Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006784.1 Hibiscus syriacus cultivar Beakdansim tig00017192_pilon, whole genome shotgun sequence
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: 103735
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:2244 original size:27 final size:27
Alignment explanation
Indices: 2193--2250 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
2183 AAAGGTGAGT
* *
2193 AAAA-TTTTATTCATTCGAAATGTTAA
1 AAAACTTTTATTCATTCCAAAGGTTAA
*
2219 AAAACTTTTATTCA-TCACAAAGGTTAG
1 AAAACTTTTATTCATTC-CAAAGGTTAA
2246 AAAAC
1 AAAAC
2251 CGTCAATCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (27 bp):
AAAACTTTTATTCATTCCAAAGGTTAA
Found at i:6166 original size:16 final size:16
Alignment explanation
Indices: 6154--6188 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6144 CATAACTTTG
6154 AAACTATCAAACTCTC
1 AAACTATCAAACTCTC
* *
6170 AAACTTTCAAATTCTC
1 AAACTATCAAACTCTC
6186 AAA
1 AAA
6189 ATGGCTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (16 bp):
AAACTATCAAACTCTC
Found at i:15892 original size:23 final size:23
Alignment explanation
Indices: 15838--15909 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 23
15828 GGAATTGATA
15838 CCCCC-TTGAAGGGGAACCGATT
1 CCCCCATTGAAGGGGAACCGATT
* * *
15860 CCCCCTTTGAATGGGAACTGATT
1 CCCCCATTGAAGGGGAACCGATT
* * *
15883 CCCTCATTG-A-GGGAATCGATA
1 CCCCCATTGAAGGGGAACCGATT
15904 CCCCCA
1 CCCCCA
15910 CGGGTTCTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 13 0.32
22 6 0.15
23 22 0.54
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.22
Consensus pattern (23 bp):
CCCCCATTGAAGGGGAACCGATT
Found at i:19234 original size:2 final size:2
Alignment explanation
Indices: 19227--19258 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19217 CACCTATTTA
19227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19259 GTCATTCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23432 original size:21 final size:21
Alignment explanation
Indices: 23406--23445 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23396 CAGAACCCCA
* *
23406 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCAATTCCCCTGT
23427 GGGGGGAATCAATTCCCCT
1 GGGGGGAATCAATTCCCCT
23446 TCAAAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCAATTCCCCTGT
Found at i:27333 original size:22 final size:21
Alignment explanation
Indices: 27291--27330 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27281 GAGTTTATTT
*
27291 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
27312 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
27331 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:28989 original size:17 final size:18
Alignment explanation
Indices: 28950--28991 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
28940 AATAAGTGTT
*
28950 CTTGAAAGAAAAATGAAT
1 CTTGAAAGAAAAATGAAG
* *
28968 ATTGAATGAAAAAT-AAG
1 CTTGAAAGAAAAATGAAG
28985 CTTGAAA
1 CTTGAAA
28992 TGCTCAAACT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (18 bp):
CTTGAAAGAAAAATGAAG
Found at i:33152 original size:29 final size:30
Alignment explanation
Indices: 33083--33152 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 30
33073 AAAATTACAT
* * *
33083 TTTTGATCCCTAAACTTTTCCAAATTTATA
1 TTTTGATCACTAAACTTTTCAAAATATATA
* *
33113 TTTAGCT-ACTAAAC-TTTCAAAATATATA
1 TTTTGATCACTAAACTTTTCAAAATATATA
*
33141 TTTTGGTCACTA
1 TTTTGATCACTA
33153 CTAAAAAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 17 0.53
29 10 0.31
30 5 0.16
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (30 bp):
TTTTGATCACTAAACTTTTCAAAATATATA
Found at i:33358 original size:21 final size:21
Alignment explanation
Indices: 33334--33378 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
33324 ATTTTCGCGT
33334 AACTCTTTAAAATTTCTTTAC
1 AACTCTTTAAAATTTCTTTAC
*
33355 AACTCTTTAAAATTTCTTTGC
1 AACTCTTTAAAATTTCTTTAC
33376 AAC
1 AAC
33379 CATCTTAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.44
Consensus pattern (21 bp):
AACTCTTTAAAATTTCTTTAC
Found at i:34904 original size:18 final size:17
Alignment explanation
Indices: 34881--34964 Score: 69
Period size: 19 Copynumber: 4.6 Consensus size: 17
34871 AATAAATGAA
34881 CATCGAATGCAATTAGTG
1 CATCG-ATGCAATTAGTG
**
34899 CATCGATGCATAAGGAGTG
1 CATCGATGC--AATTAGTG
*
34918 CATCAAATGCAATTAGTG
1 CATC-GATGCAATTAGTG
**
34936 CATCGATGCATAAGGAGTG
1 CATCGATGC--AATTAGTG
34955 CATCGATGCA
1 CATCGATGCA
34965 TCCCCCTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
17 9 0.17
18 15 0.28
19 25 0.47
20 4 0.08
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (17 bp):
CATCGATGCAATTAGTG
Found at i:34919 original size:19 final size:19
Alignment explanation
Indices: 34895--34965 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
34885 GAATGCAATT
34895 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
* **
34914 AGTGCATCAAATGC--AATT
1 AGTGCATC-GATGCATAAGG
34932 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
34951 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
34966 CCCCCTTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.09
18 10 0.23
19 25 0.58
20 4 0.09
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:34936 original size:37 final size:37
Alignment explanation
Indices: 34881--34958 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
34871 AATAAATGAA
*
34881 CATCGAATGCAATTAGTGCATCGATGCATAAGGAGTG
1 CATCAAATGCAATTAGTGCATCGATGCATAAGGAGTG
34918 CATCAAATGCAATTAGTGCATCGATGCATAAGGAGTG
1 CATCAAATGCAATTAGTGCATCGATGCATAAGGAGTG
34955 CATC
1 CATC
34959 GATGCATCCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (37 bp):
CATCAAATGCAATTAGTGCATCGATGCATAAGGAGTG
Found at i:36456 original size:63 final size:63
Alignment explanation
Indices: 36345--36502 Score: 178
Period size: 63 Copynumber: 2.5 Consensus size: 63
36335 TTGTTCGATT
* * * * * *
36345 TGTATCGATGCACATGAAGTGTATCGATGCACTTCTTTAAATACAAACATCGAA-TTCCATCAG
1 TGTATCGATGCACAAGTAGTGCATCGATGCACTCCCTTAAATACAAACATCGAAGGT-CATCAG
* **
36408 TGTATCGATGCACAAGTAGTGCATCGATGCA-TCCCTTAATATTA-AAACATCGAAGGTGATTTG
1 TGTATCGATGCACAAGTAGTGCATCGATGCACTCCCTTAA-A-TACAAACATCGAAGGTCATCAG
*
36471 TGTACCGATGCACAAGTAGTGCATCGATGCAC
1 TGTATCGATGCACAAGTAGTGCATCGATGCAC
36503 ACGTTAGGGA
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
62 6 0.07
63 72 0.89
64 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (63 bp):
TGTATCGATGCACAAGTAGTGCATCGATGCACTCCCTTAAATACAAACATCGAAGGTCATCAG
Found at i:38338 original size:23 final size:23
Alignment explanation
Indices: 38302--38354 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
38292 CATCTTATAT
*
38302 GGCACTACGATGCAATTCTACGC
1 GGCACTTCGATGCAATTCTACGC
* *
38325 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGATGCAATTCTACGC
38348 GGCACTT
1 GGCACTT
38355 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (23 bp):
GGCACTTCGATGCAATTCTACGC
Found at i:38370 original size:24 final size:23
Alignment explanation
Indices: 38312--38370 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
38302 GGCACTACGA
* *
38312 TGCAATTCTACGCGGCACTTCGG
1 TGCAATTATACGCGGCACTTCAG
* *
38335 TGCAATTCTACGTGGCACTTTCAG
1 TGCAATTATACGCGGCAC-TTCAG
*
38359 TGCATTTATACG
1 TGCAATTATACG
38371 AGCTGTGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 17 0.55
24 14 0.45
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (23 bp):
TGCAATTATACGCGGCACTTCAG
Found at i:41646 original size:23 final size:23
Alignment explanation
Indices: 41578--41638 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
41568 ACATCTTATA
* *
41578 TGGCACTACGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTACG
*
41601 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
41624 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
41639 TTTATACGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:42747 original size:2 final size:2
Alignment explanation
Indices: 42740--42765 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
42730 TAGTTTATGA
42740 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
42766 TTATTAATAA
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:50962 original size:51 final size:52
Alignment explanation
Indices: 50847--50966 Score: 145
Period size: 56 Copynumber: 2.2 Consensus size: 52
50837 TTCGATTTGT
* * *
50847 GAAATTCGCGTCGCGATAGTTGTGTTTACCTATATCGGTAATAGCGTTGCGAAAAC
1 GAAATTCGCGTTGCGATAGTTGTGTTTACCTATATCAGTAATAACGTT-CG---AC
*
50903 GAAATTCGCGTTGCGATAGTTGTGTTTACCTATATCAGTAATTAATGTT-G-C
1 GAAATTCGCGTTGCGATAGTTGTGTTTACCTATATCAGTAA-TAACGTTCGAC
50954 GAAATTCGCGTTG
1 GAAATTCGCGTTG
50967 AGAAAACGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
51 14 0.24
55 1 0.02
56 39 0.66
57 5 0.08
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (52 bp):
GAAATTCGCGTTGCGATAGTTGTGTTTACCTATATCAGTAATAACGTTCGAC
Found at i:51449 original size:18 final size:18
Alignment explanation
Indices: 51422--51471 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
51412 AACTCCTCCA
*
51422 CAAGTATCACCCCTAATC
1 CAAGTGTCACCCCTAATC
51440 CAAGTGTCACCCCTAATC
1 CAAGTGTCACCCCTAATC
*
51458 CAAGTGCCACCCCT
1 CAAGTGTCACCCCT
51472 CAAAAGTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.28, C:0.42, G:0.10, T:0.20
Consensus pattern (18 bp):
CAAGTGTCACCCCTAATC
Found at i:57341 original size:39 final size:40
Alignment explanation
Indices: 57252--57343 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
57242 ATTTTTTCCA
57252 ACTAACTTACACCGGTGTAAATAAGTATGAAGGAGAAAGG
1 ACTAACTTACACCGGTGTAAATAAGTATGAAGGAGAAAGG
* * * *
57292 CCAAACTTACACCGGTGTAAATAAGTTTGAGGGA-AAAGG
1 ACTAACTTACACCGGTGTAAATAAGTATGAAGGAGAAAGG
57331 ACTAACTTACACC
1 ACTAACTTACACC
57344 AGAAAATAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 16 0.35
40 30 0.65
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (40 bp):
ACTAACTTACACCGGTGTAAATAAGTATGAAGGAGAAAGG
Found at i:59136 original size:138 final size:141
Alignment explanation
Indices: 58992--59252 Score: 429
Period size: 143 Copynumber: 1.9 Consensus size: 141
58982 GAAGGAATAA
*
58992 GGAGATTATGAAAAATTGAAGGACTAAGTTG-AA-AAAAAA-TTGTGATCAAAAAGAGGAATTGA
1 GGAGATTATGAAAAATTGAAGGACTAAATTGAAATAAAAAATTTGTGATCAAAAAGAGGAATTGA
* *
59054 AAGTACACGTGTATTCTACTATGGTTTAGGAGCATGTGGCCCAAATTTGGTAAAAAAGGGACTTA
66 AAGTACACATGTATTCTACTATGGTTTAGGAGCATGTGGCCCAAATTTGATAAAAAAGGGACTTA
59119 AAATAAATGAC
131 AAATAAATGAC
*
59130 GGAGATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAAGAGGAATT
1 GGAGATTATGAAAAATTGAAGGACTAAATTG--AAATAAAAAATTTGTGATCAAAAAGAGGAATT
**
59195 GAAAGTACACATGTATTCTACTATGGTTTAGGAGCATGTGGTTCAAATTTGATAAAAA
64 GAAAGTACACATGTATTCTACTATGGTTTAGGAGCATGTGGCCCAAATTTGATAAAAA
59253 TGAACGTAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
138 30 0.27
141 2 0.02
142 6 0.05
143 74 0.66
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (141 bp):
GGAGATTATGAAAAATTGAAGGACTAAATTGAAATAAAAAATTTGTGATCAAAAAGAGGAATTGA
AAGTACACATGTATTCTACTATGGTTTAGGAGCATGTGGCCCAAATTTGATAAAAAAGGGACTTA
AAATAAATGAC
Found at i:62505 original size:38 final size:38
Alignment explanation
Indices: 62454--62528 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
62444 TTGATGGCAT
62454 TTCTGAGAAAGGTTTTGTGGAATAAACTTTAACTCTTG
1 TTCTGAGAAAGGTTTTGTGGAATAAACTTTAACTCTTG
62492 TTCTGAGAAAGGTTTTGTGGAATAAACTTTAACTCTT
1 TTCTGAGAAAGGTTTTGTGGAATAAACTTTAACTCTT
62529 ACATTTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (38 bp):
TTCTGAGAAAGGTTTTGTGGAATAAACTTTAACTCTTG
Found at i:71838 original size:57 final size:57
Alignment explanation
Indices: 71771--71885 Score: 178
Period size: 57 Copynumber: 2.0 Consensus size: 57
71761 TATTGTAGGG
* * *
71771 TGCTACTGCTTTTACATTTATTTG-TTTTTCATTAATTTTCATGAATTTTAGGAAGCA
1 TGCTACTGCTTTTACATTTA-TTGCTTTTTCATTAATTTTCATAAATTTCAGCAAGCA
*
71828 TGCTACTGCTTTTACATTTATTGCTTTTTGATTAATTTTCATAAATTTCAGCAAGCA
1 TGCTACTGCTTTTACATTTATTGCTTTTTCATTAATTTTCATAAATTTCAGCAAGCA
71885 T
1 T
71886 ATAAATGAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 3 0.06
57 50 0.94
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (57 bp):
TGCTACTGCTTTTACATTTATTGCTTTTTCATTAATTTTCATAAATTTCAGCAAGCA
Found at i:71992 original size:22 final size:22
Alignment explanation
Indices: 71963--72026 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
71953 TACCATTGAT
71963 TGGA-TTGGTATGAATGCTGAC
1 TGGACTTGGTATGAATGCTGAC
*
71984 TGGACTTGGTATGATTGCTGAC
1 TGGACTTGGTATGAATGCTGAC
*
72006 TGGACTTGGTCTGAATGCTGA
1 TGGACTTGGTATGAATGCTGA
72027 TTAGAAATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 4 0.10
22 35 0.90
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.34
Consensus pattern (22 bp):
TGGACTTGGTATGAATGCTGAC
Found at i:73054 original size:3 final size:3
Alignment explanation
Indices: 73038--73089 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
73028 TATATACATG
* *
73038 TTA TTA TAA ATA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
73084 TTA TTA
1 TTA TTA
73090 ATTCTATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:74574 original size:123 final size:123
Alignment explanation
Indices: 74435--74680 Score: 483
Period size: 123 Copynumber: 2.0 Consensus size: 123
74425 TTTTTAGGGA
*
74435 TACTTTCAATTTATCAAAGGTAACCAATTTGAATTGAATTTTTAAATTTTAATTTAAATTGCGAA
1 TACTTTCAATCTATCAAAGGTAACCAATTTGAATTGAATTTTTAAATTTTAATTTAAATTGCGAA
74500 TTTTCGCAACTAAGACAACCGGCAAATTAATTGGTACCGAAAGGGCGGTTCAAGGGTG
66 TTTTCGCAACTAAGACAACCGGCAAATTAATTGGTACCGAAAGGGCGGTTCAAGGGTG
74558 TACTTTCAATCTATCAAAGGTAACCAATTTGAATTGAATTTTTAAATTTTAATTTAAATTGCGAA
1 TACTTTCAATCTATCAAAGGTAACCAATTTGAATTGAATTTTTAAATTTTAATTTAAATTGCGAA
74623 TTTTCGCAACTAAGACAACCGGCAAATTAATTGGTACCGAAAGGGCGGTTCAAGGGTG
66 TTTTCGCAACTAAGACAACCGGCAAATTAATTGGTACCGAAAGGGCGGTTCAAGGGTG
74681 CTAATCCTTC
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 122 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (123 bp):
TACTTTCAATCTATCAAAGGTAACCAATTTGAATTGAATTTTTAAATTTTAATTTAAATTGCGAA
TTTTCGCAACTAAGACAACCGGCAAATTAATTGGTACCGAAAGGGCGGTTCAAGGGTG
Found at i:78380 original size:106 final size:106
Alignment explanation
Indices: 78195--79256 Score: 1615
Period size: 106 Copynumber: 10.4 Consensus size: 106
78185 ATTTTGCTCG
*
78195 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
78260 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* *
78301 AGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
78366 CGAAGGGACCGCTGGTTGTCAAAAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * *
78407 AGAGCTAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTTACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
78472 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
78513 A-A--C---TTC-A---CA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
78566 CAAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* *
78607 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCATGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
78672 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
78713 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
78778 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * * *
78819 AGAGCCAATTTTAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
78884 CGAAGGGACCGCTGGTTGTCAACT-GACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAA-TAAACAATTTCCCAATTTC
78925 A-A--C---TTC-A---CA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
78978 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
79019 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
79084 CGAAGGGACCGCTGGTTGCCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
79125 A-A--C---TTC-A---CA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
79178 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAGTTCC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
79219 AGAGCCAATTTCAACTTCAC-GTCGGAGGATATTGGACT
1 AGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACT
79257 TGGAACAATA
Statistics
Matches: 876, Mismatches: 41, Indels: 78
0.88 0.04 0.08
Matches are distributed among these distances:
93 1 0.00
94 243 0.28
95 6 0.01
96 6 0.01
97 3 0.00
99 3 0.00
100 17 0.02
101 3 0.00
103 2 0.00
104 6 0.01
105 5 0.01
106 580 0.66
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
Found at i:78550 original size:200 final size:200
Alignment explanation
Indices: 78195--79256 Score: 1667
Period size: 200 Copynumber: 5.2 Consensus size: 200
78185 ATTTTGCTCG
78195 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
78260 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGTG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCA-A--C---TTC-A---CA-A-CG
* *
78325 AAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAA
119 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
*
78390 AACAACTTCTCAATTTC
184 AACAACTTCCCAATTTC
* *
78407 AGAGCTAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTTACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
78472 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGA
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGA
* *
78537 CTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
131 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCA
78602 ATTTC
196 ATTTC
* * *
78607 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCATGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
78672 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
66 CGAAGGGACCGCTGGTTGTCAAT--A-AA-----CAATTTC----CCAATTTCAACTTCACAACG
78737 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
119 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
78802 AACAACTTCCCAATTTC
184 AACAACTTCCCAATTTC
* * *
78819 AGAGCCAATTTTAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
78884 CGAAGGGACCGCTGGTTGTCAACT-GACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGG
66 CGAAGGGACCGCTGGTTGTCAA-TAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGG
78948 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
130 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
79013 AATTTC
195 AATTTC
*
79019 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
79084 CGAAGGGACCGCTGGTTGCCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGA
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGA
* *
79149 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
131 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCA
* *
79214 GTTCC
196 ATTTC
** *
79219 AGAGCCAATTTCAACTTCACGTCGGAGGATATTGGACT
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
79257 TGGAACAATA
Statistics
Matches: 799, Mismatches: 37, Indels: 40
0.91 0.04 0.05
Matches are distributed among these distances:
199 1 0.00
200 485 0.61
201 1 0.00
202 3 0.00
203 2 0.00
204 7 0.01
205 1 0.00
206 3 0.00
208 7 0.01
209 2 0.00
211 1 0.00
212 285 0.36
213 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (200 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGA
CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCA
ATTTC
Found at i:78752 original size:306 final size:306
Alignment explanation
Indices: 78199--79256 Score: 1730
Period size: 306 Copynumber: 3.5 Consensus size: 306
78189 TGCTCGAGAG
78199 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
78264 GGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGG
66 GGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
78329 ATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAACA
131 ATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
* * *
78394 ACTTCTCAATTTCAGAGCTAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
196 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
*
78459 TTCAACTTTACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
261 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
*
78505 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACAAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
78570 GGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
66 GGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
78635 ATATTGGACTCAAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
131 ATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
78700 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
196 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
78765 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
261 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT--A-AA-----CAATTTC
* * *
78819 AGAGCCAATTTTAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAA
1 ----CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
78884 CGAAGGGACCGCTGGTTGTCAACT-GACAATTTCCCAATTTCA-A--C---TTC-A---CA-A-C
62 CGAAGGGACCGCTGGTTGTCAA-TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
*
78936 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
126 GAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
79001 AAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC
191 AAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC
*
79066 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGCCAATAAACAATTTC
256 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
79117 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * * *
79182 GGGACCGCTGGTTGTCAACAAACAATTTCCCAGTTCCAGAGCCAATTTCAACTTCAC-GTCGGAG
66 GGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG-CGAAG
79246 GATATTGGACT
130 GATATTGGACT
79257 TGGAACAATA
Statistics
Matches: 701, Mismatches: 24, Indels: 54
0.90 0.03 0.07
Matches are distributed among these distances:
294 95 0.14
295 1 0.00
297 1 0.00
298 7 0.01
300 3 0.00
301 1 0.00
303 2 0.00
304 3 0.00
306 472 0.67
307 1 0.00
308 3 0.00
309 2 0.00
311 1 0.00
312 3 0.00
314 7 0.01
315 1 0.00
317 1 0.00
318 96 0.14
319 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (306 bp):
CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
GGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
ATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
Found at i:78972 original size:43 final size:43
Alignment explanation
Indices: 78831--78983 Score: 144
Period size: 43 Copynumber: 3.4 Consensus size: 43
78821 AGCCAATTTT
*
78831 AACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTC
1 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC
*** ** * * *
78874 AACTTCACAACGAAGGGACCGCTGGTTGTCAACTGACAATTTCCCAATTTC
1 AACTTCACAACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAGTTC
78925 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC
1 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC
*
78968 AACTTCACGACGAAGG
1 AACTTCACAACGAAGG
78984 GACCGCTGGT
Statistics
Matches: 84, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
43 36 0.43
44 2 0.02
45 3 0.04
46 8 0.10
48 8 0.10
49 3 0.04
50 3 0.04
51 21 0.25
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (43 bp):
AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC
Found at i:79089 original size:43 final size:43
Alignment explanation
Indices: 79028--79183 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
79018 CAGAGCCAAT
79028 TTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCCAGACAACGCAAG
*** * * * *
79071 TTCAACTTCACGACGAAGGGACCGCTGG-TTGCCAATAAACAATTTCCCAAT
1 TTCAACTTCACGACGAA-GGA-TATTGGACT-CC---AGACAA---CGCAAG
*
79122 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
79165 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
79184 GACCGCTGGT
Statistics
Matches: 86, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
43 37 0.43
44 5 0.06
45 5 0.06
46 5 0.06
48 5 0.06
49 5 0.06
50 4 0.05
51 20 0.23
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:81071 original size:123 final size:123
Alignment explanation
Indices: 80933--81172 Score: 444
Period size: 123 Copynumber: 2.0 Consensus size: 123
80923 TTAGGGATAT
**
80933 TTTCAATCTATCAAAGGTAACCAATTTGAATTGAATTTTTAAATTTTAATTTAAATTGTGAATTT
1 TTTCAATCTATCAAAGGTAACCAATTTGAATTGAATTTTTAAATTTTAATTTAAATTGCAAATTT
80998 TCGCAACTAAAACAACCGGCAAATTAATTGGTACCGAAAGGGCGGTTCAAGGTTGTAC
66 TCGCAACTAAAACAACCGGCAAATTAATTGGTACCGAAAGGGCGGTTCAAGGTTGTAC
81056 TTTCAATCTATCAAAGGTAACCAATTTGAATTGAATTTTTAAATTTTAATTTAAATTGCAAATTT
1 TTTCAATCTATCAAAGGTAACCAATTTGAATTGAATTTTTAAATTTTAATTTAAATTGCAAATTT
* *
81121 TCGCAACTAAGACAACCGGTAAATTAATTGGTACCGAAAGGGCGGTTCAAGG
66 TCGCAACTAAAACAACCGGCAAATTAATTGGTACCGAAAGGGCGGTTCAAGG
81173 GTGTTAATCC
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (123 bp):
TTTCAATCTATCAAAGGTAACCAATTTGAATTGAATTTTTAAATTTTAATTTAAATTGCAAATTT
TCGCAACTAAAACAACCGGCAAATTAATTGGTACCGAAAGGGCGGTTCAAGGTTGTAC
Found at i:82501 original size:9 final size:9
Alignment explanation
Indices: 82489--82544 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
82479 TAAATCAAAG
82489 AAAAATAAT
1 AAAAATAAT
82498 -AAAATAAT
1 AAAAATAAT
82506 -AAAATAAT
1 AAAAATAAT
*
82514 AATAATAAT
1 AAAAATAAT
*
82523 AATAATAAT
1 AAAAATAAT
*
82532 AATAAATATT
1 AA-AAATAAT
82542 AAA
1 AAA
82545 TAAATTAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
8 16 0.38
9 19 0.45
10 7 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATAAT
Found at i:82506 original size:3 final size:3
Alignment explanation
Indices: 82492--82536 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
82482 ATCAAAGAAA
82492 AAT AAT AA- AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
82537 ATATTAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:82544 original size:7 final size:7
Alignment explanation
Indices: 82491--82547 Score: 55
Period size: 8 Copynumber: 7.9 Consensus size: 7
82481 AATCAAAGAA
82491 AAATAAT
1 AAATAAT
82498 AAAATAAT
1 -AAATAAT
82506 AAAATAAT
1 -AAATAAT
82514 -AATAAT
1 AAATAAT
82520 -AATAAT
1 AAATAAT
82526 AATAATAAT
1 -A-AATAAT
*
82535 AAATATT
1 AAATAAT
82542 AAATAA
1 AAATAA
82548 ATTAAGAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
6 12 0.27
7 10 0.23
8 16 0.36
9 6 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATAAT
Found at i:83924 original size:34 final size:34
Alignment explanation
Indices: 83871--83939 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
83861 TTGGACCTAT
* ***
83871 AAACAAAATAAAATAAAAAATGTTAATAATAATA
1 AAACAAAATAAAAAAAAAAACACTAATAATAATA
83905 AAACAAAA-AAAACAAAAAAACACTAATAATAATA
1 AAACAAAATAAAA-AAAAAAACACTAATAATAATA
83939 A
1 A
83940 TAATATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.74, C:0.07, G:0.01, T:0.17
Consensus pattern (34 bp):
AAACAAAATAAAAAAAAAAACACTAATAATAATA
Found at i:84021 original size:74 final size:74
Alignment explanation
Indices: 83942--84098 Score: 176
Period size: 74 Copynumber: 2.1 Consensus size: 74
83932 AATAATAATA
* *
83942 ATATATTATATATAAAAAATATTTTCCAAAACCTATATAA-TATATATTTTTTAAAAATATTTTA
1 ATATATTATATATAAAAAATATTTT-CAAAA-CTATATAATTATA-AGTTTTCAAAAATATTTTA
84006 AAA-T-TATATT
63 AAACTATATATT
** * * * *
84016 ATATATATATATATTTAAAATGTTTTCAAAACTATATAGTTTTCAAGTTTTCAAAAATGTTTTAA
1 ATATAT-TATATATAAAAAATATTTTCAAAACTATATAATTAT-AAGTTTTCAAAAATATTTTAA
84081 AACTATATATT
64 AACTATATATT
84092 ATATATT
1 ATATATT
84099 TTCAAAATGT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
73 7 0.10
74 32 0.46
75 19 0.27
76 12 0.17
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (74 bp):
ATATATTATATATAAAAAATATTTTCAAAACTATATAATTATAAGTTTTCAAAAATATTTTAAAA
CTATATATT
Found at i:84033 original size:38 final size:39
Alignment explanation
Indices: 83942--84052 Score: 119
Period size: 38 Copynumber: 3.0 Consensus size: 39
83932 AATAATAATA
*
83942 ATATAT-TATATA-TAAAAAATATTTTCCAAAACCTATA-T
1 ATATATATATATATTTAAAAATATTTT-CAAAA-CTATATT
* *
83980 A-ATATATAT-TTTTTAAAAATATTTT-AAAATTATATT
1 ATATATATATATATTTAAAAATATTTTCAAAACTATATT
*
84016 ATATATATATATATTT-AAAATGTTTTCAAAACTATAT
1 ATATATATATATATTTAAAAATATTTTCAAAACTATAT
84053 AGTTTTCAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
35 4 0.07
36 6 0.10
37 22 0.36
38 29 0.48
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (39 bp):
ATATATATATATATTTAAAAATATTTTCAAAACTATATT
Found at i:84115 original size:36 final size:34
Alignment explanation
Indices: 83969--84308 Score: 232
Period size: 37 Copynumber: 9.6 Consensus size: 34
83959 AATATTTTCC
* * * *
83969 AAAACCTATATAATATATATTTTTTAAAAATATTTT
1 AAAAACTATAT-AT-TATATATTTTCAAAATGTTTT
84005 AAAATTA-TATTATATATATATATATTT-AAAATGTTTT
1 AAAA--ACTA-TATAT-TATATAT-TTTCAAAATGTTTT
* *
84042 CAAAACTATATAGTTTTCA-AGTTTTCAAAAATGTTTT
1 AAAAACTATATA-TTAT-ATA-TTTTC-AAAATGTTTT
84079 -AAAACTATATATTATATATTTTCAAAATGTTTT
1 AAAAACTATATATTATATATTTTCAAAATGTTTT
*** *
84112 TTTAA--A-A-ACTATATATTTTCAAAATGTTTT
1 AAAAACTATATATTATATATTTTCAAAATGTTTT
*
84142 AAAAACTATATAGTATAT-TTTTCAAAAATGTTTT
1 AAAAACTATATATTATATATTTTC-AAAATGTTTT
84176 AAAAACTATATATTATATTAATTTTCAAAATGTTTT
1 AAAAACTATATATTATA-T-ATTTTCAAAATGTTTT
* * *
84212 AAAAAATATGTAATATATAAATGTTATCAAACATGTTTTT
1 AAAAACTATAT-AT-TATATAT-TT-TCAAA-ATG-TTTT
* *
84252 CAAAACTATATATTATATATATTTTTTAAAAATGTTTT
1 AAAAACTATATA-T-TATATA--TTTTCAAAATGTTTT
* *
84290 -CAAACTATATACTATATAT
1 AAAAACTATATATTATATAT
84309 ATATATGTAT
Statistics
Matches: 251, Mismatches: 24, Indels: 61
0.75 0.07 0.18
Matches are distributed among these distances:
30 24 0.10
31 1 0.00
32 2 0.01
33 17 0.07
34 40 0.16
35 22 0.09
36 41 0.16
37 52 0.21
38 19 0.08
39 7 0.03
40 23 0.09
41 2 0.01
42 1 0.00
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (34 bp):
AAAAACTATATATTATATATTTTCAAAATGTTTT
Found at i:84125 original size:100 final size:100
Alignment explanation
Indices: 84021--84211 Score: 291
Period size: 100 Copynumber: 1.9 Consensus size: 100
84011 ATATTATATA
* *
84021 TATATATATTT-AAAATGTTTTCAAAACTATATAGTTTTCAAGTTTTCAAAAATGTTTT-AAAAC
1 TATATAT-TTTCAAAATGTTTTAAAAACTATATAG-TAT--AGTTTTCAAAAATGTTTTAAAAAC
84084 TATATATTATA-T-ATTTTCAAAATGTTTTTTTAAAAAC
62 TATATATTATATTAATTTTCAAAATGTTTTTTTAAAAAC
*
84121 TATATATTTTCAAAATGTTTTAAAAACTATATAGTATATTTTTCAAAAATGTTTTAAAAACTATA
1 TATATATTTTCAAAATGTTTTAAAAACTATATAGTATAGTTTTCAAAAATGTTTTAAAAACTATA
84186 TATTATATTAATTTTCAAAATGTTTT
66 TATTATATTAATTTTCAAAATGTTTT
84212 AAAAAATATG
Statistics
Matches: 84, Mismatches: 3, Indels: 8
0.88 0.03 0.08
Matches are distributed among these distances:
97 17 0.20
98 16 0.19
99 6 0.07
100 45 0.54
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (100 bp):
TATATATTTTCAAAATGTTTTAAAAACTATATAGTATAGTTTTCAAAAATGTTTTAAAAACTATA
TATTATATTAATTTTCAAAATGTTTTTTTAAAAAC
Found at i:84127 original size:30 final size:27
Alignment explanation
Indices: 84091--84189 Score: 108
Period size: 30 Copynumber: 3.3 Consensus size: 27
84081 AACTATATAT
84091 TATATATTTTCAAAATGTTTTTTTAAAAAC
1 TATATATTTTCAAAATG---TTTTAAAAAC
84121 TATATATTTTCAAAATGTTTTAAAAAC
1 TATATATTTTCAAAATGTTTTAAAAAC
84148 TATATAGTATATTTTTCAAAAATGTTTTAAAAAC
1 ----TA-TATA-TTTTC-AAAATGTTTTAAAAAC
84182 TATATATT
1 TATATATT
84190 ATATTAATTT
Statistics
Matches: 62, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
27 10 0.16
28 2 0.03
29 4 0.06
30 19 0.31
31 2 0.03
32 4 0.06
33 5 0.08
34 16 0.26
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (27 bp):
TATATATTTTCAAAATGTTTTAAAAAC
Found at i:84135 original size:64 final size:61
Alignment explanation
Indices: 84063--84189 Score: 186
Period size: 64 Copynumber: 2.0 Consensus size: 61
84053 AGTTTTCAAG
*
84063 TTTTCAAAAATGTTTT-AAAACTATATATTATATATTTTC-AAAATGTTTTTTTAAAAACTATAT
1 TTTTC-AAAATGTTTTAAAAACTATATAGTATAT-TTTTCAAAAATG---TTTTAAAAACTATAT
84126 A
61 A
84127 TTTTCAAAATGTTTTAAAAACTATATAGTATATTTTTCAAAAATGTTTTAAAAACTATATA
1 TTTTCAAAATGTTTTAAAAACTATATAGTATATTTTTCAAAAATGTTTTAAAAACTATATA
84188 TT
1 TT
84190 ATATTAATTT
Statistics
Matches: 60, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
61 18 0.30
63 15 0.25
64 27 0.45
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (61 bp):
TTTTCAAAATGTTTTAAAAACTATATAGTATATTTTTCAAAAATGTTTTAAAAACTATATA
Found at i:84311 original size:39 final size:38
Alignment explanation
Indices: 84148--84312 Score: 151
Period size: 39 Copynumber: 4.3 Consensus size: 38
84138 TTTTAAAAAC
*
84148 TATATAGTATATTTTTCAAAAATGTTTTAAAAACTATATA
1 TATATA-TATATTTTTCAAAAATGTTTT-CAAACTATATA
* ** *
84188 T-TATAT-TAATTTTC-AAAATGTTTT-AAAAAATATG
1 TATATATATATTTTTCAAAAATGTTTTCAAACTATATA
* * *
84222 TAATATATAAATGTTATCAAACATGTTTTTCAAAACTATATA
1 T-ATATATATAT-TTTTCAAAAATG-TTTTC-AAACTATATA
*
84264 T-TATATATATTTTTTAAAAATGTTTTCAAACTATATA
1 TATATATATATTTTTCAAAAATGTTTTCAAACTATATA
84301 CTATATATATAT
1 -TATATATATAT
84313 ATGTATGTAT
Statistics
Matches: 100, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
34 8 0.08
36 15 0.15
37 18 0.18
38 11 0.11
39 27 0.27
40 13 0.13
42 8 0.08
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (38 bp):
TATATATATATTTTTCAAAAATGTTTTCAAACTATATA
Found at i:85751 original size:9 final size:9
Alignment explanation
Indices: 85739--85861 Score: 58
Period size: 9 Copynumber: 13.4 Consensus size: 9
85729 TAAATCAAAG
85739 AAAAATAAT
1 AAAAATAAT
85748 -AAAATAAT
1 AAAAATAAT
*
85756 AATAATAA-
1 AAAAATAAT
*
85764 AATAATAAT
1 AAAAATAAT
*
85773 AATAATAAT
1 AAAAATAAT
*
85782 AATAAATATT
1 AA-AAATAAT
*
85792 AAATAAATTAAG
1 -AA-AAA-TAAT
85804 AGAAAA-AAT
1 A-AAAATAAT
* *
85813 -ATAACAAT
1 AAAAATAAT
*
85821 AAAAATAAC
1 AAAAATAAT
*
85830 AAAAGTAA-
1 AAAAATAAT
*
85838 AAAAATACAA
1 AAAAATA-AT
85848 AGAAAATAAT
1 A-AAAATAAT
85858 AAAA
1 AAAA
85862 TAGAAAAAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
7 3 0.03
8 25 0.28
9 35 0.39
10 8 0.09
11 16 0.18
12 3 0.03
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.22
Consensus pattern (9 bp):
AAAAATAAT
Found at i:85756 original size:3 final size:3
Alignment explanation
Indices: 85742--85786 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
85732 ATCAAAGAAA
85742 AAT AAT AA- AAT AAT AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
85787 ATATTAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:85761 original size:14 final size:14
Alignment explanation
Indices: 85742--85786 Score: 81
Period size: 14 Copynumber: 3.1 Consensus size: 14
85732 ATCAAAGAAA
85742 AATAATAAAATAAT
1 AATAATAAAATAAT
85756 AATAATAAAATAAT
1 AATAATAAAATAAT
85770 AATAATAATAATAAT
1 AATAATAA-AATAAT
85785 AA
1 AA
85787 ATATTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 22 0.73
15 8 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:85794 original size:7 final size:7
Alignment explanation
Indices: 85741--85797 Score: 55
Period size: 8 Copynumber: 7.9 Consensus size: 7
85731 AATCAAAGAA
85741 AAATAAT
1 AAATAAT
85748 AAAATAAT
1 -AAATAAT
85756 -AATAAT
1 AAATAAT
85762 AAAATAAT
1 -AAATAAT
85770 -AATAAT
1 AAATAAT
85776 AATAATAAT
1 -A-AATAAT
*
85785 AAATATT
1 AAATAAT
85792 AAATAA
1 AAATAA
85798 ATTAAGAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
6 12 0.29
7 10 0.24
8 14 0.33
9 6 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATAAT
Found at i:85796 original size:14 final size:13
Alignment explanation
Indices: 85741--85797 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 13
85731 AATCAAAGAA
*
85741 AAATAATAAAATA
1 AAATAATAAAATT
85754 ATAATAATAAAA-T
1 A-AATAATAAAATT
85767 -AATAATAATAA-T
1 AAATAATAA-AATT
85779 -AATAATAAATATT
1 AAATAATAAA-ATT
85792 AAATAA
1 AAATAA
85798 ATTAAGAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
11 9 0.24
12 12 0.32
13 2 0.05
14 15 0.39
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAATAAAATT
Found at i:85797 original size:23 final size:23
Alignment explanation
Indices: 85740--85787 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
85730 AAATCAAAGA
85740 AAAATAATAA-AATAATAATAAT
1 AAAATAATAATAATAATAATAAT
85762 AAAATAATAATAATAATAATAAT
1 AAAATAATAATAATAATAATAAT
85785 AAA
1 AAA
85788 TATTAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAATAATAATAATAATAATAAT
Found at i:86853 original size:25 final size:25
Alignment explanation
Indices: 86825--86879 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
86815 GCAGTAGCTT
*
86825 GGTGGGGGTATTTATACCCCCCACC
1 GGTGGCGGTATTTATACCCCCCACC
86850 GGTGGCGGTATTTATACCCCCCACC
1 GGTGGCGGTATTTATACCCCCCACC
86875 GGTGG
1 GGTGG
86880 TATGTTGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.24
Consensus pattern (25 bp):
GGTGGCGGTATTTATACCCCCCACC
Found at i:87199 original size:34 final size:33
Alignment explanation
Indices: 87139--87206 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
87129 TTGGACCTAT
* * **
87139 AAACAAAATAAAATAAAAACGTTAATAATAATA
1 AAACAAAAAAAAAAAAAAACACTAATAATAATA
87172 AAACAAAAAAAACAAAAAAACACTAATAATAATA
1 AAACAAAAAAAA-AAAAAAACACTAATAATAATA
87206 A
1 A
87207 TATATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 11 0.37
34 19 0.63
ACGTcount: A:0.74, C:0.09, G:0.01, T:0.16
Consensus pattern (33 bp):
AAACAAAAAAAAAAAAAAACACTAATAATAATA
Found at i:87244 original size:34 final size:31
Alignment explanation
Indices: 87206--87287 Score: 83
Period size: 37 Copynumber: 2.5 Consensus size: 31
87196 AATAATAATA
87206 ATATATTATATATAAAAAATATTTTCCAAAACCT
1 ATATATTATATATAAAAAATATTTT--AAAA-CT
* * *
87240 ATATAATATATATTTTTAAAAATATTTTAAAATT
1 ATAT-AT-TATA-TATAAAAAATATTTTAAAACT
87274 ATATATTATATATA
1 ATATATTATATATA
87288 TATATATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
31 2 0.05
32 4 0.10
33 2 0.05
34 9 0.22
35 6 0.15
36 4 0.10
37 13 0.32
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (31 bp):
ATATATTATATATAAAAAATATTTTAAAACT
Found at i:87246 original size:42 final size:39
Alignment explanation
Indices: 87200--87320 Score: 117
Period size: 41 Copynumber: 3.1 Consensus size: 39
87190 AACACTAATA
87200 ATAATAATATATTATATATAAAAAATATTTTCCAAAACCTAT
1 ATAATAATATATTATATAT-AAAAATATTTT-CAAAA-CTAT
*
87242 ATAAT-ATATATT-T-T-TAAAAATATTTT-AAAATTAT
1 ATAATAATATATTATATATAAAAATATTTTCAAAACTAT
* * *
87276 ATATTATATATATATATATATTTAAAATGTTTTCAAAACTAT
1 ATAATA-ATATAT-TATATA-TAAAAATATTTTCAAAACTAT
87318 ATA
1 ATA
87321 GTTTTCAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
34 7 0.11
35 4 0.06
36 6 0.09
37 12 0.18
38 2 0.03
39 2 0.03
40 1 0.02
41 17 0.26
42 15 0.23
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.45
Consensus pattern (39 bp):
ATAATAATATATTATATATAAAAATATTTTCAAAACTAT
Found at i:87261 original size:25 final size:25
Alignment explanation
Indices: 87214--87261 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
87204 TAATATATTA
*
87214 TATATAAAAAATATTTTCCAAAACC
1 TATATAAAAAATATTTTCAAAAACC
* * *
87239 TATATAATATATATTTTTAAAAA
1 TATATAAAAAATATTTTCAAAAA
87262 TATTTTAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (25 bp):
TATATAAAAAATATTTTCAAAAACC
Found at i:87319 original size:40 final size:40
Alignment explanation
Indices: 87239--87320 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 40
87229 TTCCAAAACC
*
87239 TATATAATATATATTTTTAAAAATATTTTAAAATTATATAT
1 TATATAATATATATATTTAAAAATATTTTAAAA-TATATAT
*
87280 TATATATATATATATATTT-AAAATGTTTTCAAAACTATATA
1 TATATA-ATATATATATTTAAAAATATTTT-AAAA-TATATA
87321 GTTTTCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 15 0.42
42 21 0.58
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (40 bp):
TATATAATATATATATTTAAAAATATTTTAAAATATATAT
Found at i:87447 original size:36 final size:36
Alignment explanation
Indices: 87316--87569 Score: 187
Period size: 36 Copynumber: 7.2 Consensus size: 36
87306 TTTCAAAACT
* *
87316 ATATAGTTTTCAAAAATGTTTT-AAAACTATATATT
1 ATATATTTTTCAAAAATGTTTTAAAAACTATATATA
* * *
87351 ATACA-TTTTC-AAAATGTTTTTTTAAAAC---CTAT-
1 ATATATTTTTCAAAAATG--TTTTAAAAACTATATATA
87383 -T-TA-TTTTC-AAAATGTTTTAAAAAC--TATATA
1 ATATATTTTTCAAAAATGTTTTAAAAACTATATATA
*
87413 ATATATTTTTCAAAAATGTTTTAAAAACTATATATT
1 ATATATTTTTCAAAAATGTTTTAAAAACTATATATA
*
87449 ATATTAATTTTC-AAAATGTTTTAAAAACTATATAATA
1 ATA-TATTTTTCAAAAATGTTTTAAAAACTATAT-ATA
* * * *
87486 TATAAATGTTATCAAACATGTTTTTCAAAACTATATATTA
1 -ATATAT-TTTTCAAAAATG-TTTTAAAAACTATATA-TA
* *
87526 TATATATTTTTTAAAAATGTTTT-CAAACTATATACTA
1 -ATATATTTTTCAAAAATGTTTTAAAAACTATATA-TA
87563 TATATAT
1 -ATATAT
87570 ATGTATGTAT
Statistics
Matches: 182, Mismatches: 19, Indels: 34
0.77 0.08 0.14
Matches are distributed among these distances:
28 9 0.05
29 3 0.02
30 12 0.07
31 2 0.01
32 2 0.01
33 14 0.08
34 21 0.12
35 8 0.04
36 34 0.19
37 29 0.16
38 11 0.06
39 15 0.08
40 22 0.12
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (36 bp):
ATATATTTTTCAAAAATGTTTTAAAAACTATATATA
Found at i:87475 original size:70 final size:74
Alignment explanation
Indices: 87380--87567 Score: 242
Period size: 70 Copynumber: 2.6 Consensus size: 74
87370 TTTTAAAACC
*
87380 TATTTATTTTCAAAATGTTTTAAAAACTATATAATATAT-T-TT-TCAAAAATG-TTTTAAAAAC
1 TATTAATTTTCAAAATGTTTTAAAAACTATATAATATATATGTTATCAAAAATGTTTTTAAAAAC
87441 TATATATTA
66 TATATATTA
* *
87450 TATTAATTTTCAAAATGTTTTAAAAACTATATAATATATAAATGTTATCAAACATGTTTTTCAAA
1 TATTAATTTTCAAAATGTTTTAAAAACTATATAATATAT--ATGTTATCAAAAATGTTTTTAAAA
87515 ACTATATATTA
64 ACTATATATTA
* * * *
87526 TATATATTTTTTAAAAATGTTTT-CAAACTATATACTATATAT
1 TAT-TA-ATTTTCAAAATGTTTTAAAAACTATATAATATATAT
87568 ATATGTATGT
Statistics
Matches: 103, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
70 38 0.37
73 1 0.01
74 2 0.02
75 10 0.10
76 21 0.20
77 17 0.17
78 14 0.14
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (74 bp):
TATTAATTTTCAAAATGTTTTAAAAACTATATAATATATATGTTATCAAAAATGTTTTTAAAAAC
TATATATTA
Found at i:87493 original size:97 final size:95
Alignment explanation
Indices: 87316--87495 Score: 238
Period size: 97 Copynumber: 1.9 Consensus size: 95
87306 TTTCAAAACT
* *
87316 ATATAGTTTTCAAAAATGTTTTAAAACTATATATTATACATTTTCAAAATGTTTTTTTAAAACCT
1 ATATAGTTTTCAAAAATGTTTTAAAACTATATATTATAAATTTTCAAAATG--TTTTTAAAAACT
* * *
87381 ATTTATTTTCAAAATGTTTTAAAAACTATATA
64 ATATAATATCAAAATGTTTTAAAAACTATATA
*
87413 ATATATTTTTCAAAAATGTTTTAAAAACTATATATTATATTAATTTTCAAAATG-TTTTAAAAAC
1 ATATAGTTTTCAAAAATGTTTT-AAAACTATATATTATA--AATTTTCAAAATGTTTTTAAAAAC
87477 TATATAATAT-ATAAATGTT
63 TATATAATATCA-AAATGTT
87496 ATCAAACATG
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
96 1 0.01
97 44 0.60
98 16 0.22
100 12 0.16
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (95 bp):
ATATAGTTTTCAAAAATGTTTTAAAACTATATATTATAAATTTTCAAAATGTTTTTAAAAACTAT
ATAATATCAAAATGTTTTAAAAACTATATA
Found at i:87566 original size:37 final size:38
Alignment explanation
Indices: 87386--87569 Score: 213
Period size: 36 Copynumber: 5.0 Consensus size: 38
87376 AACCTATTTA
87386 TTTTC-AAAATGTTTTAAAAAC--TATA-TA-ATATAT
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATATAT
*
87419 TTTTCAAAAATGTTTTAAAAACTATATATTATAT-TAA
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATATAT
* *
87456 TTTTC-AAAATGTTTTAAAAACTATATAATATATAAAT
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATATAT
* * *
87493 GTTATCAAACATGTTTTTCAAAACTATATATTATATATAT
1 -TTTTCAAAAATG-TTTTAAAAACTATATATTATATATAT
* * *
87533 TTTTTAAAAATGTTTT-CAAACTATATACTATATATAT
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATATAT
87570 ATGTATGTAT
Statistics
Matches: 128, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
33 5 0.04
34 16 0.12
36 31 0.24
37 29 0.23
38 10 0.08
39 14 0.11
40 23 0.18
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (38 bp):
TTTTCAAAAATGTTTTAAAAACTATATATTATATATAT
Found at i:89041 original size:3 final size:3
Alignment explanation
Indices: 89027--89057 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
89017 ATCAAAGAAA
89027 AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
89058 ATATTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:89117 original size:27 final size:27
Alignment explanation
Indices: 89078--89143 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
89068 AATTAAGAGA
89078 AAAAACATAACAATA-AAAATAACAAAAGT
1 AAAAA-ATAACAA-AGAAAATAACAAAA-T
*
89107 AAAAAAT-ACAAAGAAAATAATAAAAT
1 AAAAAATAACAAAGAAAATAACAAAAT
89133 AGAAAAA-AACA
1 A-AAAAATAACA
89144 CAAGGGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 3 0.09
27 23 0.70
28 2 0.06
29 5 0.15
ACGTcount: A:0.76, C:0.08, G:0.05, T:0.12
Consensus pattern (27 bp):
AAAAAATAACAAAGAAAATAACAAAAT
Found at i:90513 original size:25 final size:25
Alignment explanation
Indices: 90466--90513 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
90456 TAATATATTA
*
90466 TATATAAAAAATATTTTCCAAAACC
1 TATATAAAAAATATTTTCAAAAACC
* * *
90491 TATATAATATATATTTTTAAAAA
1 TATATAAAAAATATTTTCAAAAA
90514 TATTTTAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (25 bp):
TATATAAAAAATATTTTCAAAAACC
Found at i:90529 original size:34 final size:35
Alignment explanation
Indices: 90485--90815 Score: 194
Period size: 40 Copynumber: 9.5 Consensus size: 35
90475 AATATTTTCC
* *
90485 AAAACCTATATAATATATATTTTTAAAAATATTTT
1 AAAAACTATATAATATATATTTTTAAAAATGTTTT
*
90520 AAAATTA-TATTTTATATATATATATATTT-AAAATGTTTT
1 AAAA--ACTA---TATA-ATATATATTTTTAAAAATGTTTT
* *
90559 CAAAAC----T-ATATA-ATTTTCAAAAATGTTTT
1 AAAAACTATATAATATATATTTTTAAAAATGTTTT
* *
90588 -AAAACTATATATTATATA-TTTTCAAAATGTTTT
1 AAAAACTATATAATATATATTTTTAAAAATGTTTT
*** * *
90621 TTTAA--A-A-ACTATATA-TTTTCAAAATGTTTT
1 AAAAACTATATAATATATATTTTTAAAAATGTTTT
90651 AAAAACTATAT-AT-TATATTTTTCAAAAATGTTTT
1 AAAAACTATATAATATATATTTTT-AAAAATGTTTT
* * * *
90685 AAAAACTATATATTATTTTAATTTTCAAAATGTTTT
1 AAAAACTATATAATA-TATATTTTTAAAAATGTTTT
* * *
90721 AAAAACTATATAATGTATAAATGTTATCAAACATGTTTTT
1 AAAAACTATATAA--TATATAT-TT-TTAAAAATG-TTTT
*
90761 CAAAACTATATATTATATATATTTTTTAAAAATGTTTT
1 AAAAACTATATA--ATATATA-TTTTTAAAAATGTTTT
* *
90799 -CAAACTATATACTATAT
1 AAAAACTATATAATATAT
90816 GTATATGTAT
Statistics
Matches: 230, Mismatches: 34, Indels: 64
0.70 0.10 0.20
Matches are distributed among these distances:
28 9 0.04
29 15 0.07
30 24 0.10
31 2 0.01
32 7 0.03
33 23 0.10
34 24 0.10
35 10 0.04
36 24 0.10
37 20 0.09
38 8 0.03
39 29 0.13
40 33 0.14
41 1 0.00
42 1 0.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (35 bp):
AAAAACTATATAATATATATTTTTAAAAATGTTTT
Found at i:90650 original size:30 final size:27
Alignment explanation
Indices: 90538--90600 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
90528 ATTTTATATA
*
90538 TATATATATTT-AAAATGTTTTCAAAAC
1 TATATAT-TTTCAAAATGTTTTAAAAAC
90565 TATATAATTTTCAAAAATGTTTT-AAAAC
1 TATAT-ATTTTC-AAAATGTTTTAAAAAC
90593 TATATATT
1 TATATATT
90601 ATATATTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 11 0.33
28 12 0.36
29 10 0.30
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (27 bp):
TATATATTTTCAAAATGTTTTAAAAAC
Found at i:90702 original size:64 final size:65
Alignment explanation
Indices: 90532--90773 Score: 236
Period size: 64 Copynumber: 3.7 Consensus size: 65
90522 AATTATATTT
*
90532 TATATATATATATA-TTT-AAAATG-TTTTCAAAACTATATA-ATTTTCAAAAATGTTTT-AAAA
1 TATATATATATATATTTTCAAAATGTTTTTAAAAACTATATATATTTTC-AAAATGTTTTAAAAA
90592 C
65 C
90593 TATATAT-TATATATTTTCAAAATGTTTTTTTAAAAAC--TATATATTTTCAAAATGTTTTAAAA
1 TATATATATATATATTTTCAAAATG--TTTTTAAAAACTATATATATTTTCAAAATGTTTTAAAA
90655 AC
64 AC
90657 TATATAT-TATAT-TTTTCAAAAATG-TTTTAAAAACTATATATTATTTTAATTTTCAAAATGTT
1 TATATATATATATATTTTC-AAAATGTTTTTAAAAAC--TATA-TA---T-ATTTTCAAAATGTT
90719 TTAAAAAC
58 TTAAAAAC
* * *
90727 TATATAATGTATAAATGTTATCAAACATGTTTTTCAAAACTATATAT
1 TATAT-ATATATATAT-TT-TCAAA-ATGTTTTTAAAAACTATATAT
90774 TATATATATT
Statistics
Matches: 154, Mismatches: 3, Indels: 39
0.79 0.02 0.20
Matches are distributed among these distances:
60 6 0.04
61 20 0.13
62 6 0.04
63 19 0.12
64 29 0.19
65 11 0.07
66 2 0.01
69 1 0.01
70 28 0.18
71 2 0.01
72 4 0.03
73 3 0.02
74 9 0.06
75 5 0.03
76 9 0.06
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (65 bp):
TATATATATATATATTTTCAAAATGTTTTTAAAAACTATATATATTTTCAAAATGTTTTAAAAAC
Found at i:90709 original size:38 final size:37
Alignment explanation
Indices: 90572--90809 Score: 179
Period size: 34 Copynumber: 6.8 Consensus size: 37
90562 AACTATATAA
*
90572 TTTTCAAAAATGTTTT-AAAACTATATATTATAT-A-
1 TTTTCAAAAATGTTTTAAAAACTATATATTATTTAAT
*** * *
90606 TTTTC-AAAATGTTTTTTTAA--A-A-ACTATAT-A-
1 TTTTCAAAAATGTTTTAAAAACTATATATTATTTAAT
90636 TTTTC-AAAATGTTTTAAAAACTATATATTA--T-AT
1 TTTTCAAAAATGTTTTAAAAACTATATATTATTTAAT
90669 TTTTCAAAAATGTTTTAAAAACTATATATTATTTTAA-
1 TTTTCAAAAATGTTTTAAAAACTATATATTA-TTTAAT
*
90706 TTTTC-AAAATGTTTTAAAAACTATATAATGTA-TAAAT
1 TTTTCAAAAATGTTTTAAAAACTATAT-AT-TATTTAAT
* * * *
90743 GTTATCAAACATGTTTTTCAAAACTATATATTATATATAT
1 -TTTTCAAAAATG-TTTTAAAAACTATATATTATTTA-AT
* *
90783 TTTTTAAAAATGTTTT-CAAACTATATA
1 TTTTCAAAAATGTTTTAAAAACTATATA
90810 CTATATGTAT
Statistics
Matches: 168, Mismatches: 17, Indels: 35
0.76 0.08 0.16
Matches are distributed among these distances:
30 24 0.14
31 1 0.01
32 4 0.02
33 16 0.10
34 35 0.21
36 24 0.14
37 18 0.11
38 13 0.08
39 17 0.10
40 16 0.10
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTTCAAAAATGTTTTAAAAACTATATATTATTTAAT
Found at i:90743 original size:97 final size:95
Alignment explanation
Indices: 90567--90745 Score: 254
Period size: 97 Copynumber: 1.8 Consensus size: 95
90557 TTCAAAACTA
90567 TATAATTTTCAAAAATGTTTTAAAACTATATATTATATATTTTCAAAATGTTTTTTTAAAAACTA
1 TATAATTTTCAAAAATGTTTTAAAACTATATATTATATATTTTCAAAATG--TTTTTAAAAACTA
* *
90632 TATATTTTCAAAATGTTTTAAAAACTATATAT
64 TATAATGTCAAAATGTTTTAAAAACTATATAT
* *
90664 TATATTTTTCAAAAATGTTTTAAAAACTATATATTATTTTAATTTTCAAAATG-TTTTAAAAACT
1 TATAATTTTCAAAAATGTTTT-AAAACTATATATTA-TAT-ATTTTCAAAATGTTTTTAAAAACT
90728 ATATAATGT-ATAAATGTT
63 ATATAATGTCA-AAATGTT
90746 ATCAAACATG
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
96 1 0.01
97 45 0.61
98 14 0.19
99 2 0.03
100 12 0.16
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (95 bp):
TATAATTTTCAAAAATGTTTTAAAACTATATATTATATATTTTCAAAATGTTTTTAAAAACTATA
TAATGTCAAAATGTTTTAAAAACTATATAT
Found at i:90828 original size:4 final size:4
Alignment explanation
Indices: 90819--90845 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
90809 ACTATATGTA
90819 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
90846 ATATATGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:91522 original size:84 final size:83
Alignment explanation
Indices: 91401--92481 Score: 843
Period size: 84 Copynumber: 13.0 Consensus size: 83
91391 AACTCGACAA
* *** * *
91401 TTTTATTGACAGATAGCCCTTCTTTCCATGAGCTATGCTGTAAATGATATGCCTTGGAGCTGAGC
1 TTTT-TTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGC
*
91466 GTAGTCGAACTCAAAGGTC
65 GTAGTCGAACTCGAAGGTC
* * * * * * *
91485 TTTGTTTGGCAGATAAGCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCCTCGAAGTTGAG
1 TTT-TTTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATG-CCTTGGAGCTGAG
* * *
91550 TGTAATCAAACTCGAAGGTC
64 CGTAGTCGAACTCGAAGGTC
* * * ** * * * *
91570 TTTGTTTGACAGATAGCCCTTCTCGACTT-AATCTATGCTACAAATAATGTTCCTTTGAGCTGAG
1 TTT-TTTGACAGATAACCCTTCTAGACTTGAGT-TATGCTGTAAATGATATGCCTTGGAGCTGAG
*
91634 CGTAGTTGAACTCGAAGGTC
64 CGTAGTCGAACTCGAAGGTC
* * * * * ** *
91654 TTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG-TCGTAAATGACATGTCC-----CCAAAT
1 TTTTTTGACAGATAACCCTTCTAGACTTGAGTTATGCT-GTAAATGATATG-CCTTGGAGCTGAG
* * * *
91713 TGTAATTGAACTCCAAGGTC
64 CGTAGTCGAACTCGAAGGTC
* * * * *
91733 TTTGTTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCATTGGAGCTGAGC
1 TTT-TTTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGC
* **
91798 ATAGTCGAACTTAAAGGTC
65 GTAGTCGAACTCGAAGGTC
* * * * * * *
91817 TTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGGG
1 TTTT-TTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATG-CCTTGGAGCTGAG
* * *
91882 TGTAATCGAACTCGAGGGTC
64 CGTAGTCGAACTCGAAGGTC
* * * * * * *
91902 ---TTTGGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCG
1 TTTTTTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCG
* *
91964 TAGTCAAATTCGAAGGTC
66 TAGTCGAACTCGAAGGTC
* * *
91982 TTTGGTTGGCAGATAACCCTTCTCGACTT-ATGTTATGCTGTAAATGATATGCCTTGGAGCTGAG
1 TTT-TTTGACAGATAACCCTTCTAGACTTGA-GTTATGCTGTAAATGATATGCCTTGGAGCTGAG
*
92046 CGTAGTCGAACTCAAAGGTC
64 CGTAGTCGAACTCGAAGGTC
* * * * *
92066 TTTTAGTGACAAATAACCCTTCTA-ACCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGA
1 TTTT-TTGACAGATAACCCTTCTAGA-CTTGAGTTATGCTGTAAATGATATG-CCTTGGAGCTGA
* *
92130 GTGTAATCGAACTC-AAGGGTC
63 GCGTAGTCGAACTCGAA-GGTC
* * * * * *
92151 ---TTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTATAAATCATATGCCTTGGAGCTGAGCG
1 TTTTTTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCG
92213 TAGTCGAACTCGAAGGTC
66 TAGTCGAACTCGAAGGTC
* ** * * * * *
92231 TTTTGGTGACAGATAACCCTTCTATCCTTGAGTGATACTGTAAATGATATGCCCTCGAAGATGAG
1 TTTT-TTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATG-CCTTGGAGCTGAG
* * *
92296 TGTAATCGAACTCGAGGGTC
64 CGTAGTCGAACTCGAAGGTC
* * * * * * * ** * *
92316 ---TTTGGCAGATAGCCGTTATCGACTTAAGCTATGCTGTAAATGATATAACTTGGAGTTGGGCG
1 TTTTTTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCG
*
92378 TAGTCAAACTCGAAGGTC
66 TAGTCGAACTCGAAGGTC
* * * ** *
92396 TTTTGGTGACAGATAACCCTTTTAGCCTTGAGTTATATTGTAAATTATATGCCTTGG-GCTGAGC
1 TTTT-TTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGC
92460 GTAGTCGAACTCGAAGGTC
65 GTAGTCGAACTCGAAGGTC
92479 TTT
1 TTT
92482 GGTGGGCACG
Statistics
Matches: 767, Mismatches: 194, Indels: 73
0.74 0.19 0.07
Matches are distributed among these distances:
79 23 0.03
80 111 0.14
81 109 0.14
82 5 0.01
83 61 0.08
84 316 0.41
85 142 0.19
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (83 bp):
TTTTTTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCG
TAGTCGAACTCGAAGGTC
Found at i:91944 original size:165 final size:165
Alignment explanation
Indices: 91431--92486 Score: 831
Period size: 165 Copynumber: 6.4 Consensus size: 165
91421 TCTTTCCATG
* *
91431 AGCTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTTGGCA
1 AGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG-GTGGCA
* * * *
91496 GATAAGCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCCTCGAAGTTGAGTGTAATCAAAC
65 GATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGATG-GTGTAATCGAAC
*
91561 TCGAAGGTCTTTGTTTGACAGATAGCCCTTCTCGACTTA
129 TCGAAGGTCTTTG--TGACAGATAACCCTTCTCGACTTA
* * * * * * * * *
91600 ATCTATGCTACAAATAATGTTCCTTTGAGCTGAGCGTAGTTGAACTCGAAGGTCTTTGTTGGCAG
1 AGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGCAG
* *
91665 ATAACCCTTCTAGCCTTGAGTTATG-TCGTAAATGACATGTCCC-C-AA-AT--TGTAATTGAAC
66 ATAACCCTTCTAGCCTTGAGTTATGCT-GTAAATGATATG-CCCTCGAAGATGGTGTAATCGAAC
*
91724 TCCAAGGTCTTTGTTTGACAGATAACCCTTCTCGACTTA
129 TCGAAGGTCTTTG--TGACAGATAACCCTTCTCGACTTA
* * * *
91763 AGCTATGCTGCAAATGATATGCATTGGAGCTGAGCATAGTCGAACTTAAAGGTCTTTTGGTGACA
1 AGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGGTGGCA
* * *
91828 GATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGGGTGTAATCGAAC
65 GATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGAT-GGTGTAATCGAAC
* *
91893 TCGAGGGTCTTTG-G-CAGATAACCCTTCTTGACTTA
129 TCGAAGGTCTTTGTGACAGATAACCCTTCTCGACTTA
* * * * *
91928 AGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCAAATTCGAAGGTCTTTGGTTGGCA
1 AGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG-TGGCA
* * * * * * *
91993 GATAACCCTTCTCGACTT-ATGTTATGCTGTAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAA
65 GATAACCCTTCTAGCCTTGA-GTTATGCTGTAAATGATATGCCCTCGAAGATG-GTGTAATCGAA
* * * *
92056 CTCAAAGGTCTTTTAGTGACAAATAACCCTTCT-AACCTTG
128 CTCGAAGGTC-TTT-GTGACAGATAACCCTTCTCGA-CTTA
* * * * * * * *
92096 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTC-TT--TGGCA
1 AGCTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGCA
* * * * * * * * * * *
92158 GATAGCCCTTCTCGACTTAAGTTATGCTATAAATCATATG-CCTTGGAGCTGAGCGTAGTCGAAC
65 GATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGATG-GTGTAATCGAAC
*** *
92222 TCGAAGGTCTTTTGGTGACAGATAACCCTTCTATCCTTG
129 TCGAAGGTC-TTT-GTGACAGATAACCCTTCTCGACTTA
* * * * * * * * *
92261 AG-TGATACTGTAAATGATATGCCCTCGAAGATGAGTGTAATCGAACTCGAGGGTC-TT--TGGC
1 AGCT-ATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGC
* * * * * * * ** * * * * * *
92322 AGATAGCCGTTATCGACTTAAGCTATGCTGTAAATGATAT-AACTTGGAGTTGGGCGTAGTCAAA
64 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGAT-GGTGTAATCGAA
* * * *
92386 CTCGAAGGTCTTTTGGTGACAGATAACCCTTTTAGCCTTG
128 CTCGAAGGTC-TTT-GTGACAGATAACCCTTCTCGACTTA
* ** * * *
92426 AGTTATATTGTAAATTATATGCCTTGG-GCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGG
1 AGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGG
92487 GCACGGTTCC
Statistics
Matches: 759, Mismatches: 100, Indels: 59
0.83 0.11 0.06
Matches are distributed among these distances:
163 115 0.15
164 83 0.11
165 370 0.49
166 10 0.01
167 5 0.01
168 79 0.10
169 97 0.13
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (165 bp):
AGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGCAG
ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGATGGTGTAATCGAACTC
GAAGGTCTTTGTGACAGATAACCCTTCTCGACTTA
Found at i:92021 original size:249 final size:249
Alignment explanation
Indices: 91721--92253 Score: 825
Period size: 249 Copynumber: 2.1 Consensus size: 249
91711 ATTGTAATTG
* *
91721 AACTCCAAGGTCTTTGTTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCA
1 AACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCA
* * * *
91786 TTGGAGCTGAGCATAGTCGAACTTAAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTT
66 TTGGAGCTGAGCATAGTCGAACTCAAAGGTCTTTTAGTGACAAATAACCCTTCTAACCTTGAGTT
* * *
91851 ATGTTGTAAATGATGTGCCCTCGAAGCTGGGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACC
131 ATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAACC
* * * *
91916 CTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCA
196 CTTCTCGACTTAAGCTATGCTACAAATCATATGCCTTAGAGCTGAGCGTAGTCA
* * * * * *
91970 AATTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTATGTTATGCTGTAAATGATATGCC
1 AACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCA
*
92035 TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTAGTGACAAATAACCCTTCTAACCTTGAGTT
66 TTGGAGCTGAGCATAGTCGAACTCAAAGGTCTTTTAGTGACAAATAACCCTTCTAACCTTGAGTT
*
92100 ATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAGCC
131 ATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAACC
* * * *
92165 CTTCTCGACTTAAGTTATGCTATAAATCATATGCCTTGGAGCTGAGCGTAGTCG
196 CTTCTCGACTTAAGCTATGCTACAAATCATATGCCTTAGAGCTGAGCGTAGTCA
92219 AACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCT
1 AACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCT
92254 ATCCTTGAGT
Statistics
Matches: 256, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
249 251 0.98
250 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (249 bp):
AACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCA
TTGGAGCTGAGCATAGTCGAACTCAAAGGTCTTTTAGTGACAAATAACCCTTCTAACCTTGAGTT
ATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAACC
CTTCTCGACTTAAGCTATGCTACAAATCATATGCCTTAGAGCTGAGCGTAGTCA
Found at i:92245 original size:414 final size:411
Alignment explanation
Indices: 91489--92481 Score: 1218
Period size: 414 Copynumber: 2.4 Consensus size: 411
91479 AAGGTCTTTG
* * * * * * *
91489 TTTGGCAGATAAGCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCCTCGAAGTTGAGTGTA
1 TTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTAG-AGTTGAGCGTA
* * * * **
91554 ATCAAACTCGAAGGTCTTTGTTTGACAGATAGCCCTTCTCGACTTAAT-CTATGCTACAAATAAT
65 GTCAAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAATGTTATGCTGTAAATAAT
* * * * * * *
91618 GTTCCTTTGAGCTGAGCGTAGTTGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTAGCCTT
130 ATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGACAAATAACCCTTCTAACCTT
* *
91682 GAGTTATGTCGTAAATGACATGTCCCCAAATTGTAATTGAACTCCAAGGTCTTTGTTTGACAGAT
195 GAGTTATGTCGTAAATGA-ATGTCCCCAAAGTGTAATCGAACTCCAAGGTCTTTG--TGACAGAT
* * *
91747 AACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCATTGGAGCTGAGCATAGTCGAACTTAA
257 AACCCTTCTCGACTTAAGCTATGCTACAAATCATATGCATTGGAGCTGAGCATAGTCGAACTCAA
* ** *
91812 AGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAG
322 AGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTGATACTGTAAATGATATGCCCTCGAAG
* *
91877 CTGGGTGTAATCGAACTCGAGGGTC
387 ATGAGTGTAATCGAACTCGAGGGTC
* * *
91902 TTTGGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAG
1 TTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTAGAGTTGAGCGTAG
* * *
91967 TCAAATTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTT-ATGTTATGCTGTAAATGATA
66 TCAAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAATGTTATGCTGTAAATAATA
*
92031 TGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTAG-TGACAAATAACCCTTCTAACCTT
131 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTT-GTTGACAAATAACCCTTCTAACCTT
92095 GAGTTATG-CTGTAAATG-ATGTGCCCTCGAAGCTGAGTGTAATCGAACT-CAAGGGTCTTTG-G
195 GAGTTATGTC-GTAAATGAATGT-CCC-C-AA----AGTGTAATCGAACTCCAA-GGTCTTTGTG
* * * * *
92156 -CAGATAGCCCTTCTCGACTTAAGTTATGCTATAAATCATATGCCTTGGAGCTGAGCGTAGTCGA
251 ACAGATAACCCTTCTCGACTTAAGCTATGCTACAAATCATATGCATTGGAGCTGAGCATAGTCGA
* *
92220 ACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTATCCTTGAGTGATACTGTAAATGATATGCCC
316 ACTCAAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTGATACTGTAAATGATATGCCC
92285 TCGAAGATGAGTGTAATCGAACTCGAGGGTC
381 TCGAAGATGAGTGTAATCGAACTCGAGGGTC
* * * * * ** * *
92316 TTTGGCAGATAGCCGTTATCGACTTAAGCTATGCTGTAAATGATATAACTTGGAGTTGGGCGTAG
1 TTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTAGAGTTGAGCGTAG
* * * * ** *
92381 TCAAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTTTAGCCTTGA-GTTATATTGTAAATTAT
66 TCAAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCTCGACTTAATGTTATGCTGTAAATAAT
92444 ATGCCTTGG-GCTGAGCGTAGTCGAACTCGAAGGTCTTT
130 ATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
92482 GGTGGGCACG
Statistics
Matches: 501, Mismatches: 65, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
411 6 0.01
412 96 0.19
413 112 0.22
414 257 0.51
415 7 0.01
417 3 0.01
418 20 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (411 bp):
TTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTAGAGTTGAGCGTAG
TCAAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAATGTTATGCTGTAAATAATA
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGACAAATAACCCTTCTAACCTTG
AGTTATGTCGTAAATGAATGTCCCCAAAGTGTAATCGAACTCCAAGGTCTTTGTGACAGATAACC
CTTCTCGACTTAAGCTATGCTACAAATCATATGCATTGGAGCTGAGCATAGTCGAACTCAAAGGT
CTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTGATACTGTAAATGATATGCCCTCGAAGATGA
GTGTAATCGAACTCGAGGGTC
Found at i:92792 original size:110 final size:110
Alignment explanation
Indices: 92608--92970 Score: 520
Period size: 110 Copynumber: 3.3 Consensus size: 110
92598 GTTTCGAGGA
* * * * * *
92608 CAATATCCTTTGCCGTGAAGTTGAAATTGACTC----TGAAACTGAAAAATTATTTGTCGACAGC
1 CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTGACAGT
* *
92669 CAG-CTGCCCCTTCGCTCTGAAGTTGAGCTTGTATTGTCTCGAGTC
66 CAGTC-GCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
* * *
92714 TAATATCATTCGCTGTAAAGTTGAAATTGACTCTGAATGAAACTGAAAACTTGTTTGTTGACAGT
1 CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTGACAGT
* *
92779 CAGTCGCCCCTTCGCTGTAAAGTTGACCTTGTGTTGTCTCGAGTC
66 CAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
* *
92824 CAATATCTTTTGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTGACAGT
1 CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTGACAGT
* *
92889 CAGTTGCCCATTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
66 CAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
*
92934 CAATATCATTCTCTGTGAAGTTGAAATTGACTCTGAA
1 CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAA
92971 AGCTGTAAAA
Statistics
Matches: 227, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
106 28 0.12
110 198 0.87
111 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (110 bp):
CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTGACAGT
CAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
Found at i:93911 original size:96 final size:96
Alignment explanation
Indices: 93746--93931 Score: 277
Period size: 96 Copynumber: 1.9 Consensus size: 96
93736 ACAACTCAAT
* * *
93746 ATATAAACATCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCAGGGCGTTTAACCAATTGCC
1 ATATAAACACCTTTATCAAGTTAGCTGAATCTTATCCATAAAGCCAGGGCATTTAACCAATTGCC
*
93811 TTAGAGGGATAGCTCAAGTTTTATTAAATAG
66 TTAGAGGGATAGCTCAAGCTTTATTAAATAG
* *
93842 ATATAATCACCTTTATCAAGTTAGCT-AGATCTTATTCATAAAGCC-GAGGCATTTAACCAATTG
1 ATATAAACACCTTTATCAAGTTAGCTGA-ATCTTATCCATAAAGCCAG-GGCATTTAACCAATTG
*
93905 CTTTAGAGGGATAGCTCAAGCTTTATT
64 CCTTAGAGGGATAGCTCAAGCTTTATT
93932 GTATATATAA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
95 2 0.02
96 79 0.98
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (96 bp):
ATATAAACACCTTTATCAAGTTAGCTGAATCTTATCCATAAAGCCAGGGCATTTAACCAATTGCC
TTAGAGGGATAGCTCAAGCTTTATTAAATAG
Found at i:96719 original size:14 final size:13
Alignment explanation
Indices: 96700--96838 Score: 73
Period size: 14 Copynumber: 9.9 Consensus size: 13
96690 AAGGTAAAGC
96700 AAATAAAAAGAATA
1 AAATAAAAA-AATA
96714 AAATAAAAAAATA
1 AAATAAAAAAATA
96727 AATATAATAAAAA-A
1 AA-ATAA-AAAAATA
* * *
96741 TATTAAATAAATTA
1 AAATAAA-AAAATA
* *
96755 AGAGAAAAAACATA
1 AAATAAAAAA-ATA
*
96769 ACAATAAAAATAACA
1 A-AATAAAAA-AATA
96784 AAAGTAAAAAAAATA
1 AAA-T-AAAAAAATA
* *
96799 CAAAGAAAATAATA
1 -AAATAAAAAAATA
*
96813 AAATAGAAAAAACA
1 AAATA-AAAAAATA
**
96827 AAGGAAAAAAAT
1 AAATAAAAAAAT
96839 CATTAAAATA
Statistics
Matches: 94, Mismatches: 20, Indels: 23
0.69 0.15 0.17
Matches are distributed among these distances:
12 1 0.01
13 25 0.27
14 41 0.44
15 18 0.19
16 9 0.10
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.16
Consensus pattern (13 bp):
AAATAAAAAAATA
Found at i:96747 original size:19 final size:17
Alignment explanation
Indices: 96710--96778 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 17
96700 AAATAAAAAG
96710 AATAAAATAAAAAAATA
1 AATAAAATAAAAAAATA
*
96727 AATATAATAAAAAATATTA
1 AATAAAATAAAAAA-A-TA
*
96746 AATAAATTAAGAGAAAA-A
1 AATAAAATAA-A-AAAATA
96764 ACATAACAATAAAAA
1 A-ATAA-AATAAAAA
96779 TAACAAAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
17 13 0.31
18 5 0.12
19 15 0.36
20 6 0.14
21 3 0.07
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (17 bp):
AATAAAATAAAAAAATA
Found at i:96801 original size:29 final size:29
Alignment explanation
Indices: 96759--96824 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
96749 AAATTAAGAG
*
96759 AAAAAACATAACAATA-AAAATAACAAAAGT
1 AAAAAAAATAACAA-AGAAAATAACAAAA-T
*
96789 AAAAAAAAT-ACAAAGAAAATAATAAAAT
1 AAAAAAAATAACAAAGAAAATAACAAAAT
*
96817 AGAAAAAA
1 AAAAAAAA
96825 CAAAGGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 9 0.28
29 15 0.47
30 8 0.25
ACGTcount: A:0.77, C:0.06, G:0.05, T:0.12
Consensus pattern (29 bp):
AAAAAAAATAACAAAGAAAATAACAAAAT
Found at i:98136 original size:24 final size:24
Alignment explanation
Indices: 98091--98136 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
98081 CTATATTATA
*
98091 TATAAAAAAATATTTTCCAAAACC
1 TATAAAAAAATATTTTCAAAAACC
* * *
98115 TATAAATATATATTTTTAAAAA
1 TATAAAAAAATATTTTCAAAAA
98137 TATTTTAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (24 bp):
TATAAAAAAATATTTTCAAAAACC
Found at i:98141 original size:12 final size:12
Alignment explanation
Indices: 98124--98170 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
98114 CTATAAATAT
98124 ATATTTTTAAAA
1 ATATTTTTAAAA
98136 ATA-TTTTAAAA
1 ATATTTTTAAAA
* * * *
98147 GTATATTTATAT
1 ATATTTTTAAAA
98159 ATATTTTTAAAA
1 ATATTTTTAAAA
98171 TGTTTTAAAC
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
ATATTTTTAAAA
Found at i:98144 original size:11 final size:11
Alignment explanation
Indices: 98128--98179 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
98118 AAATATATAT
98128 TTTTAAAAATA
1 TTTTAAAAATA
*
98139 TTTTAAAAGTA
1 TTTTAAAAATA
* *
98150 TATTTATATATA
1 T-TTTAAAAATA
* *
98162 TTTTTAAAATG
1 TTTTAAAAATA
98173 TTTTAAA
1 TTTTAAA
98180 CTATATATTA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
11 23 0.74
12 8 0.26
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:98165 original size:35 final size:34
Alignment explanation
Indices: 98120--98234 Score: 112
Period size: 33 Copynumber: 3.4 Consensus size: 34
98110 AAACCTATAA
*
98120 ATATATATTTTTAAAAATATTTTAAAAGTATAT-TT
1 ATATATATTTTT-AAAATATTTT-AAACTATATATT
*
98155 ATATATATTTTTAAAATGTTTTAAACTATATA-T
1 ATATATATTTTTAAAATATTTTAAACTATATATT
* * *
98188 -TATAT-GTTTTCAAATGATTTTCAAACTATATAAT
1 ATATATATTTTTAAAAT-ATTTT-AAACTATATATT
98222 ATATATATGTTTT
1 ATATATAT-TTTT
98235 CAATTTTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
31 8 0.12
32 9 0.13
33 19 0.28
34 10 0.15
35 17 0.25
37 4 0.06
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (34 bp):
ATATATATTTTTAAAATATTTTAAACTATATATT
Found at i:98270 original size:98 final size:98
Alignment explanation
Indices: 98156--98336 Score: 260
Period size: 100 Copynumber: 1.8 Consensus size: 98
98146 AGTATATTTA
* * *
98156 TATATATTTTTAAAATGTTTT-AAACTATATATTATATGTTTTC-AAATGATTTTCAAAC-TATA
1 TATATATTTTCAAAATGTTTTAAAACTATATAATATATGTTTTCAAAATG-TTTTAAAACATA-A
*
98218 TAATATATATATGTTTTCAATTTTTTTTTTAAAAAC
64 T-ATATATAAATGTTTTCAATTTTTTTTTTAAAAAC
*
98254 TATATATTTTCAAAATGTTTTAAAAACTATATAATATATTTTTTCAAAATGTTTTAAAACATAAT
1 TATATATTTTCAAAATGTTTT-AAAACTATATAATATATGTTTTCAAAATGTTTTAAAACATAAT
98319 ATATATAAATGTTTTCAA
65 ATATATAAATGTTTTCAA
98337 ACATGTTTTC
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
98 20 0.27
99 17 0.23
100 30 0.41
101 7 0.09
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (98 bp):
TATATATTTTCAAAATGTTTTAAAACTATATAATATATGTTTTCAAAATGTTTTAAAACATAATA
TATATAAATGTTTTCAATTTTTTTTTTAAAAAC
Found at i:98298 original size:34 final size:33
Alignment explanation
Indices: 98109--98364 Score: 159
Period size: 34 Copynumber: 7.5 Consensus size: 33
98099 AATATTTTCC
* *
98109 AAAACCTATA-AATATATATTTTTAAAAATATTTT
1 AAAA-CTATATAATATAT-TTTTTCAAAATGTTTT
* *
98143 AAAAGTATATTTATATATATTTTT-AAAATGTTTT
1 AAAACTATA-TAATATAT-TTTTTCAAAATGTTTT
* *
98177 -AAACTATATATTATATGTTTTC-AAATGATTTT
1 AAAACTATATAATATATTTTTTCAAAATG-TTTT
* ** *
98209 CAAACTATATAATATATATATGTTTTCAATTTTTTTT
1 AAAACTATAT-A-ATATAT-T-TTTTCAAAATGTTTT
** * *
98246 TTAA--A-A-ACTATATATTTTCAAAATGTTTT
1 AAAACTATATAATATATTTTTTCAAAATGTTTT
98275 AAAAACTATATAATATATTTTTTCAAAATGTTTT
1 -AAAACTATATAATATATTTTTTCAAAATGTTTT
* *
98309 AAAACATAATATATATAAATGTTTTCAAACATGTTTT
1 AAAAC-T-ATATA-ATATATTTTTTCAAA-ATGTTTT
*
98346 CAAATCTATATATATATAT
1 -AAAACTATATA-ATATAT
98365 ATATGAAGAA
Statistics
Matches: 175, Mismatches: 27, Indels: 38
0.73 0.11 0.16
Matches are distributed among these distances:
29 12 0.07
30 2 0.01
31 14 0.08
32 12 0.07
33 26 0.15
34 37 0.21
35 23 0.13
36 24 0.14
37 19 0.11
38 6 0.03
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.48
Consensus pattern (33 bp):
AAAACTATATAATATATTTTTTCAAAATGTTTT
Found at i:98355 original size:98 final size:98
Alignment explanation
Indices: 98156--98358 Score: 243
Period size: 98 Copynumber: 2.1 Consensus size: 98
98146 AGTATATTTA
* * *
98156 TATATATTTTTAAAATGTTTTAAACTATATATTATATGTTTTCAAATGATTTTCAAACTATATAA
1 TATATATTTTCAAAATGTTTTAAACTATATAATATATGTTTTCAAATGATTTTAAAACTATATAA
* *** *
98221 TATATATATGTTTTCAATTTTTTTTTTAAAAAC
66 TATATAAATGTTTTCAATACATGTTTTAAAAAC
*
98254 TATATATTTTCAAAATGTTTTAAAAACTATATAATATATTTTTTCAAAATG-TTTTAAAAC-ATA
1 TATATATTTTCAAAATGTTTT--AAACTATATAATATATGTTTTC-AAATGATTTTAAAACTATA
* *
98317 -ATATATATAAATGTTTTCAA-ACATGTTTTCAAATC
63 TA-ATATATAAATGTTTTCAATACATGTTTTAAAAAC
98352 TATATAT
1 TATATAT
98359 ATATATATAT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
98 37 0.41
99 20 0.22
100 28 0.31
101 5 0.06
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (98 bp):
TATATATTTTCAAAATGTTTTAAACTATATAATATATGTTTTCAAATGATTTTAAAACTATATAA
TATATAAATGTTTTCAATACATGTTTTAAAAAC
Found at i:100034 original size:23 final size:24
Alignment explanation
Indices: 100004--100052 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
99994 TTAGTGAGAA
100004 TTCCATTAAAGTTCATA-TTCAAG
1 TTCCATTAAAGTTCATATTTCAAG
100027 TTCCATTAAAGTTCATATTTCAAG
1 TTCCATTAAAGTTCATATTTCAAG
100051 TT
1 TT
100053 GACATTTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (24 bp):
TTCCATTAAAGTTCATATTTCAAG
Done.