Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 52 of 59
Found at i:18820255 original size:142 final size:139
Alignment explanation
Indices: 18819943--18820222 Score: 377
Period size: 142 Copynumber: 2.0 Consensus size: 139
18819933 GTCCTTAAGA
*
18819943 AGCCCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAAT
1 AGCCCAA-TAACTTAATTCTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAAT
*
18820008 TAATTAAGCCCAACAATTTAATTAAACAATTTTAATCAACTAGGCCTAATGACTTAATTAAACAA
65 TAATTAAGCCCAACAATTCAATTAAACAATTTTAATCAACTAGGCC-AA-GACTTAATTAAACAA
*
18820073 ATTTAATCAATT
128 ATTTAATCAAGT
* * *
18820085 AGGCCCAATAACTTAATTGTTTAATTTAATTAATTAGGCCCAATGACTTAATTAAACAATTTAAT
1 A-GCCCAATAACTTAATTCTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAAT
* ** * * * *
18820150 TAATTAGGCCCAATGATTCAATTAAACAA-TTTAGTTAATTAGG-CACA-ACTTAATTAAACAAT
65 TAATTAAGCCCAACAATTCAATTAAACAATTTTAATCAACTAGGCCA-AGACTTAATTAAACAAA
18820212 TTTAATCAAGT
129 TTTAATCAAGT
18820223 GCTTGAGAAA
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
138 24 0.19
139 1 0.01
140 2 0.02
141 11 0.09
142 81 0.65
143 6 0.05
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (139 bp):
AGCCCAATAACTTAATTCTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATT
AATTAAGCCCAACAATTCAATTAAACAATTTTAATCAACTAGGCCAAGACTTAATTAAACAAATT
TAATCAAGT
Found at i:18834307 original size:38 final size:37
Alignment explanation
Indices: 18834260--18834347 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
18834250 AGAAGTTTTA
* * *
18834260 TTAAAGTCAGTTTACTTATCATGTTTAAGTTAGTGGAG
1 TTAAGGTCAGTTTA-TTATCATGTTTAAATTAATGGAG
* *
18834298 TTAAGGTCAGTTTATTATTATGTTTAAATTAATGGGG
1 TTAAGGTCAGTTTATTATCATGTTTAAATTAATGGAG
18834335 TT-AGGT-AGTTTAT
1 TTAAGGTCAGTTTAT
18834348 AAGTTTTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 7 0.16
36 4 0.09
37 21 0.47
38 13 0.29
ACGTcount: A:0.28, C:0.05, G:0.22, T:0.45
Consensus pattern (37 bp):
TTAAGGTCAGTTTATTATCATGTTTAAATTAATGGAG
Found at i:18835127 original size:12 final size:13
Alignment explanation
Indices: 18835112--18835142 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
18835102 ATAAATTTTT
18835112 TTTTAAAATTTG-
1 TTTTAAAATTTGA
18835124 TTTTAAAATTTGA
1 TTTTAAAATTTGA
18835137 TTTTAA
1 TTTTAA
18835143 TTAATATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (13 bp):
TTTTAAAATTTGA
Found at i:18835173 original size:36 final size:35
Alignment explanation
Indices: 18835133--18835203 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 35
18835123 GTTTTAAAAT
18835133 TTGATTTTAATTAATATGTGATAAATTCTATTGTA
1 TTGATTTTAATTAATATGTGATAAATTCTATTGTA
*
18835168 NTTGATTTTAATTATTATGTGATAAATTCTATTGTA
1 -TTGATTTTAATTAATATGTGATAAATTCTATTGTA
18835204 AATTTCATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.52
Consensus pattern (35 bp):
TTGATTTTAATTAATATGTGATAAATTCTATTGTA
Found at i:18841878 original size:3 final size:3
Alignment explanation
Indices: 18841870--18841910 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
18841860 AGAAGGGTTA
18841870 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18841911 AAAAGAGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18843795 original size:3 final size:3
Alignment explanation
Indices: 18843787--18843812 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18843777 AGTATAAGTA
18843787 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
18843813 CTACTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18855396 original size:15 final size:16
Alignment explanation
Indices: 18855378--18855410 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18855368 TTTCTCCCTC
18855378 TTTCT-TTTTATTTTT
1 TTTCTCTTTTATTTTT
*
18855393 TTTCTCTTTTGTTTTT
1 TTTCTCTTTTATTTTT
18855409 TT
1 TT
18855411 ATTTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTCTCTTTTATTTTT
Found at i:18856458 original size:16 final size:16
Alignment explanation
Indices: 18856429--18856469 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
18856419 CAATTTATTC
18856429 AGTAAATAGA-TAAATA
1 AGTAAATA-ACTAAATA
18856445 CA-TAAATAACTAAATA
1 -AGTAAATAACTAAATA
18856461 AGTAAATAA
1 AGTAAATAA
18856470 AACATTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.09
16 19 0.86
17 1 0.05
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (16 bp):
AGTAAATAACTAAATA
Found at i:18862112 original size:13 final size:13
Alignment explanation
Indices: 18862088--18862150 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
18862078 TACGTCTTTC
18862088 TCTTTTTT--TTT
1 TCTTTTTTCATTT
18862099 TCTTTTTTCATTT
1 TCTTTTTTCATTT
* **
18862112 TATTTCATCATTT
1 TCTTTTTTCATTT
*
18862125 T-TTGTTTCATTT
1 TCTTTTTTCATTT
*
18862137 TCATTTTTCATTT
1 TCTTTTTTCATTT
18862150 T
1 T
18862151 TTCATTCATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
11 8 0.20
12 9 0.22
13 24 0.59
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.75
Consensus pattern (13 bp):
TCTTTTTTCATTT
Found at i:18862127 original size:21 final size:21
Alignment explanation
Indices: 18862101--18862170 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 21
18862091 TTTTTTTTTC
18862101 TTTTTTCATTTTATTTCATCA
1 TTTTTTCATTTTATTTCATCA
* *
18862122 TTTTTT-GTTTCATTT--TCA
1 TTTTTTCATTTTATTTCATCA
18862140 -TTTTTCA-TTT-TTTCATTCA
1 TTTTTTCATTTTATTTCA-TCA
*
18862159 TTTTTTTATTTT
1 TTTTTTCATTTT
18862171 GTTTTTTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
16 3 0.08
17 7 0.18
18 3 0.08
19 3 0.08
20 13 0.34
21 9 0.24
ACGTcount: A:0.14, C:0.11, G:0.01, T:0.73
Consensus pattern (21 bp):
TTTTTTCATTTTATTTCATCA
Found at i:18862134 original size:25 final size:25
Alignment explanation
Indices: 18862104--18862162 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
18862094 TTTTTTCTTT
*
18862104 TTTCATTTT-ATTTCATCATTTTTTG
1 TTTCATTTTCATTT-ATCATTTTTTC
*
18862129 TTTCATTTTCATTTTTCATTTTTTC
1 TTTCATTTTCATTTATCATTTTTTC
*
18862154 ATTCATTTT
1 TTTCATTTT
18862163 TTTATTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.15, C:0.14, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTCATTTTCATTTATCATTTTTTC
Found at i:18862163 original size:13 final size:11
Alignment explanation
Indices: 18862101--18862165 Score: 58
Period size: 12 Copynumber: 5.4 Consensus size: 11
18862091 TTTTTTTTTC
18862101 TTTTTTCATTT
1 TTTTTTCATTT
*
18862112 TATTTCATCATTT
1 T-TTT-TTCATTT
18862125 TTTGTTTCATTT
1 TTT-TTTCATTT
18862137 TCATTTTTCATTT
1 T--TTTTTCATTT
*
18862150 TTTCATTCATTT
1 TTT-TTTCATTT
18862162 TTTT
1 TTTT
18862166 ATTTTGTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
11 3 0.07
12 22 0.50
13 17 0.39
14 2 0.05
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTTTTCATTT
Found at i:18862193 original size:20 final size:20
Alignment explanation
Indices: 18862168--18862223 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
18862158 ATTTTTTTAT
18862168 TTTGTTTTTTTTGTATCTTA
1 TTTGTTTTTTTTGTATCTTA
*
18862188 TTTGTTGTTTTTT-TTTCTTA
1 TTTGTT-TTTTTTGTATCTTA
*
18862208 TTATTTATTTTTTTGT
1 TT-TGT-TTTTTTTGT
18862224 CTGTCTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 14 0.47
21 14 0.47
22 2 0.07
ACGTcount: A:0.09, C:0.04, G:0.09, T:0.79
Consensus pattern (20 bp):
TTTGTTTTTTTTGTATCTTA
Found at i:18877094 original size:16 final size:16
Alignment explanation
Indices: 18877065--18877105 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
18877055 CAATTTATTT
18877065 AGTAAATACA-TAAATA
1 AGTAAATA-ATTAAATA
18877081 CA-TAAATAATTAAATA
1 -AGTAAATAATTAAATA
18877097 AGTAAATAA
1 AGTAAATAA
18877106 AATATTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.09
16 19 0.86
17 1 0.05
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (16 bp):
AGTAAATAATTAAATA
Found at i:18878933 original size:25 final size:25
Alignment explanation
Indices: 18878891--18878938 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
18878881 TTAATAATTA
18878891 ATAATTTAAATATCAATATTTTAGT
1 ATAATTTAAATATCAATATTTTAGT
* *
18878916 ATAATTTAATTATTAATATTTTA
1 ATAATTTAAATATCAATATTTTA
18878939 ATTACTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
ATAATTTAAATATCAATATTTTAGT
Found at i:18878939 original size:40 final size:41
Alignment explanation
Indices: 18878881--18878970 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
18878871 AATTAAAATA
*
18878881 TTAATAATTAATAATTTAAATA-TCAATATTTTA-GTATAAT
1 TTAATTATTAATAATTTAAATACT-AATATTTTATGTATAAT
* * *
18878921 TTAATTATTAATATTTTAATTACTAATATTTTATTTATAAT
1 TTAATTATTAATAATTTAAATACTAATATTTTATGTATAAT
18878962 TTAA-TATTA
1 TTAATTATTA
18878971 TTATGATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 33 0.75
41 11 0.25
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (41 bp):
TTAATTATTAATAATTTAAATACTAATATTTTATGTATAAT
Found at i:18878940 original size:15 final size:15
Alignment explanation
Indices: 18878846--18878958 Score: 74
Period size: 15 Copynumber: 7.7 Consensus size: 15
18878836 TTATTTTATT
*
18878846 TTTTAAATATTAATA
1 TTTTAATTATTAATA
*
18878861 GTTTATAATTAATTAAAA
1 -TTT-TAATT-ATTAATA
* *
18878879 TATTAATAATTAATA
1 TTTTAATTATTAATA
* * *
18878894 ATTTAAATATCAATA
1 TTTTAATTATTAATA
*
18878909 TTTT-AGTA-T-A-A
1 TTTTAATTATTAATA
18878920 -TTTAATTATTAATA
1 TTTTAATTATTAATA
*
18878934 TTTTAATTACTAATA
1 TTTTAATTATTAATA
*
18878949 TTTTATTTAT
1 TTTTAATTAT
18878959 AATTTAATAT
Statistics
Matches: 73, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
10 3 0.04
11 4 0.05
12 2 0.03
13 1 0.01
14 4 0.05
15 40 0.55
16 7 0.10
17 6 0.08
18 6 0.08
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TTTTAATTATTAATA
Found at i:18879040 original size:16 final size:15
Alignment explanation
Indices: 18879017--18879085 Score: 52
Period size: 16 Copynumber: 4.5 Consensus size: 15
18879007 ATACTCATTC
18879017 AAAATTTAATATATT
1 AAAATTTAATATATT
*
18879032 AATAATTTAATA-AAT
1 AA-AATTTAATATATT
*
18879047 AAAACATTAATAGT-TT
1 AAAA-TTTAATA-TATT
*
18879063 AAAATATTAATATTTT
1 AAAAT-TTAATATATT
*
18879079 AATATTT
1 AAAATTT
18879086 TAATCANAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
14 2 0.05
15 15 0.35
16 26 0.60
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (15 bp):
AAAATTTAATATATT
Found at i:18879213 original size:26 final size:24
Alignment explanation
Indices: 18879154--18879275 Score: 101
Period size: 26 Copynumber: 4.9 Consensus size: 24
18879144 TATTTATAAT
18879154 TTAATCATTT-ATATTTTAAA-ATA
1 TTAAT-ATTTAATATTTTAAATATA
*
18879177 TTAACATTTTAAATTATTTTAAATATA
1 TTAATA-TTT-AA-TATTTTAAATATA
*
18879204 TTAATATTTAATATTTT-AATCATG
1 TTAATATTTAATATTTTAAAT-ATA
18879228 TTAATA-TTAATAATGTTTAAATTATA
1 TTAATATTTAAT-AT-TTTAAA-TATA
18879254 TATAA-ATATTAATATTTTAAAT
1 T-TAATAT-TTAATATTTTAAAT
18879276 TTTACAAATA
Statistics
Matches: 82, Mismatches: 4, Indels: 24
0.75 0.04 0.22
Matches are distributed among these distances:
22 1 0.01
23 15 0.18
24 16 0.20
25 7 0.09
26 24 0.29
27 14 0.17
28 5 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTAATATTTAATATTTTAAATATA
Found at i:18879222 original size:15 final size:15
Alignment explanation
Indices: 18879144--18879235 Score: 62
Period size: 15 Copynumber: 5.7 Consensus size: 15
18879134 ATTAGTATTT
*
18879144 TATTT-ATAATTTAA
1 TATTTAATATTTTAA
18879158 TCATTT-ATATTTTAA
1 T-ATTTAATATTTTAA
* *
18879173 AATATTAACATTTTAAA
1 TAT-TTAATATTTT-AA
*
18879190 TTATTTTAAATATATTAA
1 -TA-TTT-AATATTTTAA
18879208 TATTTAATATTTTAA
1 TATTTAATATTTTAA
18879223 TCATGTTAATATT
1 T-AT-TTAATATT
18879236 AATAATGTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
14 3 0.05
15 24 0.39
16 11 0.18
17 12 0.19
18 5 0.08
19 7 0.11
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (15 bp):
TATTTAATATTTTAA
Found at i:18879237 original size:15 final size:14
Alignment explanation
Indices: 18879201--18879273 Score: 53
Period size: 15 Copynumber: 5.1 Consensus size: 14
18879191 TATTTTAAAT
18879201 ATATTAATAT-TTA
1 ATATTAATATGTTA
18879214 ATATTTTAATCATGTTA
1 ATA--TTAAT-ATGTTA
18879231 ATATTAATAATGTTTA
1 ATATTAAT-ATG-TTA
* *
18879247 A-ATT-ATATATAA
1 ATATTAATATGTTA
*
18879259 ATATTAATATTTTA
1 ATATTAATATGTTA
18879273 A
1 A
18879274 ATTTTACAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
12 3 0.06
13 8 0.17
14 9 0.19
15 16 0.33
16 6 0.12
17 6 0.12
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (14 bp):
ATATTAATATGTTA
Found at i:18900940 original size:27 final size:29
Alignment explanation
Indices: 18900910--18900965 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 29
18900900 ACTTAAAAAA
18900910 AAATTTAATTAT-TTTTTAT-TTTGTATT
1 AAATTTAATTATATTTTTATATTTGTATT
*
18900937 AAATTTAATTATATTTTTATATTTTTATT
1 AAATTTAATTATATTTTTATATTTGTATT
18900966 TTGAATCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 12 0.46
28 7 0.27
29 7 0.27
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (29 bp):
AAATTTAATTATATTTTTATATTTGTATT
Found at i:18905296 original size:34 final size:33
Alignment explanation
Indices: 18905258--18905338 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 33
18905248 GTGAAAGATG
* *
18905258 AACATA-CGACGTAATCATATTATTATATCATAAT
1 AACATATC-ACGTAATCAT-CTATTATAACATAAT
*
18905292 AACATATCACGTTATCATCTATTATAACAT-AT
1 AACATATCACGTAATCATCTATTATAACATAAT
*
18905324 CAACATGTCACGTAA
1 -AACATATCACGTAA
18905339 ATATCATATG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 2 0.05
33 22 0.55
34 15 0.38
35 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (33 bp):
AACATATCACGTAATCATCTATTATAACATAAT
Found at i:18905401 original size:23 final size:23
Alignment explanation
Indices: 18905375--18905425 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
18905365 CAATTAATCA
18905375 TAAAAACTTTGA-TTGAATATTAT
1 TAAAAACTTTGATTTGAAT-TTAT
* * *
18905398 TAAAAAGTTTTATTTGAATTTTT
1 TAAAAACTTTGATTTGAATTTAT
18905421 TAAAA
1 TAAAA
18905426 TATTTCGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (23 bp):
TAAAAACTTTGATTTGAATTTAT
Found at i:18908191 original size:13 final size:13
Alignment explanation
Indices: 18908169--18908200 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18908159 TTACTCACAC
18908169 GATATATTGATAT
1 GATATATTGATAT
*
18908182 GATATGTTGATAT
1 GATATATTGATAT
18908195 GATATA
1 GATATA
18908201 ATGACGTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (13 bp):
GATATATTGATAT
Found at i:18910907 original size:2 final size:2
Alignment explanation
Indices: 18910894--18910925 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
18910884 TTCATAACAA
*
18910894 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18910926 TCCGAATCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18916470 original size:16 final size:15
Alignment explanation
Indices: 18916451--18916480 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18916441 GAGAAGAAAA
18916451 AGAGAAAAAGAAAGAG
1 AGAGAAAAA-AAAGAG
18916467 AGAGAAAAAAAAGA
1 AGAGAAAAAAAAGA
18916481 TGTGAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AGAGAAAAAAAAGAG
Found at i:18916553 original size:16 final size:15
Alignment explanation
Indices: 18916527--18916561 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
18916517 AGTTTATGAA
*
18916527 ATTATTTTATTATTT
1 ATTATTTTATTAATT
18916542 ATTATTTATATTAATT
1 ATTATTT-TATTAATT
18916558 ATTA
1 ATTA
18916562 AATAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTATTTTATTAATT
Found at i:18928959 original size:21 final size:21
Alignment explanation
Indices: 18928935--18928984 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
18928925 TATGGCATGC
*
18928935 CTAAGGGCCATGTTTTTGTGT
1 CTAAGGGCCATGTTTTTGTAT
18928956 CTAAGGGCCATGTTTTTGTAT
1 CTAAGGGCCATGTTTTTGTAT
18928977 CTAAGGGC
1 CTAAGGGC
18928985 TGTCCATGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (21 bp):
CTAAGGGCCATGTTTTTGTAT
Found at i:18934492 original size:5 final size:5
Alignment explanation
Indices: 18934482--18934515 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
18934472 TTTGGTTAAA
18934482 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAAG GAA
1 GAAAG GAAAG GAAAG GAAAG GAAAG G-AAAG GAA
18934516 TGCAGAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:18945215 original size:3 final size:3
Alignment explanation
Indices: 18945209--18945233 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18945199 CCTGGGGTGG
18945209 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
18945234 CATGGGGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:18949514 original size:36 final size:36
Alignment explanation
Indices: 18949474--18949642 Score: 251
Period size: 36 Copynumber: 4.9 Consensus size: 36
18949464 GCTGCGGTGG
*
18949474 TGGTGGTGGTTGAGGCAATGGAGGTTGAGGAAGTGC
1 TGGTGGTGGTTGAGGCAATGGAGGTTGAGGAAGAGC
*
18949510 TGGTGGTGGTTGAGGCAATGGAGGTTGAGGAGGAGC
1 TGGTGGTGGTTGAGGCAATGGAGGTTGAGGAAGAGC
*
18949546 TGGTGGTGGTTGAGGCAATGGAGGTTGAGGAGGAGC
1 TGGTGGTGGTTGAGGCAATGGAGGTTGAGGAAGAGC
18949582 TGGTGGTGGTTGAGGCAATGGAGGTTGAGG-AG-GC
1 TGGTGGTGGTTGAGGCAATGGAGGTTGAGGAAGAGC
* *
18949616 T--T--AGGTTGAGGCAATGGTGGTTGAGGA
1 TGGTGGTGGTTGAGGCAATGGAGGTTGAGGA
18949643 GATGGAGGTT
Statistics
Matches: 127, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
30 22 0.17
32 1 0.01
34 3 0.02
35 1 0.01
36 100 0.79
ACGTcount: A:0.20, C:0.05, G:0.51, T:0.24
Consensus pattern (36 bp):
TGGTGGTGGTTGAGGCAATGGAGGTTGAGGAAGAGC
Found at i:18949573 original size:15 final size:15
Alignment explanation
Indices: 18949553--18949702 Score: 64
Period size: 15 Copynumber: 9.6 Consensus size: 15
18949543 AGCTGGTGGT
18949553 GGTTGAGGCAATGGA
1 GGTTGAGGCAATGGA
*
18949568 GGTTGAGG-AGGAGCTGGT
1 GGTTGAGGCA--A--TGGA
18949586 GGTGGTTGAGGCAATGGA
1 GGT--T-GAGGCAATGGA
18949604 GGTTGAGG--A-GGCTTA
1 GGTTGAGGCAATGG---A
*
18949619 GGTTGAGGCAATGGT
1 GGTTGAGGCAATGGA
18949634 GGTTGAGG-AGATGGA
1 GGTTGAGGCA-ATGGA
18949649 GGTTGAGG--A-GGCTTA
1 GGTTGAGGCAATGG---A
*
18949664 GGTTGAGGCGATGGA
1 GGTTGAGGCAATGGA
***
18949679 GGTTGAGTTGATGGA
1 GGTTGAGGCAATGGA
18949694 GGTTGAGGC
1 GGTTGAGGC
18949703 GGCAGCTTAG
Statistics
Matches: 106, Mismatches: 8, Indels: 42
0.68 0.05 0.27
Matches are distributed among these distances:
12 4 0.04
13 2 0.02
14 2 0.02
15 71 0.67
16 2 0.02
17 2 0.02
18 16 0.15
20 2 0.02
21 4 0.04
22 1 0.01
ACGTcount: A:0.21, C:0.05, G:0.50, T:0.24
Consensus pattern (15 bp):
GGTTGAGGCAATGGA
Found at i:18949635 original size:45 final size:45
Alignment explanation
Indices: 18949589--18950816 Score: 482
Period size: 45 Copynumber: 27.4 Consensus size: 45
18949579 AGCTGGTGGT
* *
18949589 GGTTGAGGCAATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGA
* *
18949634 GGTTGAGGAGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGA
** * *
18949679 GGTTGAGTTGATGGAGGTTGAGGCGGCAGCTTAGGTTGAGGCAATGGT
1 GGTTGAGGCGATGGAGGTTGAGG-AG--GCTTAGGTTGAGGCAATGGA
* * *
18949727 GGTTGAGGGGATGGAGG-CG-GCA-GCTTAGGTTGAGG-AGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCA-ATGGA
* * * * *
18949769 GGTTGTGGCGATGGAGGTTGTGGAGGCTTCGGTTGA-GAAGATGGT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCA-ATGGA
*
18949814 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGA
* * * * *
18949859 GGTTGAGGCAATGGTGGTTGAGGCGGCTTAGGTTGTGGCGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGA
* * * * * * * * * *
18949904 GGTTGTGGAGGCT-TAGGCTGTGG-CGATGGAGGTTGAGGCGATGGA
1 GGTTGAGG-CGATGGAGGTTGAGGAGGCT-TAGGTTGAGGCAATGGA
* * *
18949949 GGTTGAGGAAGCT-TAGGTTGAGGCGATGG--T-GGTTGAGG-AGATGGA
1 GGTTGAGG-CGATGGAGGTTGA-G-GA-GGCTTAGGTTGAGGCA-ATGGA
* * * *
18949994 GGTTGTGGCGATGGAGGTTGTGGAGGCTTAGGTTGTGGCGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGA
* * * *
18950039 GGTTGATGTGATGGTGGTTGAGGAGGCTTAGGTTGAGG-AGATGGT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCA-ATGGA
* * * ** *
18950084 GGTTGTGGAGGCT-TTGGTTGAGGAGATG-GT-GGTTGAGG-AGATGGA
1 GGTTGAGG-CGATGGAGGTTGAGGAG--GCTTAGGTTGAGGCA-ATGGA
* * * * *
18950129 GGTTGAGGAGGCT-TAGGTTGAGGAGATG-GT-GGTTGTGGAGGC--T-TA
1 GGTTGAGG-CGATGGAGGTTGAGGAG--GCTTAGG-T-T-GAGGCAATGGA
* * * *
18950174 GGTTGAGGCGATGGTGGTTGAGGA-GATGGAGGTTGAGG-AA-GCTTA
1 GGTTGAGGCGATGGAGGTTGAGGAGGCT-TAGGTTGAGGCAATG--GA
* *
18950219 GGTTGAGGCGATGGTGGTTGAGGAGGCTTAGGTTGAGGCAATGGT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGA
*
18950264 GGTTGAGGAGATGGAGGTTGAGGCAATGG---AGGTTGAGG--A-GGCTTA
1 GGTTGAGGCGATGGAGGTTGAGG--A-GGCTTAGGTTGAGGCAATGG---A
* * * *
18950309 GGTTGTGGTGATGGAGGTTGAGGAGATG-GT-GGTTGTGGAGGC--T-TA
1 GGTTGAGGCGATGGAGGTTGAGGAG--GCTTAGG-T-T-GAGGCAATGGA
* * * * *
18950354 GGTTGTGGCAATGGTGGTTGAGGAGGTTTAGGTTGAGG-AGATGGT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCA-ATGGA
* * * ** * * *
18950399 GGTTGTGGAGGCT-TTGGTTGAGGA-GATGGAGGTTGAGG-AA-GCTTA
1 GGTTGAGG-CGATGGAGGTTGAGGAGGCT-TAGGTTGAGGCAATG--GA
* * *
18950444 GGTTGAGGCGATGGTGGTTGAGGA-GATGGAGGTTGAGG--A-GGCTTA
1 GGTTGAGGCGATGGAGGTTGAGGAGGCT-TAGGTTGAGGCAATGG---A
* * *
18950489 GGTTGAGGCGATGGAGGTTGTGGAGGCTTAGGTTGTGGCGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGA
* *
18950534 GGTTGAGGCGATGGTGGTTGAGGAGGCTTAGGTTGAGG-AGATGGT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCA-ATGGA
* * ** *
18950579 TGTGGAGGC--T-TTGGTTGAGGAGATG-GT-GGTTGAGG-AGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGAG--GCTTAGGTTGAGGCA-ATGGA
* * * *
18950621 GGTTGAGGAGGCT-TAGGTTGAGGTA---TGAGGTTGAGG-AGATGGA
1 GGTTGAGG-CGATGGAGGTTGAGG-AGGCTTAGGTTGAGGCA-ATGGA
* *
18950664 GGTTGAGGCAGCT-TAGGTTGAGGCGATGG--T-GGTTGAGG--A-GGCTTA
1 GGTTGAGGC-GATGGAGGTTGA-G-GA-GGCTTAGGTTGAGGCAATGG---A
* * * *
18950709 GGTTGAGGTGATGGAGGTTGAGGCGGCTTAGGTTGAGGCGATGGT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGA
* * * * *
18950754 GATGGAGGTTGA-GGAGGTTGAGGAGGTTTAGGTTGAGGCGATGGA
1 GGTTGAGG-CGATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGA
*
18950799 GGTTGAGGCAATGGAGGT
1 GGTTGAGGCGATGGAGGT
18950817 AACGGTGGTT
Statistics
Matches: 936, Mismatches: 147, Indels: 200
0.73 0.11 0.16
Matches are distributed among these distances:
41 1 0.00
42 81 0.09
43 47 0.05
44 31 0.03
45 697 0.74
46 22 0.02
47 9 0.01
48 47 0.05
49 1 0.00
ACGTcount: A:0.19, C:0.05, G:0.50, T:0.26
Consensus pattern (45 bp):
GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGA
Found at i:18949703 original size:30 final size:30
Alignment explanation
Indices: 18949589--18950816 Score: 422
Period size: 30 Copynumber: 41.1 Consensus size: 30
18949579 AGCTGGTGGT
* * * *
18949589 GGTTGAGGCAATGGAGGTTGAGGAGGCT-TA
1 GGTTGAGGCGATGGAGGTTGAGG-CGATGGA
* * *
18949619 GGTTGAGGCAATGGTGGTTGAGGAGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * *
18949649 GGTTGAGGAGGCT-TAGGTTGAGGCGATGGA
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
** *
18949679 GGTTGAGTTGATGGAGGTTGAGGCGGCA-GCTTA
1 GGTTGAGGCGATGGAGGTTGAGGC-G-ATG--GA
* * *
18949712 GGTTGAGGCAATGGTGGTTGAGGGGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * * *
18949742 -G--GCGGCAGCT-TAGGTTGAGGAGATGGA
1 GGTTGAGGC-GATGGAGGTTGAGGCGATGGA
* * * * **
18949769 GGTTGTGGCGATGGAGGTTGTGGAGGCT-TC
1 GGTTGAGGCGATGGAGGTTGAGG-CGATGGA
** *
18949799 GGTTGAGAAGATGGTGGTTGAGGCGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * *
18949829 GGTTGAGGAGGCT-TAGGTTGAGGCGATGGA
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
* * * *
18949859 GGTTGAGGCAATGGTGGTTGAGGCGGCT-TA
1 GGTTGAGGCGATGGAGGTTGAGGC-GATGGA
* * * * *
18949889 GGTTGTGGCGATGGAGGTTGTGGAGGCT-TA
1 GGTTGAGGCGATGGAGGTTGAGG-CGATGGA
* *
18949919 GGCTGTGGCGATGGAGGTTGAGGCGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * * *
18949949 GGTTGAGGAAGCT-TAGGTTGAGGCGATGGT
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
* *
18949979 GGTTGAGGAGATGGAGGTTGTGGCGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * * * *
18950009 GGTTGTGGAGGCT-TAGGTTGTGGCGATGGA
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
* * * * * *
18950039 GGTTGATGTGATGGTGGTTGAGGAGGCT-TA
1 GGTTGAGGCGATGGAGGTTGAGG-CGATGGA
* * * * * **
18950069 GGTTGAGGAGATGGTGGTTGTGGAGGCT-TT
1 GGTTGAGGCGATGGAGGTTGAGG-CGATGGA
* * *
18950099 GGTTGAGGAGATGGTGGTTGAGGAGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * * * *
18950129 GGTTGAGGAGGCT-TAGGTTGAGGAGATGGT
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
* * * * *
18950159 GGTTGTGGAGGCT-TAGGTTGAGGCGATGGT
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
* * * *
18950189 GGTTGAGGAGATGGAGGTTGAGGAAGCT-TA
1 GGTTGAGGCGATGGAGGTTGAGG-CGATGGA
* * * *
18950219 GGTTGAGGCGATGGTGGTTGAGGAGGCT-TA
1 GGTTGAGGCGATGGAGGTTGAGG-CGATGGA
* * *
18950249 GGTTGAGGCAATGGTGGTTGAGGAGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * * *
18950279 GGTTGAGGCAATGGAGGTTGAGGAGGCT-TA
1 GGTTGAGGCGATGGAGGTTGAGG-CGATGGA
* * * *
18950309 GGTTGTGGTGATGGAGGTTGAGGAGATGGT
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * * * * * *
18950339 GGTTGTGGAGGCT-TAGGTTGTGGCAATGGT
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
* * ** * *
18950369 GGTTGAGGAGGTTTAGGTTGAGGAGATGGT
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * * ** *
18950399 GGTTGTGGAGGCT-TTGGTTGAGGAGATGGA
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
* * * *
18950429 GGTTGAGGAAGCT-TAGGTTGAGGCGATGGT
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
* * * *
18950459 GGTTGAGGAGATGGAGGTTGAGGAGGCT-TA
1 GGTTGAGGCGATGGAGGTTGAGG-CGATGGA
* * * *
18950489 GGTTGAGGCGATGGAGGTTGTGGAGGCT-TA
1 GGTTGAGGCGATGGAGGTTGAGG-CGATGGA
* *
18950519 GGTTGTGGCGATGGAGGTTGAGGCGATGGT
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * * * *
18950549 GGTTGAGGAGGCT-TAGGTTGAGGAGATGGT
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
* * ** * *
18950579 TGTGGAGGC--T-TTGGTTGAGGAGATGGT
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * * *
18950606 GGTTGAGGAGATGGAGGTTGAGGAGGCT-TA
1 GGTTGAGGCGATGGAGGTTGAGG-CGATGGA
* *
18950636 GGTTGAGG-TAT-GAGGTTGAGGAGATGGA
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
* * *
18950664 GGTTGAGGCAGCT-TAGGTTGAGGCGATGGT
1 GGTTGAGGC-GATGGAGGTTGAGGCGATGGA
* * * *
18950694 GGTTGAGGAGGCT-TAGGTTGAGGTGATGGA
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
* * *
18950724 GGTTGAGGCGGCT-TAGGTTGAGGCGATGGT
1 GGTTGAGGC-GATGGAGGTTGAGGCGATGGA
* * * * * **
18950754 GATGGAGGTTGA-GGAGGTTGAGGAGGTTTA
1 GGTTGAGG-CGATGGAGGTTGAGGCGATGGA
*
18950784 GGTTGAGGCGATGGAGGTTGAGGCAATGGA
1 GGTTGAGGCGATGGAGGTTGAGGCGATGGA
18950814 GGT
1 GGT
18950817 AACGGTGGTT
Statistics
Matches: 928, Mismatches: 219, Indels: 102
0.74 0.18 0.08
Matches are distributed among these distances:
27 43 0.05
28 21 0.02
29 37 0.04
30 772 0.83
31 32 0.03
32 3 0.00
33 20 0.02
ACGTcount: A:0.19, C:0.05, G:0.50, T:0.26
Consensus pattern (30 bp):
GGTTGAGGCGATGGAGGTTGAGGCGATGGA
Found at i:18949740 original size:15 final size:15
Alignment explanation
Indices: 18949585--18950812 Score: 229
Period size: 15 Copynumber: 82.2 Consensus size: 15
18949575 GAGGAGCTGG
*
18949585 TGGTGGTTGAGGCAA
1 TGGTGGTTGAGGCGA
*
18949600 TGGAGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
*
18949613 -GGCTTAGGTTGAGGCAA
1 TGG--T-GGTTGAGGCGA
*
18949630 TGGTGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
*
18949645 TGGAGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
18949658 -GGCTTAGGTTGAGGCGA
1 TGG--T-GGTTGAGGCGA
* **
18949675 TGGAGGTTGAGTTGA
1 TGGTGGTTGAGGCGA
*
18949690 TGGAGGTTGAGGCGGCA
1 TGGTGGTTGAGGC-G-A
* *
18949707 -GCTTAGGTTGAGGCAA
1 TG-GT-GGTTGAGGCGA
*
18949723 TGGTGGTTGAGGGGA
1 TGGTGGTTGAGGCGA
* *
18949738 TGG-AG--GCGGC-A
1 TGGTGGTTGAGGCGA
* *
18949749 -GCTTAGGTTGAGGAGA
1 TG-GT-GGTTGAGGCGA
* *
18949765 TGGAGGTTGTGGCGA
1 TGGTGGTTGAGGCGA
* *
18949780 TGGAGGTTG-TG-GA
1 TGGTGGTTGAGGCGA
**
18949793 -GGCTTCGGTTGAGAAGA
1 TGG--T-GGTTGAGGCGA
18949810 TGGTGGTTGAGGCGA
1 TGGTGGTTGAGGCGA
*
18949825 TGGAGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
18949838 -GGCTTAGGTTGAGGCGA
1 TGG--T-GGTTGAGGCGA
* *
18949855 TGGAGGTTGAGGCAA
1 TGGTGGTTGAGGCGA
18949870 TGGTGGTTGAGGCG-
1 TGGTGGTTGAGGCGA
* *
18949884 -GCTTAGGTTGTGGCGA
1 TG-GT-GGTTGAGGCGA
* *
18949900 TGGAGGTTG-TG-GA
1 TGGTGGTTGAGGCGA
* *
18949913 -GGCTTAGGCTGTGGCGA
1 TGG--T-GGTTGAGGCGA
*
18949930 TGGAGGTTGAGGCGA
1 TGGTGGTTGAGGCGA
*
18949945 TGGAGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
* *
18949958 AGCTTAGGTTGAGGCGA
1 TG-GT-GGTTGAGGCGA
*
18949975 TGGTGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
* *
18949990 TGGAGGTTGTGGCGA
1 TGGTGGTTGAGGCGA
* *
18950005 TGGAGGTTG-TG-GA
1 TGGTGGTTGAGGCGA
*
18950018 -GGCTTAGGTTGTGGCGA
1 TGG--T-GGTTGAGGCGA
* * *
18950035 TGGAGGTTGATGTGA
1 TGGTGGTTGAGGCGA
18950050 TGGTGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
*
18950063 -GGCTTAGGTTGAGGAGA
1 TGG--T-GGTTGAGGCGA
* * *
18950080 TGGTGGTTGTGGAGGC
1 TGGTGGTTGAGG-CGA
* *
18950096 T-TTGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
*
18950110 TGGTGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
*
18950125 TGGAGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
*
18950138 -GGCTTAGGTTGAGGAGA
1 TGG--T-GGTTGAGGCGA
*
18950155 TGGTGGTTG-TG-GA
1 TGGTGGTTGAGGCGA
18950168 -GGCTTAGGTTGAGGCGA
1 TGG--T-GGTTGAGGCGA
*
18950185 TGGTGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
*
18950200 TGGAGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
* *
18950213 AGCTTAGGTTGAGGCGA
1 TG-GT-GGTTGAGGCGA
18950230 TGGTGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
*
18950243 -GGCTTAGGTTGAGGCAA
1 TGG--T-GGTTGAGGCGA
*
18950260 TGGTGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
* *
18950275 TGGAGGTTGAGGCAA
1 TGGTGGTTGAGGCGA
*
18950290 TGGAGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
* *
18950303 -GGCTTAGGTTGTGGTGA
1 TGG--T-GGTTGAGGCGA
* *
18950320 TGGAGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
*
18950335 TGGTGGTTG-TG-GA
1 TGGTGGTTGAGGCGA
* *
18950348 -GGCTTAGGTTGTGGCAA
1 TGG--T-GGTTGAGGCGA
* *
18950365 TGGTGGTTGAGGAGG
1 TGGTGGTTGAGGCGA
* *
18950380 T-TTAGGTTGAGGAGA
1 TGGT-GGTTGAGGCGA
* * *
18950395 TGGTGGTTGTGGAGGC
1 TGGTGGTTGAGG-CGA
* *
18950411 T-TTGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
*
18950425 TGGAGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
* *
18950438 AGCTTAGGTTGAGGCGA
1 TG-GT-GGTTGAGGCGA
*
18950455 TGGTGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
*
18950470 TGGAGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
18950483 -GGCTTAGGTTGAGGCGA
1 TGG--T-GGTTGAGGCGA
* *
18950500 TGGAGGTTG-TG-GA
1 TGGTGGTTGAGGCGA
*
18950513 -GGCTTAGGTTGTGGCGA
1 TGG--T-GGTTGAGGCGA
*
18950530 TGGAGGTTGAGGCGA
1 TGGTGGTTGAGGCGA
18950545 TGGTGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
*
18950558 -GGCTTAGGTTGAGGAGA
1 TGG--T-GGTTGAGGCGA
* *
18950575 TGGTTGTGGAGGC--
1 TGGTGGTTGAGGCGA
* *
18950588 T-TTGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
*
18950602 TGGTGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
*
18950617 TGGAGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
*
18950630 -GGCTTAGGTTGAGG-TA
1 TGG--T-GGTTGAGGCGA
* *
18950646 T-GAGGTTGAGGAGA
1 TGGTGGTTGAGGCGA
*
18950660 TGGAGGTTGAGGC-A
1 TGGTGGTTGAGGCGA
*
18950674 -GCTTAGGTTGAGGCGA
1 TG-GT-GGTTGAGGCGA
18950690 TGGTGGTTGA-G-GA
1 TGGTGGTTGAGGCGA
*
18950703 -GGCTTAGGTTGAGGTGA
1 TGG--T-GGTTGAGGCGA
*
18950720 TGGAGGTTGAGGCG-
1 TGGTGGTTGAGGCGA
*
18950734 -GCTTAGGTTGAGGCGA
1 TG-GT-GGTTGAGGCGA
* * *
18950750 TGGTGATGGAGGTTGA
1 TGGTGGTTGAGG-CGA
* * *
18950766 -GGAGGTTGAGGAGG
1 TGGTGGTTGAGGCGA
*
18950780 T-TTAGGTTGAGGCGA
1 TGGT-GGTTGAGGCGA
* *
18950795 TGGAGGTTGAGGCAA
1 TGGTGGTTGAGGCGA
18950810 TGG
1 TGG
18950813 AGGTAACGGT
Statistics
Matches: 888, Mismatches: 173, Indels: 304
0.65 0.13 0.22
Matches are distributed among these distances:
10 1 0.00
11 1 0.00
12 44 0.05
13 54 0.06
14 38 0.04
15 618 0.70
16 47 0.05
17 44 0.05
18 41 0.05
ACGTcount: A:0.19, C:0.05, G:0.50, T:0.26
Consensus pattern (15 bp):
TGGTGGTTGAGGCGA
Found at i:18950539 original size:75 final size:75
Alignment explanation
Indices: 18949589--18950806 Score: 802
Period size: 75 Copynumber: 16.3 Consensus size: 75
18949579 AGCTGGTGGT
* * *
18949589 GGTTGAGGCAATGGAGGTTGAGGAGGCTTAGGTTGAGGCAATGGTGGTTGAGGAGATGGAGGTTG
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGGAGATGGAGGTTG
18949654 AGGAGGCTTA
66 AGGAGGCTTA
*
18949664 GGTTGAGGCGATGGAGGTTGAGTTGATGG---AGGTTGAGGCGGCA-GCTTAGGTTGAGGCA-AT
1 GGTTGAGGCGATGGAGGTTGAG--GA-GGCTTAGGTTGAGGC-G-ATG--GAGGTTGAGG-AGAT
* *
18949724 GGTGGTTGAGG-GG-AT-
58 GGAGGTTGAGGAGGCTTA
** * * * * * * * * **
18949739 GGAGGCGGCAGCT-TAGGTTGAGGA-GATGGAGGTTGTGGCGATGGAGGTTGTGGAGGCT-TCGG
1 GGTTGAGGC-GATGGAGGTTGAGGAGGCT-TAGGTTGAGGCGATGGAGGTTGAGGA-GATGGAGG
18949801 TTGAGAAGATGG--T-
63 TTGAG--GA-GGCTTA
*
18949814 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGGCA-ATGGTGGTT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGG-AGATGGAGGTT
*
18949878 GAGGCGGCTTA
65 GAGGAGGCTTA
* * * * *
18949889 GGTTGTGGCGATGGAGGTTGTGGAGGCTTAGGCTGTGGCGATGGAGGTTGAGGCGATGGAGGTTG
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGGAGATGGAGGTTG
*
18949954 AGGAAGCTTA
66 AGGAGGCTTA
* * * * * * *
18949964 GGTTGAGGCGATGGTGGTTGAGGA-GATGGAGGTTGTGGCGATGGAGGTTGTGGAGGCT-TAGGT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCT-TAGGTTGAGGCGATGGAGGTTGAGGA-GATGGAGGT
* * * *
18950027 TGTGG-CGATGGA
64 TGAGGAGGCT-TA
* * * * * * * **
18950039 GGTTGATGTGATGGTGGTTGAGGAGGCTTAGGTTGAGGAGATGGTGGTTGTGGAGGCT-TTGGTT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGGA-GATGGAGGTT
*
18950103 GAGGAGATG-GT-
65 GAGGAG--GCTTA
* * * * * *
18950114 GGTTGAGGAGATGGAGGTTGAGGAGGCTTAGGTTGAGGAGATGGTGGTTGTGGAGGCT-TAGGTT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGGA-GATGGAGGTT
18950178 GAGGCGATGG--T-
65 GA-G-GA-GGCTTA
* * * * *
18950189 GGTTGAGGAGATGGAGGTTGAGGAAGCTTAGGTTGAGGCGATGGTGGTTGAGGAGGCT-TAGGTT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGGA-GATGGAGGTT
18950253 GAGGCAATGG--T-
65 GAGG--A-GGCTTA
* * * * * *
18950264 GGTTGAGGAGATGGAGGTTGAGGCAATGG---AGGTTGAGGAGGCT-TAGGTTGTGGTGATGGAG
1 GGTTGAGGCGATGGAGGTTGAGG--A-GGCTTAGGTTGAGG-CGATGGAGGTTGAGGAGATGGAG
*
18950325 GTTGAGGAGATG-GT-
62 GTTGAGGAG--GCTTA
* * * * * * * ** *
18950339 GGTTGTGGAGGCT-TAGGTTGTGGCAATGG--T-GGTTGAGGAGGTTTAGGTTGAGGAGATGGTG
1 GGTTGAGG-CGATGGAGGTTGAGG--A-GGCTTAGGTTGAGGCGATGGAGGTTGAGGAGATGGAG
* *
18950400 GTTGTGGAGGCTTT
62 GTTGAGGAGGCTTA
* * *
18950414 GGTTGAGGAGATGGAGGTTGAGGAAGCTTAGGTTGAGGCGATGGTGGTTGAGGAGATGGAGGTTG
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGGAGATGGAGGTTG
18950479 AGGAGGCTTA
66 AGGAGGCTTA
* * * *
18950489 GGTTGAGGCGATGGAGGTTGTGGAGGCTTAGGTTGTGGCGATGGAGGTTGAGGCGATGGTGGTTG
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGGAGATGGAGGTTG
18950554 AGGAGGCTTA
66 AGGAGGCTTA
* * * * *
18950564 GGTTGAGGAGAT---GGTTGTGGAGGCTTTGGTTGAGGAGATGGTGGTTGAGGAGATGGAGGTTG
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGGAGATGGAGGTTG
18950626 AGGAGGCTTA
66 AGGAGGCTTA
* * * * * * *
18950636 GGTTGAGG-TAT-GAGGTTGAGGA-GATGGAGGTTGAGGCAGCT-TAGGTTGAGGCGATGGTGGT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCT-TAGGTTGAGGC-GATGGAGGTTGAGGAGATGGAGGT
18950697 TGAGGAGGCTTA
64 TGAGGAGGCTTA
* * * * * *
18950709 GGTTGAGGTGATGGAGGTTGAGGCGGCTTAGGTTGAGGCGATGGTGATGGAGGTTGA-GGAGGTT
1 GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGG-AGATGGAGGTT
*
18950773 GAGGAGGTTTA
65 GAGGAGGCTTA
18950784 GGTTGAGGCGATGGAGGTTGAGG
1 GGTTGAGGCGATGGAGGTTGAGG
18950807 CAATGGAGGT
Statistics
Matches: 933, Mismatches: 144, Indels: 132
0.77 0.12 0.11
Matches are distributed among these distances:
71 4 0.00
72 83 0.09
73 61 0.07
74 27 0.03
75 701 0.75
76 23 0.02
77 8 0.01
78 25 0.03
79 1 0.00
ACGTcount: A:0.19, C:0.05, G:0.50, T:0.26
Consensus pattern (75 bp):
GGTTGAGGCGATGGAGGTTGAGGAGGCTTAGGTTGAGGCGATGGAGGTTGAGGAGATGGAGGTTG
AGGAGGCTTA
Found at i:18950595 original size:42 final size:42
Alignment explanation
Indices: 18950564--18950703 Score: 133
Period size: 43 Copynumber: 3.2 Consensus size: 42
18950554 AGGAGGCTTA
*
18950564 GGTTGAGGAGAT-GGTTGTGGAGGCTTTGGTTGAGGAGATGGT
1 GGTTGAGGAGATGGGTTGAGGAGGCTTTGGTTGAGGAGA-GGT
* * * *
18950606 GGTTGAGGAGATGGAGGTTGAGGAGGCTTAGGTTGAGG-TATGA
1 GGTTGAGGAGAT-G-GGTTGAGGAGGCTTTGGTTGAGGAGAGGT
* *
18950649 GGTTGAGGAGATGGAGGTTGAGGCA-GCTTAGGTTGAGGCGATGGT
1 GGTTGAGGAGAT-G-GGTTGAGG-AGGCTTTGGTTGAGGAGA-GGT
18950694 GGTTGAGGAG
1 GGTTGAGGAG
18950704 GCTTAGGTTG
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
42 12 0.14
43 37 0.44
44 3 0.04
45 32 0.38
ACGTcount: A:0.20, C:0.04, G:0.50, T:0.26
Consensus pattern (42 bp):
GGTTGAGGAGATGGGTTGAGGAGGCTTTGGTTGAGGAGAGGT
Found at i:18950771 original size:9 final size:9
Alignment explanation
Indices: 18950757--18950781 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18950747 CGATGGTGAT
18950757 GGAGGTTGA
1 GGAGGTTGA
18950766 GGAGGTTGA
1 GGAGGTTGA
18950775 GGAGGTT
1 GGAGGTT
18950782 TAGGTTGAGG
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:0.20, C:0.00, G:0.56, T:0.24
Consensus pattern (9 bp):
GGAGGTTGA
Found at i:18950813 original size:15 final size:15
Alignment explanation
Indices: 18950783--18950816 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18950773 GAGGAGGTTT
*
18950783 AGGTTGAGGCGATGG
1 AGGTTGAGGCAATGG
18950798 AGGTTGAGGCAATGG
1 AGGTTGAGGCAATGG
18950813 AGGT
1 AGGT
18950817 AACGGTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.50, T:0.21
Consensus pattern (15 bp):
AGGTTGAGGCAATGG
Found at i:18951155 original size:22 final size:22
Alignment explanation
Indices: 18951114--18951160 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
18951104 AATATTAGGC
*
18951114 AATAAATTTCTATATGATAT-T
1 AATAAATTTATATATGATATCT
18951135 AATATAATTTATA-ATGCATATCT
1 AATA-AATTTATATATG-ATATCT
18951158 AAT
1 AAT
18951161 GATATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (22 bp):
AATAAATTTATATATGATATCT
Found at i:18959148 original size:43 final size:42
Alignment explanation
Indices: 18959069--18959200 Score: 167
Period size: 43 Copynumber: 3.1 Consensus size: 42
18959059 TATGATACTT
** * *
18959069 GACATGACATTTGATT-TCAAACTCGAAACATGTGTGAAAATA
1 GACATGACATTTGATTGAAAAACTC-AAAAACGTGTGAAAATA
*
18959111 GACATGACATTTGGTTGAAAAACTCAAAAGACGTGTGAAAATA
1 GACATGACATTTGATTGAAAAACTCAAAA-ACGTGTGAAAATA
*
18959154 AACATGACATTTGATTGAAAAACTCAAAAACATGTGTGAAAATA
1 GACATGACATTTGATTGAAAAACTCAAAAAC--GTGTGAAAATA
18959198 GAC
1 GAC
18959201 TTCACCTAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
42 20 0.26
43 45 0.58
44 13 0.17
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (42 bp):
GACATGACATTTGATTGAAAAACTCAAAAACGTGTGAAAATA
Found at i:18972897 original size:15 final size:15
Alignment explanation
Indices: 18972877--18972906 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18972867 ACACTCTTAA
*
18972877 CAAGTAATGTGATTG
1 CAAGTAATATGATTG
18972892 CAAGTAATATGATTG
1 CAAGTAATATGATTG
18972907 TAAGAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (15 bp):
CAAGTAATATGATTG
Found at i:18973160 original size:33 final size:33
Alignment explanation
Indices: 18973118--18973205 Score: 113
Period size: 33 Copynumber: 2.6 Consensus size: 33
18973108 ATTTTTAAAG
* *
18973118 TTATATATTTTATTTTTATTTGTTATTATAATC
1 TTATATATTTTATTTTTATTTCTTAATATAATC
* *
18973151 TTATATATTTTATTTTCATTTCTTAATATAATT
1 TTATATATTTTATTTTTATTTCTTAATATAATC
* *
18973184 TTCTATATTATATATTTTATTT
1 TTATATATTTTAT-TTTTATTT
18973206 AATTTTTTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 40 0.85
34 7 0.15
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (33 bp):
TTATATATTTTATTTTTATTTCTTAATATAATC
Found at i:18976727 original size:14 final size:16
Alignment explanation
Indices: 18976709--18976742 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18976699 AGAAAAAATC
*
18976709 AAAAAAATAA-AAAAG
1 AAAAAATTAATAAAAG
18976724 AAAAAATTAATAAAAG
1 AAAAAATTAATAAAAG
18976740 AAA
1 AAA
18976743 GAAAAAGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAATTAATAAAAG
Found at i:18981065 original size:20 final size:20
Alignment explanation
Indices: 18981040--18981085 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
18981030 AGTCACTTGC
18981040 TTTATTTTATTA-TGATTTTT
1 TTTATTTTATTAGT-ATTTTT
*
18981060 TTTATTTTTTTAGTATTTTT
1 TTTATTTTATTAGTATTTTT
18981080 TTTATT
1 TTTATT
18981086 GTGGATTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTATTTTATTAGTATTTTT
Found at i:18984693 original size:2 final size:2
Alignment explanation
Indices: 18984688--18984791 Score: 172
Period size: 2 Copynumber: 51.5 Consensus size: 2
18984678 TGGGTGTGTA
18984688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
18984730 AT AT AT AT CT CT CT NAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18984773 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
18984792 ATAGAATATA
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 98 0.99
3 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18989804 original size:2 final size:2
Alignment explanation
Indices: 18989797--18989825 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18989787 TGAAAATAAA
18989797 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18989826 GAAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18989896 original size:2 final size:2
Alignment explanation
Indices: 18989889--18989914 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18989879 AAATAAAATA
18989889 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18989915 GAAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18989932 original size:88 final size:84
Alignment explanation
Indices: 18989766--18989942 Score: 261
Period size: 88 Copynumber: 2.1 Consensus size: 84
18989756 TATCTGGTTC
18989766 AATTAGCAAATAATGTGGGAATGAAAATAAAATATATATATATATATATATATATATATAGAAAA
1 AATTAGCAAATAATGTGGGAATGAAAATAAAATATATATATATATATATATATATATATAGAAAA
18989831 ATAATAGCATAATATATTA
66 ATAATAGCATAATATATTA
18989850 NAATTAGACAAATAATAGTGGGAAGTAGAAAATAAAATA-ATATATATATATATATATATATATA
1 -AATTAG-CAAATAAT-GTGGGAA-T-GAAAATAAAATATATATATATATATATATATATATATA
18989914 TG-AAAA-AATATGCATAATATATTA
61 -GAAAAATAATA-GCATAATATATTA
*
18989938 GATTA
1 AATTA
18989943 ATGTATTAGA
Statistics
Matches: 85, Mismatches: 1, Indels: 10
0.89 0.01 0.10
Matches are distributed among these distances:
85 6 0.07
86 8 0.09
87 15 0.18
88 43 0.51
89 13 0.15
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.33
Consensus pattern (84 bp):
AATTAGCAAATAATGTGGGAATGAAAATAAAATATATATATATATATATATATATATATAGAAAA
ATAATAGCATAATATATTA
Found at i:18999451 original size:19 final size:19
Alignment explanation
Indices: 18999424--18999461 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18999414 CCATTTGACT
18999424 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
18999443 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
18999462 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:19005425 original size:23 final size:23
Alignment explanation
Indices: 19005399--19005443 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
19005389 TAGAATAAAA
*
19005399 ATTCCTAATTCTATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
19005422 ATTCCTAATTATATTAGGATAA
1 ATTCCTAATTATATTAGGATAA
19005444 AATTATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAG
Found at i:19005937 original size:23 final size:23
Alignment explanation
Indices: 19005911--19005956 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
19005901 TAGAATAACA
19005911 ATTCCTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
19005934 ATTCCTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
19005957 GTTATTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAG
Found at i:19006925 original size:23 final size:23
Alignment explanation
Indices: 19006899--19006944 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
19006889 TAGAATAACA
19006899 ATTCCTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
19006922 ATTCCTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
19006945 GTTATTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAG
Found at i:19009184 original size:591 final size:589
Alignment explanation
Indices: 19007318--19010071 Score: 3165
Period size: 589 Copynumber: 4.7 Consensus size: 589
19007308 TTTTGTCAGT
*
19007318 TTAGCTAGGTCTTGTATTGTGCTTAAAGAATCAGTC--TGTTTGTAATATGAGTTCACTAGCTAG
1 TTAGCTAGGTCTTGTATTGTGCCTAAAGAATCAGTCTTTGTTTGTAATATGAGTTCACTAGCTAG
* * * * * **
19007381 TGTAAAGAATGTGAATTTATTGTGGAAGGAAAAAA-TCGTAGCACATGTTAGTTTCCCGTTAAAG
66 CGTAAAGAATGTGAATTTATTGTGGAAGGAAAAAAGCCG-AACACATGCTAATTTCTTGTTAAAG
* * * * *
19007445 AAAAAAGTTACACAACTGATAGTTTTCGTT-TGGGAATATTTC-AAGATATTTTAAATGAAAAAT
130 -AAAAAGCTACACAACTGATAATATTCGTTATGGGAATA-TTCAAAGGTATTTTAGATGAAAAAT
* * * * * * * * *
19007508 CACAACAGTTGT-ATTCGTTAAGTTATTGTGACATCATATATTACAAATAAACAAAATGAAAGAT
193 CACGACACTT-TCATACATCAAGTTACTATGACATCATACATTACAAAT----AAAACGAAAGAT
* * *
19007572 TGGCAATTAGTTTAGCATTTCATTTTCAAGAAAGAAGATATTTTTCACATTCCGT-AGCTGCACG
253 TGGCATTTAGTTTAGTATTTCATTTTCAAGAAAGAAGATATTTTTCACATTCCTTGAGCTGCACG
* * ** * *
19007636 TCAAGACTTTGATACAAACATTTT-GATTTTAAAAATTTAATTTTCATGAACTCATTTTGAATGA
318 TCAAGACTTTGATACATAC-TTTTGGATTTTAAAAATTTAATTTTTATTTACTCATTTTTAATGG
** * *
19007700 AAAATTGTACAAACTTGACTTTGAATTTGGAATGAAATTGCATTGTATGCCATGATTAAGCTGTA
382 AAAATTGTAGGAACTTGACTTTGAATTTGGAATGAAATTGCATTGTATGCCACGATTAAGCTATA
* * * *
19007765 G-TTTTTAATTGCTTTCGTGGGCATGGCATTTGCTCATATGTTG-CCCTTATTTATAGCCAACTT
447 GCTTCTTAATTGCTTTCGTGGGTATGGCATCTGCTCATATGCTGTCCC-TATTTATAGCCAACTT
* * * * *
19007828 ACAATAAGCCAACAGAAAGAAAGAACCAAAGATTATGAACAAAATTCTTTTGTCGGTCTTTGTTT
511 ACAAGAAGCCAAAAGAAAGAAAGAATCAAAGATTATGAACAGAATTCTTTAGTCGGTCTTTGTTT
*
19007893 GTGATATGAGTTCA
576 GTAATATGAGTTCA
* *
19007907 TTAGCTAGGTCTTGTATTGTGCCTAAAGAATTAGTCTTTGTTTTTAATATGAGTTCACTAGCTAG
1 TTAGCTAGGTCTTGTATTGTGCCTAAAGAATCAGTCTTTGTTTGTAATATGAGTTCACTAGCTAG
** * * **
19007972 CAAAAAAAAAATGTGAATTTATTGTGGAAGGAAAAAAGGCCTAACACATGCTAATTTCTTACTAA
66 C--GTAAAGAATGTGAATTTATTGTGGAAGGAAAAAA-GCCGAACACATGCTAATTTCTTGTTAA
* * * * * * * *
19008037 AAAAAAAGCTACAAAATTGATAATATTCATTACGAGAATATTCAAAGGTCTTTTAGACGAAAAAT
128 AGAAAAAGCTACACAACTGATAATATTCGTTATGGGAATATTCAAAGGTATTTTAGATGAAAAAT
** * **
19008102 CACGACACCCTCATACATCAAGTTACTAGGACATCATACATTACAAAT-AAACGAAAGATTTACA
193 CACGACACTTTCATACATCAAGTTACTATGACATCATACATTACAAATAAAACGAAAGATTGGCA
* * * * *
19008166 TTTAGTTTAATATTTCATTTTCAAGAAAGAAGATATTATTCATATTCCTTGAGTTACACGTCAAG
258 TTTAGTTTAGTATTTCATTTTCAAGAAAGAAGATATTTTTCACATTCCTTGAGCTGCACGTCAAG
* * * * * *
19008231 A-TGTGATACATATTTTTGAATTTTAAAAATTTTATTTTTATTTACTCATTTTTTATGAAAAATT
323 ACTTTGATACATACTTTTGGATTTTAAAAATTTAATTTTTATTTACTCATTTTTAATGGAAAATT
* * * *
19008295 GTATGAACTTGATTTTGAATTTGGAATAAAATTGCATTGTATGTCACGATTAAGCTATAGCTTCT
388 GTAGGAACTTGACTTTGAATTTGGAATGAAATTGCATTGTATGCCACGATTAAGCTATAGCTTCT
* * * * * **
19008360 TAATTACTTTGGTGGGTATGACATCTGCTCATATGTTGTCCCTATTTATAGCGAACTTATGAGAA
453 TAATTGCTTTCGTGGGTATGGCATCTGCTCATATGCTGTCCCTATTTATAGCCAACTTACAAGAA
* * * * *
19008425 GCCAAAAGAAACAAAGAATCAAAGATTATGAATA-TA-TCTTTTGACGGTCTTTGTTTGTAATAT
518 GCCAAAAGAAAGAAAGAATCAAAGATTATGAACAGAATTCTTTAGTCGGTCTTTGTTTGTAATAT
19008488 GAGTTCA
583 GAGTTCA
* * *
19008495 TTAGCTAGGTCATGTATTGCGCCTAAAGAGTCAGTCTTTGTTTGTAATATGAGTTCACTAGCTAG
1 TTAGCTAGGTCTTGTATTGTGCCTAAAGAATCAGTCTTTGTTTGTAATATGAGTTCACTAGCTAG
* * * *
19008560 CGTAAAGAATGAGAATTTATTGTGAAAGGAAAAAAGCCGAACTCATGCTAATTTCTTGCTAAAGA
66 CGTAAAGAATGTGAATTTATTGTGGAAGGAAAAAAGCCGAACACATGCTAATTTCTTGTTAAAGA
* * **
19008625 AAAAGCCTACACAACTGATAATATTTGTCATGGGAATATTCAAAGGTATTTTAGACAAAAAATCA
131 AAAAG-CTACACAACTGATAATATTCGTTATGGGAATATTCAAAGGTATTTTAGATGAAAAATCA
* *
19008690 CGACACTTTCATAAATCAAGTTACTATGACATCATTCATTACAAACGAATAAAACGAAAGATTGG
195 CGACACTTTCATACATCAAGTTACTATGACATCATACATTAC--A--AATAAAACGAAAGATTGG
* * * *
19008755 CATTTAGTTTGGTATTTCATTTTCAAGAAAGAACATATTTTTGACATTCC-T-AGCTGCACATCA
256 CATTTAGTTTAGTATTTCATTTTCAAGAAAGAAGATATTTTTCACATTCCTTGAGCTGCACGTCA
*
19008818 AGACTTTGATACATACTTTTGGA-TTTAAAAATTTAATTTTTATTTACTCATTTTTAAAGGAAAA
321 AGACTTTGATACATACTTTTGGATTTTAAAAATTTAATTTTTATTTACTCATTTTTAATGGAAAA
*
19008882 TAGTAGGAACTTGACTTTGAATTTGGAATGAAATTGCATTGTATGCCACGATTAAGCTATAGCTT
386 TTGTAGGAACTTGACTTTGAATTTGGAATGAAATTGCATTGTATGCCACGATTAAGCTATAGCTT
* * * * * *
19008947 CTTAATTGCTTTTGTTGGTATGGCATTTGCTCATATGCTGTCCCTATTCATAGTCAACTTGCAAG
451 CTTAATTGCTTTCGTGGGTATGGCATCTGCTCATATGCTGTCCCTATTTATAGCCAACTTACAAG
* * * * * *
19009012 AAGCCAAAAGAAAGAAAAAATCAAATATTATAAACAGAATTCGTTAGTTGGTCTTTGTTTGTAAC
516 AAGCCAAAAGAAAGAAAGAATCAAAGATTATGAACAGAATTCTTTAGTCGGTCTTTGTTTGTAAT
*
19009077 ACGAGTTCA
581 ATGAGTTCA
* * * * **
19009086 TT-GCCTAGATCTTGTATTGTGTCTAAAGAATCAGTCTTTATTTGTAATATGAGTTAACCGGCTA
1 TTAG-CTAGGTCTTGTATTGTGCCTAAAGAATCAGTCTTTGTTTGTAATATGAGTTCACTAGCTA
* * * * *
19009150 GCGTAAAGTATGTGAATTTATTGTGGAGGGAAAAAAGCCTAACACATGTTAATTTCTTATTAAAG
65 GCGTAAAGAATGTGAATTTATTGTGGAAGGAAAAAAGCCGAACACATGCTAATTTCTTGTTAAAG
* *
19009215 AAAAAGTTTCACAACTGATAATATTCGTTATGGGAATATTCAAAGGTATTTTAGATGAAAAATCA
130 AAAAAGCTACACAACTGATAATATTCGTTATGGGAATATTCAAAGGTATTTTAGATGAAAAATCA
* *** * * * * * * *
19009280 CGACTCCCCCGTACATCAAGTTGCTATGACATCATACATTCCAAAT-AAAGGAAGGGTTAGCATT
195 CGACACTTTCATACATCAAGTTACTATGACATCATACATTACAAATAAAACGAAAGATTGGCATT
* * * * * *
19009344 TAGTCTAATATTTTATTTTCAAGAAAGAAAATATGTTTCACATTCCTTGAGCTGCACGTCAAGGC
260 TAGTTTAGTATTTCATTTTCAAGAAAGAAGATATTTTTCACATTCCTTGAGCTGCACGTCAAGAC
** * * **
19009409 TATT-ATACATTTTTTTAGATTTTGAAAATTTAATTTTTATTTACTCATTTTTAAT-G-AAATCA
325 T-TTGATACATACTTTTGGATTTTAAAAATTTAATTTTTATTTACTCATTTTTAATGGAAAATTG
*** * *
19009471 TAGG-A----ACTTTGAATTTGGAATGAAACCACATTGTATGCCATGATTAAGCTATTGCTTCTT
389 TAGGAACTTGACTTTGAATTTGGAATGAAATTGCATTGTATGCCACGATTAAGCTATAGCTTCTT
* * * * *
19009531 AATTTCTTTCGGGGGTAT-GCATCTGCTCATATACTATCCCTATTTATAGCCAACTTACGAGAAG
454 AATTGCTTTCGTGGGTATGGCATCTGCTCATATGCTGTCCCTATTTATAGCCAACTTACAAGAAG
* *
19009595 CCAAAAGAAAGAAAGAATTAAAGATTATGAACAGAATTCTTTAGTCGGTTTTTGTTTGTAATATG
519 CCAAAAGAAAGAAAGAATCAAAGATTATGAACAGAATTCTTTAGTCGGTCTTTGTTTGTAATATG
19009660 AGTTCA
584 AGTTCA
** * * * * * * *
19009666 TTAGCTAGGTGATGTATTGTTCC-ATAGAATCAATCCTTGTCTGT-A-ATGAGTTCACAAGTTAG
1 TTAGCTAGGTCTTGTATTGTGCCTAAAGAATCAGTCTTTGTTTGTAATATGAGTTCACTAGCTAG
* * *
19009728 CGTAAAGACTGTGAATTTATTGTGGAAGGAAAAAAGTCTTGCACACA--CTAATTTCTTGTTAAA
66 CGTAAAGAATGTGAATTTATTGTGGAAGGAAAAAAG-C-CGAACACATGCTAATTTCTTGTTAAA
* * * *
19009791 GAAAAAAGCTACACAATTGATAATATTCATTATGAGAATATTCAAAGGTATTTTAGATGACAAAT
129 G-AAAAAGCTACACAACTGATAATATTCGTTATGGGAATATTCAAAGGTATTTTAGATGAAAAAT
* * *** * *
19009856 CA-TATCAGTCTTGGCA-ATCAAGTTACCATGACATCATACATTACAAATAAAA--AAA-ATTGA
193 CACGA-CACT-TTCATACATCAAGTTACTATGACATCATACATTACAAATAAAACGAAAGATTGG
* * * *
19009916 CATTTAGTCTAGTATTTCATTTTCAAGAAAAAAGATATTTTTCATATTCCTTGAGCTGCACATCA
256 CATTTAGTTTAGTATTTCATTTTCAAGAAAGAAGATATTTTTCACATTCCTTGAGCTGCACGTCA
* * *
19009981 AGACTTTGATACATA-TATTTGGATTTTGAAAACTTAATTTTTATTTACTCATTTTTAGTGGAAA
321 AGACTTTGATACATACT-TTTGGATTTTAAAAATTTAATTTTTATTTACTCATTTTTAATGGAAA
*
19010045 ATTGTAGGAACTTGACTTTAAATTTGG
385 ATTGTAGGAACTTGACTTTGAATTTGG
19010072 GACATAATTA
Statistics
Matches: 1826, Mismatches: 296, Indels: 92
0.82 0.13 0.04
Matches are distributed among these distances:
575 3 0.00
576 109 0.06
577 65 0.04
578 99 0.05
579 27 0.01
580 117 0.06
581 65 0.04
583 12 0.01
585 85 0.05
586 128 0.07
587 28 0.02
588 134 0.07
589 386 0.21
590 206 0.11
591 228 0.12
593 58 0.03
594 75 0.04
595 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (589 bp):
TTAGCTAGGTCTTGTATTGTGCCTAAAGAATCAGTCTTTGTTTGTAATATGAGTTCACTAGCTAG
CGTAAAGAATGTGAATTTATTGTGGAAGGAAAAAAGCCGAACACATGCTAATTTCTTGTTAAAGA
AAAAGCTACACAACTGATAATATTCGTTATGGGAATATTCAAAGGTATTTTAGATGAAAAATCAC
GACACTTTCATACATCAAGTTACTATGACATCATACATTACAAATAAAACGAAAGATTGGCATTT
AGTTTAGTATTTCATTTTCAAGAAAGAAGATATTTTTCACATTCCTTGAGCTGCACGTCAAGACT
TTGATACATACTTTTGGATTTTAAAAATTTAATTTTTATTTACTCATTTTTAATGGAAAATTGTA
GGAACTTGACTTTGAATTTGGAATGAAATTGCATTGTATGCCACGATTAAGCTATAGCTTCTTAA
TTGCTTTCGTGGGTATGGCATCTGCTCATATGCTGTCCCTATTTATAGCCAACTTACAAGAAGCC
AAAAGAAAGAAAGAATCAAAGATTATGAACAGAATTCTTTAGTCGGTCTTTGTTTGTAATATGAG
TTCA
Found at i:19013624 original size:4 final size:4
Alignment explanation
Indices: 19013617--19013644 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
19013607 GTGTGTGTAT
19013617 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
19013645 TATGTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:19018281 original size:14 final size:14
Alignment explanation
Indices: 19018259--19018298 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
19018249 TATCTATTTT
*
19018259 TTTATTTATTATTA
1 TTTAATTATTATTA
19018273 TTTAATTATTATT-
1 TTTAATTATTATTA
19018286 TTT-ATT-TTATTA
1 TTTAATTATTATTA
19018298 T
1 T
19018299 ATTTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 5 0.21
12 4 0.17
13 3 0.12
14 12 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTAATTATTATTA
Found at i:19018282 original size:11 final size:10
Alignment explanation
Indices: 19018247--19018310 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 10
19018237 TACTAATACA
19018247 ATTATCTATTT
1 ATTAT-TATTT
19018258 -TT-TTATTT
1 ATTATTATTT
19018266 ATTATTATTT
1 ATTATTATTT
19018276 AATTATTATTT
1 -ATTATTATTT
19018287 -TTA-T-TTT
1 ATTATTATTT
19018294 ATTA-TATTT
1 ATTATTATTT
*
19018303 TTTATTAT
1 ATTATTAT
19018311 CATGTTTTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
7 3 0.07
8 10 0.22
9 12 0.26
10 11 0.24
11 10 0.22
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTATTATTT
Found at i:19018290 original size:17 final size:17
Alignment explanation
Indices: 19018264--19018304 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
19018254 ATTTTTTTAT
*
19018264 TTATTATTATTTAATTA
1 TTATTTTTATTTAATTA
*
19018281 TTATTTTTATTTTATTA
1 TTATTTTTATTTAATTA
19018298 -TATTTTT
1 TTATTTTT
19018305 TATTATCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTTTTATTTAATTA
Found at i:19018305 original size:17 final size:17
Alignment explanation
Indices: 19018258--19018308 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
19018248 TTATCTATTT
*
19018258 TTTTATT-TA-TTATTA
1 TTTTATTATATTTTTTA
*
19018273 TTTAATTAT-TATTTTTA
1 TTTTATTATAT-TTTTTA
19018290 TTTTATTATATTTTTTA
1 TTTTATTATATTTTTTA
19018307 TT
1 TT
19018309 ATCATGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 6 0.21
16 1 0.03
17 21 0.72
18 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTATATTTTTTA
Found at i:19018307 original size:12 final size:13
Alignment explanation
Indices: 19018290--19018377 Score: 63
Period size: 14 Copynumber: 6.5 Consensus size: 13
19018280 ATTATTTTTA
19018290 TTTTATTAT-ATT
1 TTTTATTATCATT
19018302 TTTTATTATCATGT
1 TTTTATTATCAT-T
19018316 TTTCTATT-TCATT
1 TTT-TATTATCATT
* *
19018329 TCTTATTATTATTT
1 TTTTATTATCA-TT
*
19018343 TTTCATATTTTACATT
1 TTT--TATTAT-CATT
* *
19018359 TTTTATTCTAATT
1 TTTTATTATCATT
19018372 TTTTAT
1 TTTTAT
19018378 ATTTTTCTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
12 13 0.21
13 16 0.26
14 17 0.28
15 4 0.07
16 10 0.16
17 1 0.02
ACGTcount: A:0.22, C:0.08, G:0.01, T:0.69
Consensus pattern (13 bp):
TTTTATTATCATT
Found at i:19018323 original size:27 final size:28
Alignment explanation
Indices: 19018293--19018365 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 28
19018283 ATTTTTATTT
19018293 TATTATATTTTTTATTATCATGTTTTC-
1 TATTATATTTTTTATTATCATGTTTTCA
* * *
19018320 TATT-TCATTTCTTATTATTATTTTTTCA
1 TATTAT-ATTTTTTATTATCATGTTTTCA
*
19018348 TATTTTACATTTTTTATT
1 TA--TTATATTTTTTATT
19018366 CTAATTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
26 1 0.03
27 22 0.61
28 2 0.06
30 11 0.31
ACGTcount: A:0.22, C:0.08, G:0.01, T:0.68
Consensus pattern (28 bp):
TATTATATTTTTTATTATCATGTTTTCA
Found at i:19018359 original size:30 final size:29
Alignment explanation
Indices: 19018247--19018382 Score: 102
Period size: 30 Copynumber: 4.7 Consensus size: 29
19018237 TACTAATACA
* *
19018247 ATTATCTATTTTTT-TA-TTTATTATTATTTA
1 ATTAT-TATTTTTTATATTTTA-CATT-TTTT
* *
19018277 ATTATTA-TTTTTATTTTATTATATTTTTT
1 ATTATTATTTTTTATATT-TTACATTTTTT
* * * *
19018306 ATTATCATGTTTTCTA-TTT-CATTTCTT
1 ATTATTATTTTTTATATTTTACATTTTTT
19018333 ATTATTATTTTTTCATATTTTACATTTTTT
1 ATTATTATTTTTT-ATATTTTACATTTTTT
* *
19018363 ATTCTAATTTTTTATATTTT
1 ATTATTATTTTTTATATTTT
19018383 TCTTTTCTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
27 17 0.20
28 9 0.11
29 23 0.27
30 33 0.39
31 3 0.04
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.70
Consensus pattern (29 bp):
ATTATTATTTTTTATATTTTACATTTTTT
Found at i:19018376 original size:22 final size:23
Alignment explanation
Indices: 19018350--19018394 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
19018340 TTTTTTCATA
19018350 TTTTACATTTTT-TATTCTAATT
1 TTTTACATTTTTCTATTCTAATT
* *
19018372 TTTTATATTTTTCTTTTCTAATT
1 TTTTACATTTTTCTATTCTAATT
19018395 AGATAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTACATTTTTCTATTCTAATT
Found at i:19019008 original size:23 final size:23
Alignment explanation
Indices: 19018982--19019025 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
19018972 TATATATATA
19018982 TATTAATTTTTTTATTCTTTTCT
1 TATTAATTTTTTTATTCTTTTCT
* *
19019005 TATTTATTTTTTTATTTTTTT
1 TATTAATTTTTTTATTCTTTT
19019026 ACGCTTTATT
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:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (23 bp):
TATTAATTTTTTTATTCTTTTCT
Found at i:19020527 original size:22 final size:22
Alignment explanation
Indices: 19020502--19020594 Score: 98
Period size: 22 Copynumber: 4.3 Consensus size: 22
19020492 CGGATGTCTT
*
19020502 GAAAATGTACCCGGAGACTTTA
1 GAAAATGTACCCGGAGGCTTTA
*
19020524 GAAAATGTACCTGGAGGCTTTA
1 GAAAATGTACCCGGAGGCTTTA
* **
19020546 GAAAATATACCTAGAGGCTTTA
1 GAAAATGTACCCGGAGGCTTTA
* * * *
19020568 TAGAATGTACCCGAAGG-TTTT
1 GAAAATGTACCCGGAGGCTTTA
19020589 GAAAAT
1 GAAAAT
19020595 ATATCTGGAG
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
21 7 0.12
22 51 0.88
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (22 bp):
GAAAATGTACCCGGAGGCTTTA
Found at i:19020763 original size:119 final size:119
Alignment explanation
Indices: 19020600--19020836 Score: 330
Period size: 119 Copynumber: 2.0 Consensus size: 119
19020590 AAAATATATC
* * * *
19020600 TGGAGGTTTTAAGAGAAAAAGGTACCCAGAGATCTTGAGAATGTACCTGGAGGATTTAGGAAATG
1 TGGAGGATTTAAGAGAAAAAGGTACCCAGAGATCTTCAGAATGTACCCGGAGGATTTAGAAAATG
* * *
19020665 TGGTTCCTCAAAAACTGAGGCAACGTAACTTTAAAAGTCTTGACACTAATTACT
66 TGGCTCCTCAAAAACTGAGACAACGTAACTTTAAAAATCTTGACACTAATTACT
* * * * *
19020719 TGGAGGATTTAAGAGAATAATGTGCCCAGAGGTCTTCATAATGTACCCGGAGGATTTAGAAAATG
1 TGGAGGATTTAAGAGAAAAAGGTACCCAGAGATCTTCAGAATGTACCCGGAGGATTTAGAAAATG
** * *
19020784 TGGCTCCTTGAAAACTGAGACAATGTAACTTTAAAAATCTTGACATTAATTAC
66 TGGCTCCTCAAAAACTGAGACAACGTAACTTTAAAAATCTTGACACTAATTAC
19020837 CCAGAGGTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
119 102 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (119 bp):
TGGAGGATTTAAGAGAAAAAGGTACCCAGAGATCTTCAGAATGTACCCGGAGGATTTAGAAAATG
TGGCTCCTCAAAAACTGAGACAACGTAACTTTAAAAATCTTGACACTAATTACT
Found at i:19020895 original size:141 final size:141
Alignment explanation
Indices: 19020719--19021113 Score: 632
Period size: 141 Copynumber: 2.8 Consensus size: 141
19020709 ACTAATTACT
* * *
19020719 TGGAGGATTTAAGAGAATAATGTGCCCAGAGGTCTTCATAATGTACCCGGAGGATTTAGAAAATG
1 TGGAGGATTTAAGAGAATAATATGCCCGGAGGTCTTCAGAATGTACCCGGAGGATTTAGAAAATG
* * *
19020784 TGGCTCCTTGAAAACTGAGACAATGTAACTTTAAAAATCTTGACATTAATTACCCAGAGGTTTTA
66 TGGCTCCTTGAAAATTGAGGCAACGTAACTTTAAAAATCTTGACATTAATTACCCAGAGGTTTTA
*
19020849 AAAGATGCA-C
131 AAAAATGCACC
*
19020859 TGGGAGGATTTAAGAGAATAATATGCCCGGAGGTCTTCAGAATGTACCCGAAGGATTTA-AGAAA
1 T-GGAGGATTTAAGAGAATAATATGCCCGGAGGTCTTCAGAATGTACCCGGAGGATTTAGA-AAA
* *
19020923 TGTGGCTCCATGAAAATTGAGGCAACGTAACTTTAAAAATCTTGACATTAATTACCCGGAGGTTT
64 TGTGGCTCCTTGAAAATTGAGGCAACGTAACTTTAAAAATCTTGACATTAATTACCCAGAGGTTT
19020988 TAAAAAATGCACC
129 TAAAAAATGCACC
** *
19021001 TGGAATATTTAAGAGAATAATATGCCCGGAGGTCTTCAGAATGTACCCGGAGGATTTAGGAAATG
1 TGGAGGATTTAAGAGAATAATATGCCCGGAGGTCTTCAGAATGTACCCGGAGGATTTAGAAAATG
*
19021066 TGGCTCCTCGAAAATTGAGGCAACGTAACTTTAAAAATCTTGACATTA
66 TGGCTCCTTGAAAATTGAGGCAACGTAACTTTAAAAATCTTGACATTA
19021114 GTTATCTGAA
Statistics
Matches: 235, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
140 2 0.01
141 231 0.98
142 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (141 bp):
TGGAGGATTTAAGAGAATAATATGCCCGGAGGTCTTCAGAATGTACCCGGAGGATTTAGAAAATG
TGGCTCCTTGAAAATTGAGGCAACGTAACTTTAAAAATCTTGACATTAATTACCCAGAGGTTTTA
AAAAATGCACC
Found at i:19022405 original size:78 final size:78
Alignment explanation
Indices: 19022276--19022431 Score: 233
Period size: 78 Copynumber: 2.0 Consensus size: 78
19022266 CATGAATTCC
* * * * *
19022276 CATCTTCGCTCTAGAGTGCCCTTTTGGGTTTTCACCTTAAAGCTTTATCTTTTTCACTCATTTTT
1 CATCTTCGCTCTAGACTGCCCTTTTAGGTTTTCACCCTAAAGCTTCATCTTTCTCACTCATTTTT
*
19022341 CTTTCTTTT-TTTT
66 -TTTATTTTATTTT
*
19022354 CATCTTCGCTCTAGACTGCCCTTTTAGGTTTTCACCCTAGAGCTTCATCTTTCTCACTCATTTTT
1 CATCTTCGCTCTAGACTGCCCTTTTAGGTTTTCACCCTAAAGCTTCATCTTTCTCACTCATTTTT
19022419 TTTATTTTATTTT
66 TTTATTTTATTTT
19022432 TTATTTTTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
77 7 0.10
78 63 0.90
ACGTcount: A:0.14, C:0.24, G:0.10, T:0.52
Consensus pattern (78 bp):
CATCTTCGCTCTAGACTGCCCTTTTAGGTTTTCACCCTAAAGCTTCATCTTTCTCACTCATTTTT
TTTATTTTATTTT
Found at i:19022440 original size:19 final size:18
Alignment explanation
Indices: 19022416--19022451 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19022406 CTCACTCATT
*
19022416 TTTTTTATTTTATTTTTTA
1 TTTTTTA-TATATTTTTTA
19022435 TTTTTTATATATTTTTT
1 TTTTTTATATATTTTTT
19022452 TGATTGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTATATATTTTTTA
Found at i:19022452 original size:21 final size:21
Alignment explanation
Indices: 19022413--19022452 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19022403 TTTCTCACTC
*
19022413 ATTTTTTTTATTTTATTTTTT
1 ATTTTTTATATTTTATTTTTT
*
19022434 ATTTTTTATATATT-TTTTT
1 ATTTTTTATATTTTATTTTT
19022453 GATTGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (21 bp):
ATTTTTTATATTTTATTTTTT
Found at i:19022870 original size:19 final size:18
Alignment explanation
Indices: 19022836--19022873 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19022826 AATTCTCATT
*
19022836 TTCATTTTTTCTTCTTCA
1 TTCATTTTTTCATCTTCA
19022854 TTCATTTTTTCAATCTTCA
1 TTCATTTTTTC-ATCTTCA
19022873 T
1 T
19022874 GTTGATGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (18 bp):
TTCATTTTTTCATCTTCA
Found at i:19023306 original size:11 final size:12
Alignment explanation
Indices: 19023285--19023309 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19023275 ATTCACTCAC
19023285 TTTCTTTTTTTT
1 TTTCTTTTTTTT
19023297 TTTCTTTTTTTT
1 TTTCTTTTTTTT
19023309 T
1 T
19023310 GACTTCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:19024096 original size:73 final size:72
Alignment explanation
Indices: 19023976--19024117 Score: 275
Period size: 73 Copynumber: 2.0 Consensus size: 72
19023966 TTCTTTCGAG
19023976 ATCATGTGCACATTTTATTGTCAAAAACCTTTTTCCTTTATGACCCTTTTTTCTTCTTTTTTTTT
1 ATCATGTGCACATTTTATTGTCAAAAACCTTTTTCCTTTATGACCCTTTTTTCTTCTTTTTTTTT
19024041 TTATTTA
66 TTATTTA
19024048 ANTCATGTGCACATTTTATTGTCAAAAACCTTTTTCCTTTATGACCCTTTTTTCTTCTTTTTTTT
1 A-TCATGTGCACATTTTATTGTCAAAAACCTTTTTCCTTTATGACCCTTTTTTCTTCTTTTTTTT
19024113 TTTAT
65 TTTAT
19024118 GATCTTTGAA
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 1 0.01
73 68 0.99
ACGTcount: A:0.19, C:0.18, G:0.06, T:0.56
Consensus pattern (72 bp):
ATCATGTGCACATTTTATTGTCAAAAACCTTTTTCCTTTATGACCCTTTTTTCTTCTTTTTTTTT
TTATTTA
Found at i:19029697 original size:15 final size:15
Alignment explanation
Indices: 19029670--19029709 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
19029660 TATATATATA
19029670 TTATTTCTTTATTCTT
1 TTATTT-TTTATTCTT
* *
19029686 TTCTTTTTTATTTTT
1 TTATTTTTTATTCTT
19029701 TTATTTTTT
1 TTATTTTTT
19029710 TTACGCTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (15 bp):
TTATTTTTTATTCTT
Found at i:19032793 original size:64 final size:65
Alignment explanation
Indices: 19032714--19032836 Score: 239
Period size: 65 Copynumber: 1.9 Consensus size: 65
19032704 AAAAAAAGCT
19032714 TAGCACATGTT-AAAAAAAAGCTACACAATTGATAATATTTGCTATGGGAATATTCAAATATGCC
1 TAGCACATGTTAAAAAAAAAGCTACACAATTGATAATATTTGCTATGGGAATATTCAAATATGCC
19032778 TAGCACATGTTAAAAAAAAAGCTACACAATTGATAATATTTGCTATGGGAATATTCAAA
1 TAGCACATGTTAAAAAAAAAGCTACACAATTGATAATATTTGCTATGGGAATATTCAAA
19032837 GATGTTTTAG
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
64 11 0.19
65 47 0.81
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (65 bp):
TAGCACATGTTAAAAAAAAAGCTACACAATTGATAATATTTGCTATGGGAATATTCAAATATGCC
Found at i:19033352 original size:217 final size:217
Alignment explanation
Indices: 19032854--19033506 Score: 817
Period size: 217 Copynumber: 3.0 Consensus size: 217
19032844 TAGACGAAAG
* * * * *
19032854 TCGTTATGGGAATATTCAAAGGCATTTTAGATGAAAAATCACGATAA-TCTCAAAAATCAAGTTA
1 TCGTTATGGGAATATTCAAAGGTATTTTAGATGAAAAATCACAACAACT-TCATACATCAAGTTA
19032918 CTATGACATCATAAATGAAAGATTGGCATTTAGTCTAGTATTTCATTTTCAAGAAATAGCTAGTG
65 CTATGACATCATAAATGAAAGATTGGCATTTAGTCTAGTATTTCATTTTCAAGAAATAGCTAGTG
* * * * * *
19032983 TAAAGAATGTGAATTTATTGGGGAAGGAAAAAAGGCCTCGCACATGCCACTTTCTTGTTAAAGAA
130 TAAAGAATGTGAATTTATTGTGAAAGGAAAAAATGCCTAGCACATGCTAATTTCTTGTTAAAGAA
* * *
19033048 AAAAGTTAACACAACTAACAATAT
195 AAAAGCT-ACACAACTGATAATAT
* * * * * * *
19033072 TCATCATGGGAATATTCAAAGGTATTTCAGAAGAAAAATCACAACAGCCTCGTACATCAAGTTAC
1 TCGTTATGGGAATATTCAAAGGTATTTTAGATGAAAAATCACAACAACTTCATACATCAAGTTAC
* ** ** * * *
19033137 CATGACATCATAAACAAAAGCCTGGAATTT-GGCTAGTATTTCATTTTCAAGAAATAGCTTAGAG
66 TATGACATCATAAATGAAAGATTGGCATTTAGTCTAGTATTTCATTTTCAAGAAATAGC-TAGTG
* * ** *
19033201 CAAAGAATGTGAATTTATTATGAAAGGAAAAAATGCCTAGCATGTGCTAATTTATTGTTAAAGAA
130 TAAAGAATGTGAATTTATTGTGAAAGGAAAAAATGCCTAGCACATGCTAATTTCTTGTTAAAGAA
* *
19033266 AAAAGCTACATAACTGATGATAT
195 AAAAGCTACACAACTGATAATAT
* * * *
19033289 TTGTTATGGGAATATTCAAAGGTGTTTTAGATGAAAAATAAAAACAACTTCATACATCAAGTTAC
1 TCGTTATGGGAATATTCAAAGGTATTTTAGATGAAAAATCACAACAACTTCATACATCAAGTTAC
* ** * * *
19033354 TAT-AGCATCATAAATGAATGATTCTCATTTAGTCTCGTACTTCATTATCAAGAAATAGCTAGTG
66 TATGA-CATCATAAATGAAAGATTGGCATTTAGTCTAGTATTTCATTTTCAAGAAATAGCTAGTG
* *
19033418 TAAAGAATGTGAATTTATTGTGAAAGGAAAAAATACCTAGCACATGCTAATTTCTTGCTAAAGAA
130 TAAAGAATGTGAATTTATTGTGAAAGGAAAAAATGCCTAGCACATGCTAATTTCTTGTTAAAGAA
19033483 AAAAGCTACACAACTGATAATAT
195 AAAAGCTACACAACTGATAATAT
19033506 T
1 T
19033507 GTATTTTAGA
Statistics
Matches: 361, Mismatches: 70, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
216 1 0.00
217 196 0.54
218 164 0.45
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (217 bp):
TCGTTATGGGAATATTCAAAGGTATTTTAGATGAAAAATCACAACAACTTCATACATCAAGTTAC
TATGACATCATAAATGAAAGATTGGCATTTAGTCTAGTATTTCATTTTCAAGAAATAGCTAGTGT
AAAGAATGTGAATTTATTGTGAAAGGAAAAAATGCCTAGCACATGCTAATTTCTTGTTAAAGAAA
AAAGCTACACAACTGATAATAT
Found at i:19034026 original size:215 final size:217
Alignment explanation
Indices: 19033674--19034063 Score: 534
Period size: 215 Copynumber: 1.8 Consensus size: 217
19033664 CAGTACAGTC
* * * * **
19033674 GATAATATTTGCTATGGGAATATTCAAAGGTATTTTAGACGAAAAATCATGAGAGTTTCATCAAT
1 GATAATATTCGCTATGAGAATATTCAAAGGTATTTTAGAAGAAAAATCACGAGAGCCTCATCAAT
* * * * * ** *
19033739 CAAGTTATTATTACATCATAAACGAAAGATTCTTATTTAGTCTAGTATTTCATTTTCAGGAAATA
66 CAAGTTATTATGACATCATAAACGAAAGATTCTCATTTAATCTAGGATTTAATTACCAAGAAATA
* *
19033804 ACTAGTGTAAAGACTATGAATTTATTGGGGAAGGAAAAAA-ACCTAGCACATGCAACTTTCTCAC
131 ACTAGTGTAAAGAATATGAATTTATTGGGAAAGGAAAAAATACCTAGCACATGCAACTTTCTCAC
19033868 TAAAGAAAAAAGTGACACCACT
196 TAAAGAAAAAAGTGACACCACT
* *
19033890 GATAATATTCGTTATGAGAATATTCAAAGGTATTTTAGAAG-AAAATCACGATAGCCTCAT-ACA
1 GATAATATTCGCTATGAGAATATTCAAAGGTATTTTAGAAGAAAAATCACGAGAGCCTCATCA-A
* * *
19033953 TTAAGTTATTGTGACATCATAAACGAAAGATTGTCATTTAATCTAGGATTTAATTACCAAGAAAT
65 TCAAGTTATTATGACATCATAAACGAAAGATTCTCATTTAATCTAGGATTTAATTACCAAGAAAT
* * *
19034018 AGCTAGTGTAAAGAATGTGAATTTATTGTGAAAGGAAAAAATACCT
130 AACTAGTGTAAAGAATATGAATTTATTGGGAAAGGAAAAAATACCT
19034064 CGTACGTGGT
Statistics
Matches: 148, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
214 1 0.01
215 106 0.72
216 41 0.28
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (217 bp):
GATAATATTCGCTATGAGAATATTCAAAGGTATTTTAGAAGAAAAATCACGAGAGCCTCATCAAT
CAAGTTATTATGACATCATAAACGAAAGATTCTCATTTAATCTAGGATTTAATTACCAAGAAATA
ACTAGTGTAAAGAATATGAATTTATTGGGAAAGGAAAAAATACCTAGCACATGCAACTTTCTCAC
TAAAGAAAAAAGTGACACCACT
Found at i:19034968 original size:7 final size:7
Alignment explanation
Indices: 19034951--19035040 Score: 62
Period size: 7 Copynumber: 12.4 Consensus size: 7
19034941 TTTATGCTTA
19034951 TTTTA-T
1 TTTTATT
19034957 TTTTATT
1 TTTTATT
19034964 TTTTATAT
1 TTTTAT-T
19034972 ATTTT-TT
1 -TTTTATT
19034979 ATTATTATGT
1 -TT-TTAT-T
19034989 TTTT-TT
1 TTTTATT
*
19034995 ATTT-TT
1 TTTTATT
*
19035001 TTTCATT
1 TTTTATT
19035008 TTATCTATT
1 TT-T-TATT
*
19035017 TATTATT
1 TTTTATT
19035024 TTTTATT
1 TTTTATT
19035031 TTTTATT
1 TTTTATT
19035038 TTT
1 TTT
19035041 GACTAATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
6 13 0.19
7 36 0.52
8 8 0.12
9 11 0.16
10 1 0.01
ACGTcount: A:0.18, C:0.02, G:0.01, T:0.79
Consensus pattern (7 bp):
TTTTATT
Found at i:19035009 original size:33 final size:34
Alignment explanation
Indices: 19034956--19035036 Score: 91
Period size: 33 Copynumber: 2.4 Consensus size: 34
19034946 GCTTATTTTA
19034956 TTTTTATTTTTTATATATTTT-T-TA-TTATTATGTT
1 TTTTTATTTTTTATATATTTTATCTATTTATTA---T
19034990 TTTTTATTTTTT-T-TCATTTTATCTATTTATTAT
1 TTTTTATTTTTTATAT-ATTTTATCTATTTATTAT
19035023 TTTTTATTTTTTAT
1 TTTTTATTTTTTAT
19035037 TTTTGACTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
32 1 0.02
33 19 0.45
34 14 0.33
35 2 0.05
36 6 0.14
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.78
Consensus pattern (34 bp):
TTTTTATTTTTTATATATTTTATCTATTTATTAT
Found at i:19035034 original size:25 final size:23
Alignment explanation
Indices: 19034951--19035040 Score: 92
Period size: 25 Copynumber: 3.7 Consensus size: 23
19034941 TTTATGCTTA
19034951 TTTTATTTTTATTTTTTATATATT
1 TTTTATTTTTATTTTTTAT-TATT
*
19034975 TTTTATTATTATGTTTTT-TTATT
1 TTTTATTTTTAT-TTTTTATTATT
* *
19034998 TTTTTTCATTTTATCTATTTATTATT
1 TTTTAT--TTTTAT-TTTTTATTATT
19035024 TTTTATTTTTTATTTTT
1 TTTTA-TTTTTATTTTT
19035041 GACTAATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
23 9 0.17
24 15 0.28
25 20 0.37
26 9 0.17
27 1 0.02
ACGTcount: A:0.18, C:0.02, G:0.01, T:0.79
Consensus pattern (23 bp):
TTTTATTTTTATTTTTTATTATT
Found at i:19039171 original size:22 final size:21
Alignment explanation
Indices: 19039143--19039195 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 21
19039133 TTCAATTGTG
19039143 TATTTTTGACTG-ATTTTTTTT
1 TATTTTTGA-TGCATTTTTTTT
19039164 ATATTTTTTGGATGCATTTTTTTT
1 -TA-TTTTT-GATGCATTTTTTTT
19039188 TATTTTTG
1 TATTTTTG
19039196 GATTATTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
21 1 0.04
22 7 0.25
23 9 0.32
24 11 0.39
ACGTcount: A:0.15, C:0.04, G:0.11, T:0.70
Consensus pattern (21 bp):
TATTTTTGATGCATTTTTTTT
Found at i:19039196 original size:22 final size:22
Alignment explanation
Indices: 19039143--19039198 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
19039133 TTCAATTGTG
19039143 TATTTTT-GACTGATTTTTTTTA
1 TATTTTTGGA-TGATTTTTTTTA
19039165 TATTTTTTGGATGCATTTTTTTT-
1 TA-TTTTTGGATG-ATTTTTTTTA
19039188 TATTTTTGGAT
1 TATTTTTGGAT
19039199 TATTGTGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.35
23 9 0.29
24 11 0.35
ACGTcount: A:0.16, C:0.04, G:0.12, T:0.68
Consensus pattern (22 bp):
TATTTTTGGATGATTTTTTTTA
Found at i:19039839 original size:58 final size:56
Alignment explanation
Indices: 19039770--19039883 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 56
19039760 AAAATAAATT
19039770 AAAAAAATAATAATAGTAATAAAAATAGGAGAGAGAGAGAGAGAGGAGGGGTACGAC
1 AAAAAAATAATAATAGTAATAAAAATAGGAGAGAGAGAGAGAGA-GAGGGGTACGAC
19039827 NAAAAAAATAATAATAGTAATAAAAATAGGAGAGAGAGAGAGAGAGAGGGGTACGAC
1 -AAAAAAATAATAATAGTAATAAAAATAGGAGAGAGAGAGAGAGAGAGGGGTACGAC
19039884 TGGCAGGGGG
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 12 0.21
58 44 0.79
ACGTcount: A:0.54, C:0.04, G:0.29, T:0.12
Consensus pattern (56 bp):
AAAAAAATAATAATAGTAATAAAAATAGGAGAGAGAGAGAGAGAGAGGGGTACGAC
Found at i:19041678 original size:26 final size:27
Alignment explanation
Indices: 19041644--19041706 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
19041634 CCGAGATTTT
* *
19041644 TAATTATAAATA-AACAAAAAATATAA
1 TAATAATAAATATAACAAAAAATAAAA
* *
19041670 TAATAATAAA-ATAATAAATAATAAAA
1 TAATAATAAATATAACAAAAAATAAAA
*
19041696 TAAAAATAAAT
1 TAATAATAAAT
19041707 TTCACAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (27 bp):
TAATAATAAATATAACAAAAAATAAAA
Found at i:19041682 original size:8 final size:8
Alignment explanation
Indices: 19041661--19041698 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
19041651 AAATAAACAA
19041661 AAAAT-AT
1 AAAATAAT
19041668 AATAATAAT
1 AA-AATAAT
19041677 AAAATAAT
1 AAAATAAT
19041685 -AAATAAT
1 AAAATAAT
19041692 AAAATAA
1 AAAATAA
19041699 AAATAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 9 0.32
8 15 0.54
9 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAATAAT
Found at i:19041689 original size:18 final size:16
Alignment explanation
Indices: 19041649--19041706 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 16
19041639 ATTTTTAATT
*
19041649 ATAAATAA-ACAAAAA
1 ATAAATAATAAAAAAA
19041664 ATATAATAATAATAAAATA
1 ATA-AATAATAA-AAAA-A
19041683 ATAAATAATAAAATAAAA
1 ATAAATAAT-AAA-AAAA
19041701 ATAAAT
1 ATAAAT
19041707 TTCACAAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 3 0.08
16 5 0.14
17 1 0.03
18 18 0.50
19 9 0.25
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (16 bp):
ATAAATAATAAAAAAA
Found at i:19053760 original size:38 final size:38
Alignment explanation
Indices: 19053706--19054242 Score: 557
Period size: 38 Copynumber: 13.9 Consensus size: 38
19053696 AAAGAGAAAC
* * *
19053706 AAAGTTTCATTACCTCAGTTTTGAGGAGTTCATTTTTA
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
*
19053744 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTAAAAAAAAA
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTT-------TA
* * *
19053789 AAAATCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTAA
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
* * * * *
19053827 AAAATCTCATTGCCTTAGCTTTGAAGAGTTCATTTTTA
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
* *
19053865 GAAGTTTCGTTGCCTCAGCTTTGAGGAGTCCATTTTT-
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
**
19053902 AAAGTTAGGTTGCCTCAGCTTTGAGGAGTTTCATTTTT-
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAG-TTCATTTTTA
* *
19053940 AAAGTTTCGTTGCCTTAGCTTTGACGAGTTCATTTTTA
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
*
19053978 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTTA-TTTTA
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
19054015 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTTAAA
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-TTTTT--A
* * * *
19054056 AAAGTTTCGTTGTCTCAACTTTGAGGGGTTCATTTTTTTT
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA--TTTTTA
* **
19054096 AAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTT-
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
** *
19054133 AAAGTCTT-GTTGCCTCAATTTTGAGGAGTTTATTTTT-
1 AAAGT-TTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
** ** *
19054170 AAAGTTTTATTGCCTCAATTTTGAAGAGTTCATTTTT-
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
* * *
19054207 AAAGTCTCGTTGCCTTAGCTTTAAGGAGTCTCATTT
1 AAAGTTTCGTTGCCTCAGCTTTGAGGAGT-TCATTT
19054243 AAAAAAATAA
Statistics
Matches: 432, Mismatches: 50, Indels: 34
0.84 0.10 0.07
Matches are distributed among these distances:
36 2 0.00
37 154 0.36
38 173 0.40
39 4 0.01
40 28 0.06
41 30 0.07
42 6 0.01
45 35 0.08
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (38 bp):
AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
Found at i:19053916 original size:37 final size:37
Alignment explanation
Indices: 19053795--19054242 Score: 502
Period size: 37 Copynumber: 11.8 Consensus size: 37
19053785 AAAAAAAATC
* * *
19053795 TCGTTGCCTCAGCTTTGAGGAGTTCATTTTAAAAAATC
1 TCGTTGCCTCAGCTTTGAGGAGTTCATTTT-TAAAGTT
* * *
19053833 TCATTGCCTTAGCTTTGAAGAGTTCATTTTTAGAAGTT
1 TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA-AAGTT
*
19053871 TCGTTGCCTCAGCTTTGAGGAGTCCATTTTTAAAGTT
1 TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAGTT
**
19053908 AGGTTGCCTCAGCTTTGAGGAGTTTCATTTTTAAAGTT
1 TCGTTGCCTCAGCTTTGAGGAG-TTCATTTTTAAAGTT
* *
19053946 TCGTTGCCTTAGCTTTGACGAGTTCATTTTTAAAAGTT
1 TCGTTGCCTCAGCTTTGAGGAGTTCATTTTT-AAAGTT
* *
19053984 TCGTTGCCTCAGCTTTGAGGAGTTTATTTTAAAAGTT
1 TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAGTT
19054021 TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTTAAAAAAGTT
1 TCGTTGCCTCAGCTTTGAGGAGTTCA-TTTTT---AAAGTT
* * *
19054062 TCGTTGTCTCAACTTTGAGGGGTTCATTTTTTTTAAAGTT
1 TCGTTGCCTCAGCTTTGAGGAGTTCA---TTTTTAAAGTT
* **
19054102 TCATTGCCTCAATTTTGAGGAGTTCATTTTTAAAGTCT
1 TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAGT-T
** *
19054140 T-GTTGCCTCAATTTTGAGGAGTTTATTTTTAAAGTT
1 TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAGTT
** ** * *
19054176 TTATTGCCTCAATTTTGAAGAGTTCATTTTTAAAGTC
1 TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAGTT
* *
19054213 TCGTTGCCTTAGCTTTAAGGAGTCTCATTT
1 TCGTTGCCTCAGCTTTGAGGAGT-TCATTT
19054243 AAAAAAATAA
Statistics
Matches: 355, Mismatches: 43, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
36 2 0.01
37 155 0.44
38 135 0.38
40 28 0.08
41 29 0.08
43 6 0.02
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (37 bp):
TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAGTT
Found at i:19053995 original size:113 final size:111
Alignment explanation
Indices: 19053795--19054242 Score: 493
Period size: 113 Copynumber: 3.9 Consensus size: 111
19053785 AAAAAAAATC
* * * * *
19053795 TCGTTGCCTCAGCTTTGAGGAGTTCATTTTAAAAAATCTCATTGCCTTAGCTTTGAAGAGTTCAT
1 TCGTTGCCTCAGCTTTGAGGAGTTCATTTT-TAAAGTTTCATTGCCTCAACTTTGAAGAGTTCAT
*
19053860 TTTTAGAAGTTTCGTTGCCTCAGCTTTGAGGAGTCCATTTTTAAAGT
65 TTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTCCATTTTTAAAGT
* * * * *
19053907 TAGGTTGCCTCAGCTTTGAGGAGTTTCATTTTTAAAGTTTCGTTGCCTTAGCTTTGACGAGTTCA
1 T-CGTTGCCTCAGCTTTGAGGAG-TTCATTTTTAAAGTTTCATTGCCTCAACTTTGAAGAGTTCA
** *
19053972 TTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTTATTTTAAAAGTT
64 TTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTCCATTTTTAAAG-T
* * * *
19054021 TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTTAAAAAAGTTTCGTTGTCTCAACTTTGAGGGGTT
1 TCGTTGCCTCAGCTTTGAGGAGTTCA-TTTTT---AAAGTTTCATTGCCTCAACTTTGAAGAGTT
* * ** *
19054086 CATTTTTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTTAAAGT
62 CA--TTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTCCATTTTTAAAGT
* ** * * *
19054138 CTTGTTGCCTCAATTTTGAGGAGTTTATTTTTAAAGTTTTATTGCCTCAATTTTGAAGAGTTCAT
1 -TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAGTTTCATTGCCTCAACTTTGAAGAGTTCAT
* * *
19054203 TTTT-AAAGTCTCGTTGCCTTAGCTTTAAGGAGTCTCATTT
65 TTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTC-CATTT
19054243 AAAAAAATAA
Statistics
Matches: 286, Mismatches: 39, Indels: 22
0.82 0.11 0.06
Matches are distributed among these distances:
111 23 0.08
112 15 0.05
113 116 0.41
114 36 0.13
116 27 0.09
117 6 0.02
118 63 0.22
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (111 bp):
TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAGTTTCATTGCCTCAACTTTGAAGAGTTCATT
TTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTCCATTTTTAAAGT
Found at i:19054286 original size:14 final size:14
Alignment explanation
Indices: 19054263--19054296 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
19054253 AAATAAAAAG
19054263 AAAC-AAAAAACAA
1 AAACAAAAAAACAA
19054276 AAACAAAAAAACAA
1 AAACAAAAAAACAA
19054290 AAA-AAAA
1 AAACAAAA
19054297 CCTTGGTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (14 bp):
AAACAAAAAAACAA
Found at i:19054295 original size:24 final size:23
Alignment explanation
Indices: 19054243--19054297 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
19054233 AGTCTCATTT
* * *
19054243 AAAAAAATAAAAATAAAAAGAAA
1 AAAAAAACAAAAACAAAAAAAAA
*
19054266 CAAAAAACAAAAACAAAAAAACAA
1 AAAAAAACAAAAACAAAAAAA-AA
19054290 AAAAAAAC
1 AAAAAAAC
19054298 CTTGGTAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.85, C:0.09, G:0.02, T:0.04
Consensus pattern (23 bp):
AAAAAAACAAAAACAAAAAAAAA
Found at i:19057532 original size:2 final size:2
Alignment explanation
Indices: 19057525--19057582 Score: 73
Period size: 2 Copynumber: 29.5 Consensus size: 2
19057515 TACCATTTAA
* * *
19057525 AT AT AT AT AT AC AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
19057567 AT A- AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT A
19057583 ACAATGTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:19060884 original size:92 final size:92
Alignment explanation
Indices: 19060623--19060894 Score: 350
Period size: 92 Copynumber: 2.9 Consensus size: 92
19060613 AATTAAAGCT
* * *
19060623 CTTGCCTTATATGGTAAGTTGGTTGTAATTTTTTTCCTTACACGGAAACCTAGGATTTACTTACC
1 CTTGCCTTATATAGTAAGTTGGCTGTAATTTTTTT-CTTACAAGGAAACCTAGGATTTACTTACC
* *
19060688 ATGAATTAATGAT-TTACTCTTTTTGGCC
65 ATGAATGAGTG-TCTTACTCTTTTTGGCC
* ** * * *
19060716 CTTGCCTTGTATAGTAAGTTGGCTGTACCTTTTTCCTCACAAGGAAACCCAGGATTTACTTACCA
1 CTTGCCTTATATAGTAAGTTGGCTGTAATTTTTTTCTTACAAGGAAACCTAGGATTTACTTACCA
*
19060781 TGCATCG-GTGTCTTACTCTTTTTGGCC
66 TGAAT-GAGTGTCTTACTCTTTTTGGCC
* * *
19060808 CTTGCCTTATATAGTAAGTTGGCTGTAATTTTTTTCTTGCAAAGAAACCTATGATTTACTTACCA
1 CTTGCCTTATATAGTAAGTTGGCTGTAATTTTTTTCTTACAAGGAAACCTAGGATTTACTTACCA
* *
19060873 TGAATGAGTGTCCTACCCTTTT
66 TGAATGAGTGTCTTACTCTTTT
19060895 CCGATGACTA
Statistics
Matches: 152, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
91 2 0.01
92 121 0.80
93 29 0.19
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (92 bp):
CTTGCCTTATATAGTAAGTTGGCTGTAATTTTTTTCTTACAAGGAAACCTAGGATTTACTTACCA
TGAATGAGTGTCTTACTCTTTTTGGCC
Found at i:19065796 original size:23 final size:23
Alignment explanation
Indices: 19065743--19065797 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
19065733 TATAAACCAT
19065743 AATTTTTAATATTAAAAATAAAA
1 AATTTTTAATATTAAAAATAAAA
**
19065766 AAAATTTAATATTAAAAATAAAA
1 AATTTTTAATATTAAAAATAAAA
*
19065789 ATTTTTTAA
1 AATTTTTAA
19065798 AAATTGATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTTTTAATATTAAAAATAAAA
Found at i:19096812 original size:2 final size:2
Alignment explanation
Indices: 19096805--19096832 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19096795 AGAATGGTTT
19096805 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19096833 ACAAAGCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19097763 original size:28 final size:28
Alignment explanation
Indices: 19097727--19097887 Score: 128
Period size: 28 Copynumber: 5.8 Consensus size: 28
19097717 AATTATGATG
*
19097727 TGACGTGTAACAATTAAATTTTTTAACA
1 TGACGTGTAACAATTAAATTTTTCAACA
* * * * *
19097755 TGACATGTAATAACTAAA-TCTTCAATA
1 TGACGTGTAACAATTAAATTTTTCAACA
** * * * * *
19097782 AAACGCGTAATAACTATATTTTTTAACA
1 TGACGTGTAACAATTAAATTTTTCAACA
**
19097810 TGATTTGTAACAATTAAATTTTTCAACA
1 TGACGTGTAACAATTAAATTTTTCAACA
* *
19097838 TAACGTGTAACAATTAAA-TTTTCAATA
1 TGACGTGTAACAATTAAATTTTTCAACA
* * *
19097865 TGATGTATAATAATTAAATTTTT
1 TGACGTGTAACAATTAAATTTTT
19097888 AATATAATGT
Statistics
Matches: 100, Mismatches: 31, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
27 41 0.41
28 59 0.59
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (28 bp):
TGACGTGTAACAATTAAATTTTTCAACA
Found at i:19097868 original size:55 final size:55
Alignment explanation
Indices: 19097729--19097887 Score: 158
Period size: 55 Copynumber: 2.9 Consensus size: 55
19097719 TTATGATGTG
* * * *
19097729 ACGTGTAACAATTAAATTTTTTAACATGACATGTAATAACTAAA-TCTTCAATAAA
1 ACGTGTAACAATTAAA-TTTTTAACATGATATGTAATAATTAAATTTTTCAACAAA
* * * * * * *
19097784 ACGCGTAATAACTATATTTTTTAACATGATTTGTAACAATTAAATTTTTCAACATA
1 ACGTGTAACAATTA-AATTTTTAACATGATATGTAATAATTAAATTTTTCAACAAA
* * * *
19097840 ACGTGTAACAATTAAATTTTCAATATGATGTATAATAATTAAATTTTT
1 ACGTGTAACAATTAAATTTTTAACATGATATGTAATAATTAAATTTTT
19097888 AATATAATGT
Statistics
Matches: 82, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
55 62 0.76
56 20 0.24
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (55 bp):
ACGTGTAACAATTAAATTTTTAACATGATATGTAATAATTAAATTTTTCAACAAA
Found at i:19097876 original size:83 final size:83
Alignment explanation
Indices: 19097732--19097887 Score: 195
Period size: 83 Copynumber: 1.9 Consensus size: 83
19097722 TGATGTGACG
* * * *
19097732 TGTAACAATTAAATTTTTTAACATGACATGTAATAACTAAATCTTCAATAAAACGCGTAATAACT
1 TGTAACAATTAAATTTTTCAACATAACATGTAACAACTAAATCTTCAATAAAACGCATAATAACT
*
19097797 ATATTTTTTAACATGATT
66 AAATTTTTTAACATGATT
* * * ** * * *
19097815 TGTAACAATTAAATTTTTCAACATAACGTGTAACAATTAAATTTTCAATATGATGTATAATAATT
1 TGTAACAATTAAATTTTTCAACATAACATGTAACAACTAAATCTTCAATAAAACGCATAATAACT
19097880 AAATTTTT
66 AAATTTTT
19097888 AATATAATGT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
83 60 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (83 bp):
TGTAACAATTAAATTTTTCAACATAACATGTAACAACTAAATCTTCAATAAAACGCATAATAACT
AAATTTTTTAACATGATT
Found at i:19097879 original size:27 final size:27
Alignment explanation
Indices: 19097817--19097897 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
19097807 ACATGATTTG
* * *
19097817 TAACAATTAAATTTTTCAACATAACGTG
1 TAACAATTAAA-TTTTCAATATAATGTA
*
19097845 TAACAATTAAATTTTCAATATGATGTA
1 TAACAATTAAATTTTCAATATAATGTA
* *
19097872 TAATAATTAAATTTTTAATATAATGT
1 TAACAATTAAATTTTCAATATAATGT
19097898 CAATGTGTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 35 0.76
28 11 0.24
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (27 bp):
TAACAATTAAATTTTCAATATAATGTA
Found at i:19107211 original size:13 final size:13
Alignment explanation
Indices: 19107193--19107220 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19107183 ATATTGGACT
19107193 TGAGATGAATTAA
1 TGAGATGAATTAA
19107206 TGAGATGAATTAA
1 TGAGATGAATTAA
19107219 TG
1 TG
19107221 TCAAATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.25, T:0.32
Consensus pattern (13 bp):
TGAGATGAATTAA
Found at i:19107976 original size:27 final size:27
Alignment explanation
Indices: 19107941--19108019 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
19107931 GCAACTGCAT
19107941 TTTTCAATATAATATGTAACAATTAAA
1 TTTTCAATATAATATGTAACAATTAAA
*** * * *
19107968 TTTTCAATATGGCATATAACAACTATA
1 TTTTCAATATAATATGTAACAATTAAA
*
19107995 TTTTCAACATAATATGTAACAATTA
1 TTTTCAATATAATATGTAACAATTA
19108020 TTTCCAAATC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.39
Consensus pattern (27 bp):
TTTTCAATATAATATGTAACAATTAAA
Found at i:19108158 original size:29 final size:29
Alignment explanation
Indices: 19108122--19108198 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
19108112 AAAGAATAAA
19108122 AAATGTTTGACCTTTAATTATTACAATTG
1 AAATGTTTGACCTTTAATTATTACAATTG
*
19108151 AAATGTTTGA-CTCTTAATTGTTACAATTG
1 AAATGTTTGACCT-TTAATTATTACAATTG
** *
19108180 AAACATTTGACCCTTAATT
1 AAATGTTTGACCTTTAATT
19108199 GAAAAGATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.05
29 39 0.93
30 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (29 bp):
AAATGTTTGACCTTTAATTATTACAATTG
Found at i:19109333 original size:29 final size:29
Alignment explanation
Indices: 19109276--19109333 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
19109266 CAACGAAATT
* *
19109276 AAAAGTATAATGATTACTTCACTCTAAAAA
1 AAAAGTATAATGATAACTTCAC-ATAAAAA
19109306 AAAAGTATAATGATAACATTCA-ATAAAA
1 AAAAGTATAATGATAAC-TTCACATAAAA
19109334 TTATAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 16 0.64
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (29 bp):
AAAAGTATAATGATAACTTCACATAAAAA
Found at i:19115927 original size:123 final size:123
Alignment explanation
Indices: 19115715--19115977 Score: 420
Period size: 123 Copynumber: 2.1 Consensus size: 123
19115705 TATAAAATTA
* * *
19115715 AGTCTTTAAGAGTCAAACACTACAGAATTTCTGTTCTTTTCTTTTCCTTTCTTAGTTTCCTTGCC
1 AGTCTTTAAGAGTCAAACACTACAGAATTTCTGTTCTTTTCTTTTCCTTTCATAGTTTCCGTACC
* *
19115780 TTATGCTGTGTCGGTGTGATGTCTAGTTTCCAAAGTCATCAGCCTGACAACAAAATGT
66 TTATGCTGTGTCGGTGCGATGTCTAGTTTCCAAAGTCACCAGCCTGACAACAAAATGT
* * * *
19115838 ATTCTTCAAGAGTCAAACACTATAGAATTCTTTGTTCTTTTCTTTTCCTTTCATAGTTTCCGTAC
1 AGTCTTTAAGAGTCAAACACTACAGAATT-TCTGTTCTTTTCTTTTCCTTTCATAGTTTCCGTAC
*
19115903 CTT-TGCTGTGTCGGTGCGATGTCTAGTTTCCAAAGTCACCAGTCTGACAACAAAATGT
65 CTTATGCTGTGTCGGTGCGATGTCTAGTTTCCAAAGTCACCAGCCTGACAACAAAATGT
19115961 AGTCTTTAAGAGTCAAA
1 AGTCTTTAAGAGTCAAA
19115978 ATAGGGTAAA
Statistics
Matches: 127, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
123 93 0.73
124 34 0.27
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (123 bp):
AGTCTTTAAGAGTCAAACACTACAGAATTTCTGTTCTTTTCTTTTCCTTTCATAGTTTCCGTACC
TTATGCTGTGTCGGTGCGATGTCTAGTTTCCAAAGTCACCAGCCTGACAACAAAATGT
Found at i:19137766 original size:21 final size:23
Alignment explanation
Indices: 19137717--19137766 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
19137707 AAAAAAAATC
* *
19137717 ATAATATTTGAAAATATTTTTAA
1 ATAATATTTGAAAATATATTAAA
19137740 AT--TATTT-AAAA-ATATTAAA
1 ATAATATTTGAAAATATATTAAA
19137759 ATAATATT
1 ATAATATT
19137767 ATTTTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
19 8 0.35
20 4 0.17
21 9 0.39
23 2 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
ATAATATTTGAAAATATATTAAA
Found at i:19143221 original size:55 final size:53
Alignment explanation
Indices: 19143134--19143339 Score: 187
Period size: 55 Copynumber: 3.8 Consensus size: 53
19143124 GTGCAACAAT
* ** * *
19143134 TAAATTTTTCAATATGACATGTAACAATTAAATCTTCAACAAGACGCGTAATAAC
1 TAAATTTTT-AACATGATGTGTAACAACTAAATCTTCAACAAG-CGTGTAATAAC
* * * * *
19143189 TATATTTTTTAACATGATTTGTAACAACTAAATTTTTCAACATAGCGTGTAACAAT
1 TA-AATTTTTAACATGATGTGTAACAACTAAA-TCTTCAACA-AGCGTGTAATAAC
* * * * *
19143245 TAAATTTTTAACATGATGTGTAACAATTATAATTTTCAACATGGCATATAATAAC
1 TAAATTTTTAACATGATGTGTAACAACTA-AATCTTCAACA-AGCGTGTAATAAC
* * *
19143300 TAAATTTTTAACATGACGTGTAATAACTAAATCTTTAACA
1 TAAATTTTTAACATGATGTGTAACAACTAAATCTTCAACA
19143340 TGACATATAA
Statistics
Matches: 125, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
54 9 0.07
55 88 0.70
56 26 0.21
57 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (53 bp):
TAAATTTTTAACATGATGTGTAACAACTAAATCTTCAACAAGCGTGTAATAAC
Found at i:19143265 original size:27 final size:27
Alignment explanation
Indices: 19143120--19143364 Score: 204
Period size: 27 Copynumber: 8.9 Consensus size: 27
19143110 AATTATGACG
* *
19143120 TGACGTGCAACAATTAAATTTTTCAATA
1 TGACGTGTAACAATTAAATTTTT-AACA
* * *
19143148 TGACATGTAACAATTAAATCTTCAACA
1 TGACGTGTAACAATTAAATTTTTAACA
* * * * *
19143175 AGACGCGTAATAACTATATTTTTTAACA
1 TGACGTGTAACAATTA-AATTTTTAACA
** *
19143203 TGATTTGTAACAACTAAATTTTTCAACA
1 TGACGTGTAACAATTAAATTTTT-AACA
19143231 T-AGCGTGTAACAATTAAATTTTTAACA
1 TGA-CGTGTAACAATTAAATTTTTAACA
* *
19143258 TGATGTGTAACAATTATAATTTTCAACA
1 TGACGTGTAACAATTA-AATTTTTAACA
* * * * *
19143286 TGGCATATAATAACTAAATTTTTAACA
1 TGACGTGTAACAATTAAATTTTTAACA
* * *
19143313 TGACGTGTAATAACTAAATCTTTAACA
1 TGACGTGTAACAATTAAATTTTTAACA
* * *
19143340 TGACATATAACAATTACATTTTTAA
1 TGACGTGTAACAATTAAATTTTTAA
19143365 TGTAATTTTT
Statistics
Matches: 171, Mismatches: 41, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
27 90 0.53
28 81 0.47
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.36
Consensus pattern (27 bp):
TGACGTGTAACAATTAAATTTTTAACA
Found at i:19143286 original size:83 final size:83
Alignment explanation
Indices: 19143128--19143343 Score: 238
Period size: 83 Copynumber: 2.6 Consensus size: 83
19143118 CGTGACGTGC
* * * * * *
19143128 AACAATTAAATTTTTCAATATGACATGTAACAATTAAATCTTCAACAAGACGCGTAATAACTATA
1 AACAACTAAATTTTTCAACATGACGTGTAACAATTAAATCTTTAACATGACGCGTAACAACTATA
* * ** *
19143193 TTTTTTAACATGATTTGT
66 ATTTTCAACATGACATAT
* * * *
19143211 AACAACTAAATTTTTCAACAT-AGCGTGTAACAATTAAATTTTTAACATGATGTGTAACAATTAT
1 AACAACTAAATTTTTCAACATGA-CGTGTAACAATTAAATCTTTAACATGACGCGTAACAACTAT
*
19143275 AATTTTCAACATGGCATAT
65 AATTTTCAACATGACATAT
* * *
19143294 AATAACTAAATTTTT-AACATGACGTGTAATAACTAAATCTTTAACATGAC
1 AACAACTAAATTTTTCAACATGACGTGTAACAATTAAATCTTTAACATGAC
19143344 ATATAACAAT
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
82 30 0.27
83 80 0.73
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (83 bp):
AACAACTAAATTTTTCAACATGACGTGTAACAATTAAATCTTTAACATGACGCGTAACAACTATA
ATTTTCAACATGACATAT
Found at i:19159255 original size:20 final size:20
Alignment explanation
Indices: 19159230--19159267 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
19159220 GCTACAATTT
19159230 GTGTCTTTCACAATGTCCAG
1 GTGTCTTTCACAATGTCCAG
19159250 GTGTCTTTCACAATGTCC
1 GTGTCTTTCACAATGTCC
19159268 CAGTATCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.37
Consensus pattern (20 bp):
GTGTCTTTCACAATGTCCAG
Found at i:19159713 original size:30 final size:29
Alignment explanation
Indices: 19159633--19159714 Score: 71
Period size: 30 Copynumber: 2.8 Consensus size: 29
19159623 CAAGCTTTTA
* *
19159633 TATTTTTATTTTGA-GCCAAAT-AAGTCTT
1 TATTTTTATTTT-ATGTCAAATAAACTCTT
* *
19159661 TATACTTTT-TTTTGTGTAAAATAAACTCTT
1 TAT--TTTTATTTTATGTCAAATAAACTCTT
19159691 GTATTTTTATTTTATGTCAAATAA
1 -TATTTTTATTTTATGTCAAATAA
19159715 GCCCTTATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
28 3 0.07
29 13 0.31
30 23 0.55
31 3 0.07
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (29 bp):
TATTTTTATTTTATGTCAAATAAACTCTT
Found at i:19159852 original size:33 final size:33
Alignment explanation
Indices: 19159792--19159856 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
19159782 TGACATACTA
*
19159792 ATATATCATAATTGATAATGATGTGACATGTTG
1 ATATATCATAATTGATAATAATGTGACATGTTG
*
19159825 ATATATCATAATTGATGATAACT-TGACATGTT
1 ATATATCATAATTGATAATAA-TGTGACATGTT
19159857 AATTCGTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (33 bp):
ATATATCATAATTGATAATAATGTGACATGTTG
Found at i:19184979 original size:39 final size:39
Alignment explanation
Indices: 19184922--19185021 Score: 150
Period size: 39 Copynumber: 2.6 Consensus size: 39
19184912 TCCAGAACAG
*
19184922 AAACAACAACAAACCTCAATATTTGATCAAAAAAGGATA
1 AAACAACAACAAACCTCAATATTTGATCAAAAAAAGATA
*
19184961 AAACAACAACAAATCTCAATATTTGATCAAAAAAAGATA
1 AAACAACAACAAACCTCAATATTTGATCAAAAAAAGATA
*
19185000 AAACAA-AGCAAACC-CAAGTATT
1 AAACAACAACAAACCTCAA-TATT
19185022 GATTGTTAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
37 3 0.05
38 10 0.18
39 43 0.77
ACGTcount: A:0.57, C:0.18, G:0.07, T:0.18
Consensus pattern (39 bp):
AAACAACAACAAACCTCAATATTTGATCAAAAAAAGATA
Found at i:19188984 original size:78 final size:78
Alignment explanation
Indices: 19188813--19189200 Score: 473
Period size: 78 Copynumber: 5.0 Consensus size: 78
19188803 TTTCGGAGAG
* *
19188813 ACATCTTGTGTTTTAGATTTGCCTT-TCCCCCAATCACCCCACTCAGTTT-C--CATTGTAC-CG
1 ACATCTTGTGTTTTAGATTTG-CTTGTCCCCCAATCACACCACTCAGTTTGCTTCGTTGTACTC-
19188873 GTCACAGCTGCTGCA
64 GTCACAGCTGCTGCA
* *
19188888 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACCCCACTCAGATTGCTTCGTTGTACTCGT
1 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGCTTCGTTGTACTCGT
19188953 CACAGCTGCTGCA
66 CACAGCTGCTGCA
* * * * * * *
19188966 ACAACTTGTATTTTAGATTTACTTGTCCGCCAATCACACCACTCATTTTGCTCCGCTGTAC-CAG
1 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGCTTCGTTGTACTC-G
*
19189030 TCACAGTTGCTGCA
65 TCACAGCTGCTGCA
* * * * * * *
19189044 ACTTCCTGTGTCTTAGATTTGCTTGTCCCCCAATCACACCACTCCGTTTTCTTTGTTGTACTGGT
1 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGCTTCGTTGTACTCGT
*
19189109 CGCAGCTGCTGCA
66 CACAGCTGCTGCA
* * * * *
19189122 GCATCTTGTGTTTTAGATTTGCTTGTTCCCCAATCACACCAGTCACTTTGCTTCGTTGTACTGGT
1 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGCTTCGTTGTACTCGT
*
19189187 CAAAGCTGCTGCA
66 CACAGCTGCTGCA
19189200 A
1 A
19189201 ATTTGTCACC
Statistics
Matches: 265, Mismatches: 41, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
74 3 0.01
75 44 0.17
76 1 0.00
77 1 0.00
78 215 0.81
79 1 0.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (78 bp):
ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGCTTCGTTGTACTCGT
CACAGCTGCTGCA
Found at i:19203867 original size:40 final size:38
Alignment explanation
Indices: 19203773--19203868 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 38
19203763 AGTGCCCGTG
* *
19203773 TGCACGATGTGGGGGGATGTACACGATGGCACTGATTG
1 TGCACGATGTGGGGGGATGCACACGATGGCACTGATTA
* *
19203811 TGCATGATGTGGGGGGATGCACACGATGGTGC-CTGCTATA
1 TGCACGATGTGGGGGGATGCACACGAT-G-GCACTGAT-TA
19203851 TGCACGATGTGGGGGGAT
1 TGCACGATGTGGGGGGAT
19203869 ATACATGAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 25 0.50
39 5 0.10
40 20 0.40
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.24
Consensus pattern (38 bp):
TGCACGATGTGGGGGGATGCACACGATGGCACTGATTA
Found at i:19205070 original size:37 final size:33
Alignment explanation
Indices: 19205029--19205107 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
19205019 AATCAATAAT
* * *
19205029 CAAATTAAAAACATGTTAAAAATAATCGAATCGAAAC
1 CAAATCAAAAACA-ATTAAA-A-AATCG-ATCCAAAC
*
19205066 CAAATCAAACACAATTAAAAAATCGATCCAAAC
1 CAAATCAAAAACAATTAAAAAATCGATCCAAAC
19205099 CAAATCAAA
1 CAAATCAAA
19205108 CGTCACGGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 16 0.42
34 5 0.13
35 1 0.03
36 5 0.13
37 11 0.29
ACGTcount: A:0.58, C:0.19, G:0.05, T:0.18
Consensus pattern (33 bp):
CAAATCAAAAACAATTAAAAAATCGATCCAAAC
Found at i:19209861 original size:36 final size:36
Alignment explanation
Indices: 19209814--19209886 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
19209804 TGATATCTCC
*
19209814 TTTCCATATGTACAGAATCATTAACTTCCATCTATG
1 TTTCCATATGTACAAAATCATTAACTTCCATCTATG
19209850 TTTCCATATGTACAAAATCATTAACTTCCATCTATG
1 TTTCCATATGTACAAAATCATTAACTTCCATCTATG
19209886 T
1 T
19209887 GCATAATTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.40
Consensus pattern (36 bp):
TTTCCATATGTACAAAATCATTAACTTCCATCTATG
Found at i:19217636 original size:36 final size:37
Alignment explanation
Indices: 19217579--19217652 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 37
19217569 TGATATTTCC
*
19217579 TTTCCATATGTATCAGAATCATTGATTTCCATCTATG
1 TTTCCATATGTATCAGAATCATTGACTTCCATCTATG
* *
19217616 TTTCCATATTTA-CAGAATCATTGACTTCCATTTATG
1 TTTCCATATGTATCAGAATCATTGACTTCCATCTATG
19217652 T
1 T
19217653 GCATAATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 23 0.68
37 11 0.32
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.45
Consensus pattern (37 bp):
TTTCCATATGTATCAGAATCATTGACTTCCATCTATG
Found at i:19224727 original size:2 final size:2
Alignment explanation
Indices: 19224722--19224770 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
19224712 TATTATGAAT
*
19224722 TA TA TA TA TA TA TA TA -A TA TA TA -A TA TA TA T- TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
19224761 -A AA TA TA TA T
1 TA TA TA TA TA T
19224771 TATTAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 4 0.10
2 37 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:19224730 original size:18 final size:18
Alignment explanation
Indices: 19224704--19224779 Score: 66
Period size: 18 Copynumber: 4.1 Consensus size: 18
19224694 CCCTTATGCC
*
19224704 TATACATATATTATGAAT-
1 TATATATATATTAT-AATA
19224722 TATATATATATATATAATA
1 TATATATATAT-TATAATA
*
19224741 TATAATATATATT-TTATA
1 TAT-ATATATATTATAATA
*
19224759 TAAAATATATATTATTAATA
1 T-ATATATATATTA-TAATA
19224779 T
1 T
19224780 TTNTAATGCA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
18 27 0.56
19 8 0.17
20 13 0.27
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
TATATATATATTATAATA
Done.