Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 347 of 362
Found at i:115253630 original size:3 final size:3
Alignment explanation
Indices: 115253622--115253649 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
115253612 ATCACCACTT
115253622 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
115253650 CCTCCTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:115256986 original size:16 final size:17
Alignment explanation
Indices: 115256962--115256994 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
115256952 TATTTAAGGT
*
115256962 ATTTAAAATTTTTAAAA
1 ATTTAAAATTATTAAAA
115256979 ATTT-AAATTATTAAAA
1 ATTTAAAATTATTAAAA
115256995 GTAAAATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAAATTATTAAAA
Found at i:115257620 original size:3 final size:3
Alignment explanation
Indices: 115257578--115257606 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
115257568 TATTGTATTT
115257578 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
115257607 TTCTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:115257959 original size:23 final size:23
Alignment explanation
Indices: 115257915--115257960 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
115257905 TTATAATCTC
*
115257915 AAAAGTTAAATTTCATTATTTTT
1 AAAAGTTAAATTTAATTATTTTT
115257938 AAAAGATTAAA-TTAATT-TTTTT
1 AAAAG-TTAAATTTAATTATTTTT
115257960 A
1 A
115257961 TTTTTAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 10 0.48
24 5 0.24
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
AAAAGTTAAATTTAATTATTTTT
Found at i:115259074 original size:26 final size:27
Alignment explanation
Indices: 115259035--115259092 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 27
115259025 TATCAATATC
115259035 AGGGGCAAAACTAGGAAAAAAAATTT-
1 AGGGGCAAAACTAGGAAAAAAAATTTA
*
115259061 AGGGGCAAAGCTAGGAAAAAAAATTTA
1 AGGGGCAAAACTAGGAAAAAAAATTTA
115259088 AGGGG
1 AGGGG
115259093 AGTCGAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.50, C:0.07, G:0.29, T:0.14
Consensus pattern (27 bp):
AGGGGCAAAACTAGGAAAAAAAATTTA
Found at i:115275851 original size:23 final size:22
Alignment explanation
Indices: 115275799--115275851 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
115275789 TCCACGTCTT
*
115275799 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
115275821 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
115275844 TTTCTTTT
1 TTTCTTTT
115275852 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:115282420 original size:36 final size:36
Alignment explanation
Indices: 115282376--115282445 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
115282366 GTAGCAGCAT
115282376 ATCCCAATCTAAATCCCATTACCAAAACTCGAAAGC
1 ATCCCAATCTAAATCCCATTACCAAAACTCGAAAGC
115282412 ATCCCAATCTAAATCCCATTACCAAAACTCGAAA
1 ATCCCAATCTAAATCCCATTACCAAAACTCGAAA
115282446 CCCCTAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.33, G:0.04, T:0.20
Consensus pattern (36 bp):
ATCCCAATCTAAATCCCATTACCAAAACTCGAAAGC
Found at i:115286401 original size:17 final size:19
Alignment explanation
Indices: 115286379--115286414 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
115286369 AGACTTAAAA
115286379 AGAAGTCTA-AA-AGGAGT
1 AGAAGTCTACAAGAGGAGT
115286396 AGAAGTCTACAAGAGGAGT
1 AGAAGTCTACAAGAGGAGT
115286415 GGGACTGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.44, C:0.08, G:0.31, T:0.17
Consensus pattern (19 bp):
AGAAGTCTACAAGAGGAGT
Found at i:115288149 original size:10 final size:11
Alignment explanation
Indices: 115288122--115288147 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
115288112 AAAAAATATT
115288122 AAAAATTAGAA
1 AAAAATTAGAA
115288133 AAAAATTAGAA
1 AAAAATTAGAA
115288144 AAAA
1 AAAA
115288148 TTGTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (11 bp):
AAAAATTAGAA
Found at i:115289522 original size:32 final size:33
Alignment explanation
Indices: 115289464--115289529 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
115289454 AAAATTTGCA
* *
115289464 ACATAAGCCCCTCTACTTTTTTTATATAATTTT
1 ACATAAACCCCTCTACTTTTTTTATATAAATTT
115289497 ACATAAACCCCTCTAC-TTTTTTATATAAATTT
1 ACATAAACCCCTCTACTTTTTTTATATAAATTT
115289529 A
1 A
115289530 AGTGGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.45
Consensus pattern (33 bp):
ACATAAACCCCTCTACTTTTTTTATATAAATTT
Found at i:115289862 original size:12 final size:12
Alignment explanation
Indices: 115289845--115289869 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
115289835 TCTAACATTT
115289845 ACACTCGAATTC
1 ACACTCGAATTC
115289857 ACACTCGAATTC
1 ACACTCGAATTC
115289869 A
1 A
115289870 AGTAACATGT
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:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (12 bp):
ACACTCGAATTC
Found at i:115290893 original size:24 final size:24
Alignment explanation
Indices: 115290866--115290914 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
115290856 AAATGTTCGT
* *
115290866 GGATTGATCAATCCTAGAATGAAG
1 GGATTGAGCAATCCTAGAACGAAG
115290890 GGATTGAGCAATCCTAGAACGAAG
1 GGATTGAGCAATCCTAGAACGAAG
115290914 G
1 G
115290915 AAGGAAGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (24 bp):
GGATTGAGCAATCCTAGAACGAAG
Found at i:115293672 original size:84 final size:86
Alignment explanation
Indices: 115293543--115293715 Score: 251
Period size: 84 Copynumber: 2.0 Consensus size: 86
115293533 CCAACTGATT
* * *
115293543 AGGGGTCACTCTATTAGATAATCCAGAGGAAATAACACCAGAATCAGCTCTTGGACCTGATAATG
1 AGGGGTCACTCTATTA-ATAATCCAGAAGAAATAACACCAGAATCACCACTTGGACCTGATAATG
*
115293608 AAGGTAACACTTCTGCAGTTCC
65 AAGGCAACACTTCTGCAGTTCC
* * **
115293630 AGGGGTCACTCTA-T-ATAATCCTGAAGAACTAACAGTAGAATCACCACTTGGACCTGATAATGA
1 AGGGGTCACTCTATTAATAATCCAGAAGAAATAACACCAGAATCACCACTTGGACCTGATAATGA
115293693 AGGCAACACTTCTGCAGTTCC
66 AGGCAACACTTCTGCAGTTCC
115293714 AG
1 AG
115293716 TACTTGACCC
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
84 64 0.82
86 1 0.01
87 13 0.17
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (86 bp):
AGGGGTCACTCTATTAATAATCCAGAAGAAATAACACCAGAATCACCACTTGGACCTGATAATGA
AGGCAACACTTCTGCAGTTCC
Found at i:115301750 original size:31 final size:31
Alignment explanation
Indices: 115301714--115301772 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
115301704 AAATGGTCAT
* *
115301714 TAAACTATTTGAAAGTTTTTATTTAAATCAC
1 TAAACTATTCGAAAGTTTTCATTTAAATCAC
*
115301745 TAAACTATTCGGAAGTTTTCATTTAAAT
1 TAAACTATTCGAAAGTTTTCATTTAAAT
115301773 TATAAGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.44
Consensus pattern (31 bp):
TAAACTATTCGAAAGTTTTCATTTAAATCAC
Found at i:115306421 original size:18 final size:16
Alignment explanation
Indices: 115306379--115306421 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 16
115306369 ATTAAATAAA
115306379 TATATTTTTTAATTTT
1 TATATTTTTTAATTTT
115306395 TATACTTTTTTGAATGTTT
1 TATA-TTTTTT-AAT-TTT
115306414 TATATTTT
1 TATATTTT
115306422 AAAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.17
17 6 0.25
18 7 0.29
19 7 0.29
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (16 bp):
TATATTTTTTAATTTT
Found at i:115316281 original size:63 final size:63
Alignment explanation
Indices: 115316203--115316328 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
115316193 GCAAAGTCAA
115316203 TAATTAGATATTTAATTCAAATCAAAATCTCACTTTAAAAGTGAATCCAGTTATACTTGAAGT
1 TAATTAGATATTTAATTCAAATCAAAATCTCACTTTAAAAGTGAATCCAGTTATACTTGAAGT
* *
115316266 TAATTAGATATTTAATTCAAATCAAAATCTCACTTTAAAAGTGGATTCAGTTATACTTGAAGT
1 TAATTAGATATTTAATTCAAATCAAAATCTCACTTTAAAAGTGAATCCAGTTATACTTGAAGT
115316329 GAACTTCAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (63 bp):
TAATTAGATATTTAATTCAAATCAAAATCTCACTTTAAAAGTGAATCCAGTTATACTTGAAGT
Found at i:115316703 original size:2 final size:2
Alignment explanation
Indices: 115316696--115316726 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
115316686 GACAACATTA
115316696 AT 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 AT A
115316727 AACACAGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115318352 original size:51 final size:51
Alignment explanation
Indices: 115318276--115318377 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
115318266 TATTCAACAC
*
115318276 TAGTTCGAGTCTGGATAATGATTCAAGATAGAGGAAGAAACCTGCAAAGGG
1 TAGTTCGAGTCTGGATAATGATTCAAGATAGAAGAAGAAACCTGCAAAGGG
115318327 TAGTTCGAGTCTGGATAATGATTCAAGATAGAAGAAGAAACCTGCAAAGGG
1 TAGTTCGAGTCTGGATAATGATTCAAGATAGAAGAAGAAACCTGCAAAGGG
115318378 GAACTACTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (51 bp):
TAGTTCGAGTCTGGATAATGATTCAAGATAGAAGAAGAAACCTGCAAAGGG
Found at i:115320608 original size:150 final size:149
Alignment explanation
Indices: 115320209--115321021 Score: 509
Period size: 150 Copynumber: 5.3 Consensus size: 149
115320199 TACTAATGGA
* * * * * * *
115320209 AATGGAAAAGCAGG-TCTACCAACAAATCTTAGGCATGATGCTAACAGATTCATTTTGAAAATGC
1 AATGGAAAAGCAGGCACAACAAAGAAATCTCAAGCATGATGCTAACAGATTCACTTT-AAAA---
* * * **
115320273 CCTGTTATGTTATATGCTAT-TGGGTTCATATGGCTACTTTTAAGTTCAATGTTTCATCGCTTCT
62 --TGTT-TGTTATATGCTATAT-GGTTCATATGGCTGCTTTCAAGTTCAACGTTTCATTACTTCT
* * ** *
115320337 ATTTCAGTTATACAATGTTTGACGACT
123 ATTTCAGTTCTACAATGCTCAATGACT
* * * * * * ** * *
115320364 AATGAAAACAGAAAGACAAGCACTACCAAA-TAATCTTAGGCATGATGCTAATGGACTCACTCTG
1 AATG----GA-AAAG-CAGGCAC-AACAAAGAAATCTCAAGCATGATGCTAACAGATTCACT-TT
* * *
115320428 AAAATGTTATGTTATATGCTATTTGGTTCATATGGCTGCCTTCTGAGTTCAACGTTTCATTACTT
58 AAAATGTT-TGTTATATGCTATATGGTTCATATGGCTGCTTTC-AAGTTCAACGTTTCATTACTT
* *
115320493 CTGTTTCAGTTCTAGAAT-CTCAATGACT
121 CTATTTCAGTTCTACAATGCTCAATGACT
*
115320521 AATGGAAAAGCTGGC-CAAACAAAGAAATCTCAAGCATGATGCTAACAGATTCACTTTAAAATGT
1 AATGGAAAAGCAGGCAC-AACAAAGAAATCTCAAGCATGATGCTAACAGATTCACTTTAAAATGT
* * * * *
115320585 ATTGTTATATGCTATACGGTTCATGTAGCTGCTTTCAAGTTC-ACTCTTTCATTTCTTCTATTTC
65 -TTGTTATATGCTATATGGTTCATATGGCTGCTTTCAAGTTCAAC-GTTTCATTACTTCTATTTC
*
115320649 AGTTCTACAATGCTCAATGGCT
128 AGTTCTACAATGCTCAATGACT
* * * * * *
115320671 AATGGAAAGGCAGGCACTACCAATAAATCTCAGGCTTGATGCTAACAGATTCACTTTGAAAATGT
1 AATGGAAAAGCAGGCACAACAAAGAAATCTCAAGCATGATGCTAACAGATTCACTTT-AAAATGT
* * * *
115320736 CTTGTTATAATGCTA-ATGGCTTCATATGGATGCTTTCAAGTTCAATGCTTCATTGCTTCTATTT
65 -TTGTTAT-ATGCTATATGG-TTCATATGGCTGCTTTCAAGTTCAACGTTTCATTACTTCTATTT
* * *
115320800 CAGCTCTACAATGTTCGATGACT
127 CAGTTCTACAATGCTCAATGACT
* * * * * * * *
115320823 AATGGAAACCAAAAAGGCAGGCACTACAAA-ATAATCTTAGGCACGATGTTAA-GGATTTAATCT
1 AATGG------AAAA-GCAGGCACAACAAAGA-AATCTCAAGCATGATGCTAACAGATTCACT-T
* * * * * * * * *
115320886 GAACATG-TCGTTTATAAGCTA-ATTGGTTCACATGGCTGGTTTCAAGTTCAATGTTTCTTTCCT
57 TAAAATGTTTG-TTATATGCTATA-TGGTTCATATGGCTGCTTTCAAGTTCAACGTTTCATTACT
* * *
115320949 TCTATTCCAGCTCTACAATGTTCAATGACT
120 TCTATTTCAGTTCTACAATGCTCAATGACT
* * * *
115320979 AATGGAAAGGCAGACA-ATACCAAGAAAGCT-AAGGCATGATGCT
1 AATGGAAAAGCAGGCACA-ACAAAGAAATCTCAA-GCATGATGCT
115321022 CAAGCGAAAA
Statistics
Matches: 526, Mismatches: 98, Indels: 74
0.75 0.14 0.11
Matches are distributed among these distances:
148 3 0.01
149 53 0.10
150 104 0.20
151 47 0.09
152 69 0.13
153 2 0.00
155 4 0.01
156 72 0.14
157 51 0.10
158 48 0.09
159 31 0.06
160 4 0.01
161 3 0.01
162 31 0.06
163 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (149 bp):
AATGGAAAAGCAGGCACAACAAAGAAATCTCAAGCATGATGCTAACAGATTCACTTTAAAATGTT
TGTTATATGCTATATGGTTCATATGGCTGCTTTCAAGTTCAACGTTTCATTACTTCTATTTCAGT
TCTACAATGCTCAATGACT
Found at i:115329040 original size:18 final size:18
Alignment explanation
Indices: 115329017--115329053 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
115329007 TTTGTTTTTC
115329017 TAATTTAAATCTTAGGAT
1 TAATTTAAATCTTAGGAT
*
115329035 TAATTTAGATCTTAGGAT
1 TAATTTAAATCTTAGGAT
115329053 T
1 T
115329054 TAAATAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (18 bp):
TAATTTAAATCTTAGGAT
Found at i:115330279 original size:11 final size:11
Alignment explanation
Indices: 115330263--115330288 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
115330253 CAACTTTCTA
115330263 ATTGTTTTTAT
1 ATTGTTTTTAT
115330274 ATTGTTTTTAT
1 ATTGTTTTTAT
115330285 ATTG
1 ATTG
115330289 CGATTTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (11 bp):
ATTGTTTTTAT
Found at i:115332115 original size:149 final size:149
Alignment explanation
Indices: 115331861--115332158 Score: 596
Period size: 149 Copynumber: 2.0 Consensus size: 149
115331851 TCAACCGATC
115331861 TGTTTTTTTTACAACTTAGAAGCATGTTACTATGTTATCCGAATTCTTTATTTTCTTTAATTACT
1 TGTTTTTTTTACAACTTAGAAGCATGTTACTATGTTATCCGAATTCTTTATTTTCTTTAATTACT
115331926 CATATCCAACATGTCTCTGACACATAATTGGATATAAGTATGAGAGTAACATCCTTCAAATAAAT
66 CATATCCAACATGTCTCTGACACATAATTGGATATAAGTATGAGAGTAACATCCTTCAAATAAAT
115331991 GAAAATGAAACTTAAAAAA
131 GAAAATGAAACTTAAAAAA
115332010 TGTTTTTTTTACAACTTAGAAGCATGTTACTATGTTATCCGAATTCTTTATTTTCTTTAATTACT
1 TGTTTTTTTTACAACTTAGAAGCATGTTACTATGTTATCCGAATTCTTTATTTTCTTTAATTACT
115332075 CATATCCAACATGTCTCTGACACATAATTGGATATAAGTATGAGAGTAACATCCTTCAAATAAAT
66 CATATCCAACATGTCTCTGACACATAATTGGATATAAGTATGAGAGTAACATCCTTCAAATAAAT
115332140 GAAAATGAAACTTAAAAAA
131 GAAAATGAAACTTAAAAAA
115332159 AACTGAATAT
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (149 bp):
TGTTTTTTTTACAACTTAGAAGCATGTTACTATGTTATCCGAATTCTTTATTTTCTTTAATTACT
CATATCCAACATGTCTCTGACACATAATTGGATATAAGTATGAGAGTAACATCCTTCAAATAAAT
GAAAATGAAACTTAAAAAA
Found at i:115334182 original size:27 final size:28
Alignment explanation
Indices: 115334152--115334204 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
115334142 TATTTTTTGA
* * *
115334152 AATTATG-AAAATATTTTTAAAAATTGT
1 AATTATGTAAAAAAATTATAAAAATTGT
115334179 AATTATGTAAAAAAATTATAAAAATT
1 AATTATGTAAAAAAATTATAAAAATT
115334205 TTATAACAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (28 bp):
AATTATGTAAAAAAATTATAAAAATTGT
Found at i:115341499 original size:26 final size:26
Alignment explanation
Indices: 115341454--115341507 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
115341444 AAATAGGAGA
115341454 TATTATTTTATGTTATTTTATT-ATT
1 TATTATTTTATGTTATTTTATTAATT
115341479 TATTATTTGTTAT-TTATTTTATTAATT
1 TATTA-TT-TTATGTTATTTTATTAATT
115341506 TA
1 TA
115341508 GCTTTAGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 5 0.19
26 12 0.46
27 9 0.35
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (26 bp):
TATTATTTTATGTTATTTTATTAATT
Found at i:115348619 original size:21 final size:21
Alignment explanation
Indices: 115348593--115348633 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
115348583 AGCTTAAATG
115348593 ATGGTTGAATAAGTA-GAATTC
1 ATGGTTGAA-AAGTATGAATTC
115348614 ATGGTTGAAAAGTATGAATT
1 ATGGTTGAAAAGTATGAATT
115348634 GAAATTGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (21 bp):
ATGGTTGAAAAGTATGAATTC
Found at i:115349970 original size:39 final size:39
Alignment explanation
Indices: 115349914--115350072 Score: 246
Period size: 39 Copynumber: 4.1 Consensus size: 39
115349904 CATGGTATTT
* * *
115349914 GAAATATATCCGGACATGAGGTCTGTAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
* *
115349953 GGAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
115349992 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
* * *
115350031 GAAATATATCCGGACTTGAAGTCCGCAGGCTACGTGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
115350070 GAA
1 GAA
115350073 TGGTACCCGG
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
Found at i:115352302 original size:46 final size:45
Alignment explanation
Indices: 115352252--115352420 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 45
115352242 TGAGCATCCA
*
115352252 AACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATGTCCG
* * * * *
115352298 AACTCGTTGAGTTGAGTCCTAGTTC-GTGA-AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G--TCCG
* *
115352345 AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATGTCCG
*
115352391 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
115352421 GGGGCAGGTT
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 55 0.55
47 28 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATGTCCG
Found at i:115352404 original size:93 final size:93
Alignment explanation
Indices: 115352245--115352415 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
115352235 GGATGGTTGA
* * *
115352245 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
*
115352310 TGAGTCCTAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
115352338 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
115352403 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
115352416 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:115353931 original size:18 final size:18
Alignment explanation
Indices: 115353910--115354192 Score: 133
Period size: 18 Copynumber: 15.3 Consensus size: 18
115353900 GAACAATTAT
115353910 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
115353928 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
115353946 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
* *
115353964 TTATTCAATATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
115353990 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
115354008 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
115354025 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AGTCAG
* * *
115354044 GTATTTAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
115354061 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
115354080 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
115354098 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
115354116 TTATTCAGTAATAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
115354134 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
115354152 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
115354170 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
115354188 TTATT
1 TTATT
115354193 TTATACCTTT
Statistics
Matches: 199, Mismatches: 50, Indels: 32
0.71 0.18 0.11
Matches are distributed among these distances:
17 16 0.08
18 151 0.76
19 17 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 10 0.05
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:115353950 original size:36 final size:36
Alignment explanation
Indices: 115353897--115354192 Score: 161
Period size: 36 Copynumber: 8.0 Consensus size: 36
115353887 TCATTAACAC
* * *
115353897 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
115353932 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * * *
115353968 TCAATATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAATCAGTTAT
* * *
115354012 TCAGTAA-AATCAGA-TATTCAGTAACTATTAAGGTAT
1 TCAGTAACAATCA-ATTATTCAGTAAC-AATCAGTTAT
* * * *
115354048 TTAGTAGCAGTC-ATTCATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAATCAGTTAT
** * *
115354084 TCAGTAATGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * * *
115354120 TCAGTAATAGTCTAA-TATCCAGTAACAGTCAATTAT
1 TCAGTAACAATC-AATTATTCAGTAACAATCAGTTAT
* * * *
115354156 CCGGTAACAGTCAATTATTCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
115354192 T
1 T
115354193 TTATACCTTT
Statistics
Matches: 192, Mismatches: 52, Indels: 33
0.69 0.19 0.12
Matches are distributed among these distances:
35 13 0.07
36 134 0.70
37 19 0.10
42 2 0.01
43 6 0.03
44 18 0.09
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
Found at i:115354367 original size:6 final size:6
Alignment explanation
Indices: 115354356--115354380 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
115354346 ACAAATCCGG
115354356 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
115354381 TTCAACACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:115354409 original size:45 final size:45
Alignment explanation
Indices: 115354360--115354554 Score: 273
Period size: 45 Copynumber: 4.3 Consensus size: 45
115354350 ATCCGGAACA
* * *
115354360 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTACTGAATCG
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
* *
115354405 GTAACGGTAACAGTAACAATATTCAACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
* *
115354450 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
* * * * *
115354495 ATAACAGTAGCAGTAACAATATTCGACACATAAAGTGCCGAATTG
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
*
115354540 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
115354555 GCGGTAACAG
Statistics
Matches: 137, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 137 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
Found at i:115354974 original size:5 final size:5
Alignment explanation
Indices: 115354963--115355009 Score: 67
Period size: 5 Copynumber: 9.2 Consensus size: 5
115354953 AATTAATCAT
* *
115354963 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
115355010 CTTATCCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 34 0.87
6 5 0.13
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:115362058 original size:7 final size:7
Alignment explanation
Indices: 115362046--115362078 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
115362036 TTTATTTTAT
115362046 TTTATTA
1 TTTATTA
115362053 TTTATTA
1 TTTATTA
115362060 TTTATTA
1 TTTATTA
115362067 TTTATT-
1 TTTATTA
115362073 TTTATT
1 TTTATT
115362079 TTATTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTATTA
Found at i:115362065 original size:14 final size:13
Alignment explanation
Indices: 115362041--115362078 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
115362031 GAGATTTTAT
115362041 TTTA-TTTTATTA
1 TTTATTTTTATTA
115362053 TTTATTATTTATTA
1 TTTATT-TTTATTA
115362067 TTTATTTTTATT
1 TTTATTTTTATT
115362079 TTATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 4 0.17
13 7 0.29
14 13 0.54
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTTATTA
Found at i:115369217 original size:43 final size:44
Alignment explanation
Indices: 115369117--115369263 Score: 146
Period size: 44 Copynumber: 3.4 Consensus size: 44
115369107 AAAAAATCAG
* *
115369117 ATCTT-AGGACTT-AAATAGGTTAAAGTTTTATTTTTCTCATTTAT
1 ATCTTAAGGA-TTCAAATAGGTTAAA-TTTTATTTTTCTAATTTAA
* * *
115369161 AT-TTTAGGATTCAAATAGGTTAAATTTTACTTTTCTAATTTAG
1 ATCTTAAGGATTCAAATAGGTTAAATTTTATTTTTCTAATTTAA
*
115369204 ATCTTAAGG-TTCAAATAGGGTAGAAATTTGT-TTTTTCTAATTTAA
1 ATCTTAAGGATTCAAATA-GGT-TAAATTT-TATTTTTCTAATTTAA
115369249 ATCTT-AGGATT-AAAT
1 ATCTTAAGGATTCAAAT
115369264 TTTATTTTTT
Statistics
Matches: 89, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
43 30 0.34
44 33 0.37
45 25 0.28
46 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (44 bp):
ATCTTAAGGATTCAAATAGGTTAAATTTTATTTTTCTAATTTAA
Found at i:115372525 original size:17 final size:17
Alignment explanation
Indices: 115372503--115372536 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
115372493 AAAAATAAAT
115372503 GTTTGTAATGAGTCAAC
1 GTTTGTAATGAGTCAAC
115372520 GTTTGTAATGAGTCAAC
1 GTTTGTAATGAGTCAAC
115372537 CGATCTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (17 bp):
GTTTGTAATGAGTCAAC
Found at i:115375058 original size:16 final size:16
Alignment explanation
Indices: 115375039--115375086 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
115375029 TTTACATGAT
115375039 TATAATTTTAAAAAAA
1 TATAATTTTAAAAAAA
* *
115375055 TATAATTTCAAATAAA
1 TATAATTTTAAAAAAA
115375071 TGATGAATTTTCAAAA
1 T-AT-AATTTT-AAAA
115375087 TAATTTAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.60
17 2 0.08
18 5 0.20
19 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (16 bp):
TATAATTTTAAAAAAA
Found at i:115375880 original size:72 final size:72
Alignment explanation
Indices: 115375744--115375880 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
115375734 GCCAATTACG
*
115375744 AATTTTCATCCAACTCTAAAATTCAGATTAAACATTAAAAAGTTGACATCTTTAACTTTAGATAT
1 AATTTTCATCCAACTCTAAAATTCAGATTAAACATTAAAAAGTTAACATCTTTAACTTTAGATAT
115375809 TAGTACA
66 TAGTACA
* * * * *
115375816 AATTTTCATCCAATTCTAAAA-TCTGGATTAAACATTAAAAAGTTAACATTTTTAGCTTTTGATA
1 AATTTTCATCCAACTCTAAAATTC-AGATTAAACATTAAAAAGTTAACATCTTTAACTTTAGATA
115375880 T
65 T
115375881 CAAAATAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 2 0.03
72 56 0.97
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (72 bp):
AATTTTCATCCAACTCTAAAATTCAGATTAAACATTAAAAAGTTAACATCTTTAACTTTAGATAT
TAGTACA
Found at i:115378093 original size:18 final size:18
Alignment explanation
Indices: 115378070--115378104 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
115378060 ATTTATACTT
115378070 ATAATTTATTATAATTTA
1 ATAATTTATTATAATTTA
* *
115378088 ATAATTTTTTATGATTT
1 ATAATTTATTATAATTT
115378105 TTTTTATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
ATAATTTATTATAATTTA
Found at i:115380836 original size:18 final size:18
Alignment explanation
Indices: 115380789--115380837 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
115380779 TCAATGCAGT
115380789 GATTCTCTAAATTTGATTG
1 GATTCTC-AAATTTGATTG
*
115380808 GATTTTC-AATTTGAATTG
1 GATTCTCAAATTTG-ATTG
115380826 G-TTCTCAAATTT
1 GATTCTCAAATTT
115380838 ACATGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 10 0.38
18 10 0.38
19 6 0.23
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (18 bp):
GATTCTCAAATTTGATTG
Found at i:115386278 original size:15 final size:15
Alignment explanation
Indices: 115386258--115386286 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
115386248 TCTCTATCAT
115386258 TATTGTATTTCTATG
1 TATTGTATTTCTATG
115386273 TATTGTATTTCTAT
1 TATTGTATTTCTAT
115386287 ATCATTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.10, T:0.62
Consensus pattern (15 bp):
TATTGTATTTCTATG
Found at i:115391380 original size:19 final size:19
Alignment explanation
Indices: 115391343--115391386 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
115391333 TGAAACTAGT
*
115391343 ATCAATATTCTCAATAATA
1 ATCAATATTCTCAAGAATA
115391362 ATCAATATT-TCCAAGAATA
1 ATCAATATTCT-CAAGAATA
115391381 AGTCAA
1 A-TCAA
115391387 AAGGAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 17 0.77
20 4 0.18
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.32
Consensus pattern (19 bp):
ATCAATATTCTCAAGAATA
Found at i:115392565 original size:29 final size:29
Alignment explanation
Indices: 115392532--115392589 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
115392522 CCCGCAGCAC
115392532 ATCAGAAGTGCTTATAGTCAATTAAGATT
1 ATCAGAAGTGCTTATAGTCAATTAAGATT
115392561 ATCAGAAGTGCTTATAGTCAATTAAGATT
1 ATCAGAAGTGCTTATAGTCAATTAAGATT
115392590 TTTCACCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.34
Consensus pattern (29 bp):
ATCAGAAGTGCTTATAGTCAATTAAGATT
Found at i:115396360 original size:32 final size:33
Alignment explanation
Indices: 115396317--115396378 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
115396307 CAAAACAAAT
115396317 TTATTTGTAAAAA-ATATAATAATAAATTTAAAA
1 TTATTTGTAAAAATA-ATAATAATAAATTTAAAA
**
115396350 TTATTT-TAAAAATAATAATTTTAAATTTA
1 TTATTTGTAAAAATAATAATAATAAATTTA
115396379 CGAGTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (33 bp):
TTATTTGTAAAAATAATAATAATAAATTTAAAA
Found at i:115397961 original size:21 final size:21
Alignment explanation
Indices: 115397912--115397967 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
115397902 TAAGAAAACA
115397912 AAATATAAA-AAT-TTACCAT
1 AAATATAAATAATATTACCAT
* *
115397931 AAA-AGGAAATAATATTATCAT
1 AAATA-TAAATAATATTACCAT
*
115397952 AAATATAAATATTATT
1 AAATATAAATAATATT
115397968 TATCTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 6 0.21
20 3 0.10
21 18 0.62
22 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (21 bp):
AAATATAAATAATATTACCAT
Found at i:115401463 original size:7 final size:7
Alignment explanation
Indices: 115401451--115401476 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
115401441 TTGTTATTTA
115401451 TTTTATT
1 TTTTATT
115401458 TTTTATT
1 TTTTATT
115401465 TTTTATT
1 TTTTATT
115401472 TTTTA
1 TTTTA
115401477 ATATATGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:115403314 original size:15 final size:15
Alignment explanation
Indices: 115403294--115403323 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
115403284 TACTCGGTAT
115403294 AAAGATAACATATCC
1 AAAGATAACATATCC
115403309 AAAGATAACATATCC
1 AAAGATAACATATCC
115403324 GTGTCGATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAGATAACATATCC
Found at i:115407419 original size:26 final size:26
Alignment explanation
Indices: 115407368--115407421 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
115407358 CTTCGTATTA
115407368 TATAGATATATAATATCCATATCTCT
1 TATAGATATATAATATCCATATCTCT
115407394 TATAGATATATAATATCCATATCTCT
1 TATAGATATATAATATCCATATCTCT
115407420 TA
1 TA
115407422 CATGTGTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.43
Consensus pattern (26 bp):
TATAGATATATAATATCCATATCTCT
Found at i:115411502 original size:93 final size:93
Alignment explanation
Indices: 115411389--115411559 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
115411379 GCCCATAAGC
* *
115411389 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115411454 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
*
115411482 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115411547 CGAGTTCGGATGC
66 CGAGTTCGGATGC
115411560 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:115411556 original size:46 final size:46
Alignment explanation
Indices: 115411381--115411556 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
115411371 TGTAACCCGC
* * * *
115411381 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
115411427 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
115411477 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
115411520 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
115411557 TGCTCAACCA
Statistics
Matches: 113, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 30 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:115424835 original size:19 final size:18
Alignment explanation
Indices: 115424788--115424835 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
115424778 TTCAAATATC
115424788 AATATTTTAATAATAAAAT
1 AATA-TTTAATAATAAAAT
* *
115424807 ATTATATTAATATTAAGAAT
1 AATAT-TTAATAATAA-AAT
115424827 AATATTTAA
1 AATATTTAA
115424836 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 16 0.67
20 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AATATTTAATAATAAAAT
Found at i:115424954 original size:24 final size:24
Alignment explanation
Indices: 115424918--115424963 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
115424908 CTATAAATTA
* *
115424918 ATTATTATTTATTATTAAAATAAT
1 ATTACTATATATTATTAAAATAAT
*
115424942 ATTACTATATATTATTCAAATA
1 ATTACTATATATTATTAAAATA
115424964 TAAATATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTACTATATATTATTAAAATAAT
Found at i:115439862 original size:11 final size:11
Alignment explanation
Indices: 115439846--115439896 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
115439836 AATGTTTATA
115439846 TATTTAATTTT
1 TATTTAATTTT
115439857 TATTTAATTTT
1 TATTTAATTTT
** *
115439868 TAAATAATATAT
1 TATTTAAT-TTT
115439880 T-TTTAATTTT
1 TATTTAATTTT
115439890 TATTTAA
1 TATTTAA
115439897 ATTATTGAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
10 3 0.09
11 26 0.81
12 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTAATTTT
Found at i:115439902 original size:22 final size:22
Alignment explanation
Indices: 115439846--115439902 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
115439836 AATGTTTATA
*
115439846 TATTTAATTTTTATTTAATTTT
1 TATTTAATTATTATTTAATTTT
**
115439868 TAAATAATATATT-TTTAATTTT
1 TATTTAAT-TATTATTTAATTTT
115439890 TATTTAAATTATT
1 TATTT-AATTATT
115439903 GAACATAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTAATTATTATTTAATTTT
Found at i:115439958 original size:18 final size:19
Alignment explanation
Indices: 115439935--115439971 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
115439925 TTTATTTAAC
*
115439935 AATTCAAA-TATAATAAAA
1 AATTCAAACCATAATAAAA
115439953 AATTCAAACCATAATAAAA
1 AATTCAAACCATAATAAAA
115439972 GTATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (19 bp):
AATTCAAACCATAATAAAA
Found at i:115440208 original size:22 final size:23
Alignment explanation
Indices: 115440161--115440209 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 23
115440151 AGCTTAATTA
115440161 AAATATATCAATTATTTTGGCAATTT
1 AAATATATCAATTATTTT-G--ATTT
115440187 AAATATATCAATTATTTT-ATTT
1 AAATATATCAATTATTTTGATTT
115440209 A
1 A
115440210 GGGAATGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
26 18 0.78
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (23 bp):
AAATATATCAATTATTTTGATTT
Found at i:115441687 original size:15 final size:15
Alignment explanation
Indices: 115441667--115441721 Score: 110
Period size: 15 Copynumber: 3.7 Consensus size: 15
115441657 TTCTGTCCGG
115441667 CCCAATACCCACAAA
1 CCCAATACCCACAAA
115441682 CCCAATACCCACAAA
1 CCCAATACCCACAAA
115441697 CCCAATACCCACAAA
1 CCCAATACCCACAAA
115441712 CCCAATACCC
1 CCCAATACCC
115441722 TCAGCCCAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.44, C:0.49, G:0.00, T:0.07
Consensus pattern (15 bp):
CCCAATACCCACAAA
Found at i:115441691 original size:7 final size:7
Alignment explanation
Indices: 115441667--115441721 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
115441657 TTCTGTCCGG
115441667 CCCAATA
1 CCCAATA
*
115441674 CCCACAAA
1 CCCA-ATA
115441682 CCCAATA
1 CCCAATA
*
115441689 CCCACAAA
1 CCCA-ATA
115441697 CCCAATA
1 CCCAATA
*
115441704 CCCACAAA
1 CCCA-ATA
115441712 CCCAATA
1 CCCAATA
115441719 CCC
1 CCC
115441722 TCAGCCCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 21 0.54
8 18 0.46
ACGTcount: A:0.44, C:0.49, G:0.00, T:0.07
Consensus pattern (7 bp):
CCCAATA
Found at i:115441699 original size:8 final size:8
Alignment explanation
Indices: 115441673--115441715 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
115441663 CCGGCCCAAT
115441673 ACCCACAA
1 ACCCACAA
*
115441681 ACCCA-AT
1 ACCCACAA
115441688 ACCCACAA
1 ACCCACAA
*
115441696 ACCCA-AT
1 ACCCACAA
115441703 ACCCACAA
1 ACCCACAA
115441711 ACCCA
1 ACCCA
115441716 ATACCCTCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.47, C:0.49, G:0.00, T:0.05
Consensus pattern (8 bp):
ACCCACAA
Found at i:115441741 original size:30 final size:30
Alignment explanation
Indices: 115441667--115441744 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
115441657 TTCTGTCCGG
**
115441667 CCCAATACCCACAAACCCAATACCCACAAA
1 CCCAATACAAACAAACCCAATACCCACAAA
** * *
115441697 CCCAATACCCACAAACCCAATACCCTC-AG
1 CCCAATACAAACAAACCCAATACCCACAAA
115441726 CCCAATTACAAACAAACCC
1 CCCAA-TACAAACAAACCC
115441745 TAACCCAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 6 0.14
30 37 0.86
ACGTcount: A:0.44, C:0.46, G:0.01, T:0.09
Consensus pattern (30 bp):
CCCAATACAAACAAACCCAATACCCACAAA
Found at i:115443015 original size:16 final size:18
Alignment explanation
Indices: 115442983--115443018 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
115442973 ATATGCTTAC
115442983 ATATATGTACATATTTAT
1 ATATATGTACATATTTAT
115443001 ATATATGTAC-T-TTTAT
1 ATATATGTACATATTTAT
115443017 AT
1 AT
115443019 TTTTTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
ATATATGTACATATTTAT
Found at i:115455341 original size:44 final size:46
Alignment explanation
Indices: 115455227--115455341 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
115455217 ATACAGGTCT
* * *
115455227 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
* *
115455273 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAAT-GTCAGATCC
* *
115455317 TATCTCCTTGAGATTACAATGGAGC
1 TATCTCCCTGAGATTACAGTGGAGC
115455342 GGATTAAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 25 0.42
45 3 0.05
46 32 0.53
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
Found at i:115455400 original size:41 final size:41
Alignment explanation
Indices: 115455353--115455667 Score: 139
Period size: 44 Copynumber: 7.4 Consensus size: 41
115455343 GATTAAAAGA
* * * *
115455353 TCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCATCAGG
1 TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAATCAGG
* * **
115455394 TCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAAG-TTACAGCAGAGCAGATCGAA-TCA-GG
* ** * ** *
115455437 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 TCTTATCTCCCTGAAGTTACAGCAGAGCAGA-TCGAAT-CAGG
* * * * *
115455480 ATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAG
1 -TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAATCAGG
* ** * * *
115455522 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCA-A
1 TCTTATCTCCCTGAAGTTACAGCAGAGCAGAT---CG-AATCAGG
* * * * * ** *
115455566 TCCTATCTCTCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGA
1 TCTTATCTCCCTGAAGTTACAGCAGAGCAGA-TCGAAT--CAGG
* * * * *
115455610 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAG
1 TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAATCAGG
*
115455651 TCTTATTTCCCTGAAGT
1 TCTTATCTCCCTGAAGT
115455668 ACAATGGATT
Statistics
Matches: 205, Mismatches: 54, Indels: 30
0.71 0.19 0.10
Matches are distributed among these distances:
40 2 0.01
41 73 0.36
42 5 0.02
43 33 0.16
44 88 0.43
45 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAATCAGG
Found at i:115455500 original size:44 final size:42
Alignment explanation
Indices: 115455440--115455641 Score: 163
Period size: 44 Copynumber: 4.7 Consensus size: 42
115455430 GACACTATCC
* * * *
115455440 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TAAAATAAA-GATCT
* * * * *** *
115455484 TATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAG-TCT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATAAAATAAAGATCT
* * * * * *
115455525 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAATCC
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATAAAATAAA--GATCT
* *
115455569 TATCTCTCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATCT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TAAAAT-AAAGATCT
115455613 TATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGAT
115455642 CGCATCAAGT
Statistics
Matches: 122, Mismatches: 31, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
41 30 0.25
42 1 0.01
43 6 0.05
44 79 0.65
45 4 0.03
46 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (42 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGATAAAATAAAGATCT
Found at i:115455517 original size:128 final size:127
Alignment explanation
Indices: 115455270--115455664 Score: 505
Period size: 129 Copynumber: 3.1 Consensus size: 127
115455260 GAATTTCAGA
* * * *
115455270 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGATTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAAACT-ATCCTATCTCCCTGAAG-TTAC
* * *
115455334 AATGGAGCGGATT---A-AAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCATCAGG
64 AGTGGAGCGGATTAAAATAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
*
115455394 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAAACTATCCTATCTCCCTGAAGTTACAG
*
115455459 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAG
66 TGGAGCGGATTAAAATAAA-GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
* * * * * *
115455522 TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATAGAAGAAACCAATCCTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGAAA-CTATCCTATCTCCCTGAAGTTAC
* * * * *
115455586 AGTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAG
64 AGTGGAGCGGATTAAAAT-AAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
*
115455651 TCTTATTTCCCTGA
1 TCTTATCTCCCTGA
115455665 AGTACAATGG
Statistics
Matches: 240, Mismatches: 22, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
123 29 0.12
124 41 0.17
126 1 0.00
127 4 0.02
128 74 0.31
129 89 0.37
130 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (127 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAAACTATCCTATCTCCCTGAAGTTACAG
TGGAGCGGATTAAAATAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
Found at i:115455573 original size:85 final size:87
Alignment explanation
Indices: 115455440--115455641 Score: 212
Period size: 85 Copynumber: 2.3 Consensus size: 87
115455430 GACACTATCC
* * * ** * *
115455440 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAAGAAACAATCCTATCTCTCTGAAGTTACAGCA
* ***
115455505 GAGTAGA-TCGCATCA-AG-TCT
65 GAGCAGATTAAAATCACAGATCT
* * *
115455525 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAAGAAA-CAATCCTATCTCTCTGAAGTTACAGCA
*
115455590 GAGCGGATTAAAATCACAGATCT
65 GAGCAGATTAAAATCACAGATCT
* *
115455613 TATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT
115455642 CGCATCAAGT
Statistics
Matches: 96, Mismatches: 17, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
84 7 0.07
85 52 0.54
86 5 0.05
87 2 0.02
88 30 0.31
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (87 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAAGAAACAATCCTATCTCTCTGAAGTTACAGCAG
AGCAGATTAAAATCACAGATCT
Found at i:115455867 original size:15 final size:15
Alignment explanation
Indices: 115455847--115455886 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
115455837 TTCTGTCCGG
115455847 CCCAATACCCACAAA
1 CCCAATACCCACAAA
115455862 CCCAATACCCACAAA
1 CCCAATACCCACAAA
115455877 CCCAATACCC
1 CCCAATACCC
115455887 TCAGCCCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.42, C:0.50, G:0.00, T:0.07
Consensus pattern (15 bp):
CCCAATACCCACAAA
Found at i:115457109 original size:16 final size:18
Alignment explanation
Indices: 115457077--115457112 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
115457067 ATATGCTTAC
115457077 ATATATGTACATATTTAT
1 ATATATGTACATATTTAT
115457095 ATATATGTAC-T-TTTAT
1 ATATATGTACATATTTAT
115457111 AT
1 AT
115457113 TTTTTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
ATATATGTACATATTTAT
Found at i:115459194 original size:38 final size:38
Alignment explanation
Indices: 115459137--115459287 Score: 221
Period size: 38 Copynumber: 3.9 Consensus size: 38
115459127 GATTCCACTC
* * * *
115459137 CCCCATGCTACTTTATTTTATTATTAATTAAAACTACT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
115459175 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
* *
115459213 TCCCATACTATTTTGTTTTCATTATTAATTAAAACCATT
1 CCCCATACTATTTTGTTTT-ATTATTAATTAAAACTATT
115459252 CCCCCATACTATTTTGGTTTTATTATTAATTAAAAC
1 -CCCCATACTATTTT-GTTTTATTATTAATTAAAAC
115459288 CATACTTTAT
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
38 52 0.50
39 18 0.17
40 28 0.27
41 5 0.05
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (38 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
Found at i:115459344 original size:22 final size:22
Alignment explanation
Indices: 115459305--115459348 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
115459295 TATTTTCTCT
* *
115459305 TCTTTTTTTATCATAAAAAAAA
1 TCTTTTTTTATAAGAAAAAAAA
*
115459327 TCTTTTTTTTTAAGAAAAAAAA
1 TCTTTTTTTATAAGAAAAAAAA
115459349 CAACAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (22 bp):
TCTTTTTTTATAAGAAAAAAAA
Found at i:115474568 original size:6 final size:6
Alignment explanation
Indices: 115474557--115474581 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
115474547 AATCCATCAT
115474557 ATTTAA ATTTAA ATTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA A
115474582 AGTTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:115479574 original size:7 final size:7
Alignment explanation
Indices: 115479562--115479604 Score: 50
Period size: 7 Copynumber: 5.6 Consensus size: 7
115479552 GCCATGTGAC
115479562 AAAAAAT
1 AAAAAAT
115479569 AAAAAATT
1 AAAAAA-T
115479577 CAAAAAAT
1 -AAAAAAT
115479585 ATTAAAAAT
1 A--AAAAAT
115479594 AAAAAAT
1 AAAAAAT
115479601 AAAA
1 AAAA
115479605 GAAATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 17 0.53
8 2 0.06
9 13 0.41
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (7 bp):
AAAAAAT
Found at i:115479582 original size:16 final size:15
Alignment explanation
Indices: 115479561--115479604 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
115479551 TGCCATGTGA
115479561 CAAAAAATAAAAAATT
1 CAAAAAATAAAAAA-T
115479577 CAAAAAATATTAAAAAT
1 CAAAAAATA--AAAAAT
115479594 -AAAAAATAAAA
1 CAAAAAATAAAA
115479605 GAAATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.12
16 17 0.65
17 1 0.04
18 5 0.19
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (15 bp):
CAAAAAATAAAAAAT
Found at i:115479609 original size:16 final size:15
Alignment explanation
Indices: 115479562--115479610 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
115479552 GCCATGTGAC
*
115479562 AAAAAATAAAAAATT
1 AAAAAATAAAAAAAT
*
115479577 CAAAAAATATTAAAAAT
1 -AAAAAATA-AAAAAAT
115479594 AAAAAATAAAAGAAAT
1 AAAAAATAAAA-AAAT
115479610 A
1 A
115479611 TTTTTTTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 2 0.07
16 21 0.75
17 5 0.18
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:115479609 original size:25 final size:25
Alignment explanation
Indices: 115479563--115479612 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
115479553 CCATGTGACA
*
115479563 AAAAATAAAAAATTCAAAAAATATT
1 AAAAATAAAAAATTAAAAAAATATT
115479588 AAAAATAAAAAA-TAAAAGAAATATT
1 AAAAATAAAAAATTAAAA-AAATATT
115479613 TTTTTTGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (25 bp):
AAAAATAAAAAATTAAAAAAATATT
Found at i:115479668 original size:22 final size:23
Alignment explanation
Indices: 115479640--115479684 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
115479630 TTCAAAACTG
115479640 AAATATT-TTTAAAAATTTTTAA
1 AAATATTATTTAAAAATTTTTAA
* *
115479662 AAATATTATTTTAAATTTTTTAA
1 AAATATTATTTAAAAATTTTTAA
115479685 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATATTATTTAAAAATTTTTAA
Found at i:115479750 original size:29 final size:29
Alignment explanation
Indices: 115479710--115479770 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
115479700 TAATTTGAAA
* *
115479710 AAAATATTAAAA-TTATAAAAATATTAAAT
1 AAAATATTAAAAGTTAAAAAAATA-AAAAT
115479739 AAAAT-TTAAAAAGTTAAAAAAATAAAAAT
1 AAAATATT-AAAAGTTAAAAAAATAAAAAT
115479768 AAA
1 AAA
115479771 TAAAAATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 16 0.57
30 10 0.36
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (29 bp):
AAAATATTAAAAGTTAAAAAAATAAAAAT
Found at i:115480263 original size:21 final size:22
Alignment explanation
Indices: 115480239--115480291 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
115480229 ATTTTTTTGG
*
115480239 AAATTTATTTAAT-TTTTTATA
1 AAATTTATTTAATGTTTTTACA
*
115480260 AAATTTA-ATAATGTTTTTACA
1 AAATTTATTTAATGTTTTTACA
115480281 AAATTATATTT
1 AAATT-TATTT
115480292 TAGAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 19 0.73
22 2 0.08
23 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
AAATTTATTTAATGTTTTTACA
Found at i:115480308 original size:16 final size:15
Alignment explanation
Indices: 115480268--115480323 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
115480258 TAAAATTTAA
115480268 TAATGTTTTTACAAAAT
1 TAAT-TTTTTA-AAAAT
*
115480285 T-ATATTTTAGAAAAT
1 TAATTTTTTA-AAAAT
115480300 TAATTTTTTAAAATAT
1 TAATTTTTTAAAA-AT
*
115480316 TTATTTTT
1 TAATTTTT
115480324 AATTAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 14 0.42
16 18 0.55
17 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (15 bp):
TAATTTTTTAAAAAT
Found at i:115484851 original size:30 final size:30
Alignment explanation
Indices: 115484815--115484875 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
115484805 GTTGTGGGCG
*
115484815 AGTAATGTTACCGCTCATAAATTAAATCAT
1 AGTAATGTTACCGCTCACAAATTAAATCAT
* *
115484845 AGTAATGTTACTGCTCACAACTTAAATCAT
1 AGTAATGTTACCGCTCACAAATTAAATCAT
115484875 A
1 A
115484876 CTGCTCTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (30 bp):
AGTAATGTTACCGCTCACAAATTAAATCAT
Found at i:115484879 original size:21 final size:21
Alignment explanation
Indices: 115484853--115484896 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
115484843 ATAGTAATGT
*
115484853 TACTGCTCACAACTTAAATCA
1 TACTGCTCACAAATTAAATCA
*
115484874 TACTGCTCTCAAATTAAATCA
1 TACTGCTCACAAATTAAATCA
115484895 TA
1 TA
115484897 ACGTTGACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.32
Consensus pattern (21 bp):
TACTGCTCACAAATTAAATCA
Found at i:115488503 original size:2 final size:2
Alignment explanation
Indices: 115488498--115488527 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
115488488 GTGTATAAAA
115488498 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
115488528 GAGAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115510657 original size:29 final size:28
Alignment explanation
Indices: 115510625--115510689 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 28
115510615 ATTTTACGTG
*
115510625 TATAATTATAC-TAAATTAAAGTTTATTTA
1 TATAATTACACATAAATTAAAGTTTA--TA
115510654 TATAATTACACATTAAATTAAAGTTTATA
1 TATAATTACACA-TAAATTAAAGTTTATA
115510683 TATAATT
1 TATAATT
115510690 TTAAGATTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 19 0.58
31 14 0.42
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (28 bp):
TATAATTACACATAAATTAAAGTTTATA
Found at i:115510827 original size:9 final size:9
Alignment explanation
Indices: 115510813--115510839 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
115510803 ATATATCTTT
115510813 CTATTATTA
1 CTATTATTA
115510822 CTATTATTA
1 CTATTATTA
115510831 CTATTATTA
1 CTATTATTA
115510840 TTAGTGTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
CTATTATTA
Found at i:115514589 original size:16 final size:17
Alignment explanation
Indices: 115514558--115514590 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
115514548 TTCATAAGTA
115514558 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
115514575 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
115514591 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:115514939 original size:46 final size:46
Alignment explanation
Indices: 115514889--115515142 Score: 323
Period size: 46 Copynumber: 5.5 Consensus size: 46
115514879 CCATAGTGTA
* *
115514889 TTTCAACTATGGTCTTACTCATTTTCTGCCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
* *
115514935 TTTCAACCATGGTCTTATTC-TTTTCATGTCACGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATC
* * * *
115514981 TTTCAACCATGGTCTTATTCATTTTATGTCACGCTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
* * *
115515027 TTTCAACCCTGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
* * * * *
115515073 TTTCAACCGTGGTCTTACACA-TTGCATATCATGCTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATC
*
115515119 TTTCAACCATGGTCTTACACATTT
1 TTTCAACCATGGTCTTACTCATTT
115515143 CATTTCAGAA
Statistics
Matches: 186, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
45 8 0.04
46 172 0.92
47 6 0.03
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
Found at i:115515034 original size:92 final size:92
Alignment explanation
Indices: 115514889--115515145 Score: 361
Period size: 92 Copynumber: 2.8 Consensus size: 92
115514879 CCATAGTGTA
* * * *
115514889 TTTCAACTATGGTCTTACTCATTTTCTGCCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
1 TTTCAACCATGGTCTTACTCATTTTATGTCATGCTGCCATGGTATCTTTCAACCATGGTCTTATT
*
115514954 CTTTTCATGTCACGTTGCCATGGTATC
66 CATTTCATGTCACGTTGCCATGGTATC
* * *
115514981 TTTCAACCATGGTCTTATTCATTTTATGTCACGCTGCCATGGTATCTTTCAACCCTGGTCTTATT
1 TTTCAACCATGGTCTTACTCATTTTATGTCATGCTGCCATGGTATCTTTCAACCATGGTCTTATT
* *
115515046 CATTTCCTGTCATGTTGCCATGGTATC
66 CATTTCATGTCACGTTGCCATGGTATC
* * ** * **
115515073 TTTCAACCGTGGTCTTACACATTGCATATCATGCTGCCATGGTATCTTTCAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACTCATTTTATGTCATGCTGCCATGGTATCTTTCAACCATGGTCTTATT
115515138 CATTTCAT
66 CATTTCAT
115515146 TTCAGAAAGC
Statistics
Matches: 144, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 144 1.00
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (92 bp):
TTTCAACCATGGTCTTACTCATTTTATGTCATGCTGCCATGGTATCTTTCAACCATGGTCTTATT
CATTTCATGTCACGTTGCCATGGTATC
Found at i:115515142 original size:138 final size:138
Alignment explanation
Indices: 115514889--115515142 Score: 373
Period size: 138 Copynumber: 1.8 Consensus size: 138
115514879 CCATAGTGTA
* * **
115514889 TTTCAACTATGGTCTTACTCATTTTCTGCCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
1 TTTCAACCATGGTCTTACTCATTTCCTGCCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
* * * * **
115514954 CTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGTCACGCTGCC
66 CATTGCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATGTCACGCTGCC
115515019 ATGGTATC
131 ATGGTATC
* * * *
115515027 TTTCAACCCTGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCGTGGTCTTACA
1 TTTCAACCATGGTCTTACTCATTTCCTGCCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
*
115515092 CATTGCATATCATGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
66 CATTGCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
115515143 CATTTCAGAA
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
138 101 1.00
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (138 bp):
TTTCAACCATGGTCTTACTCATTTCCTGCCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
CATTGCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATGTCACGCTGCC
ATGGTATC
Found at i:115519448 original size:26 final size:26
Alignment explanation
Indices: 115519417--115519524 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
115519407 TGAAATGCCC
*
115519417 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
115519443 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
115519469 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
115519495 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
115519521 ATCA
1 ATCA
115519525 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:115526639 original size:14 final size:14
Alignment explanation
Indices: 115526620--115526646 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
115526610 GAAAACAACC
115526620 AAAATAAATAAAAT
1 AAAATAAATAAAAT
115526634 AAAATAAATAAAA
1 AAAATAAATAAAA
115526647 CAAAGACTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:115528081 original size:9 final size:9
Alignment explanation
Indices: 115528067--115528096 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
115528057 TTGAGGAAAC
*
115528067 CTTGGTATG
1 CTTGGTTTG
115528076 CTTGGTTTG
1 CTTGGTTTG
115528085 CTTGGTTTG
1 CTTGGTTTG
115528094 CTT
1 CTT
115528097 TGTGGCTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.03, C:0.13, G:0.30, T:0.53
Consensus pattern (9 bp):
CTTGGTTTG
Found at i:115530776 original size:23 final size:23
Alignment explanation
Indices: 115530737--115530818 Score: 55
Period size: 23 Copynumber: 3.6 Consensus size: 23
115530727 CAATTTCACA
*
115530737 TAAAGATATA-CCTATATATATAT
1 TAAAGATATATAC-ATATATATAT
*
115530760 TAAAGATATATACATATGTA-A-
1 TAAAGATATATACATATATATAT
* *
115530781 TAAA-ATATATAAATAACATGATAT
1 TAAAGATATATACAT-ATAT-ATAT
*
115530805 TAAAAAATATATAC
1 T-AAAGATATATAC
115530819 GCAATATGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
20 9 0.20
21 6 0.13
22 2 0.04
23 17 0.37
24 2 0.04
25 3 0.07
26 7 0.15
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (23 bp):
TAAAGATATATACATATATATAT
Found at i:115530903 original size:31 final size:32
Alignment explanation
Indices: 115530829--115530903 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 32
115530819 GCAATATGTC
115530829 TGATAAAAATAATAATATACATAATATATAAAA
1 TGAT-AAAATAATAATATACATAATATATAAAA
*
115530862 -AATACAAATAAT-ATATACAT-ATACTA-AAAA
1 TGATA-AAATAATAATATACATAATA-TATAAAA
115530892 TGATAATAATAA
1 TGATAA-AATAA
115530904 AAAATAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
30 8 0.22
31 19 0.53
32 9 0.25
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (32 bp):
TGATAAAATAATAATATACATAATATATAAAA
Found at i:115530974 original size:3 final size:3
Alignment explanation
Indices: 115530955--115530996 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
115530945 TCTATGTACC
*
115530955 AAT AAT ATT AAT AAAT AAT AGAT AAT AAT AA- AAT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA
115530997 CGATAATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:115531001 original size:23 final size:21
Alignment explanation
Indices: 115530968--115531010 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
115530958 AATATTAATA
115530968 AATAATAGATAATAATAAAAT
1 AATAATAGATAATAATAAAAT
*
115530989 AATAATAACGATAATAGTAAAA
1 AATAAT-A-GATAATAATAAAA
115531011 ATACAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (21 bp):
AATAATAGATAATAATAAAAT
Found at i:115531245 original size:24 final size:23
Alignment explanation
Indices: 115531197--115531245 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
115531187 TAAGTATGGT
115531197 ATAATATAACAATGATAATAATA
1 ATAATATAACAATGATAATAATA
115531220 ATAA-ATAACAATGAT-ATAATA
1 ATAATATAACAATGATAATAATA
115531241 ATAAT
1 ATAAT
115531246 CTAGTGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.40
22 11 0.44
23 4 0.16
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
ATAATATAACAATGATAATAATA
Found at i:115532061 original size:133 final size:133
Alignment explanation
Indices: 115531823--115532080 Score: 399
Period size: 133 Copynumber: 1.9 Consensus size: 133
115531813 AGGTAAACCT
* * * * *
115531823 TGAAGTTGCAGTGGAGTAGATCGAAGACGGTGAATCCTGTCTTCCTGAAGTTGCAGTGAAGCAGA
1 TGAAGTTGCAGTGGAGCAGATCGAAAACGGCGAATCCTGGCTTCCTGAAGTTGCAGTAAAGCAGA
* *
115531888 TTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGCAGAGTAAGCTAAAGATTGTAGATCTTGTTT
66 TTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGCAGAGTAAGCTAAAGATTGCAGATCTTGTTT
115531953 CCC
131 CCC
* *
115531956 TGAAGTTGCAGTGGAGCGGATCGAAAACGGCGAATCTTGGCTTCCTGAAGTTGCAGTAAAGCAGA
1 TGAAGTTGCAGTGGAGCAGATCGAAAACGGCGAATCCTGGCTTCCTGAAGTTGCAGTAAAGCAGA
** * *
115532021 TTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTACGCTGAAGATTGCAGATCT
66 TTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGCAGAGTAAGCTAAAGATTGCAGATCT
115532081 CGTCTCCAGT
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 112 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (133 bp):
TGAAGTTGCAGTGGAGCAGATCGAAAACGGCGAATCCTGGCTTCCTGAAGTTGCAGTAAAGCAGA
TTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGCAGAGTAAGCTAAAGATTGCAGATCTTGTTT
CCC
Found at i:115535198 original size:131 final size:132
Alignment explanation
Indices: 115534877--115535235 Score: 420
Period size: 131 Copynumber: 2.7 Consensus size: 132
115534867 AAGGCGATGT
* * * * *
115534877 TCGATATTTGGCAATTCGAGGAATCGTGCCCTATCGTGCTAGGTTGCAATTTCTCGTTTGCTCAA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAA
* * * ***
115534942 AATAATCGAAT-GTCCCTTGGAATTTCACTCATGTTTTCTAAAAACTCTTTTAAACAAAGTAAAT
66 AATAATCGAATATTCCTTTGGAATTTCACTCATGCTTTCTAAAAACTCTCCAAAACAAAGTAAAT
*
115535006 GT
131 GC
* * * *
115535008 TCGATGTTTGGCAATTCGGAGAGTCGTACCCTATCGTGTTGGGTTGCGATTTCTCGTTTGTTCAA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAA
* * * * *
115535073 AACAATCGAATATTCCTTTGGGATTTCACTCATGCTTT-TAAAAATTCTCCAAAACGAAGGT-AG
66 AATAATCGAATATTCCTTTGGAATTTCACTCATGCTTTCTAAAAACTCTCCAAAAC-AAAGTAAA
115535136 TGC
130 TGC
* * * * *
115535139 TCGATGTTTGGCAATTCGGGGAATCGTGCTCTATCGTACTGGGTTGTGATCTC-CTGTTTGTTTA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTC-GTTTGTTCA
* *
115535203 AAATAATCAAATATTCCTTTAGAATTTCACTCA
65 AAATAATCGAATATTCCTTTGGAATTTCACTCA
115535236 CGTTCTCCAA
Statistics
Matches: 191, Mismatches: 34, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
130 1 0.01
131 164 0.86
132 26 0.14
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (132 bp):
TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAA
AATAATCGAATATTCCTTTGGAATTTCACTCATGCTTTCTAAAAACTCTCCAAAACAAAGTAAAT
GC
Found at i:115536508 original size:19 final size:19
Alignment explanation
Indices: 115536484--115536562 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
115536474 AATCTTTAAG
115536484 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
115536503 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
115536522 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
115536539 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
115536560 GAT
1 GAT
115536563 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:115536514 original size:36 final size:36
Alignment explanation
Indices: 115536474--115536561 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
115536464 ATGGAAATAT
115536474 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
115536510 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
115536546 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
115536562 TCTTGTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.63
37 1 0.02
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:115546080 original size:45 final size:45
Alignment explanation
Indices: 115546011--115546640 Score: 379
Period size: 45 Copynumber: 14.7 Consensus size: 45
115546001 TCATTGGGGC
* * *
115546011 AGATACAAGATGACAGATCTTATCTCTCTATAATGGGCGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* *
115546056 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * * *
115546101 AGATCAAAGATATAGCAGATCTGA---C-CT-TCAT---C-GGG-GC
1 AGATCCAAGAT-GA-CAGATCTTATCTCTCTGTAATGGACGGGGAGT
* *
115546138 AGATCCAAGATGACAGATCTTATCTCTCCGTAATGGATGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * **
115546183 GGATCAAAGATGACAGATCTTATCTCTTTGTAATGGGTGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * *
115546228 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACTGGGAGC
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * * *
115546273 AGATCGAAGACAT-AGTAGATCTGA---C-CT-TCAT---C-GGG-GC
1 AGATCCAAG--ATGA-CAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * *
115546310 AGATCCAAGATGACAGATCTTATATCTCTGTAATGGGCGGAGAAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* *
115546355 AGATCTAAGATGACAGATCTTATCTCTCTGTAATGGACGGAGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * *
115546400 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* ** * *
115546445 AGAT-CAA-A-GACATATCAGATCTGAC-CT-TCAT---C-GGG-GC
1 AGATCCAAGATGACAGATCTTATCT--CTCTGTAATGGACGGGGAGT
* * * *
115546482 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGC
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * * * * *
115546527 AAATCAAAGATATAGCAGATCTGA---C-CT-TCAT---C-GAG-GC
1 AGATCCAAGAT-GA-CAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * * *
115546564 AGATCCAAGATGGCGGATCTTATCCCTCCGTAATGGACGGAGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
*
115546609 AGATCCAAGATGACAGATCTTATCTTTCTGTA
1 AGATCCAAGATGACAGATCTTATCTCTCTGTA
115546641 TTCAATGGGG
Statistics
Matches: 450, Mismatches: 85, Indels: 100
0.71 0.13 0.16
Matches are distributed among these distances:
35 24 0.05
36 2 0.00
37 37 0.08
38 17 0.04
39 11 0.02
40 22 0.05
42 19 0.04
43 12 0.03
44 17 0.04
45 261 0.58
46 3 0.01
47 25 0.06
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (45 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
Found at i:115546161 original size:127 final size:126
Alignment explanation
Indices: 115545935--115546247 Score: 430
Period size: 127 Copynumber: 2.5 Consensus size: 126
115545925 GAACAAGTTG
* ** *
115545935 AAGATAACAGATCTTATCTCTCTGTATTCGACGGGGAACAGATCGAAGACTTAGCAGATCTGACC
1 AAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGA-TTAGCAGATCTGACC
* * * *
115546000 TTCATTGGGGCAGATACAAGATGACAGATCTTATCTCTCTATAATGGGCGGGGAGTAGATCC
65 TTCATCGGGGCAGATACAAGATGACAGATCTTATCTCTCCATAATGGACGGGGAGTAGATCA
115546062 AAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATATAGCAGATCTGACC
1 AAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGAT-TAGCAGATCTGACC
* * * *
115546127 TTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCCGTAATGGATGGGGAGTGGATCA
65 TTCATCGGGGCAGATACAAGATGACAGATCTTATCTCTCCATAATGGACGGGGAGTAGATCA
* * * ** * *
115546189 AAGATGACAGATCTTATCTCTTTGTAATGGGTGGGGAGTAGATCCAAGATGA-CAGATCT
1 AAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATTAGCAGATCT
115546248 TATCTCTCTG
Statistics
Matches: 166, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
125 7 0.04
126 2 0.01
127 157 0.95
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (126 bp):
AAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATTAGCAGATCTGACCT
TCATCGGGGCAGATACAAGATGACAGATCTTATCTCTCCATAATGGACGGGGAGTAGATCA
Found at i:115546193 original size:82 final size:82
Alignment explanation
Indices: 115546056--115546619 Score: 551
Period size: 82 Copynumber: 6.7 Consensus size: 82
115546046 GGCGGGGAGT
115546056 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATATAGCAGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATATAGCAGAT
115546121 CTGACCTTCATCGGGGC
66 CTGACCTTCATCGGGGC
* * * * * *
115546138 AGATCCAAGATGACAGATCTTATCTCTCCGTAATGGATGGGGAGTGGATCAAAGAT-GA-CAGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATATAGCAGAT
* * * *
115546201 CTTATCTCTTTGTAATGGGTGGGGAGT
66 CTGA-C-C--T-TCA----TCGGG-GC
* * * * *
115546228 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAGTAGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATATAGCAGAT
115546293 CTGACCTTCATCGGGGC
66 CTGACCTTCATCGGGGC
* * * * * * * *
115546310 AGATCCAAGATGACAGATCTTATATCTCTGTAATGGGCGGAGAATAGATCTAAGAT-GA-CAGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATATAGCAGAT
* * *
115546373 CTTATCTCTCTGTAATGGACGGAGAGT
66 CTGA---C-CT-TCAT---CGG-G-GC
* * *
115546400 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGACATATCAGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATATAGCAGAT
115546465 CTGACCTTCATCGGGGC
66 CTGACCTTCATCGGGGC
* * *
115546482 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAAATCAAAGATATAGCAGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATATAGCAGAT
*
115546547 CTGACCTTCATCGAGGC
66 CTGACCTTCATCGGGGC
* * * * * * * *
115546564 AGATCCAAGATGGCGGATCTTATCCCTCCGTAATGGACGGAGAGTAGATCCAAGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGAT
115546620 GACAGATCTT
Statistics
Matches: 389, Mismatches: 69, Indels: 48
0.77 0.14 0.09
Matches are distributed among these distances:
80 15 0.04
81 3 0.01
82 222 0.57
83 6 0.02
84 6 0.02
85 5 0.01
87 5 0.01
88 6 0.02
89 6 0.02
90 97 0.25
91 3 0.01
92 15 0.04
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (82 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATATAGCAGAT
CTGACCTTCATCGGGGC
Found at i:115546320 original size:127 final size:127
Alignment explanation
Indices: 115546184--115546703 Score: 449
Period size: 127 Copynumber: 4.1 Consensus size: 127
115546174 ATGGGGAGTG
* * ** *
115546184 GATCAAAGATGACAGATCTTATCTCTTTGTAATGGGTGGGGAGTAGATCCAAGATGACAGATCTT
1 GATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTT
* *
115546249 ATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATCGGGGCA
66 ATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGAGGCA
* * * *
115546311 GATCCAAGATGACAGATCTTATATCTCTGTAATGGGCGGAGAATAGATCTAAGATGACAGATCTT
1 GATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTT
* * * * * *
115546376 ATCTCTCTGTAATGGAC-GGAGAGTAGATCTAAG--AT-GACAGATCTTATCTCTCTGTATTCGA
66 ATCTCTCTGTATTCGACTGG-GAGCAGATCGAAGACATAG-CAGATCTGA-C-CT-T-CA-TCGA
*
115546437 CGGGGAGTA
124 ----G-GCA
* ** * * *
115546446 GAT-CAA-A-GACATATCAGATCTGAC-CT-TCAT---CGG-G-GCAGATCTAAGATGACAGATC
1 GATCCAAGATGACAGATCTTATCT--CTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATC
* * * *
115546501 TTATCTCTCTGTATTCGACGGGGAGCAAATCAAAGATATAGCAGATCTGACCTTCATCGAGGCA
64 TTATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGAGGCA
* * * *
115546565 GATCCAAGATGGCGGATCTTATCCCTCCGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTT
1 GATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTT
* * * * * * *
115546630 ATCTTTCTGTATTC-AATGGGGAGCAGATCGAAAACATAGTAGATCTGACTTTCATCAAAGCA
66 ATCTCTCTGTATTCGACT-GGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGAGGCA
115546692 GATCCAAGATGA
1 GATCCAAGATGA
115546704 TTTGGCATCT
Statistics
Matches: 311, Mismatches: 53, Indels: 58
0.74 0.13 0.14
Matches are distributed among these distances:
119 5 0.02
120 5 0.02
121 2 0.01
122 11 0.04
124 5 0.02
125 13 0.04
126 6 0.02
127 215 0.69
128 5 0.02
129 14 0.05
130 4 0.01
132 13 0.04
133 3 0.01
134 5 0.02
135 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (127 bp):
GATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTT
ATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGAGGCA
Found at i:115546512 original size:172 final size:172
Alignment explanation
Indices: 115546017--115546513 Score: 798
Period size: 172 Copynumber: 2.9 Consensus size: 172
115546007 GGGCAGATAC
*
115546017 AAGATGACAGATCTTATCTCTCTATAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTC
1 AAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTC
* *
115546082 TCTGTATTCGACGGGGAGTAGATCAAAGATATAGCAGATCTGACCTTCATCGGGGCAGATCCAAG
66 TCTGTATTCGACGGGGAGTAGATCAAAGACATATCAGATCTGACCTTCATCGGGGCAGATCCAAG
* * * * *
115546147 ATGACAGATCTTATCTCTCCGTAATGGATGGGGAGTGGATCA
131 ATGACAGATCTTATCTCTCTGTAATGGACGGAGAATAGATCA
* *
115546189 AAGATGACAGATCTTATCTCTTTGTAATGGGTGGGGAGTAGATCCAAGATGACAGATCTTATCTC
1 AAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTC
* * *
115546254 TCTGTATTCGACTGGGAGCAGATCGAAGACATAGT-AGATCTGACCTTCATCGGGGCAGATCCAA
66 TCTGTATTCGACGGGGAGTAGATCAAAGACATA-TCAGATCTGACCTTCATCGGGGCAGATCCAA
* * *
115546318 GATGACAGATCTTATATCTCTGTAATGGGCGGAGAATAGATCT
130 GATGACAGATCTTATCTCTCTGTAATGGACGGAGAATAGATCA
* * *
115546361 AAGATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCTAAGATGACAGATCTTATCTC
1 AAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTC
*
115546426 TCTGTATTCGACGGGGAGTAGATCAAAGACATATCAGATCTGACCTTCATCGGGGCAGATCTAAG
66 TCTGTATTCGACGGGGAGTAGATCAAAGACATATCAGATCTGACCTTCATCGGGGCAGATCCAAG
115546491 ATGACAGATCTTATCTCTCTGTA
131 ATGACAGATCTTATCTCTCTGTA
115546514 TTCGACGGGG
Statistics
Matches: 297, Mismatches: 26, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
171 1 0.00
172 296 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (172 bp):
AAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTC
TCTGTATTCGACGGGGAGTAGATCAAAGACATATCAGATCTGACCTTCATCGGGGCAGATCCAAG
ATGACAGATCTTATCTCTCTGTAATGGACGGAGAATAGATCA
Found at i:115548280 original size:21 final size:22
Alignment explanation
Indices: 115548254--115548378 Score: 77
Period size: 23 Copynumber: 5.7 Consensus size: 22
115548244 TATTTTCCTA
115548254 TATATATTTATATTATATTTTAT
1 TATATA-TTATATTATATTTTAT
*
115548277 TATATAGCATT-TATTAGATTTT-T
1 TATAT---ATTATATTATATTTTAT
*
115548300 TA-CT-TT-TATTATATATTTAT
1 TATATATTATATTATAT-TTTAT
115548320 TACT-TATTATATTAT-TTTTAT
1 TA-TATATTATATTATATTTTAT
* *
115548341 TATATATTAT-GTATATCGTATAT
1 TATATATTATATTATAT--TTTAT
*
115548364 TATCTATTATATTAT
1 TATATATTATATTAT
115548379 TTATGTTTTA
Statistics
Matches: 81, Mismatches: 7, Indels: 27
0.70 0.06 0.23
Matches are distributed among these distances:
18 9 0.11
19 3 0.04
20 7 0.09
21 15 0.19
22 4 0.05
23 27 0.33
24 13 0.16
25 2 0.02
26 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (22 bp):
TATATATTATATTATATTTTAT
Found at i:115548309 original size:18 final size:20
Alignment explanation
Indices: 115548286--115548329 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
115548276 TTATATAGCA
115548286 TTTATTAGAT-TTT-TTACT
1 TTTATTAGATATTTATTACT
*
115548304 TTTATTATATATTTATTACT
1 TTTATTAGATATTTATTACT
115548324 TATTAT
1 T-TTAT
115548330 ATTATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 9 0.41
19 3 0.14
20 6 0.27
21 4 0.18
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTATTAGATATTTATTACT
Found at i:115548330 original size:18 final size:16
Alignment explanation
Indices: 115548305--115548347 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
115548295 TTTTTTACTT
115548305 TTATTATATATTTATTA
1 TTATTATATATTT-TTA
115548322 CTTATTATATTATTTTTA
1 -TTATTATA-TATTTTTA
115548340 TTA-TATAT
1 TTATTATAT
115548348 TATGTATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.04
16 4 0.17
17 3 0.12
18 11 0.46
19 5 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTATATATTTTTA
Found at i:115548366 original size:32 final size:31
Alignment explanation
Indices: 115548261--115548348 Score: 90
Period size: 32 Copynumber: 2.7 Consensus size: 31
115548251 CTATATATAT
*
115548261 TTATATTATATTTTATTATATAGCATTTATTA-GA
1 TTATATTAT-TTTTATTATAT---ATTTATTACTA
* *
115548295 TT-TTTTACTTTTATTATATATTTATTACTTA
1 TTATATTATTTTTATTATATATTTATTAC-TA
115548326 TTATATTATTTTTATTATATATT
1 TTATATTATTTTTATTATATATT
115548349 ATGTATATCG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
29 8 0.17
31 3 0.07
32 29 0.63
33 4 0.09
34 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (31 bp):
TTATATTATTTTTATTATATATTTATTACTA
Found at i:115548382 original size:16 final size:16
Alignment explanation
Indices: 115548306--115548395 Score: 57
Period size: 16 Copynumber: 5.8 Consensus size: 16
115548296 TTTTTACTTT
115548306 TATTATA-TATTTATTAC
1 TATTATATTATTTA-T-C
115548323 TTATTATATTATTT-T-
1 -TATTATATTATTTATC
*
115548338 TATTATA-TA-TTATG
1 TATTATATTATTTATC
**
115548352 TA-TATCGTATATTATC
1 TATTATATTAT-TTATC
*
115548368 TATTATATTATTTATG
1 TATTATATTATTTATC
*
115548384 TTTTATATTATT
1 TATTATATTATT
115548396 CATTTTATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
12 2 0.03
13 6 0.10
14 11 0.19
16 21 0.36
17 7 0.12
18 7 0.12
19 5 0.08
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
TATTATATTATTTATC
Found at i:115548410 original size:16 final size:17
Alignment explanation
Indices: 115548368--115548410 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
115548358 GTATATTATC
*
115548368 TATTATATTATTTATGT
1 TATTATATTATTCATGT
*
115548385 T-TTATATTATTCATTT
1 TATTATATTATTCATGT
115548401 TATTAT-TTAT
1 TATTATATTAT
115548411 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATATTATTCATGT
Found at i:115550217 original size:132 final size:132
Alignment explanation
Indices: 115549811--115551012 Score: 2001
Period size: 132 Copynumber: 9.1 Consensus size: 132
115549801 AAGAGAAACA
* *
115549811 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
115549876 ACAGCGAAGTAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
115549941 GC
131 GC
*
115549943 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * *
115550008 ATAGTGAAG-AGATCGAAGATTTCAGCATGGCATCTCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
115550072 GT
131 GC
* * *
115550074 AGATTTGGCATCCCTGTGTTTATAGAGAACAGATCGAACATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
115550139 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
115550204 GT
131 GC
* * * *
115550206 AGATTTTGCATCCCTGTGTTTATAGGGAACAAATCGAATATAGCAGATCTGACATTCCTGTGATT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
115550271 ACAGCGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
115550336 GC
131 GC
* *
115550338 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * *
115550403 ATAGCAAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
115550468 GC
131 GC
*
115550470 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
115550535 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
115550600 AC
131 GC
* * * ** *
115550602 AGACTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAACAGATCTAACACAACTGTGATT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
115550667 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTATTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
115550732 GC
131 GC
* * *
115550734 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAATATAGCAGATCTGACATTCCTGTGATT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
115550799 ACAGCGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
115550864 GC
131 GC
* * * *
115550866 AGATTTGGCATCCTTGTGTTTATAGGGAATAAATCGAAGATAGCAGATCTGACATTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * *
115550931 ATAGCAAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
115550996 GA
131 GC
115550998 AGATTTGGCATCCCT
1 AGATTTGGCATCCCT
115551013 AAAAATCAAA
Statistics
Matches: 1006, Mismatches: 63, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
131 124 0.12
132 882 0.88
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:115551640 original size:19 final size:19
Alignment explanation
Indices: 115551616--115551713 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
115551606 AATCTTTAAG
115551616 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
115551635 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
115551654 GATA--CAATCTTATATAT
1 GATATGCAATCTTAGATAT
115551671 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
115551690 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
115551711 GAT
1 GAT
115551714 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:115551646 original size:36 final size:35
Alignment explanation
Indices: 115551606--115551713 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
115551596 ATGGAAATAT
115551606 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
*
115551642 AATC-TT-AGATATGATACAATCTTATATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
115551678 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
115551714 CTTGTAATCT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 27 0.46
37 1 0.02
38 7 0.12
40 9 0.15
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:115552087 original size:14 final size:14
Alignment explanation
Indices: 115552070--115552101 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
115552060 TTATATAGTT
115552070 TATTTTCAAATATA
1 TATTTTCAAATATA
*
115552084 TATTTTCATATATA
1 TATTTTCAAATATA
115552098 TATT
1 TATT
115552102 ATATTATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTTTCAAATATA
Found at i:115553510 original size:47 final size:47
Alignment explanation
Indices: 115553457--115553549 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 47
115553447 ATGTCACACC
*
115553457 GATGCCATATCCCAGATATGGTCTTACAC-AAATGCACTTATCACTCT
1 GATGCCATATCCCAGATATGATCTTACACGAAAT-CACTTATCACTCT
* * * *
115553504 GATGCCATATTCTAGATATGATTTTACACGGAAATCACTTGTCACT
1 GATGCCATATCCCAGATATGATCTTACAC-GAAATCACTTATCACT
115553550 TGTAGCCGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
47 25 0.64
48 10 0.26
49 4 0.10
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGATCTTACACGAAATCACTTATCACTCT
Found at i:115553586 original size:31 final size:31
Alignment explanation
Indices: 115553551--115553637 Score: 156
Period size: 31 Copynumber: 2.8 Consensus size: 31
115553541 CTTGTCACTT
*
115553551 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
115553582 GTAGCCGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
115553613 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
115553638 TGTCATTTGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:115553722 original size:50 final size:51
Alignment explanation
Indices: 115553613--115553741 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
115553603 CACTGATCAG
* * *
115553613 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
115553664 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTTCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
115553714 GTAGCCGAAGCTGTCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
115553742 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 47 0.65
51 25 0.35
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:115558531 original size:19 final size:19
Alignment explanation
Indices: 115558497--115558557 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
115558487 CTGACTTGTT
115558497 TTGAAACAGTTTTAACTTGA
1 TTGAAACA-TTTTAACTTGA
**
115558517 TTGAAA-ATGTTTAACTCAA
1 TTGAAACAT-TTTAACTTGA
115558536 TTGAAACCATTTTAACTTGA
1 TTGAAA-CATTTTAACTTGA
115558556 TT
1 TT
115558558 TTATCATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.03
19 15 0.44
20 16 0.47
21 2 0.06
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
TTGAAACATTTTAACTTGA
Done.