Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_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: 3026330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 14
Found at i:2102321 original size:33 final size:33
Alignment explanation
Indices: 2102276--2102390 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2102266 TCTTTTGGTT
2102276 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2102309 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2102342 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2102375 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2102391 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2102322 original size:19 final size:18
Alignment explanation
Indices: 2102283--2102395 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
2102273 GTTGAAATGA
2102283 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2102298 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2102315 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2102331 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2102348 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
2102364 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
2102381 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
2102396 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:2102426 original size:14 final size:14
Alignment explanation
Indices: 2102407--2102461 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2102397 TTTGGTTTCG
2102407 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2102421 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
2102440 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2102454 CGTTGCGA
1 CGTTGCGA
2102462 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2102486 original size:18 final size:18
Alignment explanation
Indices: 2102418--2102487 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
2102408 GTTGCGATTC
*
2102418 TCTCGTTGCGATTTCCATT
1 TCTCGTTGCGATTTTCA-T
*
2102437 TCGCGTTGCGA--TTC--
1 TCTCGTTGCGATTTTCAT
***
2102451 TCTCGTTGCGACAGTCAT
1 TCTCGTTGCGATTTTCAT
2102469 TCTCGTTGCGATTTTCAT
1 TCTCGTTGCGATTTTCAT
2102487 T
1 T
2102488 TATCTCGTGC
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
14 10 0.25
16 2 0.05
17 2 0.05
18 16 0.40
19 10 0.25
ACGTcount: A:0.11, C:0.26, G:0.20, T:0.43
Consensus pattern (18 bp):
TCTCGTTGCGATTTTCAT
Found at i:2102621 original size:33 final size:33
Alignment explanation
Indices: 2102579--2102649 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2102569 AATACTAACT
*
2102579 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2102612 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2102645 TGAAA
1 TGAAA
2102650 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2102881 original size:22 final size:22
Alignment explanation
Indices: 2102829--2102883 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2102819 TGGTTGTGAG
**
2102829 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2102851 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2102873 GGATTTCTTCG
1 GGATTTCTTCG
2102884 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2103211 original size:60 final size:60
Alignment explanation
Indices: 2103025--2103217 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
2103015 CTTTAAATAT
2103025 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATATGTAT--CGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATATGT-TCGCGTTGCGATTTACGGATA
* * **** *
2103085 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATATGTTCGCGTTGCGATTTACGGATA
* * * ** *
2103145 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATATGTTCGCGTTGCGATTTACGGATA
2103205 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2103218 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
59 5 0.05
60 106 0.95
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATATGTTCGCGTTGCGATTTACGGATA
Found at i:2103218 original size:20 final size:20
Alignment explanation
Indices: 2103025--2103217 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
2103015 CTTTAAATAT
2103025 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
**
2103045 CGCGTTGCGATTTTATATG-TA
1 CGCGTTGCGA-TTTA-CGGATA
*
2103066 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2103085 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2103105 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2103125 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2103145 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2103165 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2103185 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2103205 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2103218 TGGAAAATCG
Statistics
Matches: 145, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
18 1 0.01
19 6 0.04
20 130 0.90
21 7 0.05
22 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2103234 original size:21 final size:20
Alignment explanation
Indices: 2103210--2103286 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
2103200 ATATTCGCGT
2103210 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
2103231 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
2103251 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
2103273 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
2103287 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:2103297 original size:20 final size:20
Alignment explanation
Indices: 2103272--2103323 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2103262 AAGAATCGCG
*
2103272 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2103292 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2103312 TTGCGATTCTGG
1 TTGCGATTCTGG
2103324 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2107014 original size:24 final size:24
Alignment explanation
Indices: 2106987--2107035 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2106977 AGTTAAAATG
*
2106987 ATAAACGAACGCACGTAAACAAAC
1 ATAAACGAACGAACGTAAACAAAC
* *
2107011 ATAAACGAACGAATGTAAACGAAC
1 ATAAACGAACGAACGTAAACAAAC
2107035 A
1 A
2107036 AACATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.55, C:0.20, G:0.14, T:0.10
Consensus pattern (24 bp):
ATAAACGAACGAACGTAAACAAAC
Found at i:2107043 original size:14 final size:14
Alignment explanation
Indices: 2107004--2107043 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2106994 AACGCACGTA
2107004 AACAAACATAAACG
1 AACAAACATAAACG
* **
2107018 AACGAATGTAAACG
1 AACAAACATAAACG
2107032 AACAAACATAAA
1 AACAAACATAAA
2107044 ATTAAATAAG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.62, C:0.17, G:0.10, T:0.10
Consensus pattern (14 bp):
AACAAACATAAACG
Found at i:2109163 original size:17 final size:17
Alignment explanation
Indices: 2109141--2109174 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2109131 AGTCCTAAAA
2109141 ATTTAAAATTATTATAT
1 ATTTAAAATTATTATAT
*
2109158 ATTTAAAATTTTTATAT
1 ATTTAAAATTATTATAT
2109175 GTATTTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAAAATTATTATAT
Found at i:2109269 original size:2 final size:2
Alignment explanation
Indices: 2109262--2109302 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2109252 GTGTACTCAC
2109262 TA TA TA TA TA 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 TA TA TA TA TA T
2109303 GCCACGAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2120962 original size:23 final size:23
Alignment explanation
Indices: 2120931--2121120 Score: 168
Period size: 23 Copynumber: 8.2 Consensus size: 23
2120921 TGTTCATTCA
* *
2120931 TTTAACGTTCGTGAACATGTTCG
1 TTTAGCGTTCGCGAACATGTTCG
* *
2120954 TTTAGCGTTCGCAAACACGTTCG
1 TTTAGCGTTCGCGAACATGTTCG
* * *
2120977 TTTAGTGATCACGAACATGTTCG
1 TTTAGCGTTCGCGAACATGTTCG
*
2121000 TTTAAACGTTCGCGAACATGTTCG
1 TTT-AGCGTTCGCGAACATGTTCG
* * *
2121024 TTTAAACGTTCGCGAATATGCTCG
1 TTT-AGCGTTCGCGAACATGTTCG
* *
2121048 TTTAGCGTTCGTGAACACGTTCG
1 TTTAGCGTTCGCGAACATGTTCG
** *
2121071 TTTAGCGTTCAAGAATATGTT-G
1 TTTAGCGTTCGCGAACATGTTCG
* *
2121093 ATTTGGCGTTCGCGGAA-ATGATCG
1 -TTTAGCGTTCGC-GAACATGTTCG
2121117 TTTA
1 TTTA
2121121 TATATGTTCA
Statistics
Matches: 134, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
22 1 0.01
23 88 0.66
24 45 0.34
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (23 bp):
TTTAGCGTTCGCGAACATGTTCG
Found at i:2121102 original size:46 final size:47
Alignment explanation
Indices: 2120951--2121106 Score: 138
Period size: 47 Copynumber: 3.3 Consensus size: 47
2120941 GTGAACATGT
* ** * * * *
2120951 TCGTTTAGCGTTCGCAAACACGTTCGTTT-AGTGATCACGAACATGT
1 TCGTTTAGCGTTCGCGAACACGTTCGTTTAAACGTTCAAGAATATGC
* * **
2120997 TCGTTTAAACGTTCGCGAACATGTTCGTTTAAACGTTCGCGAATATGC
1 TCGTTT-AGCGTTCGCGAACACGTTCGTTTAAACGTTCAAGAATATGC
* *
2121045 TCGTTTAGCGTTCGTGAACACGTTCGTTT-AGCGTTCAAGAATATG-
1 TCGTTTAGCGTTCGCGAACACGTTCGTTTAAACGTTCAAGAATATGC
* *
2121090 TTGATTTGGCGTTCGCG
1 TCG-TTTAGCGTTCGCG
2121107 GAAATGATCG
Statistics
Matches: 89, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
45 2 0.02
46 30 0.34
47 40 0.45
48 17 0.19
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (47 bp):
TCGTTTAGCGTTCGCGAACACGTTCGTTTAAACGTTCAAGAATATGC
Found at i:2121549 original size:40 final size:43
Alignment explanation
Indices: 2121494--2121603 Score: 145
Period size: 45 Copynumber: 2.6 Consensus size: 43
2121484 GACGATTATA
2121494 AACATAAACATTTAAAGTTAGAGCA-T-AAAC-AATTAGCAGC
1 AACATAAACATTTAAAGTTAGAGCAGTAAAACAAATTAGCAGC
* ** *
2121534 AACATAAACATTTAAAGTAAAGAATAGTAAAACGAAATTAGCAGT
1 AACATAAACATTTAAAGT-TAGAGCAGTAAAAC-AAATTAGCAGC
2121579 AACATAAACATTTAAAGTTAGAGCA
1 AACATAAACATTTAAAGTTAGAGCA
2121604 AATAAGAGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 18 0.31
41 4 0.07
42 1 0.02
43 4 0.07
44 4 0.07
45 27 0.47
ACGTcount: A:0.53, C:0.12, G:0.13, T:0.23
Consensus pattern (43 bp):
AACATAAACATTTAAAGTTAGAGCAGTAAAACAAATTAGCAGC
Found at i:2122435 original size:3 final size:3
Alignment explanation
Indices: 2122427--2122452 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2122417 ACAAGGATGG
2122427 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
2122453 AACCCAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:2132279 original size:14 final size:14
Alignment explanation
Indices: 2132244--2132293 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
2132234 GAATTGTTTC
*
2132244 GTTTGTATTTAA-T
1 GTTTATATTTAATT
2132257 GTTTATATTTAATT
1 GTTTATATTTAATT
*
2132271 GTTTCTATTTAATT
1 GTTTATATTTAATT
*
2132285 GTTTTTATT
1 GTTTATATT
2132294 ATTTAGTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
13 11 0.33
14 22 0.67
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (14 bp):
GTTTATATTTAATT
Found at i:2132302 original size:28 final size:27
Alignment explanation
Indices: 2132221--2132302 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 27
2132211 ATGTTTTTAT
* * *
2132221 TATTTAATTATTTGA-ATTGTTTCGTTTG
1 TATTTAATTGTTT-ATATTATTT-GTTTC
*
2132249 TATTTAA-TGTTTATATTTAATTGTTTC
1 TATTTAATTGTTTATA-TTATTTGTTTC
*
2132276 TATTTAATTGTTTTTATTATTTAGTTT
1 TATTTAATTGTTTATATTATTT-GTTT
2132303 GTAAACTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 21 0.48
28 22 0.50
ACGTcount: A:0.23, C:0.02, G:0.10, T:0.65
Consensus pattern (27 bp):
TATTTAATTGTTTATATTATTTGTTTC
Found at i:2134073 original size:20 final size:20
Alignment explanation
Indices: 2134044--2134095 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2134034 AGTTAAGGAA
2134044 TGTACCGATGCACTACAGAG
1 TGTACCGATGCACTACAGAG
*
2134064 TGTACTGATGCACTACAGAG
1 TGTACCGATGCACTACAGAG
2134084 TGTACCGATGCA
1 TGTACCGATGCA
2134096 TACCTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (20 bp):
TGTACCGATGCACTACAGAG
Found at i:2139025 original size:2 final size:2
Alignment explanation
Indices: 2139018--2139053 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2139008 TATTTACAAA
2139018 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2139054 TAGAGTAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2143236 original size:6 final size:6
Alignment explanation
Indices: 2143227--2143256 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
2143217 TTAATAAAAA
2143227 TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT
2143257 GGATTAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:2147748 original size:25 final size:25
Alignment explanation
Indices: 2147699--2147748 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2147689 CACTTTTAAT
* *
2147699 AAATTAAAATAAATTATATATTTTA
1 AAATTAAAATAAATAAAATATTTTA
2147724 AAATTAAAA-AAATAAAATATATTTA
1 AAATTAAAATAAATAAAATAT-TTTA
2147749 CATTAAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAATTAAAATAAATAAAATATTTTA
Found at i:2148023 original size:38 final size:39
Alignment explanation
Indices: 2147919--2148036 Score: 111
Period size: 38 Copynumber: 3.1 Consensus size: 39
2147909 TTTAAAAGTT
* *
2147919 AATTTAGAATGTTAAT-ATGAAATAATTTAAGAAATTAAG
1 AATTTAGAACGTT-ATGGTGAAATAATTTAAGAAATTAAG
* *
2147958 AATTTAGAACGTTATGGTGTCAA-AATTT-AGAAATTAGG
1 AATTTAGAACGTTATGGTG-AAATAATTTAAGAAATTAAG
* * *
2147996 ATTTTAGAACGTTA-GAGTGAAATAATTTGAG-AATTATG
1 AATTTAGAACGTTATG-GTGAAATAATTTAAGAAATTAAG
2148034 AAT
1 AAT
2148037 AAAAAGGAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
37 3 0.05
38 40 0.61
39 21 0.32
40 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.36
Consensus pattern (39 bp):
AATTTAGAACGTTATGGTGAAATAATTTAAGAAATTAAG
Found at i:2150048 original size:2 final size:2
Alignment explanation
Indices: 2150010--2150034 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2150000 AAAATTAAGA
2150010 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2150035 ATAATAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2150149 original size:2 final size:2
Alignment explanation
Indices: 2150142--2150172 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2150132 ATATTAAAGA
*
2150142 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2150173 ATAATAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2150190 original size:15 final size:15
Alignment explanation
Indices: 2150170--2150207 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2150160 ATATATATAT
*
2150170 ATAATAATAACATAA
1 ATAATAATAAAATAA
*
2150185 ATAATAAAAAAATAA
1 ATAATAATAAAATAA
2150200 ATAA-AATA
1 ATAATAATA
2150208 TCCCATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAATAATAAAATAA
Found at i:2151279 original size:102 final size:102
Alignment explanation
Indices: 2151029--2151715 Score: 1034
Period size: 102 Copynumber: 6.6 Consensus size: 102
2151019 ATGGATGATG
*
2151029 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
* *
2151094 GCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCC
66 GCTCTGAAATTGAGAA---GTTGTTGACAAGCAGCGGTCC
* *
2151134 CTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
** * *
2151199 GCTCTGCGATTGGGAAGTTATTGACAAGCAGCGGTCC
66 GCTCTGAAATTGAGAAGTTGTTGACAAGCAGCGGTCC
2151236 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
2151301 GCTCTGAAATTGAGAAGTTGTGTTGACAAGCAGCGGTCC
66 GCTCTGAAATTGAGAAG-T-TGTTGACAAGCAGCGGTCC
* *
2151340 CTTCGTCGTGAAGTTGAACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
* *
2151405 GTTCTGAAATTGAGAAGTTGTTGACAGGCAGCGGTCC
66 GCTCTGAAATTGAGAAGTTGTTGACAAGCAGCGGTCC
*
2151442 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
*
2151507 GCTCTGAAATTGAGAAGTTGTTGACAGGCAGCGGTCC
66 GCTCTGAAATTGAGAAGTTGTTGACAAGCAGCGGTCC
*
2151544 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
* **
2151609 GCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTTGTCC
66 GCTCTGAAATTGAGAA---G-TTGTTGACAAGCAGCGGTCC
* * * * *
2151650 CTTCGTTGTGAAGTTGAACTTGTGTTGCCTCG-AGTGCCACGATATCCTCCGTTGTGGAGTTGAA
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAAGT-CCA--ATATCCTTCGTTGTGAAGTTGAA
2151714 AT
62 AT
2151716 CGCGGATGGC
Statistics
Matches: 546, Mismatches: 26, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
102 294 0.54
103 2 0.00
104 97 0.18
105 80 0.15
106 46 0.08
107 4 0.01
109 23 0.04
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (102 bp):
CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
GCTCTGAAATTGAGAAGTTGTTGACAAGCAGCGGTCC
Found at i:2151401 original size:206 final size:206
Alignment explanation
Indices: 2151029--2151715 Score: 1074
Period size: 206 Copynumber: 3.3 Consensus size: 206
2151019 ATGGATGATG
*
2151029 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
* *
2151094 GCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCAT
66 GCTCTGAAATTGAGAAGTTG-TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCAT
** * *
2151159 TGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTATTGAC
130 TGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGAC
2151224 AAGCAGCGGTCC
195 AAGCAGCGGTCC
2151236 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
2151301 GCTCTGAAATTGAGAAGTTGTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATT
66 GCTCTGAAATTGAGAAGTTGTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATT
* * *
2151366 GTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAAGTTGTTGACA
131 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGACA
*
2151431 GGCAGCGGTCC
196 AGCAGCGGTCC
*
2151442 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
* *
2151507 GCTCTGAAATTGAGAAG-T-TGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
66 GCTCTGAAATTGAGAAGTTGTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATT
2151570 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTT
131 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA---G-TTGTT
* **
2151635 GACAACCAGTTGTCC
192 GACAAGCAGCGGTCC
* * * * *
2151650 CTTCGTTGTGAAGTTGAACTTGTGTTGCCTCG-AGTGCCACGATATCCTCCGTTGTGGAGTTGAA
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAAGT-CCA--ATATCCTTCGTTGTGAAGTTGAA
2151714 AT
62 AT
2151716 CGCGGATGGC
Statistics
Matches: 445, Mismatches: 27, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
204 95 0.21
205 1 0.00
206 194 0.44
207 83 0.19
208 46 0.10
209 4 0.01
211 22 0.05
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (206 bp):
CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
GCTCTGAAATTGAGAAGTTGTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATT
GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGACA
AGCAGCGGTCC
Found at i:2151590 original size:308 final size:310
Alignment explanation
Indices: 2151029--2151671 Score: 1065
Period size: 308 Copynumber: 2.1 Consensus size: 310
2151019 ATGGATGATG
* * *
2151029 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTG
* *
2151094 GCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCAT
66 GCTCTGAAATTGAGAA--TGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCAT
* * ** *
2151159 TGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTATTGAC
129 TGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTGAC
2151224 AAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTG
194 AAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTG
*
2151289 AAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TGTTGACAAGCAGCGGTCC
259 AAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGGTCC
2151340 CTTCGTCGTGAAGTTGAACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTG
* * *
2151405 GTTCTGAAATTGAGAA-GTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
66 GCTCTGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTG
* *
2151469 TCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGACAG
131 TCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTGACAA
*
2151534 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
196 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAA
**
2151599 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTTGTCC
261 GTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAACCAGCGGTCC
*
2151650 CTTCGTTGTGAAGTTGAACTTG
1 CTTCGTCGTGAAGTTGAACTTG
2151672 TGTTGCCTCG
Statistics
Matches: 310, Mismatches: 20, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
308 198 0.64
310 37 0.12
311 75 0.24
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (310 bp):
CTTCGTCGTGAAGTTGAACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTG
GCTCTGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTG
TCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTGACAA
GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGGTCC
Found at i:2152452 original size:67 final size:66
Alignment explanation
Indices: 2152317--2152474 Score: 203
Period size: 68 Copynumber: 2.4 Consensus size: 66
2152307 AAGATATCTG
* * **
2152317 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGA-
2152382 TT
65 TT
* *
2152384 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGAA-AAAATT-TGTTTTAGGGGAAATAAATTCAAAG
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGA-AACAAAATTATGTTTTAAGGGAAATAAATTCAAAG
*
2152447 GTT
64 ATT
*
2152450 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
2152475 ATAGACGAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
65 22 0.28
66 3 0.04
67 23 0.29
68 30 0.38
69 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (66 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGAT
T
Found at i:2152501 original size:36 final size:36
Alignment explanation
Indices: 2152450--2152573 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
2152440 TTCAAAGGTT
*
2152450 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* *
2152486 TTGTTTCAAGAGAAACTGTCTTAAGAGAGAC-AAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* * *
2152521 CTTAGTTCCAAGGGAAACTATCTCAAGAGAGACGAAAT
1 -TT-GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
*
2152559 TTATTTCAAGGGAAA
1 TTGTTTCAAGGGAAA
2152574 TGTTTTCAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 4 0.05
36 41 0.55
37 27 0.36
38 3 0.04
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (36 bp):
TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
Found at i:2153561 original size:22 final size:22
Alignment explanation
Indices: 2153536--2153579 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2153526 CATTTTTGTT
2153536 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
2153558 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
2153580 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:2154195 original size:12 final size:11
Alignment explanation
Indices: 2154179--2154237 Score: 66
Period size: 12 Copynumber: 5.0 Consensus size: 11
2154169 TTTTTGTCCC
2154179 TTTTTCTTTTT
1 TTTTTCTTTTT
2154190 TCTTTT-TGTTCTT
1 T-TTTTCT-TT-TT
2154203 TTTTTGCTTTTT
1 TTTTT-CTTTTT
2154215 TTTTTGCTTTTT
1 TTTTT-CTTTTT
2154227 TTTTTCTTTTT
1 TTTTTCTTTTT
2154238 GCCCTTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.19
12 29 0.67
13 5 0.12
14 1 0.02
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:2154201 original size:9 final size:8
Alignment explanation
Indices: 2154179--2154237 Score: 61
Period size: 8 Copynumber: 7.4 Consensus size: 8
2154169 TTTTTGTCCC
2154179 TTTTTC-T
1 TTTTTCTT
2154186 TTTTTCTT
1 TTTTTCTT
2154194 TTTGTTCTT
1 TTT-TTCTT
2154203 TTTTTGCTT
1 TTTTT-CTT
2154212 TTTTT-TT
1 TTTTTCTT
*
2154219 TGCTTT-TT
1 T-TTTTCTT
2154227 TTTTTCTT
1 TTTTTCTT
2154235 TTT
1 TTT
2154238 GCCCTTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
7 12 0.27
8 17 0.38
9 16 0.36
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (8 bp):
TTTTTCTT
Found at i:2154205 original size:23 final size:22
Alignment explanation
Indices: 2154167--2154237 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 22
2154157 TTTGCATGTG
* *
2154167 TTTTTTTGTCCCTTTTTCTTTT
1 TTTTTTTGTTCTTTTTTCTTTT
2154189 TTCTTTTTGTTCTTTTTT-TGCTTT
1 TT-TTTTTGTTCTTTTTTCT--TTT
*
2154213 TTTTTTTGCTTTTTTTTTTCTTTT
1 TTTTTTTG--TTCTTTTTTCTTTT
2154237 T
1 T
2154238 GCCCTTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
22 3 0.08
23 19 0.47
24 9 0.22
25 8 0.20
26 1 0.03
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.82
Consensus pattern (22 bp):
TTTTTTTGTTCTTTTTTCTTTT
Found at i:2154208 original size:11 final size:11
Alignment explanation
Indices: 2154192--2154237 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
2154182 TTCTTTTTTC
2154192 TTTTTGTTCTT
1 TTTTTGTTCTT
2154203 TTTTTGCTT-TT
1 TTTTTG-TTCTT
*
2154214 TTTTT-TGCTT
1 TTTTTGTTCTT
*
2154224 TTTTTTTTCTT
1 TTTTTGTTCTT
2154235 TTT
1 TTT
2154238 GCCCTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 1 0.03
10 7 0.23
11 20 0.67
12 2 0.07
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.85
Consensus pattern (11 bp):
TTTTTGTTCTT
Found at i:2154245 original size:18 final size:18
Alignment explanation
Indices: 2154210--2154251 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
2154200 CTTTTTTTGC
**
2154210 TTTTT-TTTTTGCTTTTT
1 TTTTTCTTTTTGCCCTTT
2154227 TTTTTCTTTTTGCCCTTT
1 TTTTTCTTTTTGCCCTTT
*
2154245 TTATTCT
1 TTTTTCT
2154252 GATTAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTTGCCCTTT
Found at i:2154245 original size:32 final size:33
Alignment explanation
Indices: 2154167--2154246 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 33
2154157 TTTGCATGTG
*
2154167 TTTTTTTGTCCCTTTTTCTTTTTTCTTTTTGTTC
1 TTTTTTTG-CCCTTTTTCTTTTTGCTTTTTGTTC
*
2154201 TTTTTTTG--CTTTTT-TTTTTGCTTTTT-TTT
1 TTTTTTTGCCCTTTTTCTTTTTGCTTTTTGTTC
2154230 TTCTTTTTGCCCTTTTT
1 TT-TTTTTGCCCTTTTT
2154247 ATTCTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 4 0.10
30 17 0.41
31 6 0.15
32 6 0.15
34 8 0.20
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (33 bp):
TTTTTTTGCCCTTTTTCTTTTTGCTTTTTGTTC
Found at i:2157290 original size:9 final size:9
Alignment explanation
Indices: 2157276--2157309 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
2157266 TAAAAGGGAA
2157276 AAATAAAAT
1 AAATAAAAT
2157285 AAATAAAAT
1 AAATAAAAT
2157294 AAAT-AAAT
1 AAATAAAAT
2157302 AAGATAAA
1 AA-ATAAA
2157310 GGAAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.26
9 15 0.65
10 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:2157297 original size:13 final size:13
Alignment explanation
Indices: 2157275--2157309 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
2157265 GTAAAAGGGA
2157275 AAAATAAAATAAAT
1 AAAAT-AAATAAAT
2157289 AAAATAAATAAAT
1 AAAATAAATAAAT
*
2157302 AAGATAAA
1 AAAATAAA
2157310 GGAAAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:2157785 original size:2 final size:2
Alignment explanation
Indices: 2157778--2157808 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2157768 TATTAAAGAA
2157778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2157809 ATAACATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2172004 original size:48 final size:48
Alignment explanation
Indices: 2171951--2172055 Score: 174
Period size: 48 Copynumber: 2.2 Consensus size: 48
2171941 TTTTGGTGGT
** * *
2171951 TTGAGATAAATCTGGAAACATATGAATATGAAATATCCGGTAAAATGG
1 TTGAGATAAAAATAGAAACATATGAATATGAAATATCCAGTAAAATGG
2171999 TTGAGATAAAAATAGAAACATATGAATATGAAATATCCAGTAAAATGG
1 TTGAGATAAAAATAGAAACATATGAATATGAAATATCCAGTAAAATGG
2172047 TTGAGATAA
1 TTGAGATAA
2172056 TGCAAGTGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.27
Consensus pattern (48 bp):
TTGAGATAAAAATAGAAACATATGAATATGAAATATCCAGTAAAATGG
Found at i:2173462 original size:31 final size:31
Alignment explanation
Indices: 2173427--2173496 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
2173417 ATTATATGGA
*
2173427 TGATCACTTATATTTGTATTTTTTCCACTTT
1 TGATCACTTATATTTGTATTTTGTCCACTTT
*
2173458 TGATCACTTATATTTGTGTTTTGTCCACTTT
1 TGATCACTTATATTTGTATTTTGTCCACTTT
2173489 TGATCACT
1 TGATCACT
2173497 GATTTCGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.54
Consensus pattern (31 bp):
TGATCACTTATATTTGTATTTTGTCCACTTT
Found at i:2173698 original size:18 final size:19
Alignment explanation
Indices: 2173675--2173718 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
2173665 TTTAAATAAA
*
2173675 TTTTAAA-ATAAAAAATAT
1 TTTTAAAGAAAAAAAATAT
*
2173693 TTTTAAATGAAAAAAAATGT
1 TTTTAAA-GAAAAAAAATAT
2173713 TTTTAA
1 TTTTAA
2173719 GTTAAGCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
20 15 0.68
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
TTTTAAAGAAAAAAAATAT
Found at i:2173700 original size:17 final size:18
Alignment explanation
Indices: 2173674--2173707 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2173664 TTTTAAATAA
2173674 ATTTTAAAAT-AAAAAAT
1 ATTTTAAAATGAAAAAAT
*
2173691 ATTTTTAAATGAAAAAA
1 ATTTTAAAATGAAAAAA
2173708 AATGTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
ATTTTAAAATGAAAAAAT
Found at i:2173778 original size:24 final size:24
Alignment explanation
Indices: 2173706--2173780 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
2173696 TAAATGAAAA
*
2173706 AAAATGTTTTTAAGTTAAGCTAATAAT
1 AAAATATTTTTAAGTTAA--TAAT-AT
* * *
2173733 AAAATATATTTAA-TCATTTAATAT
1 AAAATATTTTTAAGTTA-ATAATAT
2173757 AAAATATTTTTAAGTTAATAATAT
1 AAAATATTTTTAAGTTAATAATAT
2173781 TATATATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
24 20 0.51
25 6 0.15
26 2 0.05
27 11 0.28
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (24 bp):
AAAATATTTTTAAGTTAATAATAT
Found at i:2180192 original size:25 final size:25
Alignment explanation
Indices: 2180158--2180206 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
2180148 AAGAAGACAT
2180158 GGGATCAGTATAGGGATGGCAACGA
1 GGGATCAGTATAGGGATGGCAACGA
2180183 GGGATCAGTATAGGGATGGCAACG
1 GGGATCAGTATAGGGATGGCAACG
2180207 GATCGAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.41, T:0.16
Consensus pattern (25 bp):
GGGATCAGTATAGGGATGGCAACGA
Found at i:2185340 original size:6 final size:6
Alignment explanation
Indices: 2185332--2185365 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2185322 CCATTTTCCT
* *
2185332 TTGCCT TTGCCT TTGCCA TTGCCA TTGCCA TTGC
1 TTGCCA TTGCCA TTGCCA TTGCCA TTGCCA TTGC
2185366 GTCTTCAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.09, C:0.32, G:0.18, T:0.41
Consensus pattern (6 bp):
TTGCCA
Found at i:2185346 original size:12 final size:12
Alignment explanation
Indices: 2185329--2185365 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
2185319 TCACCATTTT
*
2185329 CCTTTGCCTTTG
1 CCTTTGCCATTG
2185341 CCTTTGCCATTG
1 CCTTTGCCATTG
*
2185353 CCATTGCCATTG
1 CCTTTGCCATTG
2185365 C
1 C
2185366 GTCTTCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.08, C:0.35, G:0.16, T:0.41
Consensus pattern (12 bp):
CCTTTGCCATTG
Found at i:2189414 original size:64 final size:64
Alignment explanation
Indices: 2189341--2189500 Score: 193
Period size: 64 Copynumber: 2.5 Consensus size: 64
2189331 TGTTTGAATA
* * **
2189341 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAA-TC
2189404 -G
63 GG
* * *
2189405 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCGG
2189469 TGCATCGATGCATAAGG-AGTGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
2189501 AAGGAGTGCA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 2 0.02
64 75 0.89
65 7 0.08
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCGG
Found at i:2189428 original size:19 final size:19
Alignment explanation
Indices: 2189404--2189519 Score: 85
Period size: 19 Copynumber: 5.7 Consensus size: 19
2189394 AATGCAATTC
2189404 GTGCATCGATGCATAAGTA
1 GTGCATCGATGCATAAGTA
*
2189423 GTGCATCGATGCATCCCATTAATA
1 GTGCATCGATGCAT---A--AGTA
*
2189447 GTGAAACATCGAATGC--AA-TC
1 GTG---CATCG-ATGCATAAGTA
*
2189467 GGTGCATCGATGCATAAGGA
1 G-TGCATCGATGCATAAGTA
*
2189487 GTGCATCGATGCATAAGGA
1 GTGCATCGATGCATAAGTA
2189506 GTGCATCGATGCAT
1 GTGCATCGATGCAT
2189520 CCCAGAAATA
Statistics
Matches: 80, Mismatches: 4, Indels: 26
0.73 0.04 0.24
Matches are distributed among these distances:
17 4 0.05
18 5 0.06
19 48 0.60
20 3 0.04
21 3 0.04
22 1 0.01
23 1 0.01
24 6 0.08
27 5 0.06
28 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (19 bp):
GTGCATCGATGCATAAGTA
Found at i:2189561 original size:83 final size:83
Alignment explanation
Indices: 2189404--2189584 Score: 211
Period size: 83 Copynumber: 2.2 Consensus size: 83
2189394 AATGCAATTC
* ** * * * *
2189404 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCGG
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGAAATAATGAAACATCAAATACAATCGA
*
2189469 TGCATCGATGCATAAGGA
66 TGCACCGATGCATAAGGA
* ** **
2189487 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGAAATAAT-ACTACATCAAATACCTTTT
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGAAATAATGA-AACATCAAATACAATCG
* *
2189551 ATGCACCGATGCATCAGTA
65 ATGCACCGATGCATAAGGA
2189570 GTGCATCGATGCATA
1 GTGCATCGATGCATA
2189585 CCTTCATTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
82 1 0.01
83 81 0.99
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (83 bp):
GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGAAATAATGAAACATCAAATACAATCGA
TGCACCGATGCATAAGGA
Found at i:2189909 original size:12 final size:12
Alignment explanation
Indices: 2189891--2189926 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2189881 TATATATGTT
2189891 CATGTGATATGA
1 CATGTGATATGA
*
2189903 TATGTGATATGA
1 CATGTGATATGA
*
2189915 CCTGTGATATGA
1 CATGTGATATGA
2189927 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:2190088 original size:15 final size:15
Alignment explanation
Indices: 2190070--2190113 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
2190060 CGAGGGTATA
*
2190070 ATAGTCATTCGGGAC
1 ATAGTCCTTCGGGAC
*
2190085 ATAGTCCTTCAGGAC
1 ATAGTCCTTCGGGAC
*
2190100 GTAGTCCTTCGGGA
1 ATAGTCCTTCGGGA
2190114 TGTAGGAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (15 bp):
ATAGTCCTTCGGGAC
Found at i:2190118 original size:15 final size:15
Alignment explanation
Indices: 2190071--2190118 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
2190061 GAGGGTATAA
* *
2190071 TAGTCATTCGGGACA
1 TAGTCCTTCGGGACG
*
2190086 TAGTCCTTCAGGACG
1 TAGTCCTTCGGGACG
*
2190101 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
2190116 TAG
1 TAG
2190119 GAGTCCTACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:2196312 original size:63 final size:63
Alignment explanation
Indices: 2196239--2196402 Score: 185
Period size: 64 Copynumber: 2.6 Consensus size: 63
2196229 TTTTTTGAAT
* * *
2196239 GTGCATCGATGCATTGGTAGTGTATCGATGCA-CTATTTTAA-A-TAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCACCCA--TTAATAGTAAA-ACATCGAATGCAA-T
2196301 C-
62 CA
* *
2196302 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCA
1 GTGCATCGATGCATAGGTAGTGCATCGATGCA-CCCATTAATAGTAAAACATCGAATGCAATCA
2196366 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCA
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCA-CCCA
2196403 GCAATAATAC
Statistics
Matches: 89, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
63 35 0.39
64 47 0.53
65 7 0.08
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (63 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCACCCATTAATAGTAAAACATCGAATGCAATCA
Found at i:2196418 original size:64 final size:64
Alignment explanation
Indices: 2196286--2196462 Score: 207
Period size: 64 Copynumber: 2.8 Consensus size: 64
2196276 TTAAATAAAG
** *
2196286 ACATCGAATGCAATTC-GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAA
1 ACATCGAATGCAA-TCAGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGAA
* *
2196350 ACATCGAATGCAATCAGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAAT-ACT
1 ACATCGAATGCAATCAGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGA-A
* ** * * *
2196414 ACATCGAATACCTTTTA-TGCACCGATGCATCAGTAGTGCATCGATGCAT
1 ACATCGAAT-GCAATCAGTGCATCGATGCATAAGTAGTGCATCGATGCAT
2196463 ACCTTCATTA
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
63 3 0.03
64 92 0.94
65 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (64 bp):
ACATCGAATGCAATCAGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGAA
Found at i:2196786 original size:12 final size:12
Alignment explanation
Indices: 2196768--2196803 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2196758 TATATATGTT
2196768 CATGTGATATGA
1 CATGTGATATGA
*
2196780 TATGTGATATGA
1 CATGTGATATGA
*
2196792 CCTGTGATATGA
1 CATGTGATATGA
2196804 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:2196850 original size:24 final size:23
Alignment explanation
Indices: 2196800--2196850 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
2196790 GACCTGTGAT
* *
2196800 ATGAGAACATGATATGAAGTGAT
1 ATGAGAACATGATATGAAGAGAA
2196823 ATGAGATACATGATCAT-AAGAGAA
1 ATGAGA-ACATGAT-ATGAAGAGAA
2196847 ATGA
1 ATGA
2196851 TATGAGTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 16 0.67
25 2 0.08
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.24
Consensus pattern (23 bp):
ATGAGAACATGATATGAAGAGAA
Found at i:2198718 original size:66 final size:63
Alignment explanation
Indices: 2198612--2198773 Score: 168
Period size: 64 Copynumber: 2.5 Consensus size: 63
2198602 TTGTTGAAGG
* *
2198612 TGCATCGATTCATAAGGAGTGCATCGATGCACTCATTTAAATTAAATGAACATCGAAT-GCCATG
1 TGCATCGATGCATAAGGAGTGCATCGATGCACTCA-TTAAAATAAA--AACATCGAATAG-CATG
2198676 GA
62 GA
* * **
2198678 TGCATCGATGCATAAGGAGTGCATCGATGCACATTC-TTAAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAC--TCATTAAAATAAAAACATCGAATAGCATGGA
* *
2198742 TGCACCGATGCAT-GGGTAGTGCATCGATGCAC
1 TGCATCGATGCATAAGG-AGTGCATCGATGCAC
2198774 CCGTCAAGGG
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
63 2 0.02
64 40 0.48
65 1 0.01
66 39 0.46
68 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCACTCATTAAAATAAAAACATCGAATAGCATGGA
Found at i:2199395 original size:2 final size:2
Alignment explanation
Indices: 2199388--2199464 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
2199378 CATGAGTTAG
2199388 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2199430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2199465 GGAATTTGTA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2203225 original size:118 final size:119
Alignment explanation
Indices: 2203015--2203259 Score: 422
Period size: 118 Copynumber: 2.1 Consensus size: 119
2203005 GGATTAGATC
2203015 TATTGAGGAAATTGTTGAATGCGTTAGGGGTTTGTGAAGATTCACTTACAGGTTTGTTCCATTAA
1 TATTGAGGAAATTGTTGAATGCGTTAGGGG-TTGTGAAGATTCACTTACAGGTTTGTTCCATTAA
2203080 TAAGCTTGATGGAGTGACTTTGTTCTATGTAATAGATGGGGAATCTGATTTGAAT
65 TAAGCTTGATGGAGTGACTTTGTTCTATGTAATAGATGGGGAATCTGATTTGAAT
*
2203135 TATTGAGGAAATTGTTGAATGCGTTAGGGG-TGTGAAGATTCGCTTACAGG-TTGTTCCATTAAT
1 TATTGAGGAAATTGTTGAATGCGTTAGGGGTTGTGAAGATTCACTTACAGGTTTGTTCCATTAAT
* *
2203198 AGGCTTGATGGAGTGAACTTTGTTCTATGTAATATATGGGGAATCTGATTTGAAT
66 AAGCTTGATGGAGTG-ACTTTGTTCTATGTAATAGATGGGGAATCTGATTTGAAT
2203253 TACTTGA
1 TA-TTGA
2203260 CTGTTGTTGA
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
117 27 0.22
118 59 0.49
119 4 0.03
120 30 0.25
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.38
Consensus pattern (119 bp):
TATTGAGGAAATTGTTGAATGCGTTAGGGGTTGTGAAGATTCACTTACAGGTTTGTTCCATTAAT
AAGCTTGATGGAGTGACTTTGTTCTATGTAATAGATGGGGAATCTGATTTGAAT
Found at i:2204502 original size:119 final size:120
Alignment explanation
Indices: 2204291--2204536 Score: 433
Period size: 119 Copynumber: 2.0 Consensus size: 120
2204281 GATTTAGATC
2204291 TATTGAGGAAATTGTTGAATGCGTTAGGGGTTGTGAAGATTCACTTACAGGTTGTTCCATTAATA
1 TATTGAGGAAATTGTTGAATGCGTTAGGGGTTGTGAAGATTCACTTACAGGTTGTTCCATTAATA
2204356 AGCTTGATGGAGTGAACTTTGTTCTATGTAATAGATGGGGAATCTGA-TTGAATT
66 AGCTTGATGGAGTGAACTTTGTTCTATGTAATAGATGGGGAATCTGATTTGAATT
*
2204410 TATTGAGGAAATTGTTGAATGCGTTAGGGG-TGTGAAGATTCGCTTACAGGTTTGTTCCATTAAT
1 TATTGAGGAAATTGTTGAATGCGTTAGGGGTTGTGAAGATTCACTTACAGG-TTGTTCCATTAAT
* *
2204474 AGGCTTGATGGAGTGAACTTTGTTCTATGTAATATATGGGGAATCTGATTTGAATT
65 AAGCTTGATGGAGTGAACTTTGTTCTATGTAATAGATGGGGAATCTGATTTGAATT
2204530 TACTTGA
1 TA-TTGA
2204537 CTATGTTGTT
Statistics
Matches: 121, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
118 19 0.16
119 89 0.74
120 9 0.07
121 4 0.03
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.38
Consensus pattern (120 bp):
TATTGAGGAAATTGTTGAATGCGTTAGGGGTTGTGAAGATTCACTTACAGGTTGTTCCATTAATA
AGCTTGATGGAGTGAACTTTGTTCTATGTAATAGATGGGGAATCTGATTTGAATT
Found at i:2204886 original size:25 final size:24
Alignment explanation
Indices: 2204845--2204896 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
2204835 GTTACTATCC
* *
2204845 ATTTTTAAATTTGAATATTAATTA
1 ATTTTTAAATTTGAATATAAAATA
2204869 ATTTTT-AATTTGCTAATATAAAATA
1 ATTTTTAAATTTG--AATATAAAATA
2204894 ATT
1 ATT
2204897 ATATTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 6 0.25
25 12 0.50
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
ATTTTTAAATTTGAATATAAAATA
Found at i:2208631 original size:2 final size:2
Alignment explanation
Indices: 2208624--2208653 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2208614 CGCTTTCCCA
2208624 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
2208654 GAATAAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2209772 original size:21 final size:20
Alignment explanation
Indices: 2209722--2209800 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
2209712 TACGATTTTG
2209722 GACTATCGCAATGCGAATAT-
1 GACTATCGCAATGCG-ATATC
*
2209742 GTA-AATCGCAATGCGATAGTC
1 G-ACTATCGCAATGCGATA-TC
2209763 GACTATCGCAATGCGA-ACTTC
1 GACTATCGCAATGCGATA--TC
*
2209784 GACTATCGCATTGCGAT
1 GACTATCGCAATGCGAT
2209801 TTACATTCGC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
19 3 0.06
20 15 0.31
21 31 0.63
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (20 bp):
GACTATCGCAATGCGATATC
Found at i:2209929 original size:6 final size:6
Alignment explanation
Indices: 2209918--2209949 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
2209908 GACACGTATT
2209918 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
2209950 CGAGACGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2210584 original size:21 final size:21
Alignment explanation
Indices: 2210558--2210625 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
2210548 CACCAGTCGT
2210558 TGCGATTTTGGACTATCGCAA
1 TGCGATTTTGGACTATCGCAA
*
2210579 TGCGATTTTGGACTATCGCTA
1 TGCGATTTTGGACTATCGCAA
* ** * *
2210600 TGTGATAGTCGACTATCGTAA
1 TGCGATTTTGGACTATCGCAA
2210621 TGCGA
1 TGCGA
2210626 ATATGTAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (21 bp):
TGCGATTTTGGACTATCGCAA
Found at i:2210742 original size:21 final size:21
Alignment explanation
Indices: 2210635--2210749 Score: 124
Period size: 21 Copynumber: 5.5 Consensus size: 21
2210625 AATATGTAAA
* * * *
2210635 TCGCAATGTGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAAT
* *
2210656 TCGCATTGCGACAGTCCAAGT
1 TCGCATTGCGATAGTCCAAAT
* * *
2210677 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGTCCAAAT
*
2210697 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAAT
*
2210718 TCGCATTGCGATAGTCCAAAA
1 TCGCATTGCGATAGTCCAAAT
2210739 TCGCATTGCGA
1 TCGCATTGCGA
2210750 ATCTGGAAAC
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
20 16 0.21
21 62 0.79
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAAT
Found at i:2211439 original size:3 final size:3
Alignment explanation
Indices: 2211427--2211455 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2211417 GAGCCATACA
2211427 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2211456 AGAAGCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:2212995 original size:43 final size:43
Alignment explanation
Indices: 2212925--2213019 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
2212915 CCTCCAACCG
* * *
2212925 AACACACCATAATGTGTAGGTTTCCCAGAACTATACACCCACC
1 AACACACCATAATGTGTAAGTTCCCCAGAACCATACACCCACC
*
2212968 AACACACCATAATGTGTAAGTTCCCCAGAACCATACATCCACC
1 AACACACCATAATGTGTAAGTTCCCCAGAACCATACACCCACC
2213011 AACACACCA
1 AACACACCA
2213020 AGTAAGGCCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.38, C:0.35, G:0.09, T:0.18
Consensus pattern (43 bp):
AACACACCATAATGTGTAAGTTCCCCAGAACCATACACCCACC
Found at i:2213166 original size:24 final size:24
Alignment explanation
Indices: 2213139--2213253 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
2213129 ATAATTTATA
* * *
2213139 TCAAGTATCATATCAAAATCCAGG
1 TCAAGTATCAGATCAGAATCCATG
*
2213163 TCAAGTATCAGATCAGAATCCAAG
1 TCAAGTATCAGATCAGAATCCATG
*
2213187 TCAAGTATCAGATCAGAATCTATG
1 TCAAGTATCAGATCAGAATCCATG
*
2213211 TC-AGATATCAGATCAGAATTCATG
1 TCAAG-TATCAGATCAGAATCCATG
2213235 TCAAGTATCAGATCAGAAT
1 TCAAGTATCAGATCAGAAT
2213254 TCAAATCGAA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.02
24 78 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (24 bp):
TCAAGTATCAGATCAGAATCCATG
Found at i:2213268 original size:24 final size:24
Alignment explanation
Indices: 2213163--2213271 Score: 89
Period size: 24 Copynumber: 4.5 Consensus size: 24
2213153 AAAATCCAGG
* * *
2213163 TCAAGTATCAGATCAGAATCCAAG
1 TCAAGAATCAGATCAGAATTCAAA
* **
2213187 TCAAGTATCAGATCAGAA-TCTATG
1 TCAAGAATCAGATCAGAATTC-AAA
**
2213211 TC-AGATATCAGATCAGAATTCATG
1 TCAAGA-ATCAGATCAGAATTCAAA
*
2213235 TCAAGTATCAGATCAGAATTCAAA
1 TCAAGAATCAGATCAGAATTCAAA
2213259 TCGAA-AATCAGAT
1 TC-AAGAATCAGAT
2213272 AAAACATTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.04
24 64 0.88
25 6 0.08
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (24 bp):
TCAAGAATCAGATCAGAATTCAAA
Found at i:2213269 original size:48 final size:48
Alignment explanation
Indices: 2213169--2213271 Score: 129
Period size: 48 Copynumber: 2.1 Consensus size: 48
2213159 CAGGTCAAGT
** *
2213169 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTATGTCAGAT
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTAAATCAGAA
* *
2213217 ATCAGATCAGAATTCATGTCAAGTATCAGATCAGAAT-TCAAATC-GAAA
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCT-AAATCAG-AA
2213265 ATCAGAT
1 ATCAGAT
2213272 AAAACATTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 2 0.04
48 46 0.96
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (48 bp):
ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTAAATCAGAA
Found at i:2239615 original size:38 final size:37
Alignment explanation
Indices: 2239540--2239616 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 37
2239530 TTACTATGAT
* **
2239540 TAATTTATATATTTTCTTTAAAAATTTTAAATTTAAA
1 TAATTTATATATTTTCTTTAAAAATTTAAAAGATAAA
2239577 TAATTTATATAATTTT-TTTACAAAATTTAAAAGATAAA
1 TAATTTATAT-ATTTTCTTTA-AAAATTTAAAAGATAAA
2239615 TA
1 TA
2239617 GGTTTAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 14 0.40
38 21 0.60
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (37 bp):
TAATTTATATATTTTCTTTAAAAATTTAAAAGATAAA
Found at i:2241742 original size:29 final size:30
Alignment explanation
Indices: 2241700--2241768 Score: 122
Period size: 29 Copynumber: 2.3 Consensus size: 30
2241690 TAAAACGGTT
2241700 CGGTTCGATTCGGTTCGTATTTATC-TTTA
1 CGGTTCGATTCGGTTCGTATTTATCTTTTA
2241729 CGGTTCGATTCGGTTCGTATTTATCTTTTA
1 CGGTTCGATTCGGTTCGTATTTATCTTTTA
*
2241759 CGGTTTGATT
1 CGGTTCGATT
2241769 TGTGTTGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 25 0.66
30 13 0.34
ACGTcount: A:0.13, C:0.16, G:0.22, T:0.49
Consensus pattern (30 bp):
CGGTTCGATTCGGTTCGTATTTATCTTTTA
Found at i:2244723 original size:24 final size:24
Alignment explanation
Indices: 2244693--2244759 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
2244683 CAAGGCAGAG
*
2244693 GTAGAGGTCATGGACGAGGTGGAA
1 GTAGAGGTCATGGACGAGGTGCAA
*
2244717 GTCGAGGTCATGGACGAGGTGCAA
1 GTAGAGGTCATGGACGAGGTGCAA
*
2244741 GTAGAGGTCGTGGACGAGG
1 GTAGAGGTCATGGACGAGG
2244760 CTAGAATTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.25, C:0.12, G:0.46, T:0.16
Consensus pattern (24 bp):
GTAGAGGTCATGGACGAGGTGCAA
Found at i:2266239 original size:2 final size:2
Alignment explanation
Indices: 2266232--2266265 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2266222 TTTCAATCTA
2266232 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2266266 TGAACTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2267303 original size:27 final size:27
Alignment explanation
Indices: 2267273--2267327 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 27
2267263 GAAGTCATAA
2267273 GGGTGTTTATAATTCTG-TTAAAATTTC
1 GGGTGTTTATAATTC-GATTAAAATTTC
2267300 GGGTGTTTATAATTCGATTAAAATTTC
1 GGGTGTTTATAATTCGATTAAAATTTC
2267327 G
1 G
2267328 ATAGATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.45
Consensus pattern (27 bp):
GGGTGTTTATAATTCGATTAAAATTTC
Found at i:2268474 original size:7 final size:7
Alignment explanation
Indices: 2268464--2268488 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2268454 AAAAATGAAA
2268464 TTTTAAT
1 TTTTAAT
2268471 TTTTAAT
1 TTTTAAT
2268478 TTTTAAT
1 TTTTAAT
2268485 TTTT
1 TTTT
2268489 TTAAATAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:2271317 original size:24 final size:23
Alignment explanation
Indices: 2271282--2271326 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
2271272 TGAATGATTT
2271282 AATCAAATATAAACTTCAAAATCG
1 AATCAAATATAAACTT-AAAATCG
*
2271306 AATCGAAA-ATAATCTTAAAAT
1 AATC-AAATATAAACTTAAAAT
2271327 TTCTTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 11 0.58
25 3 0.16
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (23 bp):
AATCAAATATAAACTTAAAATCG
Found at i:2273683 original size:38 final size:38
Alignment explanation
Indices: 2273609--2273687 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
2273599 AATTAAATAG
*
2273609 AGACTTGAAATTCGGAGATAAATACATAAATTTATGTT
1 AGACTTGAAATTCGGAGATAAATACATAAATGTATGTT
2273647 AGACTTGAAATTCGGAGATAAATACATAAATGTATGTT
1 AGACTTGAAATTCGGAGATAAATACATAAATGTATGTT
2273685 AGA
1 AGA
2273688 GTGATTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.32
Consensus pattern (38 bp):
AGACTTGAAATTCGGAGATAAATACATAAATGTATGTT
Found at i:2279373 original size:16 final size:16
Alignment explanation
Indices: 2279354--2279386 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2279344 ATTATTTTTA
2279354 TTATA-TTATATTTATT
1 TTATATTTA-ATTTATT
2279370 TTATATTTAATTTATT
1 TTATATTTAATTTATT
2279386 T
1 T
2279387 GACTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATATTTAATTTATT
Found at i:2284811 original size:3 final size:3
Alignment explanation
Indices: 2284800--2284840 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
2284790 TTTTTTATCG
*
2284800 TTA TT- TTA TTA TTA TTA TTTA TTA TTA -TA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
2284841 CATTTTACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 4 0.12
3 26 0.79
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2284820 original size:24 final size:24
Alignment explanation
Indices: 2284793--2284840 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2284783 TCCGGTTTTT
* * *
2284793 TTTATCGTTATTTTATTATTATTA
1 TTTATCATTATATTATTAATATTA
*
2284817 TTTATTATTATATTATTAATATTA
1 TTTATCATTATATTATTAATATTA
2284841 CATTTTACAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTATCATTATATTATTAATATTA
Found at i:2284825 original size:21 final size:21
Alignment explanation
Indices: 2284800--2284839 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2284790 TTTTTTATCG
* *
2284800 TTATTTTATTATTATTATTTA
1 TTATTATATTATTAATATTTA
2284821 TTATTATATTATTAATATT
1 TTATTATATTATTAATATT
2284840 ACATTTTACA
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:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTATATTATTAATATTTA
Found at i:2292079 original size:4 final size:4
Alignment explanation
Indices: 2292070--2292101 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
2292060 AGAAAAGTAT
2292070 ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
2292102 GATACATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.08
4 24 0.92
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:2292096 original size:22 final size:21
Alignment explanation
Indices: 2292068--2292109 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
2292058 CGAGAAAAGT
2292068 ATATACATACATACATACATAC
1 ATATACATACAT-CATACATAC
*
2292090 ATATACATACATGATACATA
1 ATATACATACATCATACATA
2292110 AAATTTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (21 bp):
ATATACATACATCATACATAC
Found at i:2292693 original size:105 final size:103
Alignment explanation
Indices: 2292552--2292791 Score: 299
Period size: 105 Copynumber: 2.3 Consensus size: 103
2292542 TGAGAATTTT
* * *
2292552 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
2292616 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TT-AAACAAAATTAATCTCACCTTGAGATCG-T-TTTC--TCA
* * *
2292657 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * *
2292722 TTAAACAAAGTTGATCTCACTTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACCTTGAGATCGTTTTCTCA
*
2292760 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
2292792 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
102 2 0.02
103 26 0.22
104 7 0.06
105 77 0.65
106 7 0.06
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (103 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACCTTGAGATCGTTTTCTCA
Found at i:2292799 original size:36 final size:35
Alignment explanation
Indices: 2292753--2292856 Score: 115
Period size: 36 Copynumber: 3.0 Consensus size: 35
2292743 TTGAGATCGT
2292753 TTTCTC-AAAAACAAACTTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAA-TTTGTCTCGCTTGAGACAA
** *
2292788 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGACTA
1 TTTCTCTAAAAACAAA-TTTGTCTCGCTTGAGACAA
* *
2292824 TATCT-T-AAAGCAAATTTCGTCTCGCTTGAGACA
1 TTTCTCTAAAAACAAATTT-GTCTCGCTTGAGACA
2292857 TCATTTTCTC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
33 3 0.05
34 19 0.33
35 7 0.12
36 29 0.50
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (35 bp):
TTTCTCTAAAAACAAATTTGTCTCGCTTGAGACAA
Found at i:2293125 original size:28 final size:29
Alignment explanation
Indices: 2293094--2293197 Score: 160
Period size: 29 Copynumber: 3.7 Consensus size: 29
2293084 ACAGTTTCTC
2293094 TTGAA-AAAAATCTTTGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
*
2293122 TTGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
* *
2293151 TTGAATAAATATCTTTGAG-TTGTTTCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
2293179 TTGAA-AAAAATCTTTGAGT
1 TTGAATAAAAATCTTTGAGT
2293198 CTATTTATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
27 12 0.17
28 18 0.26
29 39 0.57
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (29 bp):
TTGAATAAAAATCTTTGAGTTTGTTCCTT
Found at i:2293222 original size:28 final size:27
Alignment explanation
Indices: 2293094--2293212 Score: 107
Period size: 29 Copynumber: 4.2 Consensus size: 27
2293084 ACAGTTTCTC
*
2293094 TTGAAAAAAATCTTTGAGTT-TGTTCCTT
1 TTGAAAAAAATCTTTGAGTTAT-TT-ATT
* *
2293122 TTGAATAAAAATCTTGGAGTT-TGTTCCTT
1 TTGAA-AAAAATCTTTGAGTTAT-TT-ATT
* * *
2293151 TTGAATAAATATCTTTGAGTTGTTTCTT
1 TTGAA-AAAAATCTTTGAGTTATTTATT
2293179 TTGAAAAAAATCTTTGAGTCTATTTATT
1 TTGAAAAAAATCTTTGAGT-TATTTATT
2293207 TTGAAA
1 TTGAAA
2293213 CAAAGTTTTG
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
27 13 0.16
28 25 0.30
29 43 0.52
30 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.47
Consensus pattern (27 bp):
TTGAAAAAAATCTTTGAGTTATTTATT
Found at i:2293387 original size:65 final size:65
Alignment explanation
Indices: 2293260--2293460 Score: 210
Period size: 64 Copynumber: 3.1 Consensus size: 65
2293250 TCTCTGAGTC
* * * *
2293260 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTTTTTGAAACAAAAATCTTTGAGTTTGTTTCT
1 TGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTTTTG-AA-AAAAATCTTTGAATATGTTTCT
2293325 TT
64 TT
* * * *
2293327 TGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAAAAATCTTTGAATCTGTTTCTCT
1 TGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAAAAAATCTTTGAATATGTTTCTTT
* * * * * **
2293392 T-AAA-ATGAATTTTGTATTTCTTGAGACAGTTTCTCTTGAAGTAAATCTTTGAATATG-TTCAT
1 TGAAACA-AAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAAAAAATCTTTGAATATGTTTC-T
2293454 TT
64 TT
2293456 TGAAA
1 TGAAA
2293461 ATCTTTGAGT
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
63 4 0.04
64 47 0.42
65 25 0.22
66 2 0.02
67 35 0.31
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.45
Consensus pattern (65 bp):
TGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAAAAAATCTTTGAATATGTTTCTTT
Found at i:2293702 original size:1 final size:1
Alignment explanation
Indices: 2293696--2293721 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
2293686 TGTTTCCTTT
2293696 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
2293722 TTTCGAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2293844 original size:31 final size:30
Alignment explanation
Indices: 2293809--2293869 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
2293799 GTTTCTCTAG
*
2293809 AAATACAAA-ATCTTTGAGTTTGTTTCACTTA
1 AAATA-AAACATCTTTGAG-TCGTTTCACTTA
*
2293840 AAATAAAACCATTTTTGAGTCGTTTCACTT
1 AAATAAAA-CATCTTTGAGTCGTTTCACTT
2293870 GAAACATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 3 0.12
31 15 0.58
32 8 0.31
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (30 bp):
AAATAAAACATCTTTGAGTCGTTTCACTTA
Found at i:2293885 original size:15 final size:15
Alignment explanation
Indices: 2293862--2293905 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
2293852 TTTTGAGTCG
*
2293862 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
2293877 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
2293892 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
2293906 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:2294076 original size:1 final size:1
Alignment explanation
Indices: 2294070--2294095 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
2294060 ATGTCTTTTC
2294070 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
2294096 TCATTGAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2294233 original size:35 final size:36
Alignment explanation
Indices: 2294180--2294259 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 36
2294170 TGTTTCTTTG
* * *
2294180 GAAACAAAAATTACCATCTTTGA-ATCTGTTTCCCTT-
1 GAAAC-AAAATAAACATCTTTGAGAAC-GTTTCCCTTA
2294216 GAAACAAAATAAACATCTTTGAGAACGTTTCCCTTA
1 GAAACAAAATAAACATCTTTGAGAACGTTTCCCTTA
*
2294252 AAAACAAA
1 GAAACAAA
2294260 TTTTGTCTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 24 0.63
36 14 0.37
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (36 bp):
GAAACAAAATAAACATCTTTGAGAACGTTTCCCTTA
Found at i:2294626 original size:43 final size:44
Alignment explanation
Indices: 2294537--2294822 Score: 171
Period size: 43 Copynumber: 6.6 Consensus size: 44
2294527 TGGCCAGTAG
* * ** *
2294537 TCCTCATCACATAGGAACCGTGTCAT-CCCCAG---ACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGACC
* *
2294577 TCCTCATCACGTAGGAGTCGTGTCA-ACCATGGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGACC
* * * ** *
2294619 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCAT-ACC-ATAGATAACCAGACC
* * * * ** *
2294666 TCTTCATCACGTATGAGCCGTGCCATTCCCCAG---ACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGACC
2294707 TCCTCATCACGTAGGAGCCGTGTCA-ACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGACC
* * * ** *
2294749 GTCCTCATCACGTAGGAACCGTGTTATCACCTAAAGATGGCCAAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCAT-ACC-ATAGATAACC-AGACC
* **
2294797 TCTTCATCACGTAGGAGAAGTGTCAT
1 TCCTCATCACGTAGGAGCCGTGTCAT
2294823 CCCTCGATCA
Statistics
Matches: 185, Mismatches: 43, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
40 29 0.16
41 28 0.15
42 2 0.01
43 55 0.30
44 2 0.01
45 8 0.04
46 36 0.19
47 24 0.13
48 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (44 bp):
TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGACC
Found at i:2294756 original size:130 final size:129
Alignment explanation
Indices: 2294523--2294812 Score: 463
Period size: 130 Copynumber: 2.2 Consensus size: 129
2294513 CATTATTCCT
* * * * *
2294523 AAGATGGCCAGTAGTCCTCATCACATAGGAACCGTGTCATCCCCAGACCAGATCTCCTCATCACG
1 AAGATGGCCAGAACTCTTCATCACGTAGGAACCGTGCCATCCCCAGACCAGATCTCCTCATCACG
* * *
2294588 TAGGAGTCGTGTCAACCATGGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
66 TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
* * *
2294652 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGCCATTCCCCAGACCAGATCTCCTCATCAC
1 AAGATGGCCAGAACTCTTCATCACGTAGGAACCGTGCCA-TCCCCAGACCAGATCTCCTCATCAC
2294717 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
65 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
2294782 AAGATGGCCAAGAACTCTTCATCACGTAGGA
1 AAGATGGCC-AGAACTCTTCATCACGTAGGA
2294813 GAAGTGTCAT
Statistics
Matches: 146, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
129 31 0.21
130 95 0.65
131 20 0.14
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (129 bp):
AAGATGGCCAGAACTCTTCATCACGTAGGAACCGTGCCATCCCCAGACCAGATCTCCTCATCACG
TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
Found at i:2294835 original size:130 final size:129
Alignment explanation
Indices: 2294523--2294861 Score: 457
Period size: 130 Copynumber: 2.6 Consensus size: 129
2294513 CATTATTCCT
* * * * *
2294523 AAGATGGCCAGTAGTCCTCATCACATAGGA-ACCGTGTCATCCCCAGACCAGATCTCCTCATCAC
1 AAGATGGCCAGAACTCTTCATCACGTAGGAGA-AGTGTCATCCCCAGACCAGATCTCCTCATCAC
* * *
2294587 GTAGGAGTCGTGTCAACCATGGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
65 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
* * ** *
2294652 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGCCATTCCCCAGACCAGATCTCCTCATCAC
1 AAGATGGCCAGAACTCTTCATCACGTAGGAGAAGTGTCA-TCCCCAGACCAGATCTCCTCATCAC
2294717 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
65 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
* * *
2294782 AAGATGGCCAAGAACTCTTCATCACGTAGGAGAAGTGTCATCCCTC-GATCAGATTTCCTCATTA
1 AAGATGGCC-AGAACTCTTCATCACGTAGGAGAAGTGTCATCCC-CAGACCAGATCTCCTCATCA
* * *
2294846 TGTAGGAACCTTGTCA
64 CGTAGGAGCCGTGTCA
2294862 CTTTTAGACG
Statistics
Matches: 184, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
129 30 0.16
130 127 0.69
131 27 0.15
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (129 bp):
AAGATGGCCAGAACTCTTCATCACGTAGGAGAAGTGTCATCCCCAGACCAGATCTCCTCATCACG
TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
Found at i:2295072 original size:3 final size:3
Alignment explanation
Indices: 2295061--2295101 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
2295051 TTTTTTATCG
*
2295061 TTA TT- TTA TTA TTA TTA TTTA TTA TTA -TA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
2295102 CATTTTACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 4 0.12
3 26 0.79
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2295081 original size:24 final size:24
Alignment explanation
Indices: 2295054--2295101 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2295044 TCCGGTTTTT
* * *
2295054 TTTATCGTTATTTTATTATTATTA
1 TTTATCATTATATTATTAATATTA
*
2295078 TTTATTATTATATTATTAATATTA
1 TTTATCATTATATTATTAATATTA
2295102 CATTTTACAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTATCATTATATTATTAATATTA
Found at i:2295086 original size:21 final size:21
Alignment explanation
Indices: 2295061--2295100 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2295051 TTTTTTATCG
* *
2295061 TTATTTTATTATTATTATTTA
1 TTATTATATTATTAATATTTA
2295082 TTATTATATTATTAATATT
1 TTATTATATTATTAATATT
2295101 ACATTTTACA
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:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTATATTATTAATATTTA
Found at i:2298103 original size:2 final size:2
Alignment explanation
Indices: 2298096--2298125 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2298086 CCTAACCATA
2298096 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
2298126 TCTTTCTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2304062 original size:30 final size:31
Alignment explanation
Indices: 2304028--2304104 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
2304018 TTAAAAAAAC
*
2304028 TTAAGATTTGGTCACTTT-GGTTCTTTTTAA
1 TTAAGATTTGGTCACTTTCGGTTCGTTTTAA
* *
2304058 TTAAGATTCGGTCACTTTCGTTTCGTTTTAA
1 TTAAGATTTGGTCACTTTCGGTTCGTTTTAA
* *
2304089 TTAAGATGTGATCACT
1 TTAAGATTTGGTCACT
2304105 CAAGGTTAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 17 0.43
31 23 0.57
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (31 bp):
TTAAGATTTGGTCACTTTCGGTTCGTTTTAA
Found at i:2304090 original size:31 final size:30
Alignment explanation
Indices: 2304028--2304095 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
2304018 TTAAAAAAAC
* *
2304028 TTAAGATTTGGTCACTTTGGTTCTTTTTAA
1 TTAAGATTCGGTCACTTTGGTTCGTTTTAA
*
2304058 TTAAGATTCGGTCACTTTCGTTTCGTTTTAA
1 TTAAGATTCGGTCACTTT-GGTTCGTTTTAA
2304089 TTAAGAT
1 TTAAGAT
2304096 GTGATCACTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (30 bp):
TTAAGATTCGGTCACTTTGGTTCGTTTTAA
Found at i:2304423 original size:13 final size:13
Alignment explanation
Indices: 2304403--2304434 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2304393 CATTATTGTT
2304403 CATCTTCTCCCGA
1 CATCTTCTCCCGA
*
2304416 CTTCTTCTCCCGA
1 CATCTTCTCCCGA
2304429 CATCTT
1 CATCTT
2304435 TGTTCCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.12, C:0.44, G:0.06, T:0.38
Consensus pattern (13 bp):
CATCTTCTCCCGA
Found at i:2306733 original size:11 final size:11
Alignment explanation
Indices: 2306694--2306735 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
2306684 ACGATAAAAA
2306694 TAAAATAAAATG
1 TAAAAT-AAATG
2306706 TAAAAT-AATG
1 TAAAATAAATG
**
2306716 TGTAATAAATG
1 TAAAATAAATG
2306727 TAAAATAAA
1 TAAAATAAA
2306736 AATAGAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 8 0.32
11 11 0.44
12 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (11 bp):
TAAAATAAATG
Found at i:2309822 original size:2 final size:2
Alignment explanation
Indices: 2309817--2309843 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2309807 ACTCATCCAT
2309817 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 T
2309844 GAGACGGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2313423 original size:2 final size:2
Alignment explanation
Indices: 2313416--2313448 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2313406 TATTCAATGA
2313416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2313449 ATCATGCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2316731 original size:3 final size:3
Alignment explanation
Indices: 2316718--2316787 Score: 110
Period size: 3 Copynumber: 24.0 Consensus size: 3
2316708 ACTACAGAGG
2316718 AGA AG- AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA AGA AG-
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA
2316762 AGA AGA A-A AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
2316788 GCAGAAGAGA
Statistics
Matches: 63, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.10
3 54 0.86
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2316752 original size:22 final size:22
Alignment explanation
Indices: 2316718--2316787 Score: 115
Period size: 22 Copynumber: 3.1 Consensus size: 22
2316708 ACTACAGAGG
2316718 AGAAGAGAAGAAGAAGAAGAAGA
1 AGAAGA-AAGAAGAAGAAGAAGA
2316741 AGAAGAAAGAAGAAGAAGAAG-
1 AGAAGAAAGAAGAAGAAGAAGA
2316762 AGAAGAAAAGAAGAAGAAGAAGA
1 AGAAG-AAAGAAGAAGAAGAAGA
2316785 AGA
1 AGA
2316788 GCAGAAGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
21 5 0.11
22 31 0.69
23 9 0.20
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (22 bp):
AGAAGAAAGAAGAAGAAGAAGA
Found at i:2316788 original size:25 final size:25
Alignment explanation
Indices: 2316718--2316798 Score: 110
Period size: 25 Copynumber: 3.2 Consensus size: 25
2316708 ACTACAGAGG
2316718 AGAAG-AGAAGAAGAAGAAGAAGAAGA
1 AGAAGAAGAAGAAGAAG-AGAAGAA-A
2316744 AGAAAGAAGAAGAAGAAGAGAAGAAA
1 AG-AAGAAGAAGAAGAAGAGAAGAAA
* *
2316770 AGAAGAAGAAGAAGAAGAGCAGAAG
1 AGAAGAAGAAGAAGAAGAGAAGAAA
2316795 AGAA
1 AGAA
2316799 TTAAAAACAC
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
25 25 0.49
26 5 0.10
27 10 0.20
28 11 0.22
ACGTcount: A:0.65, C:0.01, G:0.33, T:0.00
Consensus pattern (25 bp):
AGAAGAAGAAGAAGAAGAGAAGAAA
Found at i:2319857 original size:33 final size:33
Alignment explanation
Indices: 2319791--2319857 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2319781 CATCAATTTC
* * *
2319791 ATTCTAAACCCCAATTTCCAAAGTAATTCAATT
1 ATTCTAAACCCCAAATTCCAAAATAATTAAATT
* *
2319824 ATTCTAAACCCTAAATTCCAAAATACTTAAATT
1 ATTCTAAACCCCAAATTCCAAAATAATTAAATT
2319857 A
1 A
2319858 AATTCAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.33
Consensus pattern (33 bp):
ATTCTAAACCCCAAATTCCAAAATAATTAAATT
Found at i:2320844 original size:28 final size:26
Alignment explanation
Indices: 2320813--2320873 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
2320803 AGTTGATACA
*
2320813 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTT-AAA-AATAAATTTAAGAATT
* * *
2320841 ATATTTTTAAACTAAATTTAATAATT
1 ATATTTTAAAAATAAATTTAAGAATT
2320867 ATATTTT
1 ATATTTT
2320874 TCATATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.69
27 2 0.07
28 7 0.24
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (26 bp):
ATATTTTAAAAATAAATTTAAGAATT
Found at i:2320974 original size:16 final size:18
Alignment explanation
Indices: 2320953--2320986 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
2320943 ATTTATTATT
2320953 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
2320969 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
2320987 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:2321133 original size:21 final size:21
Alignment explanation
Indices: 2321109--2321151 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2321099 TATTACCTTA
2321109 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
2321130 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
2321151 A
1 A
2321152 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Done.