Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 42
Found at i:9196697 original size:20 final size:20
Alignment explanation
Indices: 9196649--9196701 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
9196639 TAATACAAAA
* *
9196649 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
9196669 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
9196689 TCGCAACGCGATT
1 TCGCAACGCGATT
9196702 TACATAGAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:9197258 original size:19 final size:19
Alignment explanation
Indices: 9197213--9197260 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
9197203 TTCGAGAATG
*
9197213 AAAATCGCAACGCGGAAAT
1 AAAATCGCAACGCGGAAAC
*
9197232 AACTATCGCAACGC-GAAACC
1 AA-AATCGCAACGCGGAAA-C
9197252 AAAATCGCA
1 AAAATCGCA
9197261 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.46, C:0.27, G:0.17, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGGAAAC
Found at i:9197278 original size:19 final size:19
Alignment explanation
Indices: 9197256--9197440 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
9197246 GAAACCAAAA
*
9197256 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
9197275 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
9197294 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
9197313 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
9197333 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
9197349 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
9197366 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
9197380 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
9197399 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
* *
9197419 ATCTCGTTGCAATTTTCATT
1 -TCGCGTTGCGATTTTCATT
9197439 TC
1 TC
9197441 AACCAAAAGA
Statistics
Matches: 137, Mismatches: 16, Indels: 26
0.77 0.09 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 60 0.44
20 48 0.35
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:9197333 original size:39 final size:38
Alignment explanation
Indices: 9197256--9197440 Score: 165
Period size: 33 Copynumber: 5.1 Consensus size: 38
9197246 GAAACCAAAA
*
9197256 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
9197294 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
9197333 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* **
9197366 TCGCGTTGCGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* * *
9197399 TCCGCGTTGCGATTCTCATTATCTCGTTGCAATTTTCATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
9197439 TC
1 TC
9197441 AACCAAAAGA
Statistics
Matches: 123, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
31 3 0.02
33 38 0.31
34 10 0.08
35 1 0.01
36 3 0.02
38 21 0.17
39 30 0.24
40 17 0.14
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:9197417 original size:20 final size:20
Alignment explanation
Indices: 9197383--9197440 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
9197373 GCGATTCTCT
**
9197383 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
9197403 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
* *
9197423 CGTTGCAATTTTCATTTC
1 CGTTGCGATTCTCATTTC
9197441 AACCAAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:9199502 original size:42 final size:42
Alignment explanation
Indices: 9199442--9199564 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
9199432 GCCTGACTCG
* * *
9199442 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
9199484 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
9199526 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
9199565 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:9199522 original size:21 final size:21
Alignment explanation
Indices: 9199498--9199564 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
9199488 TCATTCCTCG
9199498 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
9199519 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
9199540 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
9199561 AGAG
1 AGAG
9199565 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:9200941 original size:14 final size:14
Alignment explanation
Indices: 9200922--9200957 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
9200912 ATTGTTTAAT
9200922 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
9200936 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
9200950 TGATTTGT
1 TGATTTGT
9200958 TTAATTGATG
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:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:9201156 original size:39 final size:37
Alignment explanation
Indices: 9201113--9201219 Score: 150
Period size: 39 Copynumber: 2.9 Consensus size: 37
9201103 ACGCGAAATT
9201113 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATT-C
*
9201151 GAAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTC
1 -AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTC
*
9201189 ----TCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGAT
9201220 AGTAATTTCC
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
33 29 0.45
38 1 0.02
39 35 0.54
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (37 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTC
Found at i:9204849 original size:20 final size:20
Alignment explanation
Indices: 9204824--9204881 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
9204814 ATTCATTTGA
9204824 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
9204844 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
9204864 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
9204882 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:9204941 original size:19 final size:19
Alignment explanation
Indices: 9204900--9204967 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
9204890 GAAATGAAAA
9204900 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
9204916 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
9204933 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
9204952 TCACATTTCGATTTTC
1 TCGCATTGCGATTTTC
9204968 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
19 28 0.62
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.49
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:9205103 original size:14 final size:14
Alignment explanation
Indices: 9205084--9205120 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9205074 CATCAATTAA
9205084 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
9205098 ACAAATCATCTTTT
1 ACAAATCAACATTT
9205112 ACAAATCAA
1 ACAAATCAA
9205121 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:9207044 original size:14 final size:14
Alignment explanation
Indices: 9207025--9207082 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
9207015 ATGCGAAATG
9207025 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
9207039 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
9207055 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
9207071 AAAATCGCAACG
1 AAAATCGCAACG
9207083 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:9207067 original size:32 final size:33
Alignment explanation
Indices: 9207009--9207087 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
9206999 GGAAATGGCT
*
9207009 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
9207042 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
9207074 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
9207088 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:9207135 original size:14 final size:14
Alignment explanation
Indices: 9207116--9207205 Score: 90
Period size: 14 Copynumber: 5.9 Consensus size: 14
9207106 TTTCATTTCG
9207116 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
9207130 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
9207146 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
9207162 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
9207178 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
9207194 CGTTGCGATTTT
1 CGTTGCGATTTT
9207206 CATTTCGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
14 30 0.47
16 16 0.25
18 18 0.28
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:9207146 original size:32 final size:33
Alignment explanation
Indices: 9207099--9207219 Score: 219
Period size: 32 Copynumber: 3.7 Consensus size: 33
9207089 ACAAATCGCA
*
9207099 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
9207132 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
9207164 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
9207196 TTGCGATTTTCATTTCGCATTGCG
1 TTGCGATTTTCATTTCGCATTGCG
9207220 TTAGCCATTT
Statistics
Matches: 86, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
32 63 0.73
33 23 0.27
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:9207248 original size:20 final size:19
Alignment explanation
Indices: 9207205--9207259 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
9207195 GTTGCGATTT
* *
9207205 TCATTTCGCATTGCGTTAG
1 TCATTTCGCGTTGCGGTAG
*
9207224 CCATTTCCGCGTTGCGGTAG
1 TCATTT-CGCGTTGCGGTAG
*
9207244 TCATTTTCGTGTTGCG
1 TCA-TTTCGCGTTGCG
9207260 AAAGTAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.17
20 21 0.72
21 3 0.10
ACGTcount: A:0.11, C:0.24, G:0.25, T:0.40
Consensus pattern (19 bp):
TCATTTCGCGTTGCGGTAG
Found at i:9207768 original size:18 final size:18
Alignment explanation
Indices: 9207742--9207786 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
9207732 GTCGATCAGA
*
9207742 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
9207760 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
9207778 TGATGGCTC
1 TGATGGCTC
9207787 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:9209425 original size:20 final size:21
Alignment explanation
Indices: 9209400--9209448 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
9209390 TCTGAGAGAT
9209400 GGAGAT-AGACGGATTTCGTC
1 GGAGATGAGACGGATTTCGTC
*
9209420 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGTC
*
9209442 AGAGATG
1 GGAGATG
9209449 GGTGAGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 1 0.04
22 18 0.72
ACGTcount: A:0.24, C:0.12, G:0.41, T:0.22
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGTC
Found at i:9209434 original size:22 final size:22
Alignment explanation
Indices: 9209407--9209450 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9209397 GATGGAGATA
*
9209407 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCAGAGATGGG
9209429 GACGGATTTCGTCAGAGATGGG
1 GACGGATTTCGTCAGAGATGGG
9209451 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.14, G:0.43, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCAGAGATGGG
Found at i:9209663 original size:20 final size:20
Alignment explanation
Indices: 9209638--9209731 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
9209628 GATTATGTAT
9209638 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
9209658 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
9209678 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
9209699 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
9209719 TATCGCATTGCGA
1 TATCGCGTTGCGA
9209732 TTTTCCCAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 45 0.73
21 12 0.19
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:9209703 original size:41 final size:41
Alignment explanation
Indices: 9209658--9209735 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
9209648 CGAAAGTCAG
* * *
9209658 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTAT
* *
9209699 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
9209736 CCCAATTCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTAT
Found at i:9209732 original size:20 final size:19
Alignment explanation
Indices: 9209618--9209732 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 19
9209608 CGCTTTGAAA
*
9209618 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGA-TA-GTAGT
* *
9209639 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
* *
9209659 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGT-AGT
* * * *
9209679 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
9209700 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGT-AGT
9209720 ATCGCATTGCGAT
1 ATCGCATTGCGAT
9209733 TTTCCCAATT
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
19 5 0.06
20 48 0.62
21 23 0.29
22 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:9209751 original size:41 final size:41
Alignment explanation
Indices: 9209721--9209813 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
9209711 ATAGTCAGTA
* * *
9209721 TCGCATTGCGATTTTCCCAATTCGTGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* *
9209762 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
9209803 TCGCATTGCGA
1 TCGCATTGCGA
9209814 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:9209752 original size:21 final size:21
Alignment explanation
Indices: 9209721--9209796 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
9209711 ATAGTCAGTA
*
9209721 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
* * **
9209742 TCGTGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTCCCAAT
*
9209762 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
9209783 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
9209797 ACTTATTCGC
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCCAAT
Found at i:9209770 original size:20 final size:20
Alignment explanation
Indices: 9209747--9209813 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
9209737 CCAATTCGTG
9209747 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACTTATTCGCA
* ** *
9209767 TTGCGATTTTCCCAATTCGCG
1 TTGCGA-TTTACTTATTCGCA
9209788 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACTTATTCGCA
9209808 TTGCGA
1 TTGCGA
9209814 ATTGGGAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (20 bp):
TTGCGATTTACTTATTCGCA
Found at i:9209884 original size:21 final size:21
Alignment explanation
Indices: 9209844--9209884 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9209834 ATTGTATACC
**
9209844 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
9209865 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
9209885 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:9217048 original size:91 final size:90
Alignment explanation
Indices: 9216809--9217079 Score: 463
Period size: 91 Copynumber: 3.0 Consensus size: 90
9216799 TTCTCTTTCG
* *
9216809 ATTCCTTAAGATTATGATTTTGTTGTGTGTTGAAGGTGAGAGAAATAGAGGCAAACGAAGAAGGA
1 ATTCCTTAAGATTATGATTTTGTTGTGTGTTGAAGCTGAGAGAAATAGAGGCAAATGAAGAAGGA
*
9216874 TAT-GGTAAAATTGACTGCAAAATC
66 TCTAGGTAAAATTGACTGCAAAATC
*
9216898 ATTCCTTAAGATTATGATTTTGATGTGTGTTGAAGCTGAGAGAAATAGAGGCAAATGAAGAAGGA
1 ATTCCTTAAGATTATGATTTTGTTGTGTGTTGAAGCTGAGAGAAATAGAGGCAAATGAAGAAGGA
9216963 TCTAGGTAAAATTGACTGCAAAATC
66 TCTAGGTAAAATTGACTGCAAAATC
* *
9216988 ATTCCTTAAGATGATGATTTTTGTTGTGTATTGAAGCTGAGAGAAATAGAGGCAAATGAAGAAGG
1 ATTCCTTAAGATTATGA-TTTTGTTGTGTGTTGAAGCTGAGAGAAATAGAGGCAAATGAAGAAGG
*
9217053 ATCTAGGTAAAATTGATTGCAAAATC
65 ATCTAGGTAAAATTGACTGCAAAATC
9217079 A
1 A
9217080 CACCGTTAGC
Statistics
Matches: 172, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
89 64 0.37
90 37 0.22
91 71 0.41
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (90 bp):
ATTCCTTAAGATTATGATTTTGTTGTGTGTTGAAGCTGAGAGAAATAGAGGCAAATGAAGAAGGA
TCTAGGTAAAATTGACTGCAAAATC
Found at i:9218889 original size:2 final size:2
Alignment explanation
Indices: 9218882--9218906 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9218872 ATTTTATAAA
9218882 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9218907 AATTTTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9228339 original size:2 final size:2
Alignment explanation
Indices: 9228334--9228367 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9228324 AAAAAAGTTA
9228334 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9228368 TTACGACGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9233311 original size:20 final size:21
Alignment explanation
Indices: 9233270--9233314 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9233260 TAAAATATCT
*
9233270 ATTAAAAATATTATGTTATAA
1 ATTAAAAATATTATATTATAA
9233291 ATTAAAAATA-TATAATT-TAA
1 ATTAAAAATATTAT-ATTATAA
9233311 ATTA
1 ATTA
9233315 TATTTACACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTAAAAATATTATATTATAA
Found at i:9233431 original size:32 final size:32
Alignment explanation
Indices: 9233374--9233442 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
9233364 TAATAAAAAT
* *
9233374 ATAA-AAAAAAATATTTTAAGGTAACTCATTA
1 ATAATAAAAAAATATTTTAAGATAACTCACTA
*
9233405 ATAATAAAAATATATTTTATA-ATAACTCACTA
1 ATAATAAAAAAATATTTTA-AGATAACTCACTA
*
9233437 TTAATA
1 ATAATA
9233443 TTTTAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 4 0.12
32 27 0.84
33 1 0.03
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (32 bp):
ATAATAAAAAAATATTTTAAGATAACTCACTA
Found at i:9241048 original size:21 final size:21
Alignment explanation
Indices: 9240998--9241049 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
9240988 GTGAATAGAA
*
9240998 ATATAAAATATGACAATTAAAT
1 ATATAAAATATAACAA-TAAAT
9241020 -TATCAAAATATTAACAA-AAAT
1 ATAT-AAAATA-TAACAATAAAT
9241041 ATATAAAAT
1 ATATAAAAT
9241050 TACTTTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (21 bp):
ATATAAAATATAACAATAAAT
Found at i:9241521 original size:23 final size:22
Alignment explanation
Indices: 9241467--9241521 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
9241457 AATTAATGAT
* **
9241467 TTTTTATATTAAATTTTTAATA
1 TTTTTATTTTAAATTTAAAATA
*
9241489 TTTTAAATTTTAAATTTAAAAATA
1 TTTT-TATTTTAAATTT-AAAATA
9241513 TTTTTATTT
1 TTTTTATTT
9241522 AAAAAATCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 4 0.15
23 14 0.54
24 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTATTTTAAATTTAAAATA
Found at i:9242276 original size:29 final size:28
Alignment explanation
Indices: 9242209--9242309 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 28
9242199 GAGTGATATA
* *
9242209 AATCACATGCAGAAATAGGATGGGGATAGT
1 AATC-CATGCAGAAACAGGATGGGGA-ATT
9242239 -ATCTCATGCAGAAACAGGATGGGGAATT
1 AATC-CATGCAGAAACAGGATGGGGAATT
* ** *
9242267 AATCCAATGCAGAATCAGGACAGAGAATT
1 AATCC-ATGCAGAAACAGGATGGGGAATT
9242296 AATCCCATGCAGAA
1 AAT-CCATGCAGAA
9242310 TAAAAATGCA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
28 3 0.05
29 56 0.92
30 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.19
Consensus pattern (28 bp):
AATCCATGCAGAAACAGGATGGGGAATT
Found at i:9252640 original size:17 final size:18
Alignment explanation
Indices: 9252616--9252656 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
9252606 TTAACGCTTT
9252616 ATATTTAAAATTTTTATA
1 ATATTTAAAATTTTTATA
**
9252634 A-ATTTAATTTTTTTATA
1 ATATTTAAAATTTTTATA
9252651 ATATTT
1 ATATTT
9252657 TCAAACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTTAAAATTTTTATA
Found at i:9264598 original size:20 final size:20
Alignment explanation
Indices: 9264573--9264665 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
9264563 TTTTCCCAAT
9264573 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
9264593 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
9264613 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
9264634 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
9264655 TCGCAATGCGA
1 TCGCAATGCGA
9264666 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:9264615 original size:41 final size:41
Alignment explanation
Indices: 9264570--9264665 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
9264560 CGATTTTCCC
9264570 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
9264611 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
9264652 AAATCGCAATGCGA
1 AATTCGCAATGCGA
9264666 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:9264619 original size:21 final size:20
Alignment explanation
Indices: 9264573--9264665 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
9264563 TTTTCCCAAT
*
9264573 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
9264593 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
9264613 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
9264634 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
9264655 TCGCAATGCGA
1 TCGCAATGCGA
9264666 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:9264679 original size:20 final size:20
Alignment explanation
Indices: 9264654--9264747 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
9264644 AATTGGGAAA
*
9264654 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
9264674 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
9264695 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
9264715 TTCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
*
9264735 TTCGCAACGCGAT
1 ATCGCAACGCGAT
9264748 TTACTTAGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:9264728 original size:41 final size:41
Alignment explanation
Indices: 9264651--9264728 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
9264641 GCGAATTGGG
* * **
9264651 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
* *
9264692 AAAATCGCAACGAGATACTTACTTTCGCAACACGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATA
9264729 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
Found at i:9265326 original size:19 final size:19
Alignment explanation
Indices: 9265302--9265346 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
9265292 GCAACGAGAT
*
9265302 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
9265321 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
9265340 AATCGCA
1 AATCGCA
9265347 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:9265508 original size:20 final size:19
Alignment explanation
Indices: 9265342--9265531 Score: 219
Period size: 19 Copynumber: 10.1 Consensus size: 19
9265332 GAAACCAAAA
*
9265342 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
9265361 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
9265380 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
9265399 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
9265418 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
* *
9265438 TCGCGTTGTGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
9265454 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
9265471 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
9265490 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
9265510 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
9265530 TC
1 TC
9265532 AACCAAAAGA
Statistics
Matches: 150, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
14 9 0.06
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 86 0.57
20 50 0.33
21 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:9267591 original size:42 final size:42
Alignment explanation
Indices: 9267531--9267653 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
9267521 GCCCGACTCG
* * *
9267531 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
9267573 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
9267615 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
9267654 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:9267611 original size:21 final size:21
Alignment explanation
Indices: 9267587--9267653 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
9267577 TCATTCCTCG
9267587 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
9267608 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
9267629 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
9267650 AGAG
1 AGAG
9267654 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:9269030 original size:14 final size:14
Alignment explanation
Indices: 9269011--9269046 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
9269001 ATTGTTTAAT
9269011 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
9269025 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
9269039 TGATTTGT
1 TGATTTGT
9269047 TTAATTGATG
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:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:9269247 original size:19 final size:19
Alignment explanation
Indices: 9269225--9269308 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
9269215 CGAAATTAAA
*
9269225 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
9269244 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
9269260 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
9269277 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
9269296 TTCGCATTGCGAT
1 TTCGCATTGCGAT
9269309 AGTAATTTCC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.11
16 6 0.11
17 6 0.11
19 37 0.67
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:9269316 original size:19 final size:19
Alignment explanation
Indices: 9269275--9269328 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
9269265 TGCGATTTTC
** *
9269275 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATAGTA
9269294 ATTTCGCATTGCGATAGTA
1 ATTTCGCATTGCGATAGTA
*
9269313 ATTTCCGCGTTGCGAT
1 ATTT-CGCATTGCGAT
9269329 GGACATTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 20 0.67
20 10 0.33
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (19 bp):
ATTTCGCATTGCGATAGTA
Found at i:9273113 original size:14 final size:14
Alignment explanation
Indices: 9273094--9273130 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9273084 CATCAATTAA
9273094 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
9273108 ACAAATCATCTTTT
1 ACAAATCAACATTT
9273122 ACAAATCAA
1 ACAAATCAA
9273131 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:9273253 original size:14 final size:14
Alignment explanation
Indices: 9273236--9273293 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
9273226 TTTCATTTCG
9273236 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
9273250 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
9273266 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
9273282 CGTTGCGATTTT
1 CGTTGCGATTTT
9273294 CATTTCGCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:9273264 original size:32 final size:33
Alignment explanation
Indices: 9273221--9273309 Score: 162
Period size: 32 Copynumber: 2.7 Consensus size: 33
9273211 CATCCATTTC
9273221 GCGATTTTCATTTCGCGTTGCGATTTTGTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTTTGTCGTT
9273254 GCGA-TTTCATTTCGCGTTGCGATTTTGTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTTTGTCGTT
*
9273286 GCGATTTTCATTTCGCTTTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
9273310 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
32 32 0.59
33 22 0.41
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTTTGTCGTT
Found at i:9273328 original size:20 final size:19
Alignment explanation
Indices: 9273294--9273348 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
9273284 TTGCGATTTT
*
9273294 CATTTCGCTTTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
9273313 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
9273333 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
9273349 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.38
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:9273847 original size:18 final size:18
Alignment explanation
Indices: 9273821--9273865 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
9273811 GTCGATCAGA
*
9273821 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
*
9273839 TGATAGCTCTAGGCGAGG
1 TGATGGCTCTAGGCGAGG
9273857 TGATGGCTC
1 TGATGGCTC
9273866 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.18, C:0.16, G:0.40, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:9275207 original size:20 final size:20
Alignment explanation
Indices: 9275182--9275235 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
9275172 AATAGTTTCT
9275182 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
9275202 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
*
9275222 GAAACT-AAAATCGC
1 GAAAATGAAAATCGC
9275236 TTTGCGATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:9275494 original size:22 final size:22
Alignment explanation
Indices: 9275469--9275512 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9275459 GATTTAGATA
9275469 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
9275491 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
9275513 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:9275787 original size:20 final size:20
Alignment explanation
Indices: 9275681--9275795 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
9275671 CGCTTTGAAA
*
9275681 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
9275702 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
9275722 ATCACGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
9275742 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
9275763 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
9275783 ATCGCATTGCGAT
1 ATCGCATTGCGAT
9275796 TTTCCCAATT
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
19 2 0.03
20 49 0.65
21 24 0.32
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:9275813 original size:21 final size:21
Alignment explanation
Indices: 9275784--9275859 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
9275774 ATAGTCAGTA
9275784 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
9275805 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
9275825 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
9275846 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
9275860 ACTTATTCAC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:9275814 original size:41 final size:41
Alignment explanation
Indices: 9275784--9275879 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
9275774 ATAGTCAGTA
* * *
9275784 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
9275825 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
*
9275866 TCACATTGCGAATT
1 TCGCATTGCGAATT
9275880 GGGAAAATCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:9275874 original size:20 final size:20
Alignment explanation
Indices: 9275784--9275876 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
9275774 ATAGTCAGTA
* **
9275784 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
9275805 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
9275825 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
9275846 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
*
9275866 TCACATTGCGA
1 TCGCATTGCGA
9275877 ATTGGGAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.54
21 26 0.46
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:9277226 original size:6 final size:6
Alignment explanation
Indices: 9277215--9277249 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9277205 TTTTAAATAT
9277215 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAA
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAA
9277250 TTTTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (6 bp):
TTGAAA
Found at i:9279741 original size:23 final size:24
Alignment explanation
Indices: 9279687--9279741 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
9279677 TTTTATTTAT
9279687 TCTATTAAATTAAAAATAATTAAA
1 TCTATTAAATTAAAAATAATTAAA
* * * *
9279711 TCT-CTAAATTATATATACTTAAA
1 TCTATTAAATTAAAAATAATTAAA
9279734 T-TATTAAA
1 TCTATTAAA
9279742 AAAAACATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 1 0.04
23 21 0.84
24 3 0.12
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (24 bp):
TCTATTAAATTAAAAATAATTAAA
Found at i:9281966 original size:13 final size:13
Alignment explanation
Indices: 9281948--9281997 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
9281938 TATTACTAAA
*
9281948 AATAATTTTATTT
1 AATAATTTTATAT
*
9281961 AATAATTTTATAA
1 AATAATTTTATAT
*
9281974 AATAATATTATAT
1 AATAATTTTATAT
*
9281987 AATATTTTTAT
1 AATAATTTTAT
9281998 TTTAGTATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AATAATTTTATAT
Found at i:9281975 original size:26 final size:26
Alignment explanation
Indices: 9281946--9281997 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
9281936 GTTATTACTA
* *
9281946 AAAATAATTTTATTTAATAATTTTAT
1 AAAATAATATTATATAATAATTTTAT
*
9281972 AAAATAATATTATATAATATTTTTAT
1 AAAATAATATTATATAATAATTTTAT
9281998 TTTAGTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
AAAATAATATTATATAATAATTTTAT
Found at i:9282013 original size:25 final size:24
Alignment explanation
Indices: 9281979--9282026 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
9281969 TATAAAATAA
* *
9281979 TATTATATAATATTTTTATTTTAG
1 TATTATATAAAATTCTTATTTTAG
9282003 TATTATAATAAAATTCTTATTTTA
1 TATTAT-ATAAAATTCTTATTTTA
9282027 ATATAGACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (24 bp):
TATTATATAAAATTCTTATTTTAG
Found at i:9286170 original size:2 final size:2
Alignment explanation
Indices: 9286163--9286193 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9286153 ATCAATTTAA
9286163 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
9286194 ATTTTACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:9288991 original size:2 final size:2
Alignment explanation
Indices: 9288984--9289019 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9288974 AGTCACCGAG
* *
9288984 TC TC TC TC TC TC TC TC TT TC TC TC TC AC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9289020 ACGAGAACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9303202 original size:18 final size:18
Alignment explanation
Indices: 9303179--9303213 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9303169 CTAGGAGATT
9303179 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
9303197 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
9303214 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:9303297 original size:20 final size:19
Alignment explanation
Indices: 9303272--9303309 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9303262 TGTATGATAA
9303272 AAATTATGAAGTTATATGAG
1 AAATTA-GAAGTTATATGAG
*
9303292 AAATTAGGAGTTATATGA
1 AAATTAGAAGTTATATGA
9303310 AATTGAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (19 bp):
AAATTAGAAGTTATATGAG
Found at i:9304384 original size:149 final size:146
Alignment explanation
Indices: 9304179--9304479 Score: 530
Period size: 149 Copynumber: 2.0 Consensus size: 146
9304169 GAGTCGAGGG
9304179 TCTACGCGGTTCTTCGAGACATATGTATCTTTGGAACATGCGTGAAGTCTAGAAAGACACATACT
1 TCTACGCGGTTCTTCGAGACATATGTATCTTTGGAACATGCGTGAAGTCTAGAAAGACACATACT
* *
9304244 TGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTATAT
66 TGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATAT
9304309 GGCACTACGGTGCAAT
131 GGCACTACGGTGCAAT
* * *
9304325 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATG--TA-TCTTTGGAACATGCGTGAAGTCTAGAAAGACACAT
9304390 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
63 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
9304455 TATGGCACTACGGTGCAAT
128 TATGGCACTACGGTGCAAT
9304474 TCTACG
1 TCTACG
9304480 GGGCACTTCG
Statistics
Matches: 147, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
146 24 0.16
148 2 0.01
149 121 0.82
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (146 bp):
TCTACGCGGTTCTTCGAGACATATGTATCTTTGGAACATGCGTGAAGTCTAGAAAGACACATACT
TGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATAT
GGCACTACGGTGCAAT
Found at i:9304502 original size:23 final size:23
Alignment explanation
Indices: 9304458--9304502 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9304448 ATCATTATAT
*
9304458 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
9304481 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
9304503 AGCTGTGTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:9308343 original size:21 final size:22
Alignment explanation
Indices: 9308314--9308354 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9308304 GTTGTATGAT
9308314 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
9308335 AGAAGATTATAGGAGTTATA
1 AGAAAATTATAGAAGTTATA
9308355 GAATTGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:9309498 original size:148 final size:149
Alignment explanation
Indices: 9309229--9309531 Score: 536
Period size: 148 Copynumber: 2.0 Consensus size: 149
9309219 GAGTCGAGGG
*
9309229 TCTACGCGGTTCTTTGAGACATATGTATATTCTTTGGAACATGCGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGCGTGAAGTCTAGAAAGACACAT
* *
9309294 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
9309359 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* * *
9309378 TCTACGCGGTTCTTCGGGACATATGTATA-TCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGCGTGAAGTCTAGAAAGACACAT
*
9309442 ACTTGATCCCTAGCATATGTATATGATTCTTAAATAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
9309507 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
9309526 TCTACG
1 TCTACG
9309532 GGGCACTTCG
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
148 120 0.82
149 27 0.18
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGCGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:9309554 original size:23 final size:23
Alignment explanation
Indices: 9309510--9309554 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9309500 ATCATTATAT
*
9309510 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
9309533 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
9309555 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:9316995 original size:31 final size:30
Alignment explanation
Indices: 9316932--9316996 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
9316922 GATTTAATCG
** *
9316932 TTTAATATTTTTTCTTTATAATTTTAGGTA
1 TTTAATATTTTTTAGTTATAATTTTAAGTA
*
9316962 TTTAATATTCTTTTAGTTATAATTTTAATTA
1 TTTAATATT-TTTTAGTTATAATTTTAAGTA
9316993 TTTA
1 TTTA
9316997 TACTGTAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (30 bp):
TTTAATATTTTTTAGTTATAATTTTAAGTA
Found at i:9325302 original size:25 final size:25
Alignment explanation
Indices: 9325263--9325321 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
9325253 AAACAATTAT
* *
9325263 AAAGGAAAAAGAAAGTAAGAG-ACAGG
1 AAAGG-AAAAGAAAGGAAG-GCAAAGG
9325289 AAAGGAAAAGAAAGGAAGGCAAAGG
1 AAAGGAAAAGAAAGGAAGGCAAAGG
9325314 AAAGGAAA
1 AAAGGAAA
9325322 TGATATATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 1 0.03
25 24 0.80
26 5 0.17
ACGTcount: A:0.63, C:0.03, G:0.32, T:0.02
Consensus pattern (25 bp):
AAAGGAAAAGAAAGGAAGGCAAAGG
Found at i:9329856 original size:103 final size:103
Alignment explanation
Indices: 9329631--9329848 Score: 436
Period size: 103 Copynumber: 2.1 Consensus size: 103
9329621 GTCGAGGGTC
9329631 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
9329696 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
9329734 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
9329799 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
9329837 TATGTGGTCCTT
1 TATGTGGTCCTT
9329849 ATGGACATTA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 115 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:9329895 original size:23 final size:23
Alignment explanation
Indices: 9329865--9329924 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
9329855 ATTATTATAT
9329865 GGCACTACGGTGCAACTCTACGC
1 GGCACTACGGTGCAACTCTACGC
* * *
9329888 GGCACTACGGTGCAATTCTATGT
1 GGCACTACGGTGCAACTCTACGC
*
9329911 GGCACTTCGGTGCA
1 GGCACTACGGTGCA
9329925 TTTATATGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.23
Consensus pattern (23 bp):
GGCACTACGGTGCAACTCTACGC
Found at i:9329932 original size:23 final size:23
Alignment explanation
Indices: 9329855--9329932 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
9329845 CCTTATGGAC
*
9329855 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
9329879 ACTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACGGTGCA
* *
9329902 ATTCTATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
9329925 TTTATATG
1 ATTATATG
9329933 AGCTGTGGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 41 0.95
24 2 0.05
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:9332711 original size:35 final size:34
Alignment explanation
Indices: 9332672--9332750 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 34
9332662 CAACACAGTC
9332672 TTCAATTTCATTATAAAAC-CCAAATTCCAAAATAA
1 TTCAATTT-ATT-TAAAACTCCAAATTCCAAAATAA
* * *
9332707 TTCAATTATATTTTAAACTCCAAATTCTAAAATAC
1 TTCAATT-TATTTAAAACTCCAAATTCCAAAATAA
9332742 TTCAATTTA
1 TTCAATTTA
9332751 GGGTTTTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 7 0.18
35 31 0.79
36 1 0.03
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (34 bp):
TTCAATTTATTTAAAACTCCAAATTCCAAAATAA
Found at i:9332791 original size:35 final size:35
Alignment explanation
Indices: 9332745--9332819 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
9332735 AAAATACTTC
*
9332745 AATTTAGGGTTTTGAATATAATTGAAGTATTTTGG
1 AATTTAGGGTTTAGAATATAATTGAAGTATTTTGG
* * *
9332780 AATTTGGGGTTTAGAATGTAATTGAAGTGTTTTGG
1 AATTTAGGGTTTAGAATATAATTGAAGTATTTTGG
9332815 AATTT
1 AATTT
9332820 TGAACATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.45
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATATAATTGAAGTATTTTGG
Found at i:9333084 original size:20 final size:20
Alignment explanation
Indices: 9333059--9333096 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9333049 TTTGGTTCAC
9333059 GGAATGAAAGATTACCAGTG
1 GGAATGAAAGATTACCAGTG
*
9333079 GGAATGTAAGATTACCAG
1 GGAATGAAAGATTACCAG
9333097 GGAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (20 bp):
GGAATGAAAGATTACCAGTG
Found at i:9336401 original size:23 final size:24
Alignment explanation
Indices: 9336360--9336410 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
9336350 ATATGTGTTA
* *
9336360 TATGTGGTCATTCGAGAC-ATTTC
1 TATGCGGTCATTCGAGACAAATTC
9336383 TATGCGGTCATTC-AGGACAAATTC
1 TATGCGGTCATTCGA-GACAAATTC
9336407 TATG
1 TATG
9336411 TGCCCCTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.04
23 15 0.62
24 8 0.33
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (24 bp):
TATGCGGTCATTCGAGACAAATTC
Found at i:9350152 original size:30 final size:30
Alignment explanation
Indices: 9350118--9350187 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
9350108 TCGCGTTATG
9350118 CAAAACGTGATTAAAAGATATCATTTTCTA
1 CAAAACGTGATTAAAAGATATCATTTTCTA
** * * *
9350148 CAAAATATGATTAAAATATATCGTTTTCTG
1 CAAAACGTGATTAAAAGATATCATTTTCTA
9350178 CAAAACGTGA
1 CAAAACGTGA
9350188 GATTCAATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (30 bp):
CAAAACGTGATTAAAAGATATCATTTTCTA
Found at i:9356899 original size:17 final size:17
Alignment explanation
Indices: 9356879--9356912 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9356869 TATTTAAAAT
* *
9356879 ATATTTATATTTTTTTA
1 ATATTTAAATATTTTTA
9356896 ATATTTAAATATTTTTA
1 ATATTTAAATATTTTTA
9356913 TTCATATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTTAAATATTTTTA
Found at i:9356924 original size:22 final size:20
Alignment explanation
Indices: 9356877--9356931 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 20
9356867 AATATTTAAA
9356877 ATATATTT--ATATTTTTTT
1 ATATATTTAAATATTTTTTT
9356895 A-ATATTTAAATATTTTTATT
1 ATATATTTAAATATTTTT-TT
9356915 CATATATTTAAATATTT
1 -ATATATTTAAATATTT
9356932 CTGTTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.19
18 1 0.03
19 8 0.25
20 2 0.06
21 1 0.03
22 14 0.44
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATATTTAAATATTTTTTT
Found at i:9364646 original size:2 final size:2
Alignment explanation
Indices: 9364641--9364670 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9364631 TCTCTCTCTC
9364641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9364671 TCACATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9374463 original size:20 final size:20
Alignment explanation
Indices: 9374440--9374482 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
9374430 GATTCAATAT
9374440 TAATTGATTTGATATTGACC
1 TAATTGATTTGATATTGACC
9374460 TAATTGATTTGATATTGACC
1 TAATTGATTTGATATTGACC
9374480 TAA
1 TAA
9374483 CTTAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (20 bp):
TAATTGATTTGATATTGACC
Found at i:9379527 original size:23 final size:23
Alignment explanation
Indices: 9379497--9379543 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
9379487 TAAATTTAAG
*
9379497 TAGAAAATTGAATTGACTTGATT
1 TAGAAAATTGAATCGACTTGATT
9379520 TAGAAAATTGAATCGACTTGATT
1 TAGAAAATTGAATCGACTTGATT
9379543 T
1 T
9379544 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (23 bp):
TAGAAAATTGAATCGACTTGATT
Found at i:9381187 original size:30 final size:30
Alignment explanation
Indices: 9381153--9381209 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
9381143 GTTCACCTTT
* *
9381153 GATTTTAAAATATATATAAATGACATAATA
1 GATTTTAAAATATATACAAAGGACATAATA
9381183 GATTTTAAAATATATACAAAGGACATA
1 GATTTTAAAATATATACAAAGGACATA
9381210 CACTTGGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (30 bp):
GATTTTAAAATATATACAAAGGACATAATA
Found at i:9387495 original size:22 final size:22
Alignment explanation
Indices: 9387470--9387511 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9387460 AACCTGAATG
* *
9387470 CAAAATTGATTATGGTGAACCC
1 CAAAATTGATGATGGAGAACCC
9387492 CAAAATTGATGATGGAGAAC
1 CAAAATTGATGATGGAGAAC
9387512 TTGTTAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (22 bp):
CAAAATTGATGATGGAGAACCC
Found at i:9394450 original size:2 final size:2
Alignment explanation
Indices: 9394443--9394479 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9394433 GATAGAGGGT
9394443 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
9394480 GATTTGCTAA
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:9394564 original size:6 final size:6
Alignment explanation
Indices: 9394548--9394591 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
9394538 GATAAATTTG
*
9394548 TGAAA- TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TAAAAT TGA
1 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGA
9394592 GAAGGGTGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
TGAAAT
Found at i:9394668 original size:19 final size:19
Alignment explanation
Indices: 9394644--9394680 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9394634 TTTTTTTAAA
* *
9394644 TAAAATAATATTGAAGGGG
1 TAAAATAAAATTCAAGGGG
9394663 TAAAATAAAATTCAAGGG
1 TAAAATAAAATTCAAGGG
9394681 AAAGAAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.22, T:0.24
Consensus pattern (19 bp):
TAAAATAAAATTCAAGGGG
Found at i:9395054 original size:31 final size:31
Alignment explanation
Indices: 9394989--9395055 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
9394979 TATAAGATAC
* * **
9394989 GATCACTTTTCTTTTTATTTAATTAGGATAT
1 GATCACTTTTATTTTTATTTAACTAAAATAT
* *
9395020 GATCACTTTTATTTTTATTTGACTAAAATGT
1 GATCACTTTTATTTTTATTTAACTAAAATAT
9395051 GATCA
1 GATCA
9395056 TCACATGTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (31 bp):
GATCACTTTTATTTTTATTTAACTAAAATAT
Found at i:9401721 original size:14 final size:14
Alignment explanation
Indices: 9401693--9401734 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
9401683 GAAAGGGGAA
* *
9401693 GAAAAAGGAAGAAT
1 GAAAAAGTAAAAAT
*
9401707 GAAAGAGTAAAAAT
1 GAAAAAGTAAAAAT
9401721 GAAAAAGTAAAAAT
1 GAAAAAGTAAAAAT
9401735 AGTTTACCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (14 bp):
GAAAAAGTAAAAAT
Found at i:9407119 original size:15 final size:15
Alignment explanation
Indices: 9407098--9407154 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
9407088 AACCAGGTAT
9407098 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
* **
9407113 TGGGTACCCGTAAAATC
1 CGGGTACCCG-ATTA-C
*
9407130 CGGATACCCGATTAC
1 CGGGTACCCGATTAC
9407145 CGGGTACCCG
1 CGGGTACCCG
9407155 TAACATCTGG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
15 19 0.59
16 4 0.12
17 9 0.28
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:9409899 original size:18 final size:18
Alignment explanation
Indices: 9409878--9409935 Score: 116
Period size: 18 Copynumber: 3.2 Consensus size: 18
9409868 AAGTAGATAT
9409878 ATCACAATATTAGTTTTA
1 ATCACAATATTAGTTTTA
9409896 ATCACAATATTAGTTTTA
1 ATCACAATATTAGTTTTA
9409914 ATCACAATATTAGTTTTA
1 ATCACAATATTAGTTTTA
9409932 ATCA
1 ATCA
9409936 AGTGTATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (18 bp):
ATCACAATATTAGTTTTA
Found at i:9409947 original size:2 final size:2
Alignment explanation
Indices: 9409940--9409971 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9409930 TAATCAAGTG
9409940 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9409972 GTAGCTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9411553 original size:31 final size:31
Alignment explanation
Indices: 9411515--9411584 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
9411505 GGCTTAGAAG
9411515 GGAACTGAATGGCATCCATTACGAGATTCAA
1 GGAACTGAATGGCATCCATTACGAGATTCAA
9411546 GGAACTGAATGGCATCCATTACGAGATTCAA
1 GGAACTGAATGGCATCCATTACGAGATTCAA
*
9411577 GCAACTGA
1 GGAACTGA
9411585 CCCTACAGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (31 bp):
GGAACTGAATGGCATCCATTACGAGATTCAA
Found at i:9414569 original size:18 final size:17
Alignment explanation
Indices: 9414541--9414574 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
9414531 ATATATTTAA
9414541 AAACAATAAAATAAATT
1 AAACAATAAAATAAATT
9414558 AAACATATAAAATAAAT
1 AAACA-ATAAAATAAAT
9414575 GACTAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAACAATAAAATAAATT
Found at i:9415813 original size:3 final size:3
Alignment explanation
Indices: 9415805--9415919 Score: 171
Period size: 3 Copynumber: 38.7 Consensus size: 3
9415795 TTATTTATTA
* *
9415805 AAT AAT AAT AAT AAT AAT -AT AAT ATT AAT AAT AAT AAT AAAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
**
9415850 AAT AAT AAT AAT AAT AAT AAT AAT GCT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9415897 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
9415920 AATGGATAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
2 4 0.04
3 94 0.93
4 3 0.03
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:9416418 original size:113 final size:113
Alignment explanation
Indices: 9416215--9416885 Score: 1121
Period size: 113 Copynumber: 5.9 Consensus size: 113
9416205 GATATCAAAC
*
9416215 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-TTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * * *
9416279 CATGAACTTTCTTTGGCCATGTTGATCCATCAAATGATGAATTTAAACA
66 -ATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAGCA
*
9416328 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * *
9416393 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
66 ATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAGCA
*
9416441 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
9416506 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAAGCA
66 ATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAGCA
9416554 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
9416619 ATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAAGCA
66 ATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAGCA
9416667 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
9416732 ATGAACTTTCTCTGGAAATGTTGAT-CATCAAGTGATGAATTCAAGCA
66 ATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAGCA
9416779 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
9416844 ATGAACTTTCTCTGGTAATGATGATCCATCAAATGATGAATT
66 ATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATT
9416886 TGAATCTTTT
Statistics
Matches: 530, Mismatches: 26, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
112 110 0.21
113 409 0.77
114 11 0.02
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAGCA
Found at i:9417692 original size:53 final size:52
Alignment explanation
Indices: 9417441--9417796 Score: 579
Period size: 53 Copynumber: 6.7 Consensus size: 52
9417431 CACTTCTTCG
* * *
9417441 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCCATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
9417493 GATCAGATAACTCAAAGAACACTTCCAGAAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCC---AGAAGATGCTATGTTCTGTCCAACCA
*
9417548 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
9417600 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACCA
*
9417652 GATCAGATAACTCAAAGAAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAG-AACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
9417705 GATCAGATAACTCAAAGAAACACTTCCAGAAGATGCTATGTTCTGTTCAACCA
1 GATCAGATAACTCAAAG-AACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
9417758 GATCAGATAACTCAAAGAAACACTTCCAGAAGATGCTAT
1 GATCAGATAACTCAAAG-AACACTTCCAGAAGATGCTAT
9417797 TGAGCACATA
Statistics
Matches: 288, Mismatches: 10, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 116 0.40
53 122 0.42
55 50 0.17
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (52 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
Found at i:9418742 original size:1 final size:1
Alignment explanation
Indices: 9418736--9418851 Score: 61
Period size: 1 Copynumber: 116.0 Consensus size: 1
9418726 CCTTGACCCC
* * * * ** * * * * * * *
9418736 TTTTTTTTCTTTTTCTTTTTCTTCTTTTCCTTTCTTTTTTCTTTTCTTTTCTTTCTCTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
9418801 CTTTCTTTTTTTTCTTTTTTCTTTTTTTTTTTTTCTTTCTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9418852 CTTCAAGCAT
Statistics
Matches: 79, Mismatches: 36, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:9418749 original size:9 final size:9
Alignment explanation
Indices: 9418736--9418851 Score: 102
Period size: 9 Copynumber: 13.2 Consensus size: 9
9418726 CCTTGACCCC
9418736 TTTTTT-TT
1 TTTTTTCTT
*
9418744 CTTTTTCTT
1 TTTTTTCTT
*
9418753 TTTCTTCTT
1 TTTTTTCTT
*
9418762 TTCCTTTC--
1 TT-TTTTCTT
9418770 TTTTTTCTT
1 TTTTTTCTT
9418779 TTCTTTTCTT
1 TT-TTTTCTT
* *
9418789 TCTCTTCTT
1 TTTTTTCTT
9418798 TTTCTTTCTT
1 TTT-TTTCTT
9418808 TTTTTTC--
1 TTTTTTCTT
9418815 TTTTTTCTT
1 TTTTTTCTT
9418824 TTTTTT-TT
1 TTTTTTCTT
9418832 TTTCTTTCTT
1 TTT-TTTCTT
9418842 TTTTTT-TT
1 TTTTTTCTT
9418850 TT
1 TT
9418852 CTTCAAGCAT
Statistics
Matches: 88, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
7 11 0.12
8 16 0.18
9 37 0.42
10 24 0.27
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:9418750 original size:6 final size:6
Alignment explanation
Indices: 9418739--9418849 Score: 79
Period size: 6 Copynumber: 17.8 Consensus size: 6
9418729 TGACCCCTTT
*
9418739 TTTTTC TTTTTC TTTTTC TTCTTT- TCCTTTC TTTTT- TCTTTTC -TTTTC
1 TTTTTC TTTTTC TTTTTC TT-TTTC T-TTTTC TTTTTC T-TTTTC TTTTTC
* *
9418787 TTTCTCTTC TTTTTC TTTCTTT TTTTTC TTTTTTC TTTTT- TTTTTT TTCTTTC
1 -TT-T-TTC TTTTTC TTT-TTC TTTTTC -TTTTTC TTTTTC TTTTTC TT-TTTC
9418840 TTTTT- TTTTT
1 TTTTTC TTTTT
9418850 TTCTTCAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 27
0.73 0.04 0.23
Matches are distributed among these distances:
5 16 0.18
6 43 0.49
7 22 0.25
8 3 0.03
9 3 0.03
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:9418769 original size:25 final size:23
Alignment explanation
Indices: 9418735--9418854 Score: 117
Period size: 21 Copynumber: 5.1 Consensus size: 23
9418725 ACCTTGACCC
*
9418735 CTTTTTTTTCTTTTTCTTTTTCTT
1 CTTTTCTTTCTTTTTCTTTTT-TT
9418759 CTTTTCCTTTCTTTTTTCTTTTCTTT
1 CTTTT-CTTTC-TTTTTCTTTT-TTT
9418785 -TCTTTCTCTTCTTTTTCTTTCTTTT
1 CT-TTTCT-TTCTTTTTCTTT-TTTT
9418810 -TTTTCTTT-TTTCTT-TTTTTTT
1 CTTTTCTTTCTTT-TTCTTTTTTT
9418831 -TTTTCTTTCTTTTT-TTTTTTT
1 CTTTTCTTTCTTTTTCTTTTTTT
9418852 CTT
1 CTT
9418855 CAAGCATAAT
Statistics
Matches: 86, Mismatches: 1, Indels: 20
0.80 0.01 0.19
Matches are distributed among these distances:
21 21 0.24
22 11 0.13
23 4 0.05
24 10 0.12
25 20 0.23
26 19 0.22
27 1 0.01
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (23 bp):
CTTTTCTTTCTTTTTCTTTTTTT
Found at i:9430246 original size:18 final size:18
Alignment explanation
Indices: 9430223--9430257 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9430213 AATATATTTA
9430223 AAAACA-ATAAAATAAATT
1 AAAACATAT-AAATAAATT
9430241 AAAACATATAAATAAAT
1 AAAACATATAAATAAAT
9430258 GACTAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAACATATAAATAAATT
Found at i:9431502 original size:3 final size:3
Alignment explanation
Indices: 9431494--9431625 Score: 194
Period size: 3 Copynumber: 42.7 Consensus size: 3
9431484 TTATTTATTA
*
9431494 AAT AAT AAT AAT AAT AAT ATAT AA- ATAT AAT AAT AAT AAAT ACT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT A-AT AAT AAT AAT -AAT AAT AAT
9431541 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAGCT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT
*
9431588 AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9431626 AATGGATAAA
Statistics
Matches: 119, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
2 1 0.01
3 108 0.91
4 7 0.06
5 3 0.03
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9435981 original size:2 final size:2
Alignment explanation
Indices: 9435974--9436001 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9435964 CTCACGATTA
9435974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9436002 TTAAATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9436078 original size:3 final size:3
Alignment explanation
Indices: 9436072--9436097 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9436062 AATAATAATA
9436072 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
9436098 ATGTTTTTCA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9439879 original size:21 final size:21
Alignment explanation
Indices: 9439853--9439897 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9439843 GATTTCTGGG
* *
9439853 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
9439874 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
9439895 CAA
1 CAA
9439898 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:9441346 original size:29 final size:28
Alignment explanation
Indices: 9441289--9441347 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 28
9441279 ATATGTATGT
*
9441289 TTATATGAATATCTGAGAAATGATCTAAG
1 TTATATGAATATATGAGAAATGA-CTAAG
*
9441318 TTATATGATATGATATGTGAAATGA-TAAG
1 TTATATGA-AT-ATATGAGAAATGACTAAG
9441347 T
1 T
9441348 ATAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 13 0.50
30 2 0.08
31 11 0.42
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (28 bp):
TTATATGAATATATGAGAAATGACTAAG
Found at i:9441452 original size:25 final size:25
Alignment explanation
Indices: 9441417--9441485 Score: 129
Period size: 25 Copynumber: 2.8 Consensus size: 25
9441407 GAGTAGAGGG
9441417 TCTACGCGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
*
9441442 TCTACGTGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
9441467 TCTACGCGGTCCTTCGGGA
1 TCTACGCGGTCCTTCGGGA
9441486 TATATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.29
Consensus pattern (25 bp):
TCTACGCGGTCCTTCGGGACAATAT
Found at i:9441643 original size:23 final size:23
Alignment explanation
Indices: 9441599--9441643 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9441589 CATCATATAT
*
9441599 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
9441622 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
9441644 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:9442739 original size:18 final size:18
Alignment explanation
Indices: 9442718--9442754 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9442708 TTATTTAGAG
9442718 AATTTAAATCAA-AAAAAT
1 AATTTAAAT-AATAAAAAT
9442736 AATTTAAATAATAAAAAT
1 AATTTAAATAATAAAAAT
9442754 A
1 A
9442755 TTAAACTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AATTTAAATAATAAAAAT
Found at i:9448236 original size:80 final size:82
Alignment explanation
Indices: 9448151--9448318 Score: 232
Period size: 80 Copynumber: 2.0 Consensus size: 82
9448141 ATATATATTC
*
9448151 TAAAATCTACAGTAATTAAAAAACAAAACTAAATTTTCTAATCACATCATAGTTT-C-GTAACCT
1 TAAAATCTACAATAATTAAAAAACAAAACTAAATTTTCTAATCACATCATAGTTTCCAGTAACCT
9448214 ATCAAAGTAACTTATAA
66 ATCAAAGTAACTTATAA
* * * * * *
9448231 TAAAATCTACAATAGTTAAAAAACAAAACTGAATTTTTTAGTCACGTCGTAGTTTCCAATGTAAC
1 TAAAATCTACAATAATTAAAAAACAAAACTAAATTTTCTAATCACATCATAGTTTCC-A-GTAAC
*
9448296 CTATCAAAGTATCTTATAA
64 CTATCAAAGTAACTTATAA
9448315 TAAA
1 TAAA
9448319 GTTGTCTAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 48 0.63
81 1 0.01
84 27 0.36
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (82 bp):
TAAAATCTACAATAATTAAAAAACAAAACTAAATTTTCTAATCACATCATAGTTTCCAGTAACCT
ATCAAAGTAACTTATAA
Found at i:9449136 original size:14 final size:15
Alignment explanation
Indices: 9449108--9449144 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
9449098 TAAAATTATT
9449108 TATTAATTTTCTTAA
1 TATTAATTTTCTTAA
*
9449123 TATT-ATTTTTTTAA
1 TATTAATTTTCTTAA
9449137 T-TTAATTT
1 TATTAATTT
9449145 AATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 14 0.70
15 4 0.20
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTAATTTTCTTAA
Found at i:9456736 original size:50 final size:49
Alignment explanation
Indices: 9456681--9456778 Score: 142
Period size: 50 Copynumber: 2.0 Consensus size: 49
9456671 CTGAACTTTT
* *
9456681 TTTGCTACACATTAGTCCTGGAAATTGACAACTTTTCCTAACTTGGTCCC
1 TTTGCTACACATTAGCCCTGGAAATTGACAACATTTCC-AACTTGGTCCC
* * *
9456731 TTTGCTTCACATTAGCCCTGGAACTTGACAGCATTTCCAACTTGGTCC
1 TTTGCTACACATTAGCCCTGGAAATTGACAACATTTCCAACTTGGTCC
9456779 TAAACTTGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 10 0.23
50 33 0.77
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (49 bp):
TTTGCTACACATTAGCCCTGGAAATTGACAACATTTCCAACTTGGTCCC
Found at i:9458562 original size:21 final size:20
Alignment explanation
Indices: 9458533--9458571 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9458523 TAATTTAAGA
*
9458533 TAATATTTTATTATAATTTTT
1 TAATATTTTA-CATAATTTTT
*
9458554 TAATCTTTTACATAATTT
1 TAATATTTTACATAATTT
9458572 GCAAATGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATATTTTACATAATTTTT
Done.