Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 167 of 318
Found at i:51774320 original size:47 final size:47
Alignment explanation
Indices: 51774256--51774366 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
51774246 GACATTGAGT
*
51774256 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
51774303 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
51774350 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
51774367 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:51779611 original size:28 final size:27
Alignment explanation
Indices: 51779548--51779617 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
51779538 ATAGTGAGTC
51779548 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
51779575 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
51779603 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51779618 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:51781876 original size:30 final size:30
Alignment explanation
Indices: 51781840--51781940 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
51781830 GACAAGATTG
* * *
51781840 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
51781870 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
51781898 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
51781927 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51781941 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:51781952 original size:29 final size:28
Alignment explanation
Indices: 51781869--51781944 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
51781859 AAAATTGTAC
* *
51781869 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
51781897 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
51781926 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
51781945 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:51789767 original size:30 final size:30
Alignment explanation
Indices: 51789731--51789831 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
51789721 GACAAGATTG
* * *
51789731 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
51789761 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
51789789 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
51789818 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51789832 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:51789843 original size:29 final size:28
Alignment explanation
Indices: 51789760--51789835 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
51789750 AAAATTGTAC
* *
51789760 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
51789788 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
51789817 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
51789836 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:51792946 original size:14 final size:14
Alignment explanation
Indices: 51792927--51792962 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
51792917 TTGTTTGATT
51792927 GAAAATGGTTTCTG
1 GAAAATGGTTTCTG
*
51792941 GAAAATGATTTCTG
1 GAAAATGGTTTCTG
51792955 GAAAATGG
1 GAAAATGG
51792963 CTTACTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (14 bp):
GAAAATGGTTTCTG
Found at i:51797030 original size:26 final size:25
Alignment explanation
Indices: 51796986--51797034 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
51796976 TTTAGCTATA
**
51796986 TAAGATTTGATATGCCATTTAATAGG
1 TAAGATTTGATATAACA-TTAATAGG
51797012 TAAGATTTGATATAACATTAATA
1 TAAGATTTGATATAACATTAATA
51797035 ATTTGATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (25 bp):
TAAGATTTGATATAACATTAATAGG
Found at i:51797189 original size:24 final size:24
Alignment explanation
Indices: 51797162--51797209 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
51797152 CTGCTTAGAG
51797162 TAATTTGGGATCAACTTAAAAGAA
1 TAATTTGGGATCAACTTAAAAGAA
51797186 TAATTTGGGATCAACTTAAAAGAA
1 TAATTTGGGATCAACTTAAAAGAA
51797210 AAGAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (24 bp):
TAATTTGGGATCAACTTAAAAGAA
Found at i:51800450 original size:18 final size:18
Alignment explanation
Indices: 51800416--51800465 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
51800406 GGTAATTTTT
*
51800416 TAAATTATAAAAA-ATTA
1 TAAATTAGAAAAATATTA
51800433 TAAATTAGAAAAATATTA
1 TAAATTAGAAAAATATTA
51800451 TAAATTATGAAAAAT
1 TAAATTA-GAAAAAT
51800466 GTGGAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 12 0.40
18 11 0.37
19 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (18 bp):
TAAATTAGAAAAATATTA
Found at i:51800515 original size:2 final size:2
Alignment explanation
Indices: 51800510--51800540 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
51800500 AAAAATTATT
51800510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51800541 TATGCACATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51800876 original size:10 final size:9
Alignment explanation
Indices: 51800841--51800875 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
51800831 TTATTTCTAT
51800841 TTTTTAAAA
1 TTTTTAAAA
51800850 TTTTTAAAA
1 TTTTTAAAA
51800859 TTTTTAATAA
1 TTTTTAA-AA
*
51800869 TTATTAA
1 TTTTTAA
51800876 TTAGTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:51803234 original size:9 final size:9
Alignment explanation
Indices: 51803220--51803274 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
51803210 TTGACTTGAA
51803220 TAACTCGAT
1 TAACTCGAT
51803229 TAACTCGAT
1 TAACTCGAT
*
51803238 TAACTCGAA
1 TAACTCGAT
*
51803247 GAACTCGAT
1 TAACTCGAT
* *
51803256 TAACTCTAA
1 TAACTCGAT
51803265 TAACTCGAT
1 TAACTCGAT
51803274 T
1 T
51803275 CGTTTAACTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (9 bp):
TAACTCGAT
Found at i:51803243 original size:18 final size:18
Alignment explanation
Indices: 51803220--51803274 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
51803210 TTGACTTGAA
*
51803220 TAACTCGATTAACTCGAT
1 TAACTCGAATAACTCGAT
*
51803238 TAACTCGAAGAACTCGAT
1 TAACTCGAATAACTCGAT
*
51803256 TAACTCTAATAACTCGAT
1 TAACTCGAATAACTCGAT
51803274 T
1 T
51803275 CGTTTAACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (18 bp):
TAACTCGAATAACTCGAT
Found at i:51803251 original size:27 final size:27
Alignment explanation
Indices: 51803221--51803272 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
51803211 TGACTTGAAT
*
51803221 AACTCGATTAACTCGATTAACTCGAAG
1 AACTCGATTAACTCGAATAACTCGAAG
*
51803248 AACTCGATTAACTCTAATAACTCGA
1 AACTCGATTAACTCGAATAACTCGA
51803273 TTCGTTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (27 bp):
AACTCGATTAACTCGAATAACTCGAAG
Found at i:51811986 original size:40 final size:40
Alignment explanation
Indices: 51811931--51812138 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
51811921 TGAATGATAC
* *
51811931 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
51811971 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
51812011 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
51812051 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
51812091 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
51812131 CC-GGCTAA
1 CCGGGCTAA
51812139 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 138 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:51816204 original size:24 final size:24
Alignment explanation
Indices: 51816177--51816358 Score: 285
Period size: 24 Copynumber: 7.6 Consensus size: 24
51816167 CTTATTATGT
* * *
51816177 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
51816201 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
51816225 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
51816249 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
51816273 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
51816297 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
51816321 TCGCACACATAGTGCCATAGT-AA
1 TCGCACACATAGTGCCATAGTAAA
51816344 TCGCACACATAGTGC
1 TCGCACACATAGTGC
51816359 ATTTGAGATA
Statistics
Matches: 150, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
23 17 0.11
24 133 0.89
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:51816214 original size:48 final size:47
Alignment explanation
Indices: 51816155--51816358 Score: 218
Period size: 48 Copynumber: 4.3 Consensus size: 47
51816145 ACCGAATGTG
* * * *
51816155 GCACACATAGTGCTTATTATGTTCGCACACATAGAGCTATAGCAAATC
1 GCACACATAGTGCTTA-TATGATCGCACACATAGTGCCATAGTAAATC
* * *
51816203 GCACACGTAGTGC-TATAGTAAATCGCACACTTAGTGCCATAGTAAATC
1 GCACACATAGTGCTTATA-T-GATCGCACACATAGTGCCATAGTAAATC
* *
51816251 GCACACATAGTGC-CATAGTGAATCGCACACATAGTGCCATAGTGAATC
1 GCACACATAGTGCTTATA-TG-ATCGCACACATAGTGCCATAGTAAATC
* *
51816299 GCACACATAGTGC-CATAGTAAATCGCACACATAGTGCCATAGT-AATC
1 GCACACATAGTGCTTATA-T-GATCGCACACATAGTGCCATAGTAAATC
51816346 GCACACATAGTGC
1 GCACACATAGTGC
51816359 ATTTGAGATA
Statistics
Matches: 139, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
46 2 0.01
47 20 0.14
48 117 0.84
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (47 bp):
GCACACATAGTGCTTATATGATCGCACACATAGTGCCATAGTAAATC
Found at i:51816816 original size:2 final size:2
Alignment explanation
Indices: 51816809--51816838 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
51816799 TGGGCATACT
51816809 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51816839 CATACCCGAT
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):
TA
Found at i:51823105 original size:40 final size:40
Alignment explanation
Indices: 51823010--51823216 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
51823000 TGAATGATAC
* *
51823010 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
51823050 -CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* **
51823089 CCGGGCTAAGACCCGAAGGCATTCGTGCGGGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
51823129 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
51823169 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
51823209 CC-GGCTAA
1 CCGGGCTAA
51823217 ATTCCGAAGA
Statistics
Matches: 142, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 45 0.32
40 95 0.67
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:51825017 original size:30 final size:30
Alignment explanation
Indices: 51824983--51825043 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51824973 TCCTTAACTC
51824983 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
51825013 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
51825043 A
1 A
51825044 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:51827723 original size:65 final size:66
Alignment explanation
Indices: 51827633--51827759 Score: 170
Period size: 67 Copynumber: 1.9 Consensus size: 66
51827623 TCTGCTATAC
51827633 ATTAAATGCATGCAGTGGTTTTATTA-AAA-ATAATATATATAACTTTGCATTAAAAAGGTTTTG
1 ATTAAATGCATGCAGTGGTTTTATTATAAATATAATATATATAACTTTGCATTAAAAAGGTTTTG
51827696 T
66 T
* * * **
51827697 ATTATATGCATGTA-TGAGTTTCTATTATAAATATTATATATATGTCTTTGCATTAAAAAGGTT
1 ATTAAATGCATGCAGTG-GTTT-TATTATAAATATAATATATATAACTTTGCATTAAAAAGGTT
51827760 ATTTTATTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
63 2 0.04
64 16 0.30
65 5 0.09
66 3 0.06
67 28 0.52
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.43
Consensus pattern (66 bp):
ATTAAATGCATGCAGTGGTTTTATTATAAATATAATATATATAACTTTGCATTAAAAAGGTTTTG
T
Found at i:51838318 original size:30 final size:30
Alignment explanation
Indices: 51838284--51838344 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
51838274 CACTTAATAC
*
51838284 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* * *
51838314 AAACTTTTGCATAATTACACTTTTGGCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
51838344 A
1 A
51838345 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:51840368 original size:57 final size:57
Alignment explanation
Indices: 51840280--51840393 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
51840270 TAGAGTAACC
51840280 TGGAAGGTACTTGGCGTTCAGCTTTCACTTGTTGACAAACTAAACACTTTGATACAA
1 TGGAAGGTACTTGGCGTTCAGCTTTCACTTGTTGACAAACTAAACACTTTGATACAA
*
51840337 TGGAAGGTACTTGGCGTTCAGCTTTCACTTGTTGACAAACTAAGCACTTTGATACAA
1 TGGAAGGTACTTGGCGTTCAGCTTTCACTTGTTGACAAACTAAACACTTTGATACAA
51840394 ACTCTGAATT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (57 bp):
TGGAAGGTACTTGGCGTTCAGCTTTCACTTGTTGACAAACTAAACACTTTGATACAA
Found at i:51843327 original size:55 final size:55
Alignment explanation
Indices: 51843243--51843352 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
51843233 CTCTAGCATA
*
51843243 CTTACTCAACCTGACGAACTCCCTTTCGTATTCAGTAACTGTCATGTTCCCCTGC
1 CTTACTCAACCTGACGAACTCCCTTTCGTATTCAGTAACTATCATGTTCCCCTGC
51843298 CTTACTCAACCTGACGAACTCCCTTTCGTATTCAGTAACTATCATGTTCCCCTGC
1 CTTACTCAACCTGACGAACTCCCTTTCGTATTCAGTAACTATCATGTTCCCCTGC
51843353 TTTAATTCAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.33
Consensus pattern (55 bp):
CTTACTCAACCTGACGAACTCCCTTTCGTATTCAGTAACTATCATGTTCCCCTGC
Found at i:51857190 original size:49 final size:49
Alignment explanation
Indices: 51857113--51857357 Score: 283
Period size: 49 Copynumber: 4.9 Consensus size: 49
51857103 TAGCTGAAGC
* * *
51857113 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
51857162 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * **
51857212 CATCTGATACACGTAATAGCCTGCACTTAGTACTACACACGTGATTGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
51857263 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
51857312 TGTTTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
51857358 TCACAATAGC
Statistics
Matches: 162, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 80 0.49
50 46 0.28
51 36 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:51857293 original size:101 final size:98
Alignment explanation
Indices: 51857129--51857357 Score: 287
Period size: 100 Copynumber: 2.3 Consensus size: 98
51857119 GTACGCATAG
* * * *
51857129 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAGTA
1 TAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAGTA
*
51857194 CTACACACGTGACCTAACCATCTGATACACGTAA
66 CTACACACGCGACC-AACCATCTGATACACGTAA
** *
51857228 TAGCCTGCACTTAGTACTACACACGTGATTGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAG
1 TAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACTTAG
* *** * * *
51857293 TACTACACATGCGACCAATTGTTTGGTACACGTAG
64 TACTACACACGCGACCAACCATCTGATACACGTAA
*
51857328 TAGCCTACACTTAGTACTACACACGTGACC
1 TAGCCTGCACTTAGTACTACACACGTGACC
51857358 TCACAATAGC
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 26 0.24
100 42 0.38
101 42 0.38
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAGTA
CTACACACGCGACCAACCATCTGATACACGTAA
Found at i:51858038 original size:30 final size:30
Alignment explanation
Indices: 51858004--51858063 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51857994 CTTTAATAAG
*
51858004 AACTTTGGCAAAATTAC-CATTTTGTCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
51858034 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
51858064 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:51859235 original size:30 final size:30
Alignment explanation
Indices: 51859201--51859261 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
51859191 CACTTAATAC
*
51859201 AAACTTTGGAAAAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
51859231 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
51859261 A
1 A
51859262 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:51862997 original size:40 final size:40
Alignment explanation
Indices: 51862942--51863093 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
51862932 GAATGATACA
* ** * *
51862942 CGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTACATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATC
51862982 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
* *
51863022 CGGGCTAAGACTCGAAGGCATTCGTGCGAGTTGCTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
* *
51863062 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTT
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
51863094 ACCAAATCCG
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 99 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
Found at i:51863103 original size:40 final size:40
Alignment explanation
Indices: 51862942--51863128 Score: 205
Period size: 40 Copynumber: 4.7 Consensus size: 40
51862932 GAATGATACA
* * * * * *
51862942 CGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTACATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATATC
* **
51862982 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
51863022 CGGGCTAAGACTCGAAGGCATTCGTGCGAGTTGCTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
51863062 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATATC
* *
51863102 CGAG-TGAAGACCCGAAGGCAATTGTGC
1 CGGGCT-AAGACCCGAAGGCATTTGTGC
51863129 TTGTGGTTAT
Statistics
Matches: 129, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
39 1 0.01
40 128 0.99
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:51871249 original size:29 final size:29
Alignment explanation
Indices: 51871216--51871347 Score: 192
Period size: 29 Copynumber: 4.6 Consensus size: 29
51871206 GTGACGAGAT
51871216 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
51871245 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
51871274 TGGCACTAAGTGTGCATGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
51871303 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
51871332 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
51871348 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:51878411 original size:29 final size:29
Alignment explanation
Indices: 51878378--51878538 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
51878368 GTGACGAGAT
51878378 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
51878407 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
51878436 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
51878465 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
51878494 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
51878523 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
51878539 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:51880669 original size:40 final size:40
Alignment explanation
Indices: 51880614--51880780 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
51880604 GAATGATACA
* * *
51880614 CGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTACATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
* *
51880654 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATATC
* * ** * *
51880694 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATT
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
* * * *
51880734 CGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
51880774 C-GGCTAA
1 CGGGCTAA
51880781 ATTCCGAAGA
Statistics
Matches: 102, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
39 6 0.06
40 94 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
Found at i:51880747 original size:80 final size:80
Alignment explanation
Indices: 51880614--51880780 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 80
51880604 GAATGATACA
* * ** *
51880614 CGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTACATCCGGGCTAAGACCCGAAGGC-ATTCG
1 CGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATT-G
*
51880678 TGCGAGTTGTTATATC
65 TGCGAGTGGTTATATC
* * * *
51880694 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATTCGGGTTAAGACCCGAAGGCAATTGT
1 CGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTGT
**
51880759 GCTTGTGGTTATATC
66 GCGAGTGGTTATATC
51880774 C-GGCTAA
1 CGGGCTAA
51880781 ATTCCGAAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 65 0.88
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTGT
GCGAGTGGTTATATC
Found at i:51888885 original size:22 final size:22
Alignment explanation
Indices: 51888840--51888885 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
51888830 ATAATTCATA
**
51888840 ATTATAATAAAGAATTTATCAC
1 ATTATAATAAAGAATTTAGAAC
* *
51888862 ATTATATTAAAGCATTTAGAAC
1 ATTATAATAAAGAATTTAGAAC
51888884 AT
1 AT
51888886 ACTACCATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGAATTTAGAAC
Found at i:51890633 original size:28 final size:27
Alignment explanation
Indices: 51890570--51890639 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
51890560 ATAGTGAGTC
51890570 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
51890597 TGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
51890625 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51890640 GTACAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:51891142 original size:2 final size:2
Alignment explanation
Indices: 51891137--51891162 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
51891127 TCACACATGC
51891137 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
51891163 GGCCGAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51893348 original size:22 final size:22
Alignment explanation
Indices: 51893303--51893348 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
51893293 ATAATTCATA
**
51893303 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAGAAC
*
51893325 ATTATATTAAAGCATTTAGAAC
1 ATTATAATAAAGCATTTAGAAC
51893347 AT
1 AT
51893349 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAGAAC
Found at i:51907259 original size:44 final size:44
Alignment explanation
Indices: 51907133--51907261 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 44
51907123 AAATTTAGAA
* * * *
51907133 ATCCGAGCTCGTTGAGTTGGT--AGGTTCGTGATATGTATG-GAGC
1 ATCCGAGCTCGTTGAGTTGGTCCAAGTTCAT-A-ACGGATGCGAGC
* * * *
51907176 ATCCGAGCTCATTGAGTTGGTCCGAGTTCATTACAGATGCGAGC
1 ATCCGAGCTCGTTGAGTTGGTCCAAGTTCATAACGGATGCGAGC
*
51907220 ATCCGAGCTCGTTGAGTTGGTCCAAGTTCATAAGGGATGCGA
1 ATCCGAGCTCGTTGAGTTGGTCCAAGTTCATAACGGATGCGA
51907262 TACATGTAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
43 24 0.34
44 41 0.59
45 5 0.07
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.29
Consensus pattern (44 bp):
ATCCGAGCTCGTTGAGTTGGTCCAAGTTCATAACGGATGCGAGC
Found at i:51910138 original size:40 final size:40
Alignment explanation
Indices: 51910053--51910203 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
51910043 AATTGAATGA
* * *
51910053 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
51910093 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
51910134 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
51910173 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
51910204 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:51910217 original size:40 final size:40
Alignment explanation
Indices: 51910090--51910219 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
51910080 ATGCTGGAAA
* * * *
51910090 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
51910130 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
51910170 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
51910210 TTATATCCGG
1 TTATATCCGG
51910220 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:51918122 original size:40 final size:40
Alignment explanation
Indices: 51918037--51918187 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
51918027 AATTGAATGA
* * *
51918037 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
51918077 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
51918118 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
51918157 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
51918188 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:51918201 original size:40 final size:40
Alignment explanation
Indices: 51918074--51918203 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
51918064 ATGCTGGAAA
* * * *
51918074 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
51918114 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
51918154 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
51918194 TTATATCCGG
1 TTATATCCGG
51918204 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:51923077 original size:16 final size:16
Alignment explanation
Indices: 51923056--51923089 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
51923046 ACCCCCAAAC
51923056 CGATGGTCAATCCGAG
1 CGATGGTCAATCCGAG
51923072 CGATGGTCAATCCGAG
1 CGATGGTCAATCCGAG
51923088 CG
1 CG
51923090 GAATTCAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.26, G:0.32, T:0.18
Consensus pattern (16 bp):
CGATGGTCAATCCGAG
Found at i:51925622 original size:40 final size:40
Alignment explanation
Indices: 51925537--51925687 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
51925527 AATTGAATGA
* * *
51925537 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
51925577 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
51925618 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
51925657 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
51925688 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:51925701 original size:40 final size:40
Alignment explanation
Indices: 51925574--51925703 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
51925564 ATGCTGGAAA
* * * *
51925574 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
51925614 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
51925654 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
51925694 TTATATCCGG
1 TTATATCCGG
51925704 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:51939225 original size:34 final size:34
Alignment explanation
Indices: 51939182--51939250 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
51939172 TATGTAAAAC
51939182 TAAACTCAATAAGCTTTAAATCCATATTTAATTT
1 TAAACTCAATAAGCTTTAAATCCATATTTAATTT
51939216 TAAACTCAATAAGCTTTAAATCCATATTTAATTT
1 TAAACTCAATAAGCTTTAAATCCATATTTAATTT
51939250 T
1 T
51939251 TTTATGATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.42
Consensus pattern (34 bp):
TAAACTCAATAAGCTTTAAATCCATATTTAATTT
Found at i:51941707 original size:40 final size:40
Alignment explanation
Indices: 51941515--51941700 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
51941505 TCGAATGATG
* * * * *
51941515 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
51941555 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51941595 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
51941635 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
51941676 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
51941701 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51946069 original size:56 final size:56
Alignment explanation
Indices: 51945926--51946085 Score: 168
Period size: 56 Copynumber: 2.9 Consensus size: 56
51945916 TTTGATGACT
* *
51945926 TGATACATGCTAGGTCCGGGAGCTTGT-GTAGCCCCGTTGAGAGGCAT-GTAATTAAG
1 TGATACATGCTAGGTCCGGGAGC-TGTAGTAGCCCTGTTGAGAGGCGTGGTAATT-AG
* * *
51945982 TGGTACACGCTAGGTCCGGGAG-TTTATGTAGCCCTGTTGAGAGGCGTGGTAA-T-G
1 TGATACATGCTAGGTCCGGGAGCTGTA-GTAGCCCTGTTGAGAGGCGTGGTAATTAG
* * *
51946036 TGATGCATGCTAGGTCCGGGTGCTCGTAAGTAGCCCTGTTGAGAGACGTG
1 TGATACATGCTAGGTCCGGGAGCT-GT-AGTAGCCCTGTTGAGAGGCGTG
51946086 CTATGTCATG
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
54 21 0.24
55 1 0.01
56 60 0.69
57 5 0.06
ACGTcount: A:0.20, C:0.18, G:0.35, T:0.27
Consensus pattern (56 bp):
TGATACATGCTAGGTCCGGGAGCTGTAGTAGCCCTGTTGAGAGGCGTGGTAATTAG
Found at i:51957331 original size:23 final size:23
Alignment explanation
Indices: 51957289--51957332 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
51957279 GGAAATACCA
*
51957289 CCAGTAGATATGTGGATGAACCG
1 CCAGTAGATATGTAGATGAACCG
* *
51957312 CCAGTAGATTTGTAGCTGAAC
1 CCAGTAGATATGTAGATGAAC
51957333 TACTAGTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (23 bp):
CCAGTAGATATGTAGATGAACCG
Found at i:51958329 original size:19 final size:18
Alignment explanation
Indices: 51958292--51958326 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
51958282 AATCTTTTGT
51958292 ATAATAAATTAACACTTA
1 ATAATAAATTAACACTTA
51958310 ATAATTAAA-TAACACTT
1 ATAA-TAAATTAACACTT
51958327 TAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATAAATTAACACTTA
Found at i:51961454 original size:40 final size:39
Alignment explanation
Indices: 51961409--51961616 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
51961399 CGGAATACGA
*
51961409 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
51961449 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
51961489 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* ** * *
51961529 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * * *
51961569 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCA-CTGCACAAATGCCTTCGGGTCTTAGC
51961609 CCGGATAT
1 CCGGATAT
51961617 CATTCAATTG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:51961549 original size:80 final size:81
Alignment explanation
Indices: 51961409--51961614 Score: 233
Period size: 80 Copynumber: 2.6 Consensus size: 81
51961399 CGGAATACGA
* *
51961409 CCGGATATAACCA-CATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAA
1 CCGGATATAACAACCA-GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAA
*
51961472 TGCCTTCGGGTATTAGC
65 TGCCTTCGGGTATTAAC
* *
51961489 CCGGATTTAACAACTC-GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAA
1 CCGGATATAACAAC-CAGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAA
* *
51961551 TTGCCTTCGGGTCTTAAC
64 ATGCCTTCGGGTATTAAC
** ** * *
51961569 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGAT
51961615 ATCATTCAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
79 1 0.01
80 101 0.94
81 1 0.01
82 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:51964500 original size:14 final size:14
Alignment explanation
Indices: 51964481--51964509 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51964471 TTAATTTCAA
51964481 TTTATTTAATAATT
1 TTTATTTAATAATT
51964495 TTTATTTAATAATT
1 TTTATTTAATAATT
51964509 T
1 T
51964510 AATCCAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTATTTAATAATT
Found at i:51965937 original size:27 final size:27
Alignment explanation
Indices: 51965895--51965948 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
51965885 AATGGAAGAG
* *
51965895 AAAGGAAGAGGAAGAAGATAGGAGAAA
1 AAAGGAAGAGGAAGAAGAGAAGAGAAA
51965922 AAAGTGAAGAGG-AGAAGAGAAGAGAAA
1 AAAG-GAAGAGGAAGAAGAGAAGAGAAA
51965949 GAGAAGGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.37, T:0.04
Consensus pattern (27 bp):
AAAGGAAGAGGAAGAAGAGAAGAGAAA
Found at i:51966230 original size:29 final size:29
Alignment explanation
Indices: 51966188--51966247 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
51966178 TTTTCAATTT
51966188 TATCAAGTTAATCCTAGAAAAATTACACA
1 TATCAAGTTAATCCTAGAAAAATTACACA
51966217 TATCAAGTTAATCCTAGAAAAATTACACA
1 TATCAAGTTAATCCTAGAAAAATTACACA
51966246 TA
1 TA
51966248 CTTTGGGACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (29 bp):
TATCAAGTTAATCCTAGAAAAATTACACA
Found at i:51972167 original size:77 final size:80
Alignment explanation
Indices: 51972085--51972234 Score: 200
Period size: 77 Copynumber: 1.9 Consensus size: 80
51972075 GGTTATAGCG
* * * *
51972085 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GC-CAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
51972146 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
51972162 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
51972227 AGCCCGGA
66 AGCCCGGA
51972235 CATCATTCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
76 3 0.05
77 34 0.55
78 2 0.03
79 12 0.19
80 11 0.18
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:51972234 original size:40 final size:39
Alignment explanation
Indices: 51972045--51972234 Score: 161
Period size: 40 Copynumber: 4.8 Consensus size: 39
51972035 GGATATAACG
* ** * **
51972045 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
51972085 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
51972125 ACTTGC-CAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
51972162 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATATAGTA
* *
51972202 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
51972235 CATCATTCGA
Statistics
Matches: 121, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
37 20 0.17
38 15 0.12
39 10 0.08
40 68 0.56
41 8 0.07
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:51978301 original size:28 final size:28
Alignment explanation
Indices: 51978269--51978367 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
51978259 GCAATAAGCC
*
51978269 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
51978297 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
51978325 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
51978354 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51978368 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:51982661 original size:28 final size:28
Alignment explanation
Indices: 51982629--51982727 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
51982619 GCAATAAGCC
*
51982629 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
51982657 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
51982685 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
51982714 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51982728 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:51987421 original size:77 final size:80
Alignment explanation
Indices: 51987340--51987489 Score: 200
Period size: 77 Copynumber: 1.9 Consensus size: 80
51987330 CGTTATAGCG
* * * *
51987340 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GC-CAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
51987401 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
51987417 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
51987482 AGCCCGGA
66 AGCCCGGA
51987490 CATCATTCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
76 3 0.05
77 34 0.55
78 2 0.03
79 12 0.19
80 11 0.18
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:51987489 original size:40 final size:39
Alignment explanation
Indices: 51987310--51987489 Score: 154
Period size: 40 Copynumber: 4.6 Consensus size: 39
51987300 GACTCGCTCA
** ** *
51987310 AATGCCTTCGGGACGAAGCCC-G-TTATAGCGACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCAC
* *
51987348 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGC-C
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
* *
51987387 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
* * * *
51987425 GAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCAC
*
51987466 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
51987490 CATCATTCGA
Statistics
Matches: 114, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
37 20 0.18
38 15 0.13
39 28 0.25
40 42 0.37
41 9 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
Found at i:51993883 original size:52 final size:53
Alignment explanation
Indices: 51993795--51993897 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 53
51993785 ATAGAGAAAC
** * *
51993795 TGTCTTCATGCATTTGAAAATTATCCATTCCTATGTATTTG-AATGAAAAAAA
1 TGTCTTCATGCATTTGAAAACCATACATGCCTATGTATTTGAAATGAAAAAAA
*
51993847 TGTCTTCATGCATTTGAAAACCGTACATG-CTCATGTATTTGAAATGAAAAA
1 TGTCTTCATGCATTTGAAAACCATACATGCCT-ATGTATTTGAAATGAAAAA
51993898 TGTCCCTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
51 2 0.05
52 33 0.75
53 9 0.20
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (53 bp):
TGTCTTCATGCATTTGAAAACCATACATGCCTATGTATTTGAAATGAAAAAAA
Found at i:52012126 original size:12 final size:12
Alignment explanation
Indices: 52012104--52012139 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
52012094 GACTTGTTCT
52012104 TAAAAAT-AAAA
1 TAAAAATAAAAA
52012115 TAAAAATAAAAA
1 TAAAAATAAAAA
52012127 TAAAAAATAAAAA
1 T-AAAAATAAAAA
52012140 AATATACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.30
12 5 0.22
13 11 0.48
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAATAAAAA
Found at i:52012126 original size:17 final size:16
Alignment explanation
Indices: 52012104--52012143 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
52012094 GACTTGTTCT
52012104 TAAAAATAAAATAAAAA
1 TAAAAATAAAA-AAAAA
*
52012121 TAAAAATAAAAAATAA
1 TAAAAATAAAAAAAAA
52012137 -AAAAATA
1 TAAAAATA
52012144 TACTTACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 4 0.18
17 11 0.50
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
TAAAAATAAAAAAAAA
Found at i:52012140 original size:7 final size:6
Alignment explanation
Indices: 52012104--52012139 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
52012094 GACTTGTTCT
52012104 TAAAAA T-AAAA TAAAAA TAAAAA TAAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA T-AAAAA TAAAAA
52012140 AATATACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.18
6 17 0.61
7 6 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:52015684 original size:30 final size:30
Alignment explanation
Indices: 52015638--52015698 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
52015628 TTCCCGAGCC
*
52015638 TAGGGGTAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
* * *
52015668 TAGGGGCAAAATTGTAAATATTCCAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
52015698 T
1 T
52015699 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCAAAAGTT
Found at i:52016480 original size:68 final size:64
Alignment explanation
Indices: 52016363--52016529 Score: 151
Period size: 68 Copynumber: 2.5 Consensus size: 64
52016353 ATACAGATAG
* * * * *
52016363 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAAGAGAGC--CAAGACA-
52016428 TA
63 TA
* * * * **
52016430 TGATGTAGCTAGGTCGCATGGGTGATACTACGTGTACACCATGTAG-ACAAGAGAGCCACGGGAT
1 T-ATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGT-GTACAAGAGAGCCAAGACAT
52016494 A
64 A
52016495 TATGTAGCTAGGTCGCAT-G-TGTAGTACTAAGTGCA
1 TATGTAGCTAGGTCGCATGGATG-A-TACTAAGTGCA
52016530 GACTACTATG
Statistics
Matches: 83, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
62 2 0.02
63 2 0.02
64 26 0.31
65 3 0.04
66 4 0.05
67 1 0.01
68 44 0.53
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAAGAGAGCCAAGACATA
Found at i:52016636 original size:50 final size:49
Alignment explanation
Indices: 52016512--52016703 Score: 213
Period size: 50 Copynumber: 3.9 Consensus size: 49
52016502 CTAGGTCGCA
* * * * * * *
52016512 TGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGATAACTTTGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTTAG-TCACG
*
52016563 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA-GTCACG
* * * * * *
52016613 TGTGTAGTACAAAGTGCAAGCTACTACGTGTACCGGATAATTAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGTCACG
* *
52016662 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
52016704 TGGCTACATA
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
49 40 0.34
50 45 0.38
51 34 0.29
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGTCACG
Found at i:52021214 original size:49 final size:49
Alignment explanation
Indices: 52021036--52021231 Score: 230
Period size: 50 Copynumber: 3.9 Consensus size: 49
52021026 TATGTAGCTA
* * *
52021036 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA--TT
* * * * * * *
52021087 GATCATGTGTGTAGCACTAAGTACAGGCTACTACGTGTATCAGATAGTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
52021136 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
52021186 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
52021232 GTTTGGCTAT
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
49 43 0.35
50 44 0.35
51 37 0.30
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:52021234 original size:99 final size:100
Alignment explanation
Indices: 52021042--52021234 Score: 262
Period size: 99 Copynumber: 1.9 Consensus size: 100
52021032 GCTAGGTCGC
* * **
52021042 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCATGTGTGTAGCACTAA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAAC-TTGATCACATGTGTAGCACTAA
* *
52021107 GTACAGGCTACTACGTGTATCAGATAGTTAGGTCAT
65 GTACAGGCTACTACGCGTACCAGATAGTTAGGTCAT
* * * *
52021143 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTGATCACATGTGTAGCACTAAG
* *
52021207 TGCAGGCTACTATGCGTACCAGATAGTT
66 TACAGGCTACTACGCGTACCAGATAGTT
52021235 TGGCTATATA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 42 0.52
101 38 0.47
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTGATCACATGTGTAGCACTAAG
TACAGGCTACTACGCGTACCAGATAGTTAGGTCAT
Found at i:52026586 original size:24 final size:24
Alignment explanation
Indices: 52026556--52026613 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
52026546 TCTCATTTCC
52026556 TTTTCTCTTTCACTCGA-TTCTTCT
1 TTTTCTCTTTCACTC-ACTTCTTCT
* * *
52026580 TTTTCTCTCTCATTCACTTTTTCT
1 TTTTCTCTTTCACTCACTTCTTCT
52026604 TTTTCT-TTTC
1 TTTTCTCTTTC
52026614 TCTCTTGCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.07, C:0.28, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTCTCTTTCACTCACTTCTTCT
Found at i:52026677 original size:74 final size:74
Alignment explanation
Indices: 52026599--52026757 Score: 282
Period size: 74 Copynumber: 2.1 Consensus size: 74
52026589 TCATTCACTT
52026599 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTACATCACTCTATTTGTTTTTGA
1 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTACATCACTCTATTTGTTTTTGA
*
52026664 CTTGCTCAC
66 CTAGCTCAC
* *
52026673 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTACCTCACTCTCTTTGTTTTTGA
1 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTACATCACTCTATTTGTTTTTGA
52026738 CTAGCTCAC
66 CTAGCTCAC
52026747 TTTCTTCTTTC
1 TTTCTT-TTTC
52026758 AAGCGAATAT
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 77 0.95
75 4 0.05
ACGTcount: A:0.09, C:0.25, G:0.06, T:0.60
Consensus pattern (74 bp):
TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTACATCACTCTATTTGTTTTTGA
CTAGCTCAC
Found at i:52026774 original size:74 final size:74
Alignment explanation
Indices: 52026619--52026774 Score: 190
Period size: 74 Copynumber: 2.1 Consensus size: 74
52026609 TTTTCTCTCT
*
52026619 TGCTCATTTTCTCTTGATTTTTTACATCACTCTATTTGTTTTTGACTTGCTCACTTTCTTTTTCT
1 TGCTCATTTTCTCTTGATTTTTTACATCACTCTATTTGTTTTTGACTAGCTCACTTTCTTTTTCT
*** ** *
52026684 TTTCTCTCT
66 AAGCAATCA
* *
52026693 TGCTCATTTTCTCTTGATTTTTTACCTCACTCTCTTTGTTTTTGACTAGCTCACTTTCTTCTTTC
1 TGCTCATTTTCTCTTGATTTTTTACATCACTCTATTTGTTTTTGACTAGCTCACTTTCTT-TTTC
52026758 -AAGCGAAT-A
65 TAAGC-AATCA
*
52026767 TGGTCATT
1 TGCTCATT
52026775 GTACACTTGT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
74 65 0.93
75 5 0.07
ACGTcount: A:0.13, C:0.23, G:0.09, T:0.54
Consensus pattern (74 bp):
TGCTCATTTTCTCTTGATTTTTTACATCACTCTATTTGTTTTTGACTAGCTCACTTTCTTTTTCT
AAGCAATCA
Found at i:52029866 original size:39 final size:38
Alignment explanation
Indices: 52029785--52029885 Score: 130
Period size: 38 Copynumber: 2.6 Consensus size: 38
52029775 GAAATCCTTG
* ** * *
52029785 TTATAATTACTGTCGTTATAATTTTTGATCAAATATTA
1 TTATAATTATTGTAATTATAATTTTTAATCAAACATTA
52029823 TTATAATTATTGTAATTATAATTTTTCAATCAAACATTA
1 TTATAATTATTGTAATTATAATTTTT-AATCAAACATTA
*
52029862 TTATAATTTTTGGTAATTATAATT
1 TTATAATTATT-GTAATTATAATT
52029886 ATTATATTCG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 23 0.42
39 20 0.36
40 12 0.22
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (38 bp):
TTATAATTATTGTAATTATAATTTTTAATCAAACATTA
Found at i:52031345 original size:52 final size:50
Alignment explanation
Indices: 52031175--52031348 Score: 145
Period size: 52 Copynumber: 3.4 Consensus size: 50
52031165 AAAACGTCCA
* * *
52031175 ATTTGAATAGAGAAATTGTCTTCACACAATTGAAAATCGTCCATGCTGATGT
1 ATTTGAAT-GAGAAAATGTCTTCATACATTTGAAAATCGTCCATGCT-ATGT
* * * * * * **
52031227 ATTTGGATGAGAAAATGTC-TCTTTCCTTTG-AAACCGTCCATTCTAACT
1 ATTTGAATGAGAAAATGTCTTCATACATTTGAAAATCGTCCATGCTATGT
* * *
52031275 ATTTGAATGAAAAAAAAATGTCTTCATGCATTTGAAAATCATCCATGCTCATGT
1 ATTTGAATG---AGAAAATGTCTTCATACATTTGAAAATCGTCCATGCT-ATGT
52031329 ATTTGAAATGAGAAAATGTC
1 ATTTG-AATGAGAAAATGTC
52031349 CCTATGCATT
Statistics
Matches: 93, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
48 10 0.11
49 12 0.13
50 6 0.06
51 19 0.20
52 24 0.26
53 11 0.12
54 7 0.08
55 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (50 bp):
ATTTGAATGAGAAAATGTCTTCATACATTTGAAAATCGTCCATGCTATGT
Found at i:52032347 original size:15 final size:14
Alignment explanation
Indices: 52032312--52032347 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
52032302 ATTGTATGCA
52032312 TTGTAATGAATTAT
1 TTGTAATGAATTAT
*
52032326 ATGTAATGAATTATT
1 TTGTAATGAATTA-T
52032341 TTGTAAT
1 TTGTAAT
52032348 ACTTTCCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
TTGTAATGAATTAT
Found at i:52033154 original size:35 final size:34
Alignment explanation
Indices: 52033115--52033196 Score: 119
Period size: 35 Copynumber: 2.4 Consensus size: 34
52033105 ACTTGCCTCT
*
52033115 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
*
52033149 CTCCCATTCTCCCATGCTGTCTGCCACCAACACCA
1 -TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
* *
52033184 TCACACACTCCCA
1 TCCCACTCTCCCA
52033197 CCGCACCTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 10 0.24
35 32 0.76
ACGTcount: A:0.21, C:0.50, G:0.09, T:0.21
Consensus pattern (34 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:52033581 original size:12 final size:12
Alignment explanation
Indices: 52033564--52033594 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
52033554 TTAAAACATA
52033564 AAAAAAATATAC
1 AAAAAAATATAC
52033576 AAAAAAATATAC
1 AAAAAAATATAC
52033588 AAAAAAA
1 AAAAAAA
52033595 AATTTACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAAAATATAC
Found at i:52033704 original size:11 final size:11
Alignment explanation
Indices: 52033688--52033722 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
52033678 GCCGGATTCC
52033688 CTCCCTTCTCT
1 CTCCCTTCTCT
52033699 CTCCCTTCTCT
1 CTCCCTTCTCT
52033710 CTTCCC-TCTCT
1 C-TCCCTTCTCT
52033721 CT
1 CT
52033723 TCTTTTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:52034201 original size:3 final size:3
Alignment explanation
Indices: 52034193--52034268 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
52034183 TGCATTTCAA
52034193 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
52034241 TAT TAT TAT TAT TAT TAT TAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
52034269 GAAATACATT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:52034382 original size:3 final size:3
Alignment explanation
Indices: 52034374--52034418 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
52034364 TGTGTTTCAA
52034374 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52034419 ATATCCTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:52034475 original size:14 final size:16
Alignment explanation
Indices: 52034456--52034487 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
52034446 ATATTACTGT
52034456 TTTTAATA-C-TTTTA
1 TTTTAATATCATTTTA
52034470 TTTTAATATCATTTTA
1 TTTTAATATCATTTTA
52034486 TT
1 TT
52034488 ATATTTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAATATCATTTTA
Found at i:52034693 original size:33 final size:30
Alignment explanation
Indices: 52034635--52034707 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
52034625 TAATATTATG
*
52034635 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
52034665 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
52034698 TATATATTTT
1 TATATATTTT
52034708 TTTTCTTAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 9 0.24
32 9 0.24
33 18 0.49
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:52040912 original size:40 final size:40
Alignment explanation
Indices: 52040829--52040956 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 40
52040819 CAGGATATAA
* *
52040829 CCCGGATATAACCACGT-GCACAGAATGCCTTCGGGTCTT-G
1 CCCGGATAGAAGCAC-TAGCAC-GAATGCCTTCGGGTCTTAG
*
52040869 CCCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATAGAA-GCACTAGCACGAATGCCTTCGGGTCTTAG
* *
52040909 CCCGGAT-GTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAA
1 CCCGGATAGAAG-CACTAGCACGAA-TGCCTTCGGGTCTTAG
52040949 CCCGGATA
1 CCCGGATA
52040957 TAATTTCCAG
Statistics
Matches: 76, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
38 1 0.01
39 22 0.29
40 53 0.70
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.23
Consensus pattern (40 bp):
CCCGGATAGAAGCACTAGCACGAATGCCTTCGGGTCTTAG
Found at i:52044783 original size:24 final size:24
Alignment explanation
Indices: 52044754--52044799 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
52044744 TGGATGTTTA
* *
52044754 AGGCCTCGTAGGCCCATATTAAGG
1 AGGCCTCATAAGCCCATATTAAGG
*
52044778 AGGCCTCATAAGTCCATATTAA
1 AGGCCTCATAAGCCCATATTAA
52044800 AAAGTTTGAC
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:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (24 bp):
AGGCCTCATAAGCCCATATTAAGG
Found at i:52045324 original size:3 final size:3
Alignment explanation
Indices: 52045311--52045340 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
52045301 CCTAAATTGT
*
52045311 TTC TAC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
52045341 AAACTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:52047553 original size:18 final size:17
Alignment explanation
Indices: 52047527--52047571 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
52047517 ATTGAGTTCA
*
52047527 TTTATTTTTATTTTTAGT
1 TTTATTTTTAGTTTT-GT
*
52047545 TTTAGTTTTAGTTTTGT
1 TTTATTTTTAGTTTTGT
52047562 TATTATTTTT
1 T-TTATTTTT
52047572 CTGTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTATTTTTAGTTTTGT
Found at i:52054915 original size:8 final size:8
Alignment explanation
Indices: 52054902--52054934 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
52054892 CACCATATAA
52054902 AATAATAT
1 AATAATAT
52054910 AATAATAT
1 AATAATAT
52054918 -ATAATAT
1 AATAATAT
*
52054925 AATAAAAT
1 AATAATAT
52054933 AA
1 AA
52054935 ATGGATTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:52054919 original size:20 final size:20
Alignment explanation
Indices: 52054819--52054934 Score: 65
Period size: 20 Copynumber: 5.5 Consensus size: 20
52054809 TGATTTCTAG
*
52054819 AATATAATACATATACAAAA-
1 AATATAATA-ATATATAAAAT
* * *
52054839 AATATTTAATTAATAAATTATAT
1 AATA--TAA-TAATATATAAAAT
* *
52054862 ATATATAATAAAATGT-AAAT
1 A-ATATAATAATATATAAAAT
*
52054882 AATATATATACACCATATAAAAT
1 AATATA-ATA-A-TATATAAAAT
*
52054905 AATATAATAATATATAATAT
1 AATATAATAATATATAAAAT
*
52054925 AATAAAATAA
1 AATATAATAA
52054935 ATGGATTTCC
Statistics
Matches: 74, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
19 5 0.07
20 28 0.38
21 7 0.09
22 18 0.24
23 13 0.18
24 3 0.04
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (20 bp):
AATATAATAATATATAAAAT
Found at i:52057269 original size:94 final size:94
Alignment explanation
Indices: 52057149--52057329 Score: 265
Period size: 94 Copynumber: 1.9 Consensus size: 94
52057139 ATGCCAAATC
* * * *
52057149 ATCTTGGATCTACTCCGATGCAAAAACATCCGAAGGTTAGATCCGCTATGTCT-TCGATTTGCTC
1 ATCTTGGATCTACTCCGATGCAAAAACATCCAAAGGTCAGATCCGCTATGTCTCT-GATCTACTC
52057213 TCCGTCGAATATGGAGATGCCAAGTCTGTT
65 TCCGTCGAATATGGAGATGCCAAGTCTGTT
* * ** *
52057243 ATCTTGGATCTTCTTCGATGTGAAAACATCCAAAGGTCAGATCTGCTATGTCTCTGATCTACTCT
1 ATCTTGGATCTACTCCGATGCAAAAACATCCAAAGGTCAGATCCGCTATGTCTCTGATCTACTCT
52057308 CCGTCGAATATGGAGATGCCAA
66 CCGTCGAATATGGAGATGCCAA
52057330 ATCTATTTCT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 76 0.99
95 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (94 bp):
ATCTTGGATCTACTCCGATGCAAAAACATCCAAAGGTCAGATCCGCTATGTCTCTGATCTACTCT
CCGTCGAATATGGAGATGCCAAGTCTGTT
Found at i:52058771 original size:44 final size:44
Alignment explanation
Indices: 52058721--52058806 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
52058711 CTTTGTTCCC
* * * *
52058721 TGACAAT-CAAAAGATGCCAAATCCGTTATCTTGGATCTGCTCAA
1 TGACAATAC-AAAGACGCAAAATCCATTATCTTCGATCTGCTCAA
* *
52058765 TGACAATACAGAGACGCAAAATCTATTATCTTCGATCTGCTC
1 TGACAATACAAAGACGCAAAATCCATTATCTTCGATCTGCTC
52058807 CTTGTAAACG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (44 bp):
TGACAATACAAAGACGCAAAATCCATTATCTTCGATCTGCTCAA
Found at i:52068222 original size:11 final size:11
Alignment explanation
Indices: 52068206--52068230 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52068196 TCAAGAAGTA
52068206 AAAAAAAAAAG
1 AAAAAAAAAAG
52068217 AAAAAAAAAAG
1 AAAAAAAAAAG
52068228 AAA
1 AAA
52068231 CGTGAAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:52070745 original size:25 final size:26
Alignment explanation
Indices: 52070711--52070760 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
52070701 GAATTAGACT
52070711 ATTTCTTT-AATATGAATATAATATTA
1 ATTTCTTTAAATAT-AATATAATATTA
*
52070737 ATTT-TTTAAATATTATATAATATT
1 ATTTCTTTAAATATAATATAATATT
52070761 CTATCTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
ATTTCTTTAAATATAATATAATATTA
Found at i:52070879 original size:13 final size:13
Alignment explanation
Indices: 52070835--52070881 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
52070825 AGATTAGGTG
*
52070835 AAAAA-ATTATGT
1 AAAAATATTATAT
*
52070847 AAAAATATATTTAT
1 AAAAATAT-TATAT
52070861 AAAAATATTATAT
1 AAAAATATTATAT
52070874 AAAAATAT
1 AAAAATAT
52070882 CTAACAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 5 0.17
13 14 0.47
14 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAAATATTATAT
Found at i:52073057 original size:40 final size:40
Alignment explanation
Indices: 52073013--52073118 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
52073003 TTCACAATTT
* *
52073013 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * **
52073053 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTGCCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
52073093 GCATAAATGTCTTCGGGACTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAGCCC
52073119 AGATATCATT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:52074609 original size:68 final size:69
Alignment explanation
Indices: 52074537--52074733 Score: 263
Period size: 70 Copynumber: 2.8 Consensus size: 69
52074527 ACACCCTGTA
* * * * *
52074537 GTAGCTAGGTCACATGTGTGATACGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAGA
1 GTAGCTAGGTCGCATGCGTGATACCA-ATGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
52074600 TAAAT
65 TAAAT
*
52074605 GTAGCTAGGTCGCATGCGTGATTCCAATGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAGA
1 GTAGCTAGGTCGCATGCGTGATACCAATGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAGA
52074670 TAAAT
65 TAAAT
* * *
52074675 GTAGCTGGGTCGCATGCGTGATTCCAAGTGACGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAA-TGA-AGACACCATGTAGACAAGAGAGCTACG
52074734 AGACAAATCG
Statistics
Matches: 116, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
67 4 0.03
68 22 0.19
69 1 0.01
70 60 0.52
71 29 0.25
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (69 bp):
GTAGCTAGGTCGCATGCGTGATACCAATGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGAT
AAAT
Found at i:52074660 original size:70 final size:71
Alignment explanation
Indices: 52074571--52074733 Score: 301
Period size: 70 Copynumber: 2.3 Consensus size: 71
52074561 GAGATGTATC
52074571 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAA-TGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52074635 AGGACA
66 AGGACA
*
52074641 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
52074706 CGGACA
66 AGGACA
52074712 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
52074734 AGACAAATCG
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
70 60 0.67
71 30 0.33
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:52080735 original size:40 final size:40
Alignment explanation
Indices: 52080680--52080889 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
52080670 AACATTGGAA
52080680 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52080720 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52080760 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
52080800 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
52080839 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
52080880 CTATATCCGG
1 ATATATCCGG
52080890 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:52092721 original size:40 final size:40
Alignment explanation
Indices: 52092666--52092875 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
52092656 AACATTGGAA
52092666 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52092706 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52092746 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
52092786 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
52092825 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
52092866 CTATATCCGG
1 ATATATCCGG
52092876 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:52097239 original size:68 final size:70
Alignment explanation
Indices: 52097167--52097364 Score: 265
Period size: 71 Copynumber: 2.8 Consensus size: 70
52097157 ACACCCTGTA
* * * * * *
52097167 GTAGCTAGGTCACATGTGTGATACGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAGA
1 GTAGCTAGGTCGCATGCGTGATACCAAATGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
52097230 TAAAT
66 TAAAT
*
52097235 GTAGCTAGGTCGCATGCGTGATTCCAAATGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAATGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
52097300 ATAAAT
65 ATAAAT
* * * *
52097306 GTAGCTGGGTCGCATGCGTGATTCCAAGTGACGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAATGA-AGACACCATGTAGACAAGAGAGCTACG
52097365 AGACAAATCG
Statistics
Matches: 116, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
68 26 0.22
70 1 0.01
71 89 0.77
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAATGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:52097289 original size:71 final size:71
Alignment explanation
Indices: 52097201--52097364 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
52097191 GAGATGTATC
52097201 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAATGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAATGA
52097266 AGGACA
66 AGGACA
* *
52097272 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAATGA
*
52097337 CGGACA
66 AGGACA
52097343 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
52097365 AGACAAATCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAATGA
AGGACA
Found at i:52106461 original size:40 final size:40
Alignment explanation
Indices: 52106417--52106526 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
52106407 TTCACAATTT
* *
52106417 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
52106457 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
52106497 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
52106527 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:52111648 original size:40 final size:40
Alignment explanation
Indices: 52111599--52111806 Score: 260
Period size: 40 Copynumber: 5.2 Consensus size: 40
52111589 TCTTCGGAAT
* *
52111599 TTAG-CCGGATATAACCACAAGCAC-AATGGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAAT-GCCTTCGGGTC
* * *** *
52111638 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
*
52111678 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
52111718 TTAGCCCGGATATAACAACTTGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
52111758 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
52111798 TTAGCCCGG
1 TTAGCCCGG
52111807 GTATCAATCA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 139 0.95
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:52114447 original size:27 final size:27
Alignment explanation
Indices: 52114394--52114461 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
52114384 TTAGAATACA
52114394 CCACAAAAGCTA-TTATTTAGAGTTTG
1 CCACAAAAGCTATTTATTTAGAGTTTG
*
52114420 CCACAAAAGCTATTTTTTTAGAGTTTG
1 CCACAAAAGCTATTTATTTAGAGTTTG
*
52114447 CCACAAAGGCTATTT
1 CCACAAAAGCTATTT
52114462 CTTAGTTGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 12 0.31
27 27 0.69
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (27 bp):
CCACAAAAGCTATTTATTTAGAGTTTG
Found at i:52116140 original size:662 final size:663
Alignment explanation
Indices: 52114876--52116208 Score: 1863
Period size: 662 Copynumber: 2.0 Consensus size: 663
52114866 CATACCAAAC
* *
52114876 ATAAATATTATCCTCAACAAACATTCATACACTCATAGATTTTCTTTAGAAATTATTCATGTAGT
1 ATAAATACTATCCTCAACAAACATTCATACACTCATAAATTTTCTTTAGAAATTATTCATGTAGT
* * * * *
52114941 CACATATATATTATTTTCATACTATACTTTTCATGGTTTCGGGTTCATAGTTTGATCGATTTTCC
66 CACATACATATCATTTTCATACTATACTTTTCATGGTTTCGGATTCATAGTTTAATCAATTTTCC
* * * *
52115006 TACAGATGTGCTTCAGTATAAACAATATACTTGCATGAGTCAGCATAGGAACTCACCTAATTTTT
131 TACAGATGTGCTTCAGTATAAACAATATACTAGCATGAGTCAGCAAAGGAACTCACCTAATTCTC
* * * * *
52115071 ACCTACTATAGCTCAAAGCTCTAGATCCAAATATCCATAACGAACCAATAACAACCATAGCTTAG
196 ACCTACTATAGCTAAAAACTCCAGATCCAAATATCCATAACGAACCAATAACAACAACAGCTTAG
*
52115136 AAACATAATTTCACCATTAATACTCTTGTACATACAGATTACTTATCATTTCAATAGTTGACAAT
261 AAACATAATTTCACCATTAATACTCTTGTACATACAAATTACTTATCATTTCAATAGTTGACAAT
* * * * * * * *
52115201 TCCATGCAGAAACCTTATTCTTACAGTCTCGCTGCCCAATTACGAAATATAAATTTGTTCATTCA
326 TCCATGCAAAAACCCTATACTTACAATCTCACTGCCAAATTACCAAATACAAATTTGTTCATTCA
* ** *
52115266 GTACTTAATATACAAAGCTGAAATAATTATCCTGATGCGAAGTAACATTAATCATAAAAGAACCA
391 GTACTTAACATACAAAGCCAAAATAATTATCCTGATGCGAAGTAACAATAATCATAAAAGAACCA
* * * ** * * *
52115331 TTGCCTTTAGCTCATTGACGTAGAATATAGTTAGGCTTAAGGAAGATTTTAGTAAATACCACTTA
456 TGGCCTCTAGATCATCAACGTAGAATACAGTTAGACTTAAGGAAGATTTCAGTAAATACCACTTA
* *
52115396 AGGAAGAGGAAAAAGAAACAAGAAACCCCTCAGAACTCATCTCCCACATATATCTAACTTAACTT
521 AGGAAGAGGAAAAAGAAACAAGAAACCCCTCAGAACTCATCTCCCACATATATATAACCTAACTT
* * *
52115461 ACATAATGTAATTTAACAAGTGTTAAGTGTTTCAGAACTTACCTTCTTAATGGCCTACAA-TTTC
586 ACATAATATAATTTAACAAGTGTCAAATGTTTCAGAACTTACCTTCTTAATGGCCTACAATTTTC
52115525 TGAGAGAATTATTA
651 -GAGAGAATTATTA
*
52115539 ATAAATACTATCCTCAACAAACATTCATACACTCATAAATTTTCTTTAGACATTATTCATGTAGT
1 ATAAATACTATCCTCAACAAACATTCATACACTCATAAATTTTCTTTAGAAATTATTCATGTAGT
*
52115604 CACATACATATCATTTTCATACTATACTTTTCATGGTTTCTGATTCATAGTTTAATCAATTTTCC
66 CACATACATATCATTTTCATACTATACTTTTCATGGTTTCGGATTCATAGTTTAATCAATTTTCC
* * *
52115669 TACA-ATTGTGCTTCAGTATAAACAATATACTAG-ATGAGTTAGCAAAGGAATTCACCTGATTCT
131 TACAGA-TGTGCTTCAGTATAAACAATATACTAGCATGAGTCAGCAAAGGAACTCACCTAATTCT
* * * * * *
52115732 CACCTACTATAGTTAAAAACTCCAGATCTAGATATCCATTACGAATCAATAGCAACAACAGCTTA
195 CACCTACTATAGCTAAAAACTCCAGATCCAAATATCCATAACGAACCAATAACAACAACAGCTTA
* *
52115797 GAAACATAATTTCACCATTAATACTTTTGTACATACAAATTACTTATCATTTCAGT-GTTGACAA
260 GAAACATAATTTCACCATTAATACTCTTGTACATACAAATTACTTATCATTTCAATAGTTGACAA
* * * *
52115861 -TCCTGTGCAAAAACCCTATACTTACAATCTCACTGTCAAATTACCAAATACAGATTT-TCTTAT
325 TTCC-ATGCAAAAACCCTATACTTACAATCTCACTGCCAAATTACCAAATACAAATTTGT-TCAT
* * * * *
52115924 TCATTATTTAACATGCAGAGCCAAAATACTTAGT-CTGATGCGAAGTAACTAATAATCATAAAAG
388 TCAGTACTTAACATACAAAGCCAAAATAATTA-TCCTGATGCGAAGTAAC-AATAATCATAAAAG
* * *
52115988 AACCATGGCCTCTAGATCATCAATGTAGGATACATTTAGACTTAAGGAAGATTTCAGTAAATACC
451 AACCATGGCCTCTAGATCATCAACGTAGAATACAGTTAGACTTAAGGAAGATTTCAGTAAATACC
* * * * *
52116053 ACTTAAGGAAGAGGAAGAAGAAAGAAG-AACCCCATCAGAACTCATTTCTCACATGTATATAACC
516 ACTTAAGGAAGAGGAAAAAGAAACAAGAAACCCC-TCAGAACTCATCTCCCACATATATATAACC
* * * *
52116117 TAACTTACATAGTATAATTTAACAAGTGTCAAATGTTTCAGAATTTGCCTTCTTAATTGCCTACA
580 TAACTTACATAATATAATTTAACAAGTGTCAAATGTTTCAGAACTTACCTTCTTAATGGCCTACA
52116182 ATTTTCGAGAGAATTATTA
645 ATTTTCGAGAGAATTATTA
52116201 ATAAATAC
1 ATAAATAC
52116209 GTTGAAATTA
Statistics
Matches: 587, Mismatches: 76, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
660 4 0.01
661 98 0.17
662 330 0.56
663 155 0.26
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (663 bp):
ATAAATACTATCCTCAACAAACATTCATACACTCATAAATTTTCTTTAGAAATTATTCATGTAGT
CACATACATATCATTTTCATACTATACTTTTCATGGTTTCGGATTCATAGTTTAATCAATTTTCC
TACAGATGTGCTTCAGTATAAACAATATACTAGCATGAGTCAGCAAAGGAACTCACCTAATTCTC
ACCTACTATAGCTAAAAACTCCAGATCCAAATATCCATAACGAACCAATAACAACAACAGCTTAG
AAACATAATTTCACCATTAATACTCTTGTACATACAAATTACTTATCATTTCAATAGTTGACAAT
TCCATGCAAAAACCCTATACTTACAATCTCACTGCCAAATTACCAAATACAAATTTGTTCATTCA
GTACTTAACATACAAAGCCAAAATAATTATCCTGATGCGAAGTAACAATAATCATAAAAGAACCA
TGGCCTCTAGATCATCAACGTAGAATACAGTTAGACTTAAGGAAGATTTCAGTAAATACCACTTA
AGGAAGAGGAAAAAGAAACAAGAAACCCCTCAGAACTCATCTCCCACATATATATAACCTAACTT
ACATAATATAATTTAACAAGTGTCAAATGTTTCAGAACTTACCTTCTTAATGGCCTACAATTTTC
GAGAGAATTATTA
Found at i:52128792 original size:53 final size:54
Alignment explanation
Indices: 52128729--52128936 Score: 195
Period size: 53 Copynumber: 3.9 Consensus size: 54
52128719 TTCCTTTTTA
* *
52128729 AACTTACCATTGCCATGTCTTGAAATGGTCTTACATGGTATCCTTACCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
* * * * * *
52128782 AACTCACCATTGCCATG-CGTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGTC-TTGACATGGTCTTACATGGTATCCTTACCTTATAG
** * * * * * * *
52128836 TAGTTTATCAATACCATGTCTTGATATGGTCTTACATGATTTCCTTTCCTTGTAG
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
* * * *
52128891 AACTTACCAATGCCATGCCTAGGCATGGTCTTACTTGGTATCCTTA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTA
52128937 AACCCTAATG
Statistics
Matches: 119, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
52 1 0.01
53 44 0.37
54 35 0.29
55 38 0.32
56 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
Found at i:52131316 original size:42 final size:42
Alignment explanation
Indices: 52131229--52131320 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
52131219 CTATAGCTCT
* *
52131229 TGTGAGCAGCAGCATGTAGCTTACATTCCGACCCATAACTAG
1 TGTGAGCAGCAGCACGTAGCTTACATTCCGACCCACAACTAG
* * * *
52131271 TGTGAGTAGCATCACGTAGCTTATATTCCGACCCACAGC-ACG
1 TGTGAGCAGCAGCACGTAGCTTACATTCCGACCCACAACTA-G
52131313 TGTGAGCA
1 TGTGAGCA
52131321 TGTCCATTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (42 bp):
TGTGAGCAGCAGCACGTAGCTTACATTCCGACCCACAACTAG
Found at i:52140700 original size:43 final size:43
Alignment explanation
Indices: 52140635--52140750 Score: 191
Period size: 43 Copynumber: 2.7 Consensus size: 43
52140625 CTATTCGTGC
52140635 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
* *
52140678 CTTTGAGCCTAGCAGGCTATAATACCGGTGAGTTAATATCGGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
52140721 CTTCGAGCCTAGCA-GC-AGTAATGCCGGTGA
1 CTTCGAGCCTAGCAGGCTA-TAATGCCGGTGA
52140751 ATGAGTTCAG
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.01
42 13 0.19
43 54 0.79
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (43 bp):
CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
Found at i:52141348 original size:16 final size:18
Alignment explanation
Indices: 52141317--52141349 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
52141307 AACTCGTAAC
52141317 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
52141335 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
52141350 AATTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:52141820 original size:2 final size:2
Alignment explanation
Indices: 52141813--52141838 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52141803 CTACTTTTAA
52141813 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
52141839 TTGAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52141861 original size:21 final size:21
Alignment explanation
Indices: 52141836--52141878 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
52141826 TATATATATA
52141836 TATTTGAATTTTT-ATATTTTT
1 TATTTGAATTTTTCAT-TTTTT
**
52141857 TATTTTTATTTTTCATTTTTT
1 TATTTGAATTTTTCATTTTTT
52141878 T
1 T
52141879 CAAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TATTTGAATTTTTCATTTTTT
Found at i:52141896 original size:27 final size:26
Alignment explanation
Indices: 52141863--52141932 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
52141853 TTTTTATTTT
*
52141863 TATTTTTCATTTTTTTCAAAATTTTAAA
1 TATTTTT-ATTTTTTTC-AAATTTGAAA
*
52141891 TATTTTTATTTTTTTTCAAATTTGGAA
1 TATTTTTA-TTTTTTTCAAATTTGAAA
*
52141918 TTTTTTTATTTTTTT
1 TATTTTTATTTTTTT
52141933 AATTATTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.18
27 16 0.42
28 15 0.39
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (26 bp):
TATTTTTATTTTTTTCAAATTTGAAA
Found at i:52142371 original size:25 final size:25
Alignment explanation
Indices: 52142319--52142371 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
52142309 TCCATGAAAT
* * *
52142319 AAAGAAAATGGGAATTACATTAAAA
1 AAAGAAAATGGGAATAAAATCAAAA
* *
52142344 AAAGAAAGTGGGAATAAAATCAACA
1 AAAGAAAATGGGAATAAAATCAAAA
52142369 AAA
1 AAA
52142372 TTAAAGGTGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.62, C:0.06, G:0.17, T:0.15
Consensus pattern (25 bp):
AAAGAAAATGGGAATAAAATCAAAA
Found at i:52144201 original size:2 final size:2
Alignment explanation
Indices: 52144196--52144239 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
52144186 TTTTTTCAAT
52144196 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
52144238 TC
1 TC
52144240 ACATATATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:52144678 original size:3 final size:3
Alignment explanation
Indices: 52144670--52144699 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
52144660 GGATGTTTTG
52144670 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
52144700 TAGTGTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:52154443 original size:40 final size:40
Alignment explanation
Indices: 52154406--52154591 Score: 164
Period size: 40 Copynumber: 4.7 Consensus size: 40
52154396 GCTACTCGTT
*
52154406 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* *
52154446 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** *
52154486 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGAAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* * ** * * *
52154526 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
52154567 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
52154592 CATCATTCGA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 113 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:52154552 original size:80 final size:82
Alignment explanation
Indices: 52154406--52154591 Score: 224
Period size: 80 Copynumber: 2.3 Consensus size: 82
52154396 GCTACTCGTT
* *
52154406 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGAAACTCGCACAAATGCCTTCGGGACTTAACTCG
* *
52154470 GATTTAGTAAC-TCGCA
66 GATATAGTAACTTAGCA
* * *
52154486 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGAAACTCGCACGAATGCCTTC-GGATCTT-AGT
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGAAACTCGCACAAATGCCTTCGGGA-CTTAACT
*
52154547 CCGGATATAGTCACTTAGCA
64 -CGGATATAGTAACTTAGCA
52154567 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52154592 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
79 8 0.09
80 70 0.77
81 13 0.14
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGAAACTCGCACAAATGCCTTCGGGACTTAACTCG
GATATAGTAACTTAGCA
Found at i:52162588 original size:39 final size:39
Alignment explanation
Indices: 52162514--52162698 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 39
52162504 GCTACTCGTT
*
52162514 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
52162554 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
*
52162593 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
** * * * *
52162633 TGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
52162674 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
52162699 CATCATTCGA
Statistics
Matches: 129, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 37 0.29
40 83 0.64
41 9 0.07
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Done.