Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_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: 5046466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 21
Found at i:3058933 original size:33 final size:33
Alignment explanation
Indices: 3058894--3058964 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
3058884 TTCACTTAGA
*
3058894 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTAGCGTTACGATTCTCTCGTTGCGAT
* *
3058927 TTTCATTTAGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTAGCGTTACGATTCTCTCGTTGCGAT
3058960 TTTCA
1 TTTCA
3058965 AGTTAGTATT
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:0.13, C:0.23, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTAGCGTTACGATTCTCTCGTTGCGAT
Found at i:3059088 original size:20 final size:20
Alignment explanation
Indices: 3059044--3059153 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
3059034 TGCAGAAGAG
*
3059044 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
3059065 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
3059085 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
3059106 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
3059120 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
3059139 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
3059154 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:3059101 original size:41 final size:38
Alignment explanation
Indices: 3059037--3059153 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
3059027 TTCAATTTGC
* *
3059037 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
3059075 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
3059116 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
3059149 AGAAT
1 AGAAT
3059154 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:3059123 original size:14 final size:14
Alignment explanation
Indices: 3059104--3059160 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3059094 GAGAAATGAA
3059104 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
3059118 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
3059137 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3059151 AATCGCAACG
1 AATCGCAACG
3059161 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:3059136 original size:33 final size:33
Alignment explanation
Indices: 3059096--3059176 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
3059086 CGCAACGAGA
3059096 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3059129 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
3059162 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
3059177 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:3059194 original size:19 final size:19
Alignment explanation
Indices: 3059172--3059299 Score: 78
Period size: 19 Copynumber: 7.1 Consensus size: 19
3059162 GAAACCAAAA
*
3059172 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
3059191 TCGCGTTGC-A-ATTC---
1 TCGCGTTGCGATTTTCATT
*
3059205 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3059224 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
3059238 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
3059258 ATCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
3059278 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
3059298 TC
1 TC
3059300 AACCAAAAGA
Statistics
Matches: 84, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
14 18 0.21
15 1 0.01
16 6 0.07
17 6 0.07
18 1 0.01
19 20 0.24
20 18 0.21
21 14 0.17
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3059219 original size:33 final size:33
Alignment explanation
Indices: 3059177--3059299 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
3059167 CAAAATCGCA
3059177 TTGCGATTTTCATTTCGCGTTGCAATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCAATTCTCTCG
*
3059210 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCAATTCTCTCG
*
3059243 TTGCGATTTTCATTTATCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-CA---ATTCTCTCG
3059284 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
3059300 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
33 44 0.56
34 2 0.03
35 6 0.08
37 1 0.01
38 1 0.01
39 2 0.03
40 2 0.03
41 21 0.27
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCAATTCTCTCG
Found at i:3059246 original size:14 final size:14
Alignment explanation
Indices: 3059194--3059250 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
3059184 TTTCATTTCG
*
3059194 CGTTGCAATTCTCT
1 CGTTGCGATTCTCT
*
3059208 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
3059227 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
3059241 CGTTGCGATT
1 CGTTGCGATT
3059251 TTCATTTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:3059264 original size:21 final size:21
Alignment explanation
Indices: 3059238--3059298 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
3059228 GTTGCGATTC
3059238 TCTCGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTA
*** *
3059259 TCTCGTTGCGACAGTCA-TTC
1 TCTCGTTGCGATTTTCATTTA
3059279 TCTCGTTGCGATTTTCATTT
1 TCTCGTTGCGATTTTCATTT
3059299 CAACCAAAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTA
Found at i:3059284 original size:20 final size:20
Alignment explanation
Indices: 3059234--3059289 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
3059224 TCGCGTTGCG
***
3059234 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACAGTC
*
3059254 ATTTATCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGACAGTC
3059275 ATTCTCTCGTTGCGA
1 ATTCTCTCGTTGCGA
3059290 TTTTCATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACAGTC
Found at i:3061157 original size:93 final size:93
Alignment explanation
Indices: 3060998--3061230 Score: 457
Period size: 93 Copynumber: 2.5 Consensus size: 93
3060988 TAGATTGCTT
*
3060998 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3061063 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3061091 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3061156 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3061184 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTT
3061231 AAAATCGCAA
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 139 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:3061282 original size:39 final size:36
Alignment explanation
Indices: 3061231--3061382 Score: 165
Period size: 33 Copynumber: 4.2 Consensus size: 36
3061221 GTGTATTCTT
* *
3061231 AAAATCGCAACGCGAAATGAAAATCGCAACGCGAAACTT
1 AAAATCGCAA--CGAAA-CAAAATCGCAACGCGAAACTC
*
3061270 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA-TG
1 AAAATCGCAA--CGAAA-CAAAATCGCAACGCGAAACTC
*
3061308 AAAATCGCAAC-AAA-AGAATCGCAACGCGAAAC-C
1 AAAATCGCAACGAAACAAAATCGCAACGCGAAACTC
3061341 AAAATCGCAACG--ACAAAATCGCAACGCGAAAC-C
1 AAAATCGCAACGAAACAAAATCGCAACGCGAAACTC
3061374 AAAATCGCA
1 AAAATCGCA
3061383 TTGCGATTTT
Statistics
Matches: 104, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
32 1 0.01
33 54 0.52
35 3 0.03
36 1 0.01
38 11 0.11
39 34 0.33
ACGTcount: A:0.49, C:0.26, G:0.16, T:0.09
Consensus pattern (36 bp):
AAAATCGCAACGAAACAAAATCGCAACGCGAAACTC
Found at i:3061350 original size:52 final size:55
Alignment explanation
Indices: 3061231--3061352 Score: 187
Period size: 52 Copynumber: 2.2 Consensus size: 55
3061221 GTGTATTCTT
3061231 AAAATCGCAACGCGAAATGAAAATCGCAACGCGAAACTTAAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATGAAAATCGCAAC-CGAAA--TAAAATCGCAACGCGAAACC
*
3061289 AAAATCGCAACGCGAAATGAAAATCGCAA-C-AAA-AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATGAAAATCGCAACCGAAATAAAATCGCAACGCGAAACC
3061341 AAAATCGCAACG
1 AAAATCGCAACG
3061353 ACAAAATCGC
Statistics
Matches: 63, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
52 30 0.48
55 3 0.05
56 1 0.02
58 29 0.46
ACGTcount: A:0.48, C:0.25, G:0.17, T:0.09
Consensus pattern (55 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACCGAAATAAAATCGCAACGCGAAACC
Found at i:3061359 original size:14 final size:14
Alignment explanation
Indices: 3061340--3061366 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3061330 AACGCGAAAC
3061340 CAAAATCGCAACGA
1 CAAAATCGCAACGA
3061354 CAAAATCGCAACG
1 CAAAATCGCAACG
3061367 CGAAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAATCGCAACGA
Found at i:3061380 original size:52 final size:52
Alignment explanation
Indices: 3061250--3061382 Score: 162
Period size: 52 Copynumber: 2.6 Consensus size: 52
3061240 ACGCGAAATG
**
3061250 AAAATCGCAACGCGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGC
1 AAAATCGCAACGCGAAACAAAAAATCGCAACGCGAAACCAAAATCGCAACGC
* * ** *
3061302 GAAAT-GAAAATCGCAACAAAAGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACAAAA-AATCGCAACGCGAAACCAAAATCGCAACG-C
*
3061355 AAAATCGCAACGCGAAAC-CAAAATCGCA
1 AAAATCGCAACGCGAAACAAAAAATCGCA
3061383 TTGCGATTTT
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
51 10 0.15
52 40 0.62
53 7 0.11
54 8 0.12
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.08
Consensus pattern (52 bp):
AAAATCGCAACGCGAAACAAAAAATCGCAACGCGAAACCAAAATCGCAACGC
Found at i:3061388 original size:19 final size:19
Alignment explanation
Indices: 3061231--3061382 Score: 171
Period size: 19 Copynumber: 8.5 Consensus size: 19
3061221 GTGTATTCTT
**
3061231 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACC
*
3061250 AAAATCGCAACGCGAAACTT
1 AAAATCGCAACGCGAAAC-C
3061270 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
**
3061289 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACC
3061308 AAAATCGCAA--C-AAA--
1 AAAATCGCAACGCGAAACC
*
3061322 AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
3061341 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
3061355 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
3061374 AAAATCGCA
1 AAAATCGCA
3061383 TTGCGATTTT
Statistics
Matches: 115, Mismatches: 7, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
14 20 0.17
15 1 0.01
16 6 0.05
17 6 0.05
18 1 0.01
19 63 0.55
20 18 0.16
ACGTcount: A:0.49, C:0.26, G:0.16, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:3061400 original size:19 final size:19
Alignment explanation
Indices: 3061378--3061550 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
3061368 GAAACCAAAA
*
3061378 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3061397 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
3061413 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
3061430 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
3061446 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
3061463 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
3061482 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
3061501 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
*
3061520 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
3061540 TCGTGTTGCGA
1 TCGCGTTGCGA
3061551 AAGTAAACTA
Statistics
Matches: 128, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
14 15 0.12
16 11 0.09
17 11 0.09
19 79 0.62
20 12 0.09
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3061419 original size:14 final size:14
Alignment explanation
Indices: 3061400--3061456 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3061390 TTTCATTTCG
3061400 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
3061414 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
3061431 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
3061447 CGTTGCGATT
1 CGTTGCGATT
3061457 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:3061508 original size:38 final size:38
Alignment explanation
Indices: 3061378--3061550 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
3061368 GAAACCAAAA
*
3061378 TCGCATTGCGATTTTCATTTCGCGTTGCGA-T-TC-TT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
3061413 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* **
3061446 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
** *
3061482 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
3061520 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
3061551 AAGTAAACTA
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
33 56 0.48
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.09
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
Found at i:3063491 original size:14 final size:14
Alignment explanation
Indices: 3063472--3063507 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3063462 ATTGTTTAAT
3063472 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
3063486 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
3063500 TGATTTGT
1 TGATTTGT
3063508 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:3063630 original size:19 final size:19
Alignment explanation
Indices: 3063614--3063711 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
3063604 AAAAATGACT
3063614 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3063633 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
3063652 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
3063666 ATCGCAATGCGAAATTAAA
1 ATCGCAATGCGAAATGAAA
3063685 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
3063705 ATCGCAA
1 ATCGCAA
3063712 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.55
20 15 0.22
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3063743 original size:53 final size:53
Alignment explanation
Indices: 3063614--3063730 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
3063604 AAAAATGACT
*
3063614 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATTAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
3063666 ATCGCAATGCGAAATTAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATTAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
3063719 ATCGCAATGCGA
1 ATCGCAATGCGA
3063731 TTTTAATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 28 0.44
53 35 0.56
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATTAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:3063763 original size:33 final size:33
Alignment explanation
Indices: 3063726--3063889 Score: 156
Period size: 33 Copynumber: 4.8 Consensus size: 33
3063716 AGAATCGCAA
*
3063726 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
3063759 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * *
3063797 TGCGATTCTCTCGTTGT-G-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATT-TCGCA-TTGCGATTCTCTCGT
3063830 TGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
3063864 TGCGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
3063890 TTCATTTCCG
Statistics
Matches: 106, Mismatches: 11, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
30 1 0.01
31 4 0.04
32 5 0.05
33 47 0.44
34 18 0.17
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 8 0.08
41 1 0.01
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:3063884 original size:86 final size:84
Alignment explanation
Indices: 3063777--3063956 Score: 224
Period size: 86 Copynumber: 2.1 Consensus size: 84
3063767 TCATTTCGCA
*
3063777 TTGCGATTTTCATTTCGCATTGCGA-TTC-TCT-CG-TTGTGATTTTCATTTCGCATTGCGATTT
1 TTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGATTGCGATTTTCA--T-G--TTGCGATTT
*
3063838 TCATTTCCGCATTGCGATTCTCTCG
61 TCATTT-CGCATTGCGATTCTCTCC
* *
3063863 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATCTCCG-ATTGCGATTTTCATGTTGCGATTTTCA
3063928 TTTCGCATTGCGATTCTCTCC
64 TTTCGCATTGCGATTCTCTCC
3063949 TTGCGATT
1 TTGCGATT
3063957 GTAATTTCCG
Statistics
Matches: 84, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
86 50 0.60
87 14 0.17
88 3 0.04
89 3 0.04
90 3 0.04
92 11 0.13
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (84 bp):
TTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGATTGCGATTTTCATGTTGCGATTTTCATT
TCGCATTGCGATTCTCTCC
Found at i:3063940 original size:33 final size:34
Alignment explanation
Indices: 3063758--3063942 Score: 146
Period size: 33 Copynumber: 5.2 Consensus size: 34
3063748 GATTCTCTCG
*
3063758 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCA--TCG--TTGGGATTTTCATTTCGCA
* *
3063796 TTGCGATTCTC-TCGTTGTGATTTTCATTTCGCA
1 TTGCGATTTTCATCGTTGGGATTTTCATTTCGCA
* * * * *
3063829 TTGCGATTTTCAT--TTCCGCA-TTGCGATTCTCTCG
1 TTGCGATTTTCATCGTT-GGGATTTTC-ATT-TCGCA
*
3063863 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCA--TCG--TTGGGATTTTCATTT-CGCA
3063902 TTGCGATTTTCAT-GTTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATCGTTGGGATTTTCATTTCGCA
3063935 TTGCGATT
1 TTGCGATT
3063943 CTCTCCTTGC
Statistics
Matches: 119, Mismatches: 16, Indels: 29
0.73 0.10 0.18
Matches are distributed among these distances:
32 5 0.04
33 44 0.37
34 30 0.25
35 3 0.03
36 2 0.02
37 1 0.01
38 11 0.09
39 18 0.15
40 5 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (34 bp):
TTGCGATTTTCATCGTTGGGATTTTCATTTCGCA
Found at i:3063942 original size:19 final size:19
Alignment explanation
Indices: 3063720--3063942 Score: 225
Period size: 19 Copynumber: 12.7 Consensus size: 19
3063710 AACGAGAGAA
* *
3063720 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
3063739 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
3063755 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3063772 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
3063791 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
*
3063807 TCG--TTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
3063824 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
3063843 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
3063860 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3063877 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3063896 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
3063914 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
3063930 TCGCATTGCGATT
1 TCGCATTGCGATT
3063943 CTCTCCTTGC
Statistics
Matches: 170, Mismatches: 12, Indels: 44
0.75 0.05 0.19
Matches are distributed among these distances:
14 28 0.16
16 21 0.12
17 20 0.12
18 4 0.02
19 71 0.42
20 26 0.15
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:3063971 original size:53 final size:53
Alignment explanation
Indices: 3063720--3063942 Score: 371
Period size: 53 Copynumber: 4.2 Consensus size: 53
3063710 AACGAGAGAA
* *
3063720 TCGCAATGCGATTTTAATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
3063772 TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGTGATTTTCATT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
3063824 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
3063877 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTC-TCGTTGCGATTTTCATT
3063930 TCGCATTGCGATT
1 TCGCATTGCGATT
3063943 CTCTCCTTGC
Statistics
Matches: 163, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
52 69 0.42
53 93 0.57
54 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (53 bp):
TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:3066370 original size:20 final size:20
Alignment explanation
Indices: 3066342--3066570 Score: 228
Period size: 20 Copynumber: 11.4 Consensus size: 20
3066332 AAATTTCAGT
* *
3066342 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
3066362 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
3066382 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
3066402 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
3066422 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
3066442 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
3066462 ATTGCGATTTACGGATACGT-
1 GTTGCGATTTACGGATTC-TC
* *
3066482 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
3066502 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
3066522 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
3066542 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
3066562 GTTGCGATT
1 GTTGCGATT
3066571 CTGGAAACTG
Statistics
Matches: 181, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
20 180 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:3068526 original size:36 final size:36
Alignment explanation
Indices: 3068484--3068559 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
3068474 TTATAGCTAA
*
3068484 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
3068520 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
3068556 AAAA
1 AAAA
3068560 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:3073054 original size:15 final size:15
Alignment explanation
Indices: 3073036--3073065 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3073026 CCACGGTGCT
3073036 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
3073051 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
3073066 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:3073529 original size:36 final size:36
Alignment explanation
Indices: 3073487--3073562 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
3073477 TTATAGCTAA
*
3073487 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
3073523 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
3073559 AAAA
1 AAAA
3073563 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:3075793 original size:16 final size:16
Alignment explanation
Indices: 3075774--3075871 Score: 61
Period size: 16 Copynumber: 6.1 Consensus size: 16
3075764 TTTACCTGAG
3075774 CCGAAAGTAACCCGAA
1 CCGAAAGTAACCCGAA
* **
3075790 CCGAAAGAAACTTGAA
1 CCGAAAGTAACCCGAA
* ** * *
3075806 CTGAATTTTAACCTGAT
1 CCGAA-AGTAACCCGAA
*
3075823 CCGAAAGCAACCCGAA
1 CCGAAAGTAACCCGAA
** * *
3075839 CCGAATTTAACTCGAC
1 CCGAAAGTAACCCGAA
*
3075855 CCGAAAGCAACCCGAA
1 CCGAAAGTAACCCGAA
3075871 C
1 C
3075872 ATATTGAAGT
Statistics
Matches: 56, Mismatches: 25, Indels: 2
0.67 0.30 0.02
Matches are distributed among these distances:
16 46 0.82
17 10 0.18
ACGTcount: A:0.40, C:0.30, G:0.16, T:0.14
Consensus pattern (16 bp):
CCGAAAGTAACCCGAA
Found at i:3076605 original size:32 final size:32
Alignment explanation
Indices: 3076569--3076668 Score: 112
Period size: 32 Copynumber: 3.1 Consensus size: 32
3076559 TTGACCTAAA
* *
3076569 CCGAAAATCAACCGATCCGATATTGACCCGAC
1 CCGAAAATCAACCGATCTGATATTGACCCTAC
* * *
3076601 CCG-AAATCTAACCGATCTGGTATTAACACTAC
1 CCGAAAATC-AACCGATCTGATATTGACCCTAC
* * *
3076633 CCAAAAATCAAACAATCTGATATTGACCCTAC
1 CCGAAAATCAACCGATCTGATATTGACCCTAC
3076665 CCGA
1 CCGA
3076669 TATTGACCCG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
31 5 0.09
32 44 0.81
33 5 0.09
ACGTcount: A:0.37, C:0.31, G:0.12, T:0.20
Consensus pattern (32 bp):
CCGAAAATCAACCGATCTGATATTGACCCTAC
Found at i:3079227 original size:19 final size:19
Alignment explanation
Indices: 3079194--3079250 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
3079184 AAATGCTCAC
*
3079194 AATTAATATATAAAATTAA
1 AATTAATATATAAAAATAA
3079213 AATTAATAT-TAAAAAATAA
1 AATTAATATAT-AAAAATAA
*
3079232 AATTCATACTAATAAAAAT
1 AATTAATA-T-ATAAAAAT
3079251 TACTTGTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
19 23 0.72
20 1 0.03
21 6 0.19
22 1 0.03
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTAATATATAAAAATAA
Found at i:3081320 original size:22 final size:22
Alignment explanation
Indices: 3081294--3081341 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
3081284 CATGTCTTTC
3081294 TATGCTATTGTGGCACAATCCT
1 TATGCTATTGTGGCACAATCCT
3081316 TATGCTATTGTGGCACAATCCT
1 TATGCTATTGTGGCACAATCCT
3081338 TATG
1 TATG
3081342 ATTTGTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (22 bp):
TATGCTATTGTGGCACAATCCT
Found at i:3085899 original size:45 final size:45
Alignment explanation
Indices: 3085830--3085922 Score: 125
Period size: 45 Copynumber: 2.1 Consensus size: 45
3085820 GCCCCATGTG
* * *
3085830 CATTGTCATGATCAGCCGTTGCTCCAAAAGGCGTGG-CTCCAAGCA
1 CATTGTCATGATCAGCCATAGCTCCAAAAGCCGTGGTC-CCAAGCA
* *
3085875 CATTGTCGTGATCGGCCATAGCTCCAAAAGCCGTGGTCCCAAGCA
1 CATTGTCATGATCAGCCATAGCTCCAAAAGCCGTGGTCCCAAGCA
3085920 CAT
1 CAT
3085923 CATCACGGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 41 0.98
46 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.22
Consensus pattern (45 bp):
CATTGTCATGATCAGCCATAGCTCCAAAAGCCGTGGTCCCAAGCA
Found at i:3085940 original size:45 final size:45
Alignment explanation
Indices: 3085850--3085945 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
3085840 ATCAGCCGTT
* ** **
3085850 GCTCCAAAAGGCGTGGCTCCAAGCACATTGTCGTGATCGGCCATA
1 GCTCCAAAAGCCGTGGCTCCAAGCACATCATCACGATCGGCCATA
* *
3085895 GCTCCAAAAGCCGTGG-TCCCAAGCACATCATCACGGTCGGGCATA
1 GCTCCAAAAGCCGTGGCT-CCAAGCACATCATCACGATCGGCCATA
3085940 GCTCCA
1 GCTCCA
3085946 TGGACCGATG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.18
Consensus pattern (45 bp):
GCTCCAAAAGCCGTGGCTCCAAGCACATCATCACGATCGGCCATA
Found at i:3086125 original size:48 final size:48
Alignment explanation
Indices: 3086073--3086179 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 48
3086063 ATACCTCCAG
*
3086073 GCGCATTATCAAAGCCACTTGCCGTATGTCCAAAAGAGATGGCCCCAT
1 GCGCATTATCAAAACCACTTGCCGTATGTCCAAAAGAGATGGCCCCAT
* * ** * * *
3086121 GCGCATTATGAAAATCACTTGGTGTATTTCCAAATGAGGTGGCCCCAT
1 GCGCATTATCAAAACCACTTGCCGTATGTCCAAAAGAGATGGCCCCAT
*
3086169 GTGCATTATCA
1 GCGCATTATCA
3086180 CAAGTAGCAT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (48 bp):
GCGCATTATCAAAACCACTTGCCGTATGTCCAAAAGAGATGGCCCCAT
Found at i:3086593 original size:15 final size:15
Alignment explanation
Indices: 3086575--3086614 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3086565 GAACACACGT
*
3086575 TGATGGAGCAGATAC
1 TGATGGAGCACATAC
**
3086590 TGATGGAGCACATGT
1 TGATGGAGCACATAC
3086605 TGATGGAGCA
1 TGATGGAGCA
3086615 TGCACTGGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (15 bp):
TGATGGAGCACATAC
Found at i:3086627 original size:30 final size:30
Alignment explanation
Indices: 3086559--3086629 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
3086549 ATGGACAAAG
* *
3086559 CTGGTGGAACACACGTTGATGGAGCAGATA
1 CTGGTGGAGCACACGTTGATGGAGCAGACA
* *
3086589 CTGATGGAGCACATGTTGATGGAGCATG-CA
1 CTGGTGGAGCACACGTTGATGGAGCA-GACA
3086619 CTGGTGGAGCA
1 CTGGTGGAGCA
3086630 TGTGTTGTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 34 0.97
31 1 0.03
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (30 bp):
CTGGTGGAGCACACGTTGATGGAGCAGACA
Found at i:3096475 original size:44 final size:43
Alignment explanation
Indices: 3096400--3096725 Score: 221
Period size: 44 Copynumber: 7.4 Consensus size: 43
3096390 AGTAAAGTCA
* *
3096400 GGTGTAATGTTCTTCGAATGACCCCCCCTTTGCGAGTTTAAGCCG
1 GGTGAAATGTTCTTCGAATGA--CTCCCTTTGCGAGTTTAAGCCG
*
3096445 TGTGAAATGTTCTTCGAATGACCTCCCTTTGCGAGTTTAAGCCG
1 GGTGAAATGTTCTTCGAATGA-CTCCCTTTGCGAGTTTAAGCCG
* * * * *
3096489 TGTGAAATGTTCTTCGAATGACTCCCATTCGTGGGTTTAAGCCA
1 GGTGAAATGTTCTTCGAATGACTCCC-TTTGCGAGTTTAAGCCG
* * * * * *
3096533 GGTGAAGTATTCTTTGGATGACTCCCCTT-CGCAGGTTTAAGTCG
1 GGTGAAATGTTCTTCGAATGACTCCCTTTGCG-A-GTTTAAGCCG
** * *
3096577 GGTGAAATGTTCTTTCCG-ATGACTCCCATTCACGAGTTTAAACAG
1 GGTGAAATGTTC-TT-CGAATGACTCCC-TTTGCGAGTTTAAGCCG
* * * ***
3096622 GGTGAAATGTTCTTTGGATGACT-CCTATTCTCGAGTTTAAGAAA
1 GGTGAAATGTTCTTCGAATGACTCCCT-TT-GCGAGTTTAAGCCG
* * * *
3096666 GGTGAAGTATTCTTCGGATGATTCCCCTTCATG-G-GTTTAAGCCG
1 GGTGAAATGTTCTTCGAATGACT-CCCTT--TGCGAGTTTAAGCCG
* *
3096710 GGTGAAGTATTCTTCG
1 GGTGAAATGTTCTTCG
3096726 GACGAATCCC
Statistics
Matches: 227, Mismatches: 40, Indels: 29
0.77 0.14 0.10
Matches are distributed among these distances:
42 2 0.01
43 10 0.04
44 155 0.68
45 51 0.22
46 6 0.03
47 3 0.01
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (43 bp):
GGTGAAATGTTCTTCGAATGACTCCCTTTGCGAGTTTAAGCCG
Found at i:3096643 original size:133 final size:132
Alignment explanation
Indices: 3096435--3096725 Score: 345
Period size: 133 Copynumber: 2.2 Consensus size: 132
3096425 CCCTTTGCGA
* ** * * *
3096435 GTTTAAGCCGTGTGAAATGTTCTTCGAATGACCTCCCTTTGCGAGTTTAAGCCGTGTGAAATGTT
1 GTTTAAGCCGGGTGAAATGTTCTTCGAATGACCTCCCTTCACGAGTTTAAACAGGGTGAAATGTT
* ** * *
3096500 CTTCGAATGACTCCCATTCGT-GGGTTTAAGCCAGGTGAAGTATTCTTTGGATGACTCCCCTTCG
66 CTTCGAATGACTCCCATTC-TCGAGTTTAAGAAAGGTGAAGTATTCTTCGGATGACTCCCCTTCA
3096564 CAG
130 CAG
*
3096567 GTTTAAGTCGGGTGAAATGTTCTTTCCG-ATGA-CTCCCATTCACGAGTTTAAACAGGGTGAAAT
1 GTTTAAGCCGGGTGAAATGTTC-TT-CGAATGACCTCCC-TTCACGAGTTTAAACAGGGTGAAAT
* * * *
3096630 GTTCTTTGGATGACTCCTATTCTCGAGTTTAAGAAAGGTGAAGTATTCTTCGGATGATTCCCCTT
63 GTTCTTCGAATGACTCCCATTCTCGAGTTTAAGAAAGGTGAAGTATTCTTCGGATGACTCCCCTT
**
3096695 CATGG
128 CACAG
* *
3096700 GTTTAAGCCGGGTGAAGTATTCTTCG
1 GTTTAAGCCGGGTGAAATGTTCTTCG
3096726 GACGAATCCC
Statistics
Matches: 134, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
131 2 0.01
132 28 0.21
133 102 0.76
134 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (132 bp):
GTTTAAGCCGGGTGAAATGTTCTTCGAATGACCTCCCTTCACGAGTTTAAACAGGGTGAAATGTT
CTTCGAATGACTCCCATTCTCGAGTTTAAGAAAGGTGAAGTATTCTTCGGATGACTCCCCTTCAC
AG
Found at i:3096726 original size:44 final size:44
Alignment explanation
Indices: 3096435--3096761 Score: 244
Period size: 44 Copynumber: 7.4 Consensus size: 44
3096425 CCCTTTGCGA
* * * * * * *
3096435 GTTTAAGCCGTGTGAAATGTTCTTCGAATGACCTCCC-TTTGCGA
1 GTTTAAGCCGGGTGAAGTATTCTTCGGATGA-CTCCCATTCGTGG
* * * *
3096479 GTTTAAGCCGTGTGAAATGTTCTTCGAATGACTCCCATTCGTGG
1 GTTTAAGCCGGGTGAAGTATTCTTCGGATGACTCCCATTCGTGG
* * * **
3096523 GTTTAAGCCAGGTGAAGTATTCTTTGGATGACTCCCCTTCGCAG
1 GTTTAAGCCGGGTGAAGTATTCTTCGGATGACTCCCATTCGTGG
* * * * ** *
3096567 GTTTAAGTCGGGTGAAATGTTCTTTCCGATGACTCCCATTCACGA
1 GTTTAAGCCGGGTGAAGTATTC-TTCGGATGACTCCCATTCGTGG
* * * * * * *
3096612 GTTTAAACAGGGTGAAATGTTCTTTGGATGACTCCTATTC-TCGA
1 GTTTAAGCCGGGTGAAGTATTCTTCGGATGACTCCCATTCGT-GG
*** * * *
3096656 GTTTAAGAAAGGTGAAGTATTCTTCGGATGATTCCCCTTCATGG
1 GTTTAAGCCGGGTGAAGTATTCTTCGGATGACTCCCATTCGTGG
* * *
3096700 GTTTAAGCCGGGTGAAGTATTCTTCGGACGAATCCCCTTCGTGG
1 GTTTAAGCCGGGTGAAGTATTCTTCGGATGACTCCCATTCGTGG
**
3096744 GTTTAAGCCATGTGAAGT
1 GTTTAAGCCGGGTGAAGT
3096762 GGTTCTTCAG
Statistics
Matches: 232, Mismatches: 47, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
43 5 0.02
44 191 0.82
45 36 0.16
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (44 bp):
GTTTAAGCCGGGTGAAGTATTCTTCGGATGACTCCCATTCGTGG
Found at i:3096767 original size:133 final size:133
Alignment explanation
Indices: 3096476--3096769 Score: 315
Period size: 133 Copynumber: 2.2 Consensus size: 133
3096466 CCTCCCTTTG
* * **
3096476 CGAGTTTAAGCCGTGTGAAATGTTCTTCGAATGACTCCCATTCGTGGGTTTAAGCCAGGTGAAGT
1 CGAGTTTAAGCCATGTGAAATGTTCTTCGAATGACTCCCATTCGTGAGTTTAAGAAAGGTGAAGT
* * * * * *
3096541 ATTCTTTGGATGACTCCCCTTCGCAGGTTTAAGTCGGGTGAAATGTTCTTTCCGATGACTCCCAT
66 ATTCTTCGGATGACTCCCCTTCACAGGTTTAAGCCGGGTGAAATATTCTTTCCGACGAATCCCAT
3096606 TCA
131 TCA
* * * * *
3096609 CGAGTTTAA-ACAGGGTGAAATGTTCTTTGGATGACTCCTATTC-TCGAGTTTAAGAAAGGTGAA
1 CGAGTTTAAGCCA-TGTGAAATGTTCTTCGAATGACTCCCATTCGT-GAGTTTAAGAAAGGTGAA
* ** * *
3096672 GTATTCTTCGGATGATTCCCCTTCATGGGTTTAAGCCGGGTGAAGTATTC-TTCGGACGAATCCC
64 GTATTCTTCGGATGACTCCCCTTCACAGGTTTAAGCCGGGTGAAATATTCTTTCCGACGAATCCC
* *
3096736 CTTCG
129 ATTCA
* * *
3096741 TGGGTTTAAGCCATGTGAAGTGGTTCTTC
1 CGAGTTTAAGCCATGTGAAAT-GTTCTTC
3096770 AGGCCGGATA
Statistics
Matches: 129, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
132 29 0.22
133 100 0.78
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (133 bp):
CGAGTTTAAGCCATGTGAAATGTTCTTCGAATGACTCCCATTCGTGAGTTTAAGAAAGGTGAAGT
ATTCTTCGGATGACTCCCCTTCACAGGTTTAAGCCGGGTGAAATATTCTTTCCGACGAATCCCAT
TCA
Found at i:3113157 original size:15 final size:16
Alignment explanation
Indices: 3113137--3113176 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
3113127 TGAAAAAGAG
3113137 AAAGAAAATTAAAT-A
1 AAAGAAAATTAAATGA
3113152 AAAGAAAATTAAATGA
1 AAAGAAAATTAAATGA
*
3113168 AATGAAAAT
1 AAAGAAAAT
3113177 CCACGTCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (16 bp):
AAAGAAAATTAAATGA
Found at i:3124440 original size:19 final size:19
Alignment explanation
Indices: 3124418--3124455 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3124408 TATTTTAAAT
* *
3124418 ATTTTAATAATTAATATAA
1 ATTTTAAAAATTAAGATAA
3124437 ATTTTAAAAATTAAGATAA
1 ATTTTAAAAATTAAGATAA
3124456 TAGCTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTTTAAAAATTAAGATAA
Found at i:3124988 original size:25 final size:25
Alignment explanation
Indices: 3124967--3125025 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
3124957 ATAGTAAATT
3124967 TCAACTAATCCAAAAATTGTAAGTC
1 TCAACTAATCCAAAAATTGTAAGTC
3124992 TCAACTAATCCAAAAATTGTAAGTC
1 TCAACTAATCCAAAAATTGTAAGTC
3125017 TCAACTAAT
1 TCAACTAAT
3125026 TTAAATTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (25 bp):
TCAACTAATCCAAAAATTGTAAGTC
Found at i:3129835 original size:21 final size:21
Alignment explanation
Indices: 3129802--3129841 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3129792 AGTACCCTGC
* *
3129802 AACAGCTTTATCTCAGCCTAT
1 AACAGCTTCATCTAAGCCTAT
*
3129823 AACATCTTCATCTAAGCCT
1 AACAGCTTCATCTAAGCCT
3129842 GTAGCACATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (21 bp):
AACAGCTTCATCTAAGCCTAT
Found at i:3131473 original size:6 final size:6
Alignment explanation
Indices: 3131462--3131536 Score: 53
Period size: 6 Copynumber: 12.0 Consensus size: 6
3131452 ATCTACAAAT
** * *
3131462 AATAAA AATAAA AAT-AA AATAAA AATAAA GTTAAA GATAAA AAAAATA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAA-A
* *
3131510 AAGTTAAA GATAAA AAGAAAA AATAAA
1 AA--TAAA AATAAA AA-TAAA AATAAA
3131537 TTTGTTATTT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
5 5 0.09
6 37 0.69
7 8 0.15
8 2 0.04
9 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:3131482 original size:11 final size:11
Alignment explanation
Indices: 3131466--3131511 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
3131456 ACAAATAATA
3131466 AAAATAAAAAT
1 AAAATAAAAAT
3131477 AAAATAAAAAT
1 AAAATAAAAAT
* *
3131488 AAAGTTAAAGAT
1 AAA-ATAAAAAT
3131500 -AAA-AAAAAT
1 AAAATAAAAAT
3131509 AAA
1 AAA
3131512 GTTAAAGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
9 5 0.17
10 2 0.07
11 16 0.55
12 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:3131508 original size:21 final size:21
Alignment explanation
Indices: 3131482--3131525 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
3131472 AAAATAAAAT
3131482 AAAAATAAAGTTAAAGATAAA
1 AAAAATAAAGTTAAAGATAAA
3131503 AAAAATAAAGTTAAAGATAAA
1 AAAAATAAAGTTAAAGATAAA
3131524 AA
1 AA
3131526 GAAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (21 bp):
AAAAATAAAGTTAAAGATAAA
Found at i:3131517 original size:27 final size:25
Alignment explanation
Indices: 3131471--3131536 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 25
3131461 TAATAAAAAT
* *
3131471 AAAAATAAAATAAAAATAAAGTTAA
1 AAAAAAAAAATAAAAATAAAGATAA
**
3131496 AGATAAAAAAAATAAAGTTAAAGATAA
1 A-A-AAAAAAAATAAAAATAAAGATAA
*
3131523 AAAGAAAAAATAAA
1 AAAAAAAAAATAAA
3131537 TTTGTTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 12 0.35
26 2 0.06
27 20 0.59
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.17
Consensus pattern (25 bp):
AAAAAAAAAATAAAAATAAAGATAA
Found at i:3139160 original size:29 final size:30
Alignment explanation
Indices: 3139127--3139184 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
3139117 TTTAAATATT
*
3139127 TAATTTTTTAATAAATTAATAT-ATAAAAC
1 TAATTTATTAATAAATTAATATAATAAAAC
*
3139156 TAATTTATTAATAAATTATTATAATAAAA
1 TAATTTATTAATAAATTAATATAATAAAA
3139185 ATAAAATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (30 bp):
TAATTTATTAATAAATTAATATAATAAAAC
Found at i:3140116 original size:22 final size:23
Alignment explanation
Indices: 3140088--3140139 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
3140078 ATTTATAAGT
3140088 TGGTGATAATATAGGCGTGAT-A
1 TGGTGATAATATAGGCGTGATAA
*
3140110 TGGTGATGATATAGGCGTGATAA
1 TGGTGATAATATAGGCGTGATAA
3140133 TGGTGAT
1 TGGTGAT
3140140 GGACTATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.29, C:0.04, G:0.35, T:0.33
Consensus pattern (23 bp):
TGGTGATAATATAGGCGTGATAA
Found at i:3140148 original size:36 final size:36
Alignment explanation
Indices: 3140108--3140251 Score: 270
Period size: 36 Copynumber: 4.0 Consensus size: 36
3140098 ATAGGCGTGA
3140108 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
*
3140144 TATGGTGATGATATAGGCGTGATAATGGTGATGGAA
1 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
*
3140180 TATGGTGATGATATAGGCGTGACAATGGTGATGGAC
1 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
3140216 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
3140252 AGATTGTATC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 104 1.00
ACGTcount: A:0.28, C:0.06, G:0.36, T:0.30
Consensus pattern (36 bp):
TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
Found at i:3140150 original size:13 final size:11
Alignment explanation
Indices: 3140105--3140248 Score: 89
Period size: 11 Copynumber: 12.2 Consensus size: 11
3140095 AATATAGGCG
3140105 TGATATGGTGA
1 TGATATGGTGA
*
3140116 TGATATAGGCG-
1 TGATAT-GGTGA
3140127 TGATAATGGTGA
1 TGAT-ATGGTGA
3140139 TGGACTATGGTGA
1 T-GA-TATGGTGA
*
3140152 TGATATAGGCG-
1 TGATAT-GGTGA
3140163 TGATAATGGTGA
1 TGAT-ATGGTGA
3140175 TGGAATATGGTGA
1 T-G-ATATGGTGA
*
3140188 TGATATAGGCG-
1 TGATAT-GGTGA
*
3140199 TGACAATGGTGA
1 TGA-TATGGTGA
3140211 TGGACTATGGTGA
1 T-GA-TATGGTGA
*
3140224 TGATATAGGCG-
1 TGATAT-GGTGA
3140235 TGATAATGGTGA
1 TGAT-ATGGTGA
3140247 TG
1 TG
3140249 GACAGATTGT
Statistics
Matches: 106, Mismatches: 10, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
11 43 0.41
12 30 0.28
13 30 0.28
14 3 0.03
ACGTcount: A:0.28, C:0.05, G:0.36, T:0.31
Consensus pattern (11 bp):
TGATATGGTGA
Found at i:3145939 original size:36 final size:36
Alignment explanation
Indices: 3145866--3146114 Score: 437
Period size: 36 Copynumber: 6.9 Consensus size: 36
3145856 ATTTATAAAT
* *
3145866 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
3145901 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
* *
3145937 TGGTGATGATATAGGCATGATAATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
3145973 TGGTGATGATATAGGCATGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
3146009 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
3146045 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
3146081 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
3146115 AGATTGTATC
Statistics
Matches: 205, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
35 20 0.10
36 185 0.90
ACGTcount: A:0.30, C:0.04, G:0.35, T:0.31
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:3151753 original size:11 final size:11
Alignment explanation
Indices: 3151732--3151791 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
3151722 CATATAATAT
3151732 ATAGTTTTTAAA
1 ATAG-TTTTAAA
3151744 ATAGTTTTAAA
1 ATAGTTTTAAA
* *
3151755 AAACG-TATAATA
1 ATA-GTTTTAA-A
3151767 TATAGTTTTAAA
1 -ATAGTTTTAAA
3151779 ATAGTTTTGAAA
1 ATAGTTTT-AAA
3151791 A
1 A
3151792 CATATAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
11 21 0.54
12 12 0.31
13 6 0.15
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.42
Consensus pattern (11 bp):
ATAGTTTTAAA
Found at i:3151783 original size:35 final size:36
Alignment explanation
Indices: 3151687--3151886 Score: 212
Period size: 35 Copynumber: 5.6 Consensus size: 36
3151677 TATAAATATG
* *
3151687 TAATATATAGTTTTTGAAAACTTATTTTTA-AGAAACATA
1 TAATATATAGTTTTT-AAAA--TAGTTTTAGA-AAACGTA
*
3151726 TAATATATAGTTTTTAAAATAGTTTTAAAAAACGTA
1 TAATATATAGTTTTTAAAATAGTTTTAGAAAACGTA
*
3151762 TAATATATAG-TTTTAAAATAGTTTT-GAAAACATA
1 TAATATATAGTTTTTAAAATAGTTTTAGAAAACGTA
* * ** *
3151796 TAGTATATAGCTTATCCAAATAG-TTTGGAAAACGTA
1 TAATATATAG-TTTTTAAAATAGTTTTAGAAAACGTA
*
3151832 TAATATATAGTTTTTAAAATAG-TTTGGAAAACGTA
1 TAATATATAGTTTTTAAAATAGTTTTAGAAAACGTA
* *
3151867 TAATTTATAGTTTTGAAAAT
1 TAATATATAGTTTTTAAAAT
3151887 GTATAATATA
Statistics
Matches: 142, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
34 16 0.11
35 58 0.41
36 48 0.34
37 1 0.01
38 4 0.03
39 15 0.11
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.41
Consensus pattern (36 bp):
TAATATATAGTTTTTAAAATAGTTTTAGAAAACGTA
Found at i:3151828 original size:70 final size:71
Alignment explanation
Indices: 3151687--3151878 Score: 226
Period size: 71 Copynumber: 2.7 Consensus size: 71
3151677 TATAAATATG
* * * *
3151687 TAATATATAGTTTTTGAAAACTTATTTTTAAGAAACATATAATATATAGTTTTTAAAATAGTTTT
1 TAATATATAGTTTTT-AAAA--TAGTTTTGA-AAACATATAATATATAGTTATCAAAATAGTTTT
3151752 AAAAAACGTA
62 AAAAAACGTA
* * **
3151762 TAATATATAG-TTTTAAAATAGTTTTGAAAACATATAGTATATAGCTTATCCAAATAG-TTTGGA
1 TAATATATAGTTTTTAAAATAGTTTTGAAAACATATAATATATAG-TTATCAAAATAGTTTTAAA
3151825 AAACGTA
65 AAACGTA
* * *
3151832 TAATATATAGTTTTTAAAATAGTTTGGAAAACGTATAATTTATAGTT
1 TAATATATAGTTTTTAAAATAGTTTTGAAAACATATAATATATAGTT
3151879 TTGAAAATGT
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
70 39 0.38
71 46 0.45
73 4 0.04
74 4 0.04
75 10 0.10
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (71 bp):
TAATATATAGTTTTTAAAATAGTTTTGAAAACATATAATATATAGTTATCAAAATAGTTTTAAAA
AACGTA
Found at i:3151910 original size:25 final size:23
Alignment explanation
Indices: 3151850--3151898 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
3151840 AGTTTTTAAA
*
3151850 ATAGTTTGGAAAACGTATAATTT
1 ATAGTTTTGAAAACGTATAATTT
* *
3151873 ATAGTTTTGAAAATGTATAATAT
1 ATAGTTTTGAAAACGTATAATTT
3151896 ATA
1 ATA
3151899 TAGCTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (23 bp):
ATAGTTTTGAAAACGTATAATTT
Found at i:3151940 original size:63 final size:58
Alignment explanation
Indices: 3151815--3151948 Score: 135
Period size: 63 Copynumber: 2.2 Consensus size: 58
3151805 GCTTATCCAA
* * * * *
3151815 ATAGTTTGGAAAACGTATAATATATAGTTTTTAAAATAGTTTGGAAAACGTATAATTT
1 ATAGTTTTGAAAACGTATAATATATAGTTTTAAAAAAAGTTTGGAAAACATATAATAT
* *
3151873 ATAGTTTTGAAAATGTATAATATATATAGCTTTTAAAAAAATGATTTTGAAAACATAT-ATAAT
1 ATAGTTTTGAAAACGTAT-A-ATATATAG-TTTTAAAAAAA-G-TTTGGAAAACATATAAT-AT
3151936 ATAGTTTTCGAAA
1 ATAGTTTT-GAAA
3151949 TGGTTTTGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
58 16 0.26
59 1 0.02
60 8 0.13
61 9 0.15
62 3 0.05
63 21 0.34
64 4 0.06
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.40
Consensus pattern (58 bp):
ATAGTTTTGAAAACGTATAATATATAGTTTTAAAAAAAGTTTGGAAAACATATAATAT
Found at i:3151950 original size:35 final size:37
Alignment explanation
Indices: 3151910--3152003 Score: 113
Period size: 35 Copynumber: 2.6 Consensus size: 37
3151900 AGCTTTTAAA
3151910 AAAATGATTTTGAAAACATATATA-ATAT-AGTTTTC
1 AAAATGATTTTGAAAACATATATATATATGAGTTTTC
* * * *
3151945 GAAATGGTTTTGAAAACATATA-ATATATGGGTTTTT
1 AAAATGATTTTGAAAACATATATATATATGAGTTTTC
* *
3151981 AAAAGGATTTAGAAAACATATAT
1 AAAATGATTTTGAAAACATATAT
3152004 TTTTAAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 1 0.02
35 24 0.50
36 23 0.48
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.37
Consensus pattern (37 bp):
AAAATGATTTTGAAAACATATATATATATGAGTTTTC
Found at i:3151996 original size:134 final size:130
Alignment explanation
Indices: 3151764--3152002 Score: 304
Period size: 134 Copynumber: 1.8 Consensus size: 130
3151754 AAAACGTATA
*
3151764 ATATATAGTTTTAAAATAGTTTTGAAAACATATAGTATATAGCTTATCCAAATAGTTTGGAAAAC
1 ATATATAGTTTTAAAAAAGTTTTGAAAACATATAGTATATAGCTTATCCAAATAGTTTGGAAAAC
* * * *
3151829 GTATAATATATAGTTTTTAAAATAGTTTGGAAAACGTATAATTTATAGTTTTGAAAATGTATAAT
66 ATATAATATATAGTTTTTAAAAGAGTTTAGAAAACATATAATTTATAGTTTTGAAAATGTATAAT
* * * *
3151894 ATATATAGCTTTTAAAAAAATGATTTTGAAAACATATA-TAATATAG-TTTTCGAAATGGTTTTG
1 ATATATAG-TTTT-AAAAAA-G-TTTTGAAAACATATAGT-ATATAGCTTATCCAAATAGTTTGG
*
3151957 AAAACATATAATATATGGGTTTTTAAAAG-GATTTAGAAAACATATA
61 AAAACATATAATATAT-AGTTTTTAAAAGAG-TTTAGAAAACATATA
3152003 TTTTTAAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
130 8 0.09
131 4 0.04
132 5 0.05
133 31 0.34
134 44 0.48
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.39
Consensus pattern (130 bp):
ATATATAGTTTTAAAAAAGTTTTGAAAACATATAGTATATAGCTTATCCAAATAGTTTGGAAAAC
ATATAATATATAGTTTTTAAAAGAGTTTAGAAAACATATAATTTATAGTTTTGAAAATGTATAAT
Found at i:3152020 original size:15 final size:15
Alignment explanation
Indices: 3151987--3152032 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
3151977 TTTTAAAAGG
*
3151987 ATTTAGAAAACATAT
1 ATTTAAAAAACATAT
3152002 ATTTTTAAAAAACA-A-
1 A--TTTAAAAAACATAT
3152017 ATTTAAAAAACATAT
1 ATTTAAAAAACATAT
3152032 A
1 A
3152033 ATATAATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
15 3 0.12
16 1 0.04
17 10 0.38
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (15 bp):
ATTTAAAAAACATAT
Found at i:3153315 original size:22 final size:22
Alignment explanation
Indices: 3153290--3153424 Score: 59
Period size: 22 Copynumber: 6.0 Consensus size: 22
3153280 TCTCTTTCAA
3153290 TATTCTTTTATTTTATTATTTT
1 TATTCTTTTATTTTATTATTTT
* *
3153312 TATTAC-TCTATTTTCTT-TATTT
1 TATT-CTTTTATTTTATTAT-TTT
3153334 T-TTCTTTATATTTTAATTTAGTTTTT
1 TATTCTTT-TATTTT-A-TTA--TTTT
3153360 TATTATCTTTTA--TTA-TATTTT
1 TA-T-TCTTTTATTTTATTATTTT
* * **
3153381 TATTCTTATCTTTTAACATTTT
1 TATTCTTTTATTTTATTATTTT
* *
3153403 T-TTCTTTTTTTTGTGTTATTTT
1 TATTCTTTTATTT-TATTATTTT
3153425 CTCGATTTAC
Statistics
Matches: 85, Mismatches: 12, Indels: 32
0.66 0.09 0.25
Matches are distributed among these distances:
19 5 0.06
20 2 0.02
21 22 0.26
22 35 0.41
23 3 0.04
24 2 0.02
25 1 0.01
26 6 0.07
27 1 0.01
28 3 0.04
29 5 0.06
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (22 bp):
TATTCTTTTATTTTATTATTTT
Found at i:3153353 original size:23 final size:21
Alignment explanation
Indices: 3153298--3153381 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 21
3153288 AATATTCTTT
3153298 TATTTTA-TTA-TTTTTATTA
1 TATTTTATTTATTTTTTATTA
* *
3153317 CTCTATTTTCTTTATTTTTTCTTTA
1 ---TATTTTATTTATTTTTT-ATTA
3153342 TATTTTAATTTAGTTTTTTATTA
1 TATTTT-ATTTA-TTTTTTATTA
*
3153365 TCTTTTATTATATTTTT
1 TATTTTATT-TATTTTT
3153382 ATTCTTATCT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
22 20 0.39
23 17 0.33
24 11 0.22
25 3 0.06
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (21 bp):
TATTTTATTTATTTTTTATTA
Found at i:3153370 original size:12 final size:13
Alignment explanation
Indices: 3153355--3153395 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
3153345 TTTAATTTAG
3153355 TTTT-TTATTATC
1 TTTTATTATTATC
3153367 TTTTATTA-TAT-
1 TTTTATTATTATC
*
3153378 TTTTATTCTTATC
1 TTTTATTATTATC
3153391 TTTTA
1 TTTTA
3153396 ACATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 7 0.28
12 10 0.40
13 8 0.32
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTATTATTATC
Found at i:3164219 original size:24 final size:24
Alignment explanation
Indices: 3164192--3164241 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
3164182 GTTAAAAAAT
*
3164192 AAAGCATATAATTTAAGTTTACAA
1 AAAGCATAGAATTTAAGTTTACAA
3164216 AAAGCATAGAATTTAAGTTTACAA
1 AAAGCATAGAATTTAAGTTTACAA
3164240 AA
1 AA
3164242 CACGAGAGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (24 bp):
AAAGCATAGAATTTAAGTTTACAA
Found at i:3165980 original size:19 final size:18
Alignment explanation
Indices: 3165958--3166224 Score: 112
Period size: 19 Copynumber: 13.9 Consensus size: 18
3165948 GAGGAACCAT
3165958 ATTTTAGGTTGGAAGTCAG
1 ATTTTAGGTTGGAA-TCAG
* * *
3165977 ATTTTAGGTTGCAACCAAA
1 ATTTTAGGTTGGAATC-AG
* *
3165996 ATTTTTAGATTGG-ATGCCG
1 A-TTTTAGGTTGGAAT-CAG
* ** *
3166015 AATTTTTGGTTACAAACCAG
1 -ATTTTAGGTT-GGAATCAG
*
3166035 ATTTTTAGGTTGGAATCCAA
1 A-TTTTAGGTTGGAAT-CAG
* *
3166055 ATTTTAGGTTGGAAGCTAT
1 ATTTTAGGTTGGAATC-AG
* *
3166074 ATTTTAGGTTGCAACCCAG
1 ATTTTAGGTTGGAA-TCAG
3166093 ATTTTTA-GTTGGAATCTAG
1 A-TTTTAGGTTGGAATC-AG
*
3166112 ATTTTAGGTTGGAATCCAA
1 ATTTTAGGTTGGAAT-CAG
*
3166131 ATTTTAGGTT-GCATCATAG
1 ATTTTAGGTTGGAATC--AG
*
3166150 ACTTTTAGGTT-GATATCCAT
1 A-TTTTAGGTTGGA-AT-CAG
*
3166170 ATTTCAGGTTGGAAGGT-AG
1 ATTTTAGGTTGGAA--TCAG
* * *
3166189 AGTTTAGGTTGCAACCATG
1 ATTTTAGGTTGGAATCA-G
3166208 ATTTTTAGGTTGGAATC
1 A-TTTTAGGTTGGAATC
3166225 CATACTTCAA
Statistics
Matches: 183, Mismatches: 40, Indels: 49
0.67 0.15 0.18
Matches are distributed among these distances:
17 1 0.01
18 12 0.07
19 108 0.59
20 57 0.31
21 4 0.02
22 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.39
Consensus pattern (18 bp):
ATTTTAGGTTGGAATCAG
Found at i:3166009 original size:39 final size:39
Alignment explanation
Indices: 3165959--3166143 Score: 105
Period size: 39 Copynumber: 4.8 Consensus size: 39
3165949 AGGAACCATA
3165959 TTTTAGGTTGGAAGTCAGATTTTAGGTTGC-AACCAAAAT
1 TTTTAGGTTGGAAGTCAGATTTTAGGTTGCAAACC-AAAT
* * * * * *
3165998 TTTTAGATTGGATG-CCGAATTTTTGGTTACAAACCAGAT
1 TTTTAGGTTGGAAGTCAG-ATTTTAGGTTGCAAACCAAAT
* * * * *
3166037 TTTTAGGTTGGAA-TCCAAATTTTAGGTTGGAAGCTATA-
1 TTTTAGGTTGGAAGT-CAGATTTTAGGTTGCAAACCAAAT
* ** * * * *
3166075 TTTTAGGTTGCAACCCAGATTTTTA-GTTGGAATCTAGA-
1 TTTTAGGTTGGAAGTCAGA-TTTTAGGTTGCAAACCAAAT
*
3166113 TTTTAGGTTGGAA-TCCAAATTTTAGGTTGCA
1 TTTTAGGTTGGAAGT-CAGATTTTAGGTTGCA
3166144 TCATAGACTT
Statistics
Matches: 113, Mismatches: 25, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
37 5 0.04
38 48 0.42
39 55 0.49
40 5 0.04
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (39 bp):
TTTTAGGTTGGAAGTCAGATTTTAGGTTGCAAACCAAAT
Found at i:3166078 original size:58 final size:57
Alignment explanation
Indices: 3165958--3166330 Score: 279
Period size: 58 Copynumber: 6.4 Consensus size: 57
3165948 GAGGAACCAT
* * * * * **
3165958 ATTTTAGGTTGGAAGTCAGA-TTTTAGGTTGCAA-CCAAAATTTTTAGATTGGATGCCGA
1 ATTTTAGGTTGCAA-CCAGATTTTTAGGTTGGAATCC-AAA-TTTTAGGTTGGAAGCTAA
* * *
3166016 ATTTTTGGTTACAAACCAGATTTTTAGGTTGGAATCCAAATTTTAGGTTGGAAGCTAT
1 ATTTTAGGTTGC-AACCAGATTTTTAGGTTGGAATCCAAATTTTAGGTTGGAAGCTAA
* * * *
3166074 ATTTTAGGTTGCAACCCAGATTTTTA-GTTGGAATCTAGATTTTAGGTTGGAATCCAA
1 ATTTTAGGTTGCAA-CCAGATTTTTAGGTTGGAATCCAAATTTTAGGTTGGAAGCTAA
* * * * * * *
3166131 ATTTTAGGTTGCATCATAGACTTTTAGGTT-GATATCCATATTTCAGGTTGGAAGGTAG
1 ATTTTAGGTTGCAAC-CAGATTTTTAGGTTGGA-ATCCAAATTTTAGGTTGGAAGCTAA
* * * * * * *
3166189 AGTTTAGGTTGCAACCATGATTTTTAGGTTGGAATCCATACTTCAAGTTAGAAGCCAA
1 ATTTTAGGTTGCAACCA-GATTTTTAGGTTGGAATCCAAATTTTAGGTTGGAAGCTAA
* * * * *
3166247 ATTTTAGGTTGCAACATAGAATTTTA-GTCTGGAAGCCAAATTTTAGGTTGTAACCTAGA
1 ATTTTAGGTTGCAAC-CAGATTTTTAGGT-TGGAATCCAAATTTTAGGTTGGAAGCTA-A
* * *
3166306 TTTTTAGTTTGAAAACCAGATTTTT
1 ATTTTAGGTTG-CAACCAGATTTTT
3166331 GGCTGTAAGT
Statistics
Matches: 248, Mismatches: 54, Indels: 25
0.76 0.17 0.08
Matches are distributed among these distances:
56 1 0.00
57 54 0.22
58 151 0.61
59 37 0.15
60 5 0.02
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (57 bp):
ATTTTAGGTTGCAACCAGATTTTTAGGTTGGAATCCAAATTTTAGGTTGGAAGCTAA
Found at i:3166311 original size:39 final size:39
Alignment explanation
Indices: 3166239--3166313 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
3166229 CTTCAAGTTA
3166239 GAAGCCAAATTTTAGGTTGCAACATAGAATTTTAGTCTG
1 GAAGCCAAATTTTAGGTTGCAACATAGAATTTTAGTCTG
* * *
3166278 GAAGCCAAATTTTAGGTTGTAACCTAGATTTTTAGT
1 GAAGCCAAATTTTAGGTTGCAACATAGAATTTTAGT
3166314 TTGAAAACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (39 bp):
GAAGCCAAATTTTAGGTTGCAACATAGAATTTTAGTCTG
Found at i:3166312 original size:20 final size:20
Alignment explanation
Indices: 3166287--3166330 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
3166277 GGAAGCCAAA
*
3166287 TTTTAGGTTG-TAACCTAGAT
1 TTTTAGGTTGAAAACC-AGAT
*
3166307 TTTTAGTTTGAAAACCAGAT
1 TTTTAGGTTGAAAACCAGAT
3166327 TTTT
1 TTTT
3166331 GGCTGTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (20 bp):
TTTTAGGTTGAAAACCAGAT
Found at i:3166329 original size:39 final size:39
Alignment explanation
Indices: 3166243--3166338 Score: 111
Period size: 39 Copynumber: 2.5 Consensus size: 39
3166233 AAGTTAGAAG
* * *
3166243 CCAAATTTTAGGTTGCAACATAGAATTTTAGTCTGGAAG
1 CCAAATTTTAGGTTGTAACATAGAATTTTAGTCTGAAAA
* * *
3166282 CCAAATTTTAGGTTGTAACCTAGATTTTTAGTTTGAAAA
1 CCAAATTTTAGGTTGTAACATAGAATTTTAGTCTGAAAA
* * *
3166321 CCAGATTTTTGGCTGTAA
1 CCAAATTTTAGGTTGTAA
3166339 GTCTGTTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (39 bp):
CCAAATTTTAGGTTGTAACATAGAATTTTAGTCTGAAAA
Found at i:3167301 original size:6 final size:6
Alignment explanation
Indices: 3167290--3167350 Score: 122
Period size: 6 Copynumber: 10.2 Consensus size: 6
3167280 GTAAGACTAT
3167290 ATATGA ATATGA ATATGA ATATGA ATATGA ATATGA ATATGA ATATGA
1 ATATGA ATATGA ATATGA ATATGA ATATGA ATATGA ATATGA ATATGA
3167338 ATATGA ATATGA A
1 ATATGA ATATGA A
3167351 AGTGAGTTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (6 bp):
ATATGA
Found at i:3171863 original size:15 final size:15
Alignment explanation
Indices: 3171845--3171876 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3171835 TAATCATAGA
3171845 ATTTCAAAACATAAT
1 ATTTCAAAACATAAT
*
3171860 ATTTTAAAACATAAT
1 ATTTCAAAACATAAT
3171875 AT
1 AT
3171877 AATATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTTCAAAACATAAT
Found at i:3173812 original size:21 final size:21
Alignment explanation
Indices: 3173788--3173833 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
3173778 ATGTATTTGA
3173788 ATCAACATGTGAAAACTATGC
1 ATCAACATGTGAAAACTATGC
3173809 ATCAACATGTGAAAACTATGC
1 ATCAACATGTGAAAACTATGC
3173830 ATCA
1 ATCA
3173834 TTGACAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (21 bp):
ATCAACATGTGAAAACTATGC
Found at i:3177940 original size:30 final size:30
Alignment explanation
Indices: 3177897--3177959 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
3177887 AAGTCTTATA
* *
3177897 AAAATTTGGGGACC-ATTCTATAATTTTTG
1 AAAATTTGGGGACCAATTCGATAATTTTGG
3177926 AAAATTTAGGGGACCAATTCGATAATTTTGG
1 AAAATTT-GGGGACCAATTCGATAATTTTGG
3177957 AAA
1 AAA
3177960 CGTTATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 7 0.23
30 7 0.23
31 16 0.53
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.35
Consensus pattern (30 bp):
AAAATTTGGGGACCAATTCGATAATTTTGG
Found at i:3185405 original size:32 final size:31
Alignment explanation
Indices: 3185347--3185407 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
3185337 TAAAAATTTA
* * *
3185347 GGGACCATTTTATAATTTTTGAAAAGTTAGG
1 GGGACCAATTTACAATTTTGGAAAAGTTAGG
*
3185378 GGGACCAATTTAGCAATTTTGGGAAAGTTA
1 GGGACCAATTTA-CAATTTTGGAAAAGTTA
3185408 TGAATGGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 11 0.44
32 14 0.56
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (31 bp):
GGGACCAATTTACAATTTTGGAAAAGTTAGG
Found at i:3187651 original size:132 final size:133
Alignment explanation
Indices: 3187414--3187678 Score: 523
Period size: 132 Copynumber: 2.0 Consensus size: 133
3187404 ATAAAAACTC
3187414 ACCGTGGAAGAGAATACATCATTTGGAAGAAAGGGAAAACTAAGCCCTAGATTCGTCGATCCTTA
1 ACCGTGGAAGAGAATACATCATTTGGAAGAAAGGGAAAACTAAGCCCTAGATTCGTCGATCCTTA
3187479 TGAAATATTAAAAAGGATCGGCTAGTAGCTTATCAGTTAACATTACCCCCAGA-TTGGCTAGAAT
66 TGAAATATTAAAAAGGATCGGCTAGTAGCTTATCAGTTAACATTACCCCCAGATTTGGCTAGAAT
3187543 TCA
131 TCA
3187546 ACCGTGGAAGAGAATACATCATTTGGAAGAAAGGGAAAACTAAGCCCTAGATTCGTCGATCCTTA
1 ACCGTGGAAGAGAATACATCATTTGGAAGAAAGGGAAAACTAAGCCCTAGATTCGTCGATCCTTA
3187611 TGAAATATTAAAAAGGATCGGCTAGTAGCTTATCAGTTAACATTACCCCCAGATTTGGCTAGAAT
66 TGAAATATTAAAAAGGATCGGCTAGTAGCTTATCAGTTAACATTACCCCCAGATTTGGCTAGAAT
3187676 TCA
131 TCA
3187679 CAATGTTTTC
Statistics
Matches: 132, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
132 118 0.89
133 14 0.11
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (133 bp):
ACCGTGGAAGAGAATACATCATTTGGAAGAAAGGGAAAACTAAGCCCTAGATTCGTCGATCCTTA
TGAAATATTAAAAAGGATCGGCTAGTAGCTTATCAGTTAACATTACCCCCAGATTTGGCTAGAAT
TCA
Found at i:3204596 original size:16 final size:18
Alignment explanation
Indices: 3204570--3204603 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3204560 ATTGAAACTC
3204570 TATACATTGAAT-TTGAT
1 TATACATTGAATATTGAT
3204587 TATA-ATTGAATATTGAT
1 TATACATTGAATATTGAT
3204604 AGGTTATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (18 bp):
TATACATTGAATATTGAT
Found at i:3207717 original size:17 final size:17
Alignment explanation
Indices: 3207676--3207723 Score: 73
Period size: 15 Copynumber: 2.9 Consensus size: 17
3207666 GTTGAGTGTG
3207676 GGCATTGGTGTGATAAA
1 GGCATTGGTGTGATAAA
*
3207693 -G-TTTGGTGTGATAAA
1 GGCATTGGTGTGATAAA
3207708 GGCATTGGTGTGATAA
1 GGCATTGGTGTGATAA
3207724 GTGAAACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 13 0.48
16 2 0.07
17 12 0.44
ACGTcount: A:0.27, C:0.04, G:0.35, T:0.33
Consensus pattern (17 bp):
GGCATTGGTGTGATAAA
Found at i:3218670 original size:21 final size:21
Alignment explanation
Indices: 3218624--3218670 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
3218614 TTTTCTTCTT
* *
3218624 ATTTTATTTATTTTATTTATC
1 ATTTTATTTATGTTATTTACC
*
3218645 TTTTTATTTACTGTT-TTTACC
1 ATTTTATTTA-TGTTATTTACC
3218666 ATTTT
1 ATTTT
3218671 TCATTGCCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTATTTATGTTATTTACC
Found at i:3229132 original size:106 final size:105
Alignment explanation
Indices: 3228941--3229152 Score: 374
Period size: 106 Copynumber: 2.0 Consensus size: 105
3228931 ATTGCCACTG
3228941 CATTTCCATTTGCTACACCATCACACCATCAATCCGCATCCACCAGCATACACATATCCATTGCC
1 CATTTCCATTTGCTACACCATCACACCATCAATCCGCATCCACCAGCATACACATATCCATTGCC
3229006 GTGATTTGTATATATCAGACTAACTATACTTAGATAATTTA
66 GTGATTTGTATATA-CAGACTAACTATACTTAGATAATTTA
3229047 CATTTCCATTTGCTACACCATCACACCATCAATCCGCAT-CACCAGCATACACATATCCATTGCC
1 CATTTCCATTTGCTACACCATCACACCATCAATCCGCATCCACCAGCATACACATATCCATTGCC
3229111 GTGACATTTGTATAT-CAAGACTAACTATACTTAGATAATTTA
66 GTG--ATTTGTATATAC-AGACTAACTATACTTAGATAATTTA
3229153 GTGCGTTGCT
Statistics
Matches: 103, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
105 29 0.28
106 64 0.62
107 10 0.10
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (105 bp):
CATTTCCATTTGCTACACCATCACACCATCAATCCGCATCCACCAGCATACACATATCCATTGCC
GTGATTTGTATATACAGACTAACTATACTTAGATAATTTA
Found at i:3239598 original size:44 final size:44
Alignment explanation
Indices: 3239535--3239974 Score: 585
Period size: 44 Copynumber: 10.0 Consensus size: 44
3239525 TAGTTATTAT
* * * *
3239535 TTTCATTTATGTCATCCTTTCATGCCTTACTGCACCGTTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * * *
3239579 TTTCATTTATGGCACCCTTTCATTCCTTAATGCACCATTAAGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * *
3239623 TTTCAGTTATGGAATCCTTTTATGCCTTAATGAACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* *
3239667 TTTCAGTTATGGCATCCTTTCAGGCCTTAATGCACCATTATGCC
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * * * *
3239711 TTTTAGTTATGACATTCTTTCATGCCTTAATGTATCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
*
3239755 TTTCAGTTATGACATCCTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * * *
3239799 TTTTAGTTATGGCATCCGTTCATGCCTTAACGTACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * * *
3239843 TTTTAGTTATGGCATCATTTCATGCCTTAATGCATCATTATTCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * *
3239887 TTTTAGTTATTGCATCCTTTCATGCCTTAATGCATCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* *
3239931 TTTTAGTTATGGCATCCTTTCATGCCTTAA-GCATCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
3239974 T
1 T
3239975 CAGTATGAAT
Statistics
Matches: 352, Mismatches: 44, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
43 14 0.04
44 338 0.96
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.42
Consensus pattern (44 bp):
TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
Found at i:3239879 original size:20 final size:20
Alignment explanation
Indices: 3239854--3239925 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
3239844 TTTAGTTATG
3239854 GCATCATTTCATGCCTTAAT
1 GCATCATTTCATGCCTTAAT
*** *
3239874 GCATCATTATTCATTTTAGTTATT
1 GCATCA-T-TTCA--TGCCTTAAT
*
3239898 GCATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCCTTAAT
3239918 GCATCATT
1 GCATCATT
3239926 ATGCATTTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
20 18 0.47
21 1 0.03
22 8 0.21
23 1 0.03
24 10 0.26
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (20 bp):
GCATCATTTCATGCCTTAAT
Found at i:3253227 original size:33 final size:33
Alignment explanation
Indices: 3253185--3253266 Score: 157
Period size: 33 Copynumber: 2.5 Consensus size: 33
3253175 CGATACTAAA
3253185 AGAAA-GGTATCGATACCATGGATCCAGAATGT
1 AGAAATGGTATCGATACCATGGATCCAGAATGT
3253217 AGAAATGGTATCGATACCATGGATCCAGAATGT
1 AGAAATGGTATCGATACCATGGATCCAGAATGT
3253250 AGAAATGGTATCGATAC
1 AGAAATGGTATCGATAC
3253267 TGAAGGGGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 5 0.10
33 44 0.90
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (33 bp):
AGAAATGGTATCGATACCATGGATCCAGAATGT
Found at i:3253894 original size:54 final size:54
Alignment explanation
Indices: 3253646--3253877 Score: 383
Period size: 54 Copynumber: 4.3 Consensus size: 54
3253636 TTAGCGAATA
3253646 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCATATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCATATT
* *
3253700 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCATATT
* * *
3253754 GGCACTGTGTGTGCAGCCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCATATT
* *
3253808 GCCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCATATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCATATT
* *
3253862 AGAACTATGTGTGCAA
1 GGCACTATGTGTGCAA
3253878 ACCATAGAGT
Statistics
Matches: 166, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 166 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (54 bp):
GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCATATT
Found at i:3257861 original size:162 final size:162
Alignment explanation
Indices: 3257594--3257918 Score: 650
Period size: 162 Copynumber: 2.0 Consensus size: 162
3257584 GTGCCTTGGT
3257594 TGTTGAACTTAAGTTAAAGCCGATGCTTTTGGATCGGGTAAAAGAGGTGCAAGGTTGAGATGGGA
1 TGTTGAACTTAAGTTAAAGCCGATGCTTTTGGATCGGGTAAAAGAGGTGCAAGGTTGAGATGGGA
3257659 AATGCTTGGCGAGATGGCAGAAGTCGGAAAAGAATAGTTCAAAACTTCGTAATGATGAACGATGG
66 AATGCTTGGCGAGATGGCAGAAGTCGGAAAAGAATAGTTCAAAACTTCGTAATGATGAACGATGG
3257724 ATGTTTATATTATCGTGGGAGACTTTGTATTC
131 ATGTTTATATTATCGTGGGAGACTTTGTATTC
3257756 TGTTGAACTTAAGTTAAAGCCGATGCTTTTGGATCGGGTAAAAGAGGTGCAAGGTTGAGATGGGA
1 TGTTGAACTTAAGTTAAAGCCGATGCTTTTGGATCGGGTAAAAGAGGTGCAAGGTTGAGATGGGA
3257821 AATGCTTGGCGAGATGGCAGAAGTCGGAAAAGAATAGTTCAAAACTTCGTAATGATGAACGATGG
66 AATGCTTGGCGAGATGGCAGAAGTCGGAAAAGAATAGTTCAAAACTTCGTAATGATGAACGATGG
3257886 ATGTTTATATTATCGTGGGAGACTTTGTATTC
131 ATGTTTATATTATCGTGGGAGACTTTGTATTC
3257918 T
1 T
3257919 CGATAATGAT
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 163 1.00
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (162 bp):
TGTTGAACTTAAGTTAAAGCCGATGCTTTTGGATCGGGTAAAAGAGGTGCAAGGTTGAGATGGGA
AATGCTTGGCGAGATGGCAGAAGTCGGAAAAGAATAGTTCAAAACTTCGTAATGATGAACGATGG
ATGTTTATATTATCGTGGGAGACTTTGTATTC
Found at i:3259131 original size:19 final size:19
Alignment explanation
Indices: 3259107--3259149 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3259097 ACTTGAGGAC
*
3259107 GAATTTTCTTAAGGGGGAT
1 GAATTTTCTTAAGGGGGAA
3259126 GAATTTTCTTAAGGGGGAA
1 GAATTTTCTTAAGGGGGAA
3259145 GAATT
1 GAATT
3259150 GTAATACCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (19 bp):
GAATTTTCTTAAGGGGGAA
Found at i:3259395 original size:3 final size:3
Alignment explanation
Indices: 3259387--3259412 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3259377 AAGCTATTTG
3259387 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
3259413 TCCCGTGTAA
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:3260161 original size:94 final size:95
Alignment explanation
Indices: 3259982--3260181 Score: 294
Period size: 94 Copynumber: 2.1 Consensus size: 95
3259972 TACTGTTGTG
* *
3259982 AGTATCAATACTAAGAGAAATGTATCGATACTAGGGATTCGAGAAGGTAGAAATGATATCGATAC
1 AGTATCGATACTAAGAGAAATGTATCGATACCAGGGATTCGAGAAGGTAGAAATGATATCGATAC
*
3260047 TGAAAGGGAGTGTCGATACCATAATATAGA
66 TGAAAGGGAGTATCGATACCATAATATAGA
* * * *
3260077 AGTATCGATACTAAGAGAAATGTATCGATACCATGGA-TCGATAATGTAGAAATGTTATCGATAC
1 AGTATCGATACTAAGAGAAATGTATCGATACCAGGGATTCGAGAAGGTAGAAATGATATCGATAC
* *
3260141 TGAAAGGGAGTATCGGTACCATAGTATAGA
66 TGAAAGGGAGTATCGATACCATAATATAGA
* *
3260171 AATATAGATAC
1 AGTATCGATAC
3260182 CATGGTAGGG
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 60 0.64
95 34 0.36
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.26
Consensus pattern (95 bp):
AGTATCGATACTAAGAGAAATGTATCGATACCAGGGATTCGAGAAGGTAGAAATGATATCGATAC
TGAAAGGGAGTATCGATACCATAATATAGA
Found at i:3260609 original size:54 final size:54
Alignment explanation
Indices: 3260523--3260859 Score: 530
Period size: 54 Copynumber: 6.2 Consensus size: 54
3260513 TTACCGAATG
*
3260523 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCATATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * *
3260577 GGCACTATGTATGCAACCTAAGAAATTTATAATAAGTTTATAAATTTCCATATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
3260631 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
*
3260685 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* *
3260739 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
** * * * * *
3260793 AACATTGTGTGTGCAACCTAATAAATTCATAATAGGTTTATGAATTTTCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
*
3260847 GGCACTGTGTGTG
1 GGCACTATGTGTG
3260860 TGATAACTTC
Statistics
Matches: 264, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 264 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (54 bp):
GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
Found at i:3268427 original size:18 final size:16
Alignment explanation
Indices: 3268404--3268442 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
3268394 AAAATTCTTC
3268404 TAAATTAAAGGACTAAAA
1 TAAATTAAA--ACTAAAA
*
3268422 TAAATTAAACCTAAAA
1 TAAATTAAAACTAAAA
3268438 TAAAT
1 TAAAT
3268443 GATATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
18 9 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (16 bp):
TAAATTAAAACTAAAA
Found at i:3270508 original size:8 final size:8
Alignment explanation
Indices: 3270495--3270538 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
3270485 AAAGAAATAG
3270495 AAAATAAT
1 AAAATAAT
3270503 AAAATAAT
1 AAAATAAT
3270511 AACAA-AAT
1 AA-AATAAT
3270519 AAAATAGAAT
1 AAAAT--AAT
3270529 AAAATAAT
1 AAAATAAT
3270537 AA
1 AA
3270539 GAAGGTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 2 0.06
8 20 0.62
9 2 0.06
10 8 0.25
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (8 bp):
AAAATAAT
Found at i:3270581 original size:16 final size:15
Alignment explanation
Indices: 3270562--3270653 Score: 51
Period size: 16 Copynumber: 5.7 Consensus size: 15
3270552 AAAAAGGAAA
3270562 AAATAAATAAAAAATG
1 AAATAAA-AAAAAATG
* *
3270578 AAATAACACAAAAAGG
1 AAATAA-AAAAAAATG
** *
3270594 AAATAAAAAATGATT
1 AAATAAAAAAAAATG
*
3270609 AAATAATATAAAATAT-
1 AAATAA-A-AAAAAATG
*
3270625 ATAATAGGAAAAAAATG
1 A-AATA-AAAAAAAATG
3270642 AAATAAATAAAA
1 AAATAAA-AAAA
3270654 TATATAATAT
Statistics
Matches: 57, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
15 11 0.19
16 34 0.60
17 12 0.21
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.20
Consensus pattern (15 bp):
AAATAAAAAAAAATG
Found at i:3270702 original size:20 final size:20
Alignment explanation
Indices: 3270646--3270709 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
3270636 AAAATGAAAT
3270646 AAATAAAAT-ATATAATATAA
1 AAATAAAATAATATAA-ATAA
* **
3270666 AAGTAGTATCAAT-TAAATAA
1 AAATAAAAT-AATATAAATAA
3270686 AAATAAAATAATATAAAATAA
1 AAATAAAATAATAT-AAATAA
3270707 AAA
1 AAA
3270710 AGTACTAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 3 0.09
20 17 0.50
21 12 0.35
22 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (20 bp):
AAATAAAATAATATAAATAA
Found at i:3271320 original size:126 final size:126
Alignment explanation
Indices: 3271095--3271348 Score: 400
Period size: 126 Copynumber: 2.0 Consensus size: 126
3271085 AAGTTACACC
** * *
3271095 CTAAAGAAAGCCCGTTTTCCCCTAACCCTGGATCTGGCCACCGATCAACGAAAAAATCTCTCCAT
1 CTAAAGAAAGCCCGTTTTCCCCTAACCCTAAATCTAGCCACCGATCAACGAAAAAAGCTCTCCAT
*
3271160 CGCCGTAGATCTACGCGAATAGGTTTCAAACTTTACCTTTTCCCCGATGGCTCTTGGGCTT
66 CGCCATAGATCTACGCGAATAGGTTTCAAACTTTACCTTTTCCCCGATGGCTCTTGGGCTT
* * * * *
3271221 CTAAAGAAAGCTCGTTTTCCCTTAACCCTAAATCTAGCCACCGGTCAACGAAATAAGCTCTTCAT
1 CTAAAGAAAGCCCGTTTTCCCCTAACCCTAAATCTAGCCACCGATCAACGAAAAAAGCTCTCCAT
* *
3271286 CGCCATAGATTTACGCGAATAGGTTTCAAACTTTACCTTTTCCCTGATGGCTCTTGGGCTT
66 CGCCATAGATCTACGCGAATAGGTTTCAAACTTTACCTTTTCCCCGATGGCTCTTGGGCTT
3271347 CT
1 CT
3271349 CGACGGAGAC
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 116 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (126 bp):
CTAAAGAAAGCCCGTTTTCCCCTAACCCTAAATCTAGCCACCGATCAACGAAAAAAGCTCTCCAT
CGCCATAGATCTACGCGAATAGGTTTCAAACTTTACCTTTTCCCCGATGGCTCTTGGGCTT
Found at i:3281103 original size:19 final size:20
Alignment explanation
Indices: 3281077--3281122 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
3281067 AAAAAAGAAA
*
3281077 ATATAATAATAATAAATACT
1 ATATAATAATAATAAAGACT
*
3281097 A-ATAAT-ATAATATAGACT
1 ATATAATAATAATAAAGACT
3281115 ATATAATA
1 ATATAATA
3281123 TATATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 11 0.50
19 10 0.45
20 1 0.05
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
ATATAATAATAATAAAGACT
Found at i:3281289 original size:37 final size:37
Alignment explanation
Indices: 3281144--3281380 Score: 224
Period size: 38 Copynumber: 6.5 Consensus size: 37
3281134 AAAAAAGTCC
* **
3281144 AAAACCATATATTATAT-AGTTTTCAAAAATGACGTT-
1 AAAACTATATATTATATAAGTTTTCAAAAATG-TTTTA
* * *
3281180 -AAA--A-ATATGATATGAGTTTTCAAAAAATGTTTTT
1 AAAACTATATATTATATAAGTTTTC-AAAAATGTTTTA
* * *
3281214 AAAACTATATATT-TGATAAATTTTC---GATTTTTTAA
1 AAAACTATATATTAT-ATAAGTTTTCAAAAATGTTTT-A
3281249 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTA
1 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTA
* * *
3281286 AAAACTATATATTATATATAAATTTTCAAAAATATTTTTT
1 AAAACTATATA-T-TATATAAGTTTTCAAAAAT-GTTTTA
3281326 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTA
1 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTA
*
3281363 AAAACTATACATTATATA
1 AAAACTATATATTATATA
3281381 TATATATATA
Statistics
Matches: 166, Mismatches: 19, Indels: 31
0.77 0.09 0.14
Matches are distributed among these distances:
32 8 0.05
33 10 0.06
34 13 0.08
35 28 0.17
36 1 0.01
37 35 0.21
38 37 0.22
39 19 0.11
40 15 0.09
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (37 bp):
AAAACTATATATTATATAAGTTTTCAAAAATGTTTTA
Found at i:3281348 original size:77 final size:74
Alignment explanation
Indices: 3281184--3281382 Score: 269
Period size: 77 Copynumber: 2.7 Consensus size: 74
3281174 GACGTTAAAA
* * * * *
3281184 ATATGATATGAGTTTTCAAAAAATGTTTTTAAAACTATATATT-T-GATAAATTTTCGATTTTTT
1 ATATTATATAAGTTTTC-AAAAATGTTTTAAAAACTATATATTATATATAAATTTTCAATTTTTT
3281247 AAAAAACTAT
65 AAAAAACTAT
3281257 ATATTATATAAGTTTTCAAAAATGTTTTAAAAACTATATATTATATATAAATTTTCAAAAATATT
1 ATATTATATAAGTTTTCAAAAATGTTTTAAAAACTATATATTATATATAAATTTTC---AAT-TT
*
3281322 TTT-TAAAACTAT
62 TTTAAAAAACTAT
*
3281334 ATATTATATAAGTTTTCAAAAATGTTTTAAAAACTATACATTATATATA
1 ATATTATATAAGTTTTCAAAAATGTTTTAAAAACTATATATTATATATA
3281383 TATATATATA
Statistics
Matches: 113, Mismatches: 7, Indels: 8
0.88 0.05 0.06
Matches are distributed among these distances:
72 24 0.21
73 16 0.14
74 10 0.09
77 58 0.51
78 5 0.04
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (74 bp):
ATATTATATAAGTTTTCAAAAATGTTTTAAAAACTATATATTATATATAAATTTTCAATTTTTTA
AAAAACTAT
Found at i:3281382 original size:2 final size:2
Alignment explanation
Indices: 3281375--3281411 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3281365 AACTATACAT
3281375 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 T
3281412 TCAAATTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3281416 original size:101 final size:98
Alignment explanation
Indices: 3281291--3281484 Score: 248
Period size: 101 Copynumber: 1.9 Consensus size: 98
3281281 TTTTAAAAAC
* *
3281291 TATATATTATATATAAATTTTCAAAAATATTTTT-TAAAACTATATATTATATA-AGTTTTCAAA
1 TATATATTATATATAAATATTC-AAAATATTTTTCGAAAACTATATATTATATATA-TTTTC-AA
*
3281354 AATGTTTTAAAAACTATACATTATATATATATATATA
63 AATGTTTTAAAAACT-TACATAATATATATATATATA
* * *
3281391 TATATATATATATATATATATTCAAATTGTTTTTCGAAAACTATATATTATATATTTATTTTCAA
1 TATATAT-TATATATAAATATTCAAAATATTTTTCGAAAACTATATATTATATA--TATTTTCAA
*
3281456 AATGTTTTAAAAACTTATATAATATATAT
63 AATGTTTTAAAAACTTACATAATATATAT
3281485 TTTAAAAAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
100 16 0.20
101 43 0.52
102 17 0.21
103 5 0.06
104 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (98 bp):
TATATATTATATATAAATATTCAAAATATTTTTCGAAAACTATATATTATATATATTTTCAAAAT
GTTTTAAAAACTTACATAATATATATATATATA
Found at i:3281475 original size:39 final size:40
Alignment explanation
Indices: 3281391--3281486 Score: 115
Period size: 39 Copynumber: 2.4 Consensus size: 40
3281381 TATATATATA
* * *
3281391 TATATATATATATATATATATTCAAATTGTTTTTCGAAAAC
1 TATATAT-TATATATTTATATTCAAAATGTTTTTCAAAAAC
*
3281432 TATATATTATATATTTATTTTCAAAATG-TTTT-AAAAAC
1 TATATATTATATATTTATATTCAAAATGTTTTTCAAAAAC
*
3281470 TTATATAATATATATTT
1 -TATATATTATATATTT
3281487 TAAAAAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.10
39 19 0.39
40 18 0.37
41 7 0.14
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (40 bp):
TATATATTATATATTTATATTCAAAATGTTTTTCAAAAAC
Found at i:3281518 original size:12 final size:13
Alignment explanation
Indices: 3281481--3281519 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3281471 TATATAATAT
*
3281481 ATATTTTAAAAAA
1 ATATTTTCAAAAA
3281494 ATATTTTCAAAAA
1 ATATTTTCAAAAA
3281507 ATATTTTCAAAAA
1 ATATTTTCAAAAA
3281520 CTATATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATTTTCAAAAA
Found at i:3281532 original size:141 final size:141
Alignment explanation
Indices: 3281286--3281540 Score: 315
Period size: 141 Copynumber: 1.8 Consensus size: 141
3281276 AAATGTTTTA
* * * *
3281286 AAAACTATATATTATATATAAATTTTCAAAAATATTTTTTAAAACTATATATTATATAAGTTTTC
1 AAAACTATATATTATATATAAATTTTCAAAAATAGTTTTAAAAACTATATAATATATAAGTTTTA
* * * *
3281351 AAAAATGTTTTAAAAACTATACATTATATATATATATATATATATATATATATATATATATTCAA
66 AAAAATATTTTAAAAAATATACATAAAATATATATATATATATATATATATATATATATATTCAA
3281416 ATTGTTTTTCG
131 ATTGTTTTTCG
**
3281427 AAAACTATATATTATATATTTATTTTC-AAAAT-GTTTTAAAAACTTATATAATATAT-A-TTTT
1 AAAACTATATATTATATATAAATTTTCAAAAATAGTTTTAAAAAC-TATATAATATATAAGTTTT
*
3281488 AAAAAAATATTTTCAAAAAATATTTTCA-AAAACTATATAT-TATATATATATAT
65 -AAAAAATATTTT-AAAAAATA--TACATAAAA-TATATATATATATATATATAT
3281541 TAAAAATCAT
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
138 4 0.04
139 20 0.21
140 23 0.24
141 40 0.41
142 10 0.10
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (141 bp):
AAAACTATATATTATATATAAATTTTCAAAAATAGTTTTAAAAACTATATAATATATAAGTTTTA
AAAAATATTTTAAAAAATATACATAAAATATATATATATATATATATATATATATATATATTCAA
ATTGTTTTTCG
Found at i:3282223 original size:85 final size:83
Alignment explanation
Indices: 3282119--3282303 Score: 244
Period size: 85 Copynumber: 2.2 Consensus size: 83
3282109 AACTCAAAAG
* * *
3282119 TTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCTTTGAGTTG
1 TTTTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATACTGTAAA--TAATATGCCTTTGAGCTG
3282184 AGTGTAATCGAACTCGAAGA
64 AGTGTAATCGAACTCGAAGA
* ** * *
3282204 TTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAGATAATGTGCCTTTGAGCTGAG
1 TTTTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATACTGTAAATAATATGCCTTTGAGCTGAG
*
3282269 TGTAATCGAACTCGAAGG
66 TGTAATCGAACTCGAAGA
* *
3282287 TCTTTTTTTTACAGATA
1 T-TTTTGTTGACAGATA
3282304 GCTTTTATCT
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
83 35 0.40
84 13 0.15
85 40 0.45
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (83 bp):
TTTTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATACTGTAAATAATATGCCTTTGAGCTGAG
TGTAATCGAACTCGAAGA
Found at i:3282826 original size:85 final size:85
Alignment explanation
Indices: 3282683--3283248 Score: 668
Period size: 85 Copynumber: 6.6 Consensus size: 85
3282673 ACATGGAATT
* * * * *
3282683 GAACTCAAAGGTATTTGTTGACATG-TAACCCTTCTTGCCTTGAGTTATGCTATAAATTTGATAT
1 GAACTCGAAGGTCTTTGTTGACA-GATAGCCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATAT
3282747 GCCTTTGAGCTGAATGTAATC
65 GCCTTTGAGCTGAATGTAATC
* * *
3282768 GAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCG-CTTAGAGCTACGCTGTAAATTTGATAT
1 GAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTT-GAGTTATGCTGTAAATTTGATAT
* *
3282832 GCCTTTGAGCTAAATGTAATT
65 GCCTTTGAGCTGAATGTAATC
* * * * * *
3282853 AAACTCGAAGGTCTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTGGACATG
1 GAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATG
*
3282918 CCTTTAAGCTGAATGTAATC
66 CCTTTGAGCTGAATGTAATC
* * * * * * *
3282938 GAACTTGAATGTCTTTTATTGACAGATAGCACTTCTCGCCTTGAGCTATGCTATAAATTTTATAT
1 GAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATAT
* *
3283003 GCCTTTGAGTTGAATGTAAAC
65 GCCTTTGAGCTGAATGTAATC
* * *
3283024 GAACTCAAAGGTCTTGGTTGACAGATAGCCCTTCTCACCTTGAGTTATGCTGTAAATTTGATATG
1 GAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATG
*
3283089 CCTTAGAGCTGAATGTAATC
66 CCTTTGAGCTGAATGTAATC
* * * * * * * * * *
3283109 AAACTCAAATGTCTTTGTTGATAGATAACCCTTATCGCCTTGAGTTATGCTATAAATTGGACATA
1 GAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATG
* *
3283174 CCTTTTAGCTAAATGTAATC
66 CCTTTGAGCTGAATGTAATC
* * * *
3283194 GAACTCGAGGGTCTTTTGTTGAAAGATAGCCCTTATCGCCTTGAGCTATGCTGTA
1 GAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGCTGTA
3283249 CTTGGCTGGG
Statistics
Matches: 403, Mismatches: 73, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
84 4 0.01
85 290 0.72
86 109 0.27
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (85 bp):
GAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATG
CCTTTGAGCTGAATGTAATC
Found at i:3283037 original size:171 final size:170
Alignment explanation
Indices: 3282683--3283248 Score: 697
Period size: 171 Copynumber: 3.3 Consensus size: 170
3282673 ACATGGAATT
* * *
3282683 GAACTCAAAGGTATTTGTTGACATG-TAACCCTTCTTGCCTTGAGTTATGCTATAAATTTGATAT
1 GAACTCAAAGGTCTTTGTTGACA-GATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATAT
* * *
3282747 GCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCG-CTTAGA
65 GCCTTTAAGCTGAATGTAATCGAACTCGAATGTCTTTGTTGACAGATAGCCCTTCTCGCCTT-GA
* * *
3282811 GCTACGCTGTAAATTTGATATGCCTTTGAGCTAAATGTAATT
129 GCTATGCTATAAATTTGATATGCCTTTGAGCTAAATGTAATC
* * * * * *
3282853 AAACTCGAAGGTCTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTGGACATG
1 GAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATG
* * *
3282918 CCTTTAAGCTGAATGTAATCGAACTTGAATGTCTTTTATTGACAGATAGCACTTCTCGCCTTGAG
66 CCTTTAAGCTGAATGTAATCGAACTCGAATGTC-TTTGTTGACAGATAGCCCTTCTCGCCTTGAG
* * * *
3282983 CTATGCTATAAATTTTATATGCCTTTGAGTTGAATGTAAAC
130 CTATGCTATAAATTTGATATGCCTTTGAGCTAAATGTAATC
* * *
3283024 GAACTCAAAGGTCTTGGTTGACAGATAGCCCTTCTCACCTTGAGTTATGCTGTAAATTTGATATG
1 GAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATG
* * * * *
3283089 CC-TTAGAGCTGAATGTAATCAAACTCAAATGTCTTTGTTGATAGATAACCCTTATCGCCTTGAG
66 CCTTTA-AGCTGAATGTAATCGAACTCGAATGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAG
* * * * *
3283153 TTATGCTATAAATTGGACATACCTTTTAGCTAAATGTAATC
130 CTATGCTATAAATTTGATATGCCTTTGAGCTAAATGTAATC
* * * * * *
3283194 GAACTCGAGGGTCTTTTGTTGAAAGATAGCCCTTATCGCCTTGAGCTATGCTGTA
1 GAACTCAAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
3283249 CTTGGCTGGG
Statistics
Matches: 336, Mismatches: 55, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
169 1 0.00
170 156 0.46
171 176 0.52
172 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (170 bp):
GAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATG
CCTTTAAGCTGAATGTAATCGAACTCGAATGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGC
TATGCTATAAATTTGATATGCCTTTGAGCTAAATGTAATC
Found at i:3283191 original size:256 final size:256
Alignment explanation
Indices: 3282713--3283245 Score: 789
Period size: 256 Copynumber: 2.1 Consensus size: 256
3282703 ACATGTAACC
* * * *
3282713 CTTCTTGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAG
1 CTTCTCGCCTTGAGCTATGCTATAAATTTGATATGCCTTTGAGCTGAATGTAAACGAACTCAAAG
* *
3282778 GTCTTGGTTGACAGATAGCCCTTCTCGCTTAGAGCTACGCTGTAAATTTGATATGCCTTTGAGCT
66 GTCTTGGTTGACAGATAGCCCTTCTCCCTTAGAGCTACGCTGTAAATTTGATATGCCTTAGAGCT
* * * * *
3282843 AAATGTAATTAAACTCGAAGGTCTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAA
131 AAATGTAATCAAACTCAAAGGTCTTTGCTGACAGATAACCCTTATCGCCTTGAGTTATGCTATAA
* * * * *
3282908 ATTGGACATGCCTTTAAGCTGAATGTAATCGAACTTGAATGTCTTTTATTGACAGATAGCA
196 ATTGGACATACCTTTAAGCTAAATGTAATCGAACTCGAAGGTCTTTTATTGAAAGATAGCA
* *
3282969 CTTCTCGCCTTGAGCTATGCTATAAATTTTATATGCCTTTGAGTTGAATGTAAACGAACTCAAAG
1 CTTCTCGCCTTGAGCTATGCTATAAATTTGATATGCCTTTGAGCTGAATGTAAACGAACTCAAAG
* *
3283034 GTCTTGGTTGACAGATAGCCCTTCTCACCTT-GAGTTATGCTGTAAATTTGATATGCCTTAGAGC
66 GTCTTGGTTGACAGATAGCCCTTCTC-CCTTAGAGCTACGCTGTAAATTTGATATGCCTTAGAGC
* * * *
3283098 TGAATGTAATCAAACTCAAATGTCTTTGTTGATAGATAACCCTTATCGCCTTGAGTTATGCTATA
130 TAAATGTAATCAAACTCAAAGGTCTTTGCTGACAGATAACCCTTATCGCCTTGAGTTATGCTATA
* * * *
3283163 AATTGGACATACCTTTTAGCTAAATGTAATCGAACTCGAGGGTCTTTTGTTGAAAGATAGCC
195 AATTGGACATACCTTTAAGCTAAATGTAATCGAACTCGAAGGTCTTTTATTGAAAGATAGCA
*
3283225 CTTATCGCCTTGAGCTATGCT
1 CTTCTCGCCTTGAGCTATGCT
3283246 GTACTTGGCT
Statistics
Matches: 247, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
256 244 0.99
257 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (256 bp):
CTTCTCGCCTTGAGCTATGCTATAAATTTGATATGCCTTTGAGCTGAATGTAAACGAACTCAAAG
GTCTTGGTTGACAGATAGCCCTTCTCCCTTAGAGCTACGCTGTAAATTTGATATGCCTTAGAGCT
AAATGTAATCAAACTCAAAGGTCTTTGCTGACAGATAACCCTTATCGCCTTGAGTTATGCTATAA
ATTGGACATACCTTTAAGCTAAATGTAATCGAACTCGAAGGTCTTTTATTGAAAGATAGCA
Found at i:3285376 original size:12 final size:12
Alignment explanation
Indices: 3285361--3285407 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
3285351 TCTTTTTTTA
3285361 TTTTCTCTTTGT
1 TTTTCTCTTTGT
* *
3285373 TTTTCTCTCTCT
1 TTTTCTCTTTGT
3285385 TTTT-TCTTT-T
1 TTTTCTCTTTGT
*
3285395 TTTTCTTTTTGT
1 TTTTCTCTTTGT
3285407 T
1 T
3285408 CTGATTGGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 5 0.17
11 8 0.28
12 16 0.55
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTTCTCTTTGT
Found at i:3287891 original size:92 final size:90
Alignment explanation
Indices: 3287740--3287910 Score: 288
Period size: 92 Copynumber: 1.9 Consensus size: 90
3287730 CACACCATTT
3287740 TATAGCCAAGTTACCCTAATCATATTAAGGTTTTATTATTTCAAATTAATTAAATCTATATTTAA
1 TATAGCCAAGTTACCCTAATCATATTAAGGTTTTATTATTTCAAATTAATTAAATCTATATTTAA
*
3287805 TTAATTAGAATTTAATAATCCTTTTA
66 TTAATT-GAAATTAATAATCCTTTTA
* * *
3287831 TATATCCAAGTTGCCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TATAGCCAAGTTACCCTAATCATATTAAGG-TTTTATTATTTCAAATTAATTAAATCTATATTTA
3287896 ATTAATTGAAATTAA
65 ATTAATTGAAATTAA
3287911 ATATTCGAGA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
91 34 0.45
92 41 0.55
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (90 bp):
TATAGCCAAGTTACCCTAATCATATTAAGGTTTTATTATTTCAAATTAATTAAATCTATATTTAA
TTAATTGAAATTAATAATCCTTTTA
Found at i:3290151 original size:8 final size:8
Alignment explanation
Indices: 3290138--3290179 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
3290128 AAAGAAATAG
3290138 AAAATAAT
1 AAAATAAT
3290146 AAAATAAT
1 AAAATAAT
3290154 AATAA-AAT
1 AA-AATAAT
3290162 AAAATAGA-
1 AAAATA-AT
3290170 AAAATAAT
1 AAAATAAT
3290178 AA
1 AA
3290180 GAAGGTTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
7 3 0.10
8 24 0.80
9 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (8 bp):
AAAATAAT
Found at i:3290154 original size:11 final size:11
Alignment explanation
Indices: 3290140--3290179 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
3290130 AGAAATAGAA
3290140 AATAATAAAAT
1 AATAATAAAAT
3290151 AATAATAAAAT
1 AATAATAAAAT
3290162 AA-AATAGAAA-
1 AATAATA-AAAT
3290172 AATAATAA
1 AATAATAA
3290180 GAAGGTTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 7 0.26
11 20 0.74
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:3290230 original size:66 final size:64
Alignment explanation
Indices: 3290087--3290235 Score: 164
Period size: 65 Copynumber: 2.3 Consensus size: 64
3290077 ATATAATAAT
* *
3290087 AAAATAAAAT-AAATTGCAAAAATAAACAGAAGTTAGTAAAAAAAGAAATAGAAAATAATAAAAT
1 AAAATAAAATAAAATAG-AAAAATAAACAGAAGTTAGTAAAAAAAGAAATAGAAAATAATAAAAG
*
3290151 AATAATAAAATAAAATAGAAAAATAATA-AGAAGGTTAGTTTAAAAAAGGAAATA-AATAATAA-
1 AA-AATAAAATAAAATAGAAAAATAA-ACAGAA-GTTAG--TAAAAAAAGAAATAGAA-AATAAT
3290213 AAAAG
60 AAAAG
*
3290218 GAAATAAAATAAAA-AGAA
1 AAAATAAAATAAAATAGAA
3290236 CATAAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 13
0.81 0.04 0.14
Matches are distributed among these distances:
64 2 0.03
65 24 0.32
66 23 0.31
67 7 0.09
68 18 0.24
ACGTcount: A:0.69, C:0.01, G:0.11, T:0.19
Consensus pattern (64 bp):
AAAATAAAATAAAATAGAAAAATAAACAGAAGTTAGTAAAAAAAGAAATAGAAAATAATAAAAG
Found at i:3290268 original size:14 final size:14
Alignment explanation
Indices: 3290251--3290305 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
3290241 AAAGGATTAA
3290251 ATAATATAAAATAT
1 ATAATATAAAATAT
* *
3290265 ATAATAGGAAAAATGAA
1 ATAATA--TAAAAT-AT
3290282 ATAA-ATAAAATAT
1 ATAATATAAAATAT
3290295 ATAATATAAAA
1 ATAATATAAAA
3290306 GTAGTATCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 5 0.15
14 17 0.52
16 6 0.18
17 5 0.15
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
ATAATATAAAATAT
Found at i:3290702 original size:34 final size:33
Alignment explanation
Indices: 3290641--3290712 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 33
3290631 CCTTTACAAC
* *
3290641 TCCCTAGTTTTTCAGGGGTTAAACTAGAACCTT
1 TCCCTAGTTTTACACGGGTTAAACTAGAACCTT
* *
3290674 TCCCTAGCTTTTACACGGGTTTAGCTAGAACCTT
1 TCCCTAG-TTTTACACGGGTTAAACTAGAACCTT
3290708 TCCCT
1 TCCCT
3290713 TTACAAAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 7 0.21
34 27 0.79
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGTTAAACTAGAACCTT
Found at i:3291180 original size:20 final size:20
Alignment explanation
Indices: 3291155--3291226 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
3291145 AGCAGTCACA
3291155 GGTGCATGGATACACTGCAG
1 GGTGCATGGATACACTGCAG
* * *
3291175 GGTGCATCGATGCCCT--A-
1 GGTGCATGGATACACTGCAG
*
3291192 -GTGGATGGATACACTGCAG
1 GGTGCATGGATACACTGCAG
*
3291211 GGTGTATGGATACACT
1 GGTGCATGGATACACT
3291227 TTGACACCCT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
16 11 0.28
18 2 0.05
20 27 0.68
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (20 bp):
GGTGCATGGATACACTGCAG
Found at i:3291503 original size:18 final size:19
Alignment explanation
Indices: 3291448--3291504 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
3291438 CTGTTTTATG
*
3291448 AAAAAGATACAAATTGTTA
1 AAAAAGATACCAATTGTTA
** *
3291467 ACAAAAGGATGTCAGTTGTT-
1 A-AAAA-GATACCAATTGTTA
3291487 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
3291505 GGAAAATATA
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
18 10 0.34
19 5 0.17
20 5 0.17
21 9 0.31
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (19 bp):
AAAAAGATACCAATTGTTA
Done.