices: 20178768--20178818 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
20178758 CATCATCATT
*
20178768 ATTAATATTACC
1 ATTACTATTACC
*
20178780 ATTACCATTACC
1 ATTACTATTACC
*
20178792 ATTACCATTACC
1 ATTACTATTACC
20178804 ATTACTATTACC
1 ATTACTATTACC
20178816 ATT
1 ATT
20178819 TTTATTTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTACTATTACC
Found at i:20178872 original size:25 final size:26
Alignment explanation
Indices: 20178832--20178880 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
20178822 ATTTTGTTTA
20178832 TGTTATTAATTGTATTAT-TTATTAG
1 TGTTATTAATTGTATTATATTATTAG
* *
20178857 TGTTATTTATTTTATTATATTATT
1 TGTTATTAATTGTATTATATTATT
20178881 CATGTATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (26 bp):
TGTTATTAATTGTATTATATTATTAG
Found at i:20180280 original size:9 final size:9
Alignment explanation
Indices: 20180266--20180290 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20180256 CCCTCGAGAC
20180266 CACACCGCT
1 CACACCGCT
20180275 CACACCGCT
1 CACACCGCT
20180284 CACACCG
1 CACACCG
20180291 ATACTAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.56, G:0.12, T:0.08
Consensus pattern (9 bp):
CACACCGCT
Found at i:20180838 original size:127 final size:127
Alignment explanation
Indices: 20180612--20180865 Score: 508
Period size: 127 Copynumber: 2.0 Consensus size: 127
20180602 AACATTGGAC
20180612 TCATAGAGTTGAAACATATCCCATAAGTGAAGCATATAGCTAACACTCTCTAACACACAAAATAT
1 TCATAGAGTTGAAACATATCCCATAAGTGAAGCATATAGCTAACACTCTCTAACACACAAAATAT
20180677 ATCCCGTTGAATGGAGCATAGCTCACATTCCTTTATCTCTCCAACATGTCCCTGGGCCTCAG
66 ATCCCGTTGAATGGAGCATAGCTCACATTCCTTTATCTCTCCAACATGTCCCTGGGCCTCAG
20180739 TCATAGAGTTGAAACATATCCCATAAGTGAAGCATATAGCTAACACTCTCTAACACACAAAATAT
1 TCATAGAGTTGAAACATATCCCATAAGTGAAGCATATAGCTAACACTCTCTAACACACAAAATAT
20180804 ATCCCGTTGAATGGAGCATAGCTCACATTCCTTTATCTCTCCAACATGTCCCTGGGCCTCAG
66 ATCCCGTTGAATGGAGCATAGCTCACATTCCTTTATCTCTCCAACATGTCCCTGGGCCTCAG
20180866 AGCGCCACAT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 127 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (127 bp):
TCATAGAGTTGAAACATATCCCATAAGTGAAGCATATAGCTAACACTCTCTAACACACAAAATAT
ATCCCGTTGAATGGAGCATAGCTCACATTCCTTTATCTCTCCAACATGTCCCTGGGCCTCAG
Found at i:20181082 original size:23 final size:23
Alignment explanation
Indices: 20181047--20181282 Score: 328
Period size: 23 Copynumber: 10.3 Consensus size: 23
20181037 ATCTTAATTC
20181047 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
20181070 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
20181093 TTTAAGCACACATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
20181116 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
20181139 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
20181162 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
20181185 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
20181208 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
20181231 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
20181254 TTTAAGCACAAATTACATTAATA
1 TTTAAGCACAAATCACATTAATA
20181277 TTTAAG
1 TTTAAG
20181283 AATGGATATA
Statistics
Matches: 194, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 194 1.00
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:20184473 original size:15 final size:14
Alignment explanation
Indices: 20184453--20184496 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
20184443 AATACGATTC
20184453 TTTTTATTTTGTTTA
1 TTTTTATTTT-TTTA
20184468 TTTTTATTATCTTTT-
1 TTTTTATT-T-TTTTA
20184483 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
20184497 ATTTCAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.15
14 1 0.04
15 16 0.62
16 4 0.15
17 1 0.04
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:20186801 original size:18 final size:18
Alignment explanation
Indices: 20186765--20186806 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
20186755 ATGTACTAAT
* *
20186765 AAAT-AAAATGCAGTGAC
1 AAATAAAAATGCAATAAC
20186782 AAATAAAAATGCAATAAC
1 AAATAAAAATGCAATAAC
*
20186800 AACTAAA
1 AAATAAA
20186807 TGAGATGCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.17
Consensus pattern (18 bp):
AAATAAAAATGCAATAAC
Found at i:20189535 original size:22 final size:22
Alignment explanation
Indices: 20189509--20189552 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20189499 CAACATCATA
20189509 ATCCATGTTCACTTGTTTAATC
1 ATCCATGTTCACTTGTTTAATC
20189531 ATCCATGTTCACTTGTTTAATC
1 ATCCATGTTCACTTGTTTAATC
20189553 GCCCACATGG
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:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (22 bp):
ATCCATGTTCACTTGTTTAATC
Found at i:20201299 original size:51 final size:51
Alignment explanation
Indices: 20201223--20201554 Score: 404
Period size: 51 Copynumber: 6.5 Consensus size: 51
20201213 AACGAAAGAA
*
20201223 TCCGATGACTATGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
* *
20201274 TCCGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACAGATTAAAGG
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
*
20201325 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCTTTTACGGATTAAAGG
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
20201376 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
* * * * * * *
20201427 TCCGATGTCTAAGTATCATCGT--G--AATGAATGCATGATGAATTAAAGG
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
* * * * * * * *
20201474 TCTGATAACTTAGTGTCATCGTGAGTATATAAATTCCTATACAGAATAAAGGGG
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATTAAA--GG
* *
20201528 TCGGATGACTATA-TGTCTTCGTGAGTA
1 TCCGATGACTA-AGTGTCATCGTGAGTA
20201555 TTAAATGAAA
Statistics
Matches: 240, Mismatches: 33, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
47 36 0.15
49 2 0.01
51 170 0.71
52 8 0.03
54 23 0.10
55 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (51 bp):
TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
Found at i:20207662 original size:20 final size:21
Alignment explanation
Indices: 20207639--20207682 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
20207629 AAATGAAGAG
* *
20207639 TAAATAGGTTTAA-TAAAGGT
1 TAAAAAGGTTTAATTAAAGCT
*
20207659 TAAAAATGTTTAATTAAAGCT
1 TAAAAAGGTTTAATTAAAGCT
20207680 TAA
1 TAA
20207683 TGATGAAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (21 bp):
TAAAAAGGTTTAATTAAAGCT
Found at i:20208633 original size:51 final size:51
Alignment explanation
Indices: 20208571--20208840 Score: 317
Period size: 51 Copynumber: 5.2 Consensus size: 51
20208561 AATGACTATA
*
20208571 TCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCTGATGACTAAGTG
1 TCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATGACTAAGTG
* *
20208622 TCATTGTGAGTAAATGAATCCTTTACGGATTAAAGGTCTGATGACTAAGTG
1 TCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATGACTAAGTG
* * * * * *
20208673 TCATCGTAAGTAAAAGAATCCTTAACGGATTAAAGGCCCGATGATTAAGTA
1 TCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATGACTAAGTG
* * * * *
20208724 TCATCATGAGTAAATGAATCCATGACGAATTAAAGGTCCGATGACTCAGTG
1 TCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATGACTAAGTG
* * * * *
20208775 TCATCGTGAGTATATAAATTCTTATACGGAATAAAGGGGTCCAATGACTATA-TG
1 TCATCGTGAGTAAATGAATCCTT-TACGGATTAAA--GGTCCGATGACTA-AGTG
*
20208829 TCTTCGTGAGTA
1 TCATCGTGAGTA
20208841 TTAAATGAAA
Statistics
Matches: 185, Mismatches: 30, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
51 152 0.82
52 8 0.04
54 24 0.13
55 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (51 bp):
TCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATGACTAAGTG
Found at i:20217515 original size:38 final size:39
Alignment explanation
Indices: 20217441--20217561 Score: 121
Period size: 38 Copynumber: 3.3 Consensus size: 39
20217431 CCACTTCTAG
* *
20217441 ATTGCA-CCAA-AACTATCGCTACA-AGAATATT-TTCAA
1 ATTGCACCCAAGAACTATCACTGCATA-AATATTCTTCAA
* * *
20217477 AATGCACCCAAG-ACTGTCACTGTATAAATATTCTTCAA
1 ATTGCACCCAAGAACTATCACTGCATAAATATTCTTCAA
* *
20217515 ATTGCATCC-AGAACTATCACTGCATAAGTATTCTTC-A
1 ATTGCACCCAAGAACTATCACTGCATAAATATTCTTCAA
20217552 ATTGCACCCA
1 ATTGCACCCA
20217562 GGAATGTCGC
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
36 5 0.07
37 29 0.43
38 34 0.50
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.29
Consensus pattern (39 bp):
ATTGCACCCAAGAACTATCACTGCATAAATATTCTTCAA
Found at i:20217615 original size:26 final size:26
Alignment explanation
Indices: 20217566--20217618 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
20217556 CACCCAGGAA
*
20217566 TGTCGCTACATGAACATGTACAGAAT
1 TGTCGCTACATGAACATCTACAGAAT
* * *
20217592 TGTCGCTGCATGAACGTCTCCAGAAT
1 TGTCGCTACATGAACATCTACAGAAT
20217618 T
1 T
20217619 ACGCACAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
TGTCGCTACATGAACATCTACAGAAT
Found at i:20219835 original size:194 final size:194
Alignment explanation
Indices: 20219488--20219841 Score: 476
Period size: 194 Copynumber: 1.8 Consensus size: 194
20219478 AAATAAAAAA
* **
20219488 GAAAAGAGATATGAATCCTAGAATGGATTATAGGCCCAATGATGGCTAGGACTTATGCATAAGTG
1 GAAAAGAGATATGAATCCTAGAATGGATTACAGGCCCAACAATGGCTAGGACTTATGCATAAGTG
* ** * * * ***
20219553 CATTCTCCCAACAGCTTGTGTGAGCAACATCATTAGGAGATAGTTATATAACCAAACACTGTTTC
66 CATACTCCCAACAGCTCATGTGAACAACATCATTAGGAGATAGTTATATAAACAAACACCGTAAA
* * *
20219618 GATGGCTAGGGTACCATATATGTTGCGAGTTCTCGATAGCTAGTGTGAGCAGCATCATGAGTTG
131 GATAGCTAGGATACCACATATGTTGCGAGTTCTCGATAGCTAGTGTGAGCAGCATCATGAGTTG
*
20219682 GAAAAGAGATATGAATCCTAGAATGGATTACAGGCCCTACAATGGCT-GAGACTTATGCATAAGT
1 GAAAAGAGATATGAATCCTAGAATGGATTACAGGCCCAACAATGGCTAG-GACTTATGCATAAGT
* ** * * * *
20219746 GGATACTCCTGATAGCTCATGTGAACAGCATCATTAGGAGATAGTTATATAAATAGACACCGTAA
65 GCATACTCCCAACAGCTCATGTGAACAACATCATTAGGAGATAGTTATATAAACAAACACCGTAA
*
20219811 AGATAGCTAGGATACCGCATATGTTGCGAGT
130 AGATAGCTAGGATACCACATATGTTGCGAGT
20219842 CATAGATAAC
Statistics
Matches: 135, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
193 1 0.01
194 134 0.99
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (194 bp):
GAAAAGAGATATGAATCCTAGAATGGATTACAGGCCCAACAATGGCTAGGACTTATGCATAAGTG
CATACTCCCAACAGCTCATGTGAACAACATCATTAGGAGATAGTTATATAAACAAACACCGTAAA
GATAGCTAGGATACCACATATGTTGCGAGTTCTCGATAGCTAGTGTGAGCAGCATCATGAGTTG
Found at i:20229786 original size:97 final size:97
Alignment explanation
Indices: 20229619--20229809 Score: 310
Period size: 97 Copynumber: 2.0 Consensus size: 97
20229609 CTTGAAAACA
* *
20229619 GGTATTCGATTATCCCGGTTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAA
1 GGTATTCGATTATCCCGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGACACAAATTTTCAAAA
* *
20229684 TTCGAAATAAAGGAATGTTGCCTCGATTTAAG
66 CTCGAAATAAAGGAATATTGCCTCGATTTAAG
* **
20229716 GGTATTCGATTATCTCGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGACATGAATTTTCAAAA
1 GGTATTCGATTATCCCGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGACACAAATTTTCAAAA
*
20229781 CTCGAAATAAAGGAATATTGCCTTGATTT
66 CTCGAAATAAAGGAATATTGCCTCGATTT
20229810 TAAAAATTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 86 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (97 bp):
GGTATTCGATTATCCCGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGACACAAATTTTCAAAA
CTCGAAATAAAGGAATATTGCCTCGATTTAAG
Found at i:20230104 original size:30 final size:30
Alignment explanation
Indices: 20230056--20230358 Score: 130
Period size: 30 Copynumber: 10.4 Consensus size: 30
20230046 TAGAGAGCTT
* *
20230056 GGGGTTAAAACGTAATTTTTGAAAGTTTTA
1 GGGGTAAAAATGTAATTTTTGAAAGTTTTA
* * *
20230086 GGGGTAAAAATGTTATTTTAGGAAA-ATTT-
1 GGGGTAAAAATGTAATTTT-TGAAAGTTTTA
* * * * **
20230115 GAGGTAAAAACGTGATTTTTGGAAGTTCGA
1 GGGGTAAAAATGTAATTTTTGAAAGTTTTA
* * * *
20230145 -GAGCAAAAATG-ATTTTTTTG-AAGTTTGA
1 GGGGTAAAAATGTA-ATTTTTGAAAGTTTTA
* *
20230173 -GGGCAAAAATGTGATTTTTGAGAAG-TTTA
1 GGGGTAAAAATGTAATTTTTGA-AAGTTTTA
* * *
20230202 AGGGTCAAAATGTAATTTTTGGAAG-TTT-
1 GGGGTAAAAATGTAATTTTTGAAAGTTTTA
* **
20230230 GGGGAAAAAATGTAATTTTTGAGAAGTTCGA
1 GGGGTAAAAATGTAATTTTTGA-AAGTTTTA
* * * **
20230261 -GGGTTAAAATGTGATTTTTGGAAGTTCGA
1 GGGGTAAAAATGTAATTTTTGAAAGTTTTA
* * **
20230290 -GGG-CAAAATGTAATTTTTGAGAAATTCGA
1 GGGGTAAAAATGTAATTTTTGA-AAGTTTTA
* * *
20230319 -GGATAAAAATGTAATTTTGGAAAAG-TGTA
1 GGGGTAAAAATGTAATTTTTG-AAAGTTTTA
*
20230348 GGGGTTAAAAT
1 GGGGTAAAAAT
20230359 ATGATTTCTG
Statistics
Matches: 208, Mismatches: 50, Indels: 30
0.72 0.17 0.10
Matches are distributed among these distances:
28 58 0.28
29 64 0.31
30 81 0.39
31 5 0.02
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (30 bp):
GGGGTAAAAATGTAATTTTTGAAAGTTTTA
Found at i:20230152 original size:29 final size:29
Alignment explanation
Indices: 20230120--20230340 Score: 202
Period size: 28 Copynumber: 7.7 Consensus size: 29
20230110 AATTTGAGGT
* *
20230120 AAAAACGTGATTTTTGGAAGTTCGAGAGC
1 AAAAATGTGATTTTTGGAAGTTCGAGGGC
* *
20230149 AAAAA--TGATTTTTTTGAAGTTTGAGGGC
1 AAAAATGTGA-TTTTTGGAAGTTCGAGGGC
**
20230177 AAAAATGTGATTTTTGAGAAGTTTAAGGGTC
1 AAAAATGTGATTTTTG-GAAGTTCGAGGG-C
* * *
20230208 -AAAATGTAATTTTTGGAAGTTTG-GGGA
1 AAAAATGTGATTTTTGGAAGTTCGAGGGC
* *
20230235 AAAAATGTAATTTTTGAGAAGTTCGAGGGT
1 AAAAATGTGATTTTTG-GAAGTTCGAGGGC
*
20230265 TAAAATGTGATTTTTGGAAGTTCGAGGGC
1 AAAAATGTGATTTTTGGAAGTTCGAGGGC
* * **
20230294 -AAAATGTAATTTTTGAGAAATTCGAGGAT
1 AAAAATGTGATTTTTG-GAAGTTCGAGGGC
*
20230323 AAAAATGT-AATTTTGGAA
1 AAAAATGTGATTTTTGGAA
20230341 AAGTGTAGGG
Statistics
Matches: 164, Mismatches: 18, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
27 3 0.02
28 56 0.34
29 52 0.32
30 52 0.32
31 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (29 bp):
AAAAATGTGATTTTTGGAAGTTCGAGGGC
Found at i:20230162 original size:28 final size:29
Alignment explanation
Indices: 20230062--20230340 Score: 219
Period size: 29 Copynumber: 9.6 Consensus size: 29
20230052 GCTTGGGGTT
* * ** *
20230062 AAAACGTAATTTTTGAAAGTTTTAGGGGTA
1 AAAATGTAATTTTTGGAAGTTCGA-GGGCA
* * * * *
20230092 AAAATGTTATTTTAGGAAAATTTGA-GGTA
1 AAAATGTAATTTTTGG-AAGTTCGAGGGCA
* * *
20230121 AAAACGTGATTTTTGGAAGTTCGAGAGCA
1 AAAATGTAATTTTTGGAAGTTCGAGGGCA
* * *
20230150 AAAATG-ATTTTTTTGAAGTTTGAGGGCA
1 AAAATGTAATTTTTGGAAGTTCGAGGGCA
* **
20230178 AAAATGTGATTTTTGAGAAGTTTAAGGGTC-
1 AAAATGTAATTTTTG-GAAGTTCGAGGG-CA
* *
20230208 AAAATGTAATTTTTGGAAGTTTG-GGGAA
1 AAAATGTAATTTTTGGAAGTTCGAGGGCA
**
20230236 AAAATGTAATTTTTGAGAAGTTCGAGGGTT
1 AAAATGTAATTTTTG-GAAGTTCGAGGGCA
*
20230266 AAAATGTGATTTTTGGAAGTTCGAGGGC-
1 AAAATGTAATTTTTGGAAGTTCGAGGGCA
* **
20230294 AAAATGTAATTTTTGAGAAATTCGAGGATA
1 AAAATGTAATTTTTG-GAAGTTCGAGGGCA
20230324 AAAATGTAA-TTTTGGAA
1 AAAATGTAATTTTTGGAA
20230341 AAGTGTAGGG
Statistics
Matches: 204, Mismatches: 35, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
28 64 0.31
29 70 0.34
30 63 0.31
31 7 0.03
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTCGAGGGCA
Found at i:20230256 original size:116 final size:114
Alignment explanation
Indices: 20230062--20230341 Score: 305
Period size: 116 Copynumber: 2.4 Consensus size: 114
20230052 GCTTGGGGTT
* * * * *
20230062 AAAACGTAATTTTTGA-AAGTTTTAGGGGTAAAAATGTTATTTTAGGAAAATTTGAGGTAAAAAC
1 AAAATGTAATTTTTGAGAAG-TTTAAGGGTAAAAATGTAATTTTTGG-AAATTTGAGGAAAAAAC
* * *
20230126 GTGATTTTTGGAAGTTCGAGAGCAAAAATG-ATTTTTTTGAAGTTTGAGGGC
64 GTAATTTTTGGAAGTTCGAGAGCAAAAATGTA-TTTTTGGAAGTTCGAGGGC
* * * * *
20230177 AAAAATGTGATTTTTGAGAAGTTTAAGGGTCAAAATGTAATTTTTGGAAGTTTGGGGAAAAAATG
1 -AAAATGTAATTTTTGAGAAGTTTAAGGGTAAAAATGTAATTTTTGGAAATTTGAGGAAAAAACG
* **
20230242 TAATTTTTGAGAAGTTCGAGGGTTAAAATGTGATTTTTGGAAGTTCGAGGGC
65 TAATTTTTG-GAAGTTCGAGAGCAAAAATGT-ATTTTTGGAAGTTCGAGGGC
* ** *
20230294 AAAATGTAATTTTTGAGAAATTCGAGGATAAAAATGTAA-TTTTGGAAA
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTAAAAATGTAATTTTTGGAAA
20230342 AGTGTAGGGG
Statistics
Matches: 137, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
115 30 0.22
116 86 0.63
117 20 0.15
118 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (114 bp):
AAAATGTAATTTTTGAGAAGTTTAAGGGTAAAAATGTAATTTTTGGAAATTTGAGGAAAAAACGT
AATTTTTGGAAGTTCGAGAGCAAAAATGTATTTTTGGAAGTTCGAGGGC
Found at i:20230270 original size:88 final size:86
Alignment explanation
Indices: 20230129--20230377 Score: 261
Period size: 88 Copynumber: 2.8 Consensus size: 86
20230119 TAAAAACGTG
* * ** * **
20230129 ATTTTTGGAAGTTCGAGAGCAAAAATG--ATTTTTTTGAAGTTTGAGGGCAAAAATGTGATTTTT
1 ATTTTTGGAAGTTCG-GGGAAAAAATGTAATTTTTGAGAAGTTAGAGGGTTAAAATGTGATTTTT
*
20230192 GAGAAGTTTAAGGGTCAAAATGTA
65 G-GAAGTTCAAGGG-CAAAATGTA
* *
20230216 ATTTTTGGAAGTTTGGGGAAAAAATGTAATTTTTGAGAAGTTCGAGGGTTAAAATGTGATTTTTG
1 ATTTTTGGAAGTTCGGGGAAAAAATGTAATTTTTGAGAAGTTAGAGGGTTAAAATGTGATTTTTG
*
20230281 GAAGTTCGAGGGCAAAATGTA
66 GAAGTTCAAGGGCAAAATGTA
* * * * *
20230302 ATTTTTGAGAAATTCGAGGATAAAAATGTAATTTTGGAAAAGTGTAG-GGGTTAAAATATGATTT
1 ATTTTTG-GAAGTTCGGGGA-AAAAATGTAATTTTTGAGAAGT-TAGAGGGTTAAAATGTGATTT
*
20230366 CTGGACAGTTCA
63 TTGGA-AGTTCA
20230378 GGGACCTTCT
Statistics
Matches: 137, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
86 25 0.18
87 33 0.24
88 72 0.53
89 7 0.05
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (86 bp):
ATTTTTGGAAGTTCGGGGAAAAAATGTAATTTTTGAGAAGTTAGAGGGTTAAAATGTGATTTTTG
GAAGTTCAAGGGCAAAATGTA
Found at i:20232086 original size:23 final size:23
Alignment explanation
Indices: 20232055--20232098 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20232045 CATTATTTAT
* *
20232055 TTTAGATTTGAAATAAATTTAAA
1 TTTAAATTTAAAATAAATTTAAA
20232078 TTTAAATTTAAAATAAATTTA
1 TTTAAATTTAAAATAAATTTA
20232099 CAACTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (23 bp):
TTTAAATTTAAAATAAATTTAAA
Found at i:20232094 original size:17 final size:16
Alignment explanation
Indices: 20232074--20232117 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
20232064 GAAATAAATT
*
20232074 TAAATTTAAATTTAAAA
1 TAAATTTAAA-CTAAAA
20232091 TAAATTTACAACTAAAA
1 TAAATTTA-AACTAAAA
*
20232108 CAAATTTAAA
1 TAAATTTAAA
20232118 AAAAATGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 20 0.83
18 2 0.08
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAATTTAAACTAAAA
Found at i:20232106 original size:12 final size:11
Alignment explanation
Indices: 20232060--20232098 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
20232050 TTTATTTTAG
*
20232060 ATTTGAAATAA
1 ATTTAAAATAA
*
20232071 ATTTAAATTTAA
1 ATTTAAA-ATAA
20232083 ATTTAAAATAA
1 ATTTAAAATAA
20232094 ATTTA
1 ATTTA
20232099 CAACTAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
ATTTAAAATAA
Found at i:20232106 original size:23 final size:23
Alignment explanation
Indices: 20232060--20232106 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
20232050 TTTATTTTAG
* *
20232060 ATTTGAAATAAATTTAAATTTAA
1 ATTTAAAATAAATTTAAATCTAA
20232083 ATTTAAAATAAATTTACAA-CTAA
1 ATTTAAAATAAATTTA-AATCTAA
20232106 A
1 A
20232107 ACAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (23 bp):
ATTTAAAATAAATTTAAATCTAA
Found at i:20252739 original size:17 final size:17
Alignment explanation
Indices: 20252717--20252749 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20252707 ATCGCATAAA
20252717 AAAAAGAGAAAAGAAAG
1 AAAAAGAGAAAAGAAAG
*
20252734 AAAAAGATAAAAGAAA
1 AAAAAGAGAAAAGAAA
20252750 AAATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAAGAGAAAAGAAAG
Found at i:20256651 original size:40 final size:40
Alignment explanation
Indices: 20256591--20256697 Score: 160
Period size: 40 Copynumber: 2.7 Consensus size: 40
20256581 GGAAAGAAAA
**
20256591 CGCCACAAAAGGTAAAGCAATAGCGGCATTTTTCTGTAAG
1 CGCCACAAAAGGTAAAGCAATAGCGGCATTTTTCCATAAG
* **
20256631 CGCCGCAAAAGGTAAAGCAATAGCGGTGTTTTTCCATAAG
1 CGCCACAAAAGGTAAAGCAATAGCGGCATTTTTCCATAAG
*
20256671 CGCCACAAAAGGGAAAGCAATAGCGGC
1 CGCCACAAAAGGTAAAGCAATAGCGGC
20256698 GTTTATAGGG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (40 bp):
CGCCACAAAAGGTAAAGCAATAGCGGCATTTTTCCATAAG
Found at i:20258598 original size:19 final size:19
Alignment explanation
Indices: 20258576--20258628 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
20258566 ATGAAGCTTG
*
20258576 TTTTTAATCTATTTTATAT
1 TTTTTAATCTGTTTTATAT
20258595 TTTTTAATCTGTTTTATAT
1 TTTTTAATCTGTTTTATAT
20258614 TTTTTAATCTGTTTT
1 TTTTTAATCTGTTTT
20258629 TAATCCAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTTTAATCTGTTTTATAT
Found at i:20261079 original size:14 final size:14
Alignment explanation
Indices: 20261060--20261088 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20261050 CTCTCTTCAA
20261060 TTAAAAGATTTAAT
1 TTAAAAGATTTAAT
20261074 TTAAAAGATTTAAT
1 TTAAAAGATTTAAT
20261088 T
1 T
20261089 ATTTAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TTAAAAGATTTAAT
Found at i:20261092 original size:22 final size:21
Alignment explanation
Indices: 20261067--20261140 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
20261057 CAATTAAAAG
20261067 ATTTAATTTAAAAGATTTAATT
1 ATTTAATTTAAAA-ATTTAATT
** *
20261089 ATTTAATTATATTTAA-TTAAAT
1 ATTTAATT-TA-AAAATTTAATT
**
20261111 ATGAAATTTAAAATATTTAATT
1 ATTTAATTTAAAA-ATTTAATT
20261133 ATTTAATT
1 ATTTAATT
20261141 ATTTAATTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
20 1 0.03
21 3 0.08
22 30 0.79
23 3 0.08
24 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
ATTTAATTTAAAAATTTAATT
Found at i:20261122 original size:44 final size:42
Alignment explanation
Indices: 20261071--20261154 Score: 141
Period size: 44 Copynumber: 2.0 Consensus size: 42
20261061 TAAAAGATTT
20261071 AATTTAAAAGATTTAATTATTTAATTATATTTAATTAAATATGA
1 AATTTAAAAGATTTAATTATTTAA-T-TATTTAATTAAATATGA
*
20261115 AATTTAAAATATTTAATTATTTAATTATTTAATTAAATAT
1 AATTTAAAAGATTTAATTATTTAATTATTTAATTAAATAT
20261155 TTAATTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 15 0.38
43 1 0.03
44 23 0.59
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (42 bp):
AATTTAAAAGATTTAATTATTTAATTATTTAATTAAATATGA
Done.