Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008314.1 Hibiscus syriacus cultivar Beakdansim tig00111008_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: 2414839
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:843936 original size:19 final size:19
Alignment explanation
Indices: 843842--843976 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
843832 TAGTTTACTT
* *
843842 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
843862 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
843881 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
843900 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
843914 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
843933 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
843947 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
843966 TCGCAATGCGA
1 TCGCAACGCGA
843977 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:843994 original size:19 final size:19
Alignment explanation
Indices: 843972--844100 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
843962 AAAATCGCAA
843972 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
843991 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
844005 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
844024 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
** *
844038 TGCGATTTTCATTTCGTGT
1 TGCGATTTTGGTTTCGCGT
844057 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
844076 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
844096 TGCGA
1 TGCGA
844101 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 46 0.52
20 13 0.15
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:844014 original size:33 final size:33
Alignment explanation
Indices: 843972--844063 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
843962 AAAATCGCAA
843972 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
844005 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
844038 TGCGATTTTCATTTCGTGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
844064 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:844291 original size:93 final size:93
Alignment explanation
Indices: 844132--844504 Score: 723
Period size: 93 Copynumber: 4.0 Consensus size: 93
844122 GCAAATTGAA
844132 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
844197 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
844225 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
844290 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
844318 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
844383 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
844411 ACTTTCAACC-AAA-ACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
844474 GCAGAATTGGCAGCAACCGAATAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
844502 ACT
1 ACT
844505 AAGCAATCTA
Statistics
Matches: 279, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
91 80 0.29
92 3 0.01
93 196 0.70
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTT
Found at i:846229 original size:14 final size:14
Alignment explanation
Indices: 846210--846299 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
846200 TTGAAATGAA
846210 AATCGCAACGAGAG
1 AATCGCAACGAGAG
846224 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
846241 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
846257 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
846276 AATTGCAACGAGAG
1 AATCGCAACGAGAG
846290 AATCGCAACG
1 AATCGCAACG
846300 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 27 0.44
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 17 0.27
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:846247 original size:33 final size:33
Alignment explanation
Indices: 846202--846316 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
846192 TCTTTTGGTT
846202 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
846235 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
846268 GAAATGAAAATTGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
846301 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
846317 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:846248 original size:19 final size:18
Alignment explanation
Indices: 846209--846321 Score: 79
Period size: 19 Copynumber: 6.8 Consensus size: 18
846199 GTTGAAATGA
846209 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
846224 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
846241 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
846257 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
846274 AAAATTGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
846290 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
846307 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
846322 TTTTGGTTTC
Statistics
Matches: 77, Mismatches: 6, Indels: 26
0.71 0.06 0.24
Matches are distributed among these distances:
14 23 0.30
16 15 0.19
17 12 0.16
19 27 0.35
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:846352 original size:14 final size:14
Alignment explanation
Indices: 846333--846387 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
846323 TTTGGTTTCG
846333 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
846347 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
846366 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
846380 CGTTGCGA
1 CGTTGCGA
846388 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:846365 original size:33 final size:33
Alignment explanation
Indices: 846317--846387 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
846307 AAAATCGCAA
**
846317 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
846350 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
846383 TGCGA
1 TGCGA
846388 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:846395 original size:33 final size:33
Alignment explanation
Indices: 846328--846409 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
846318 GCGATTTTGG
***
846328 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
846361 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
846394 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
846410 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:846414 original size:20 final size:20
Alignment explanation
Indices: 846340--846428 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
846330 TCGCGTTGCG
846340 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
846360 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
846373 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
846393 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
846413 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
846429 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:846550 original size:33 final size:33
Alignment explanation
Indices: 846508--846578 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
846498 AATACTAACT
*
846508 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
846541 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
846574 TGAAA
1 TGAAA
846579 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:846811 original size:22 final size:22
Alignment explanation
Indices: 846759--846813 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
846749 TGGTTGTGAG
**
846759 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
846781 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
846803 GGATTTCTTCG
1 GGATTTCTTCG
846814 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:846984 original size:20 final size:20
Alignment explanation
Indices: 846959--847151 Score: 210
Period size: 20 Copynumber: 9.6 Consensus size: 20
846949 CTTTAAATAT
846959 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
846979 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
847001 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
847020 CACGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
847040 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
847060 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
847080 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
847100 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
847120 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
847140 CGCGTTGCGATT
1 CGCGTTGCGATT
847152 ATGGAAAATC
Statistics
Matches: 145, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:847151 original size:60 final size:60
Alignment explanation
Indices: 846961--847132 Score: 254
Period size: 60 Copynumber: 2.9 Consensus size: 60
846951 TTAAATATCG
**
846961 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACA
* * *** *
847022 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
*
847082 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTT
847133 TCATATTCGC
Statistics
Matches: 96, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
60 70 0.73
61 26 0.27
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
Found at i:847232 original size:20 final size:20
Alignment explanation
Indices: 847207--847258 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
847197 AAGAATCGCG
*
847207 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
847227 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
847247 TTGCGATTCTGG
1 TTGCGATTCTGG
847259 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:849192 original size:12 final size:12
Alignment explanation
Indices: 849175--849203 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
849165 TTGAACCTCC
849175 CCGCCTCAACCT
1 CCGCCTCAACCT
849187 CCGCCTCAACCT
1 CCGCCTCAACCT
849199 CCGCC
1 CCGCC
849204 ACTGCCCCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.62, G:0.10, T:0.14
Consensus pattern (12 bp):
CCGCCTCAACCT
Found at i:854294 original size:2 final size:2
Alignment explanation
Indices: 854287--854312 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
854277 ATGATTAAAC
854287 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
854313 CTTTTAGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:854750 original size:3 final size:3
Alignment explanation
Indices: 854742--854786 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
854732 ACCTCAAGCC
854742 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
854787 CAATCCATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:855131 original size:39 final size:38
Alignment explanation
Indices: 855088--855210 Score: 135
Period size: 39 Copynumber: 3.2 Consensus size: 38
855078 CCCCACGTCT
855088 ACCACCACGCCCACCACCATCTCTTCCCCCACTCCATCC
1 ACCACC-CGCCCACCACCATCTCTTCCCCCACTCCATCC
855127 ACCACTCCTG-CCACCACCATCTCTTCCCCCACTCCATCC
1 ACCAC-CC-GCCCACCACCATCTCTTCCCCCACTCCATCC
* * * *
855166 ACCACGGCC-ACCGCCACCATCCCTTCCTCCACTCC-TACC
1 ACCAC--CCGCCCACCACCATCTCTTCCCCCACTCCAT-CC
855205 ACCACC
1 ACCACC
855211 TCTGCCGCTT
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 69 0.92
40 4 0.05
ACGTcount: A:0.20, C:0.60, G:0.04, T:0.16
Consensus pattern (38 bp):
ACCACCCGCCCACCACCATCTCTTCCCCCACTCCATCC
Found at i:859887 original size:210 final size:211
Alignment explanation
Indices: 859372--860475 Score: 1104
Period size: 210 Copynumber: 5.3 Consensus size: 211
859362 AAATGTTACG
* * ** * *
859372 AGCATGAGCATATTACTCACTTCTTCGGAGGATGACCCTTCCTCACTACTAGACTTGGAA-TCAT
1 AGCATGAGCATAATACTCACTTCGTCGGAGGATGAATCTTCCTCACTACTAGACTCGGAACT-GT
* * * * *
859436 CATCAGCTTTCACTGTCTTAGCAACT-AAAGTAGAGTCATTTTTGGCAACTACAGGTTTTTTATT
65 TATCAGCTTTCACTGTCTTAGCAGCTGGAA-CAGAGACATTTTTGGCAACTACAGGTTTTTTATT
* * * * * *
859500 CTGAGCAGGAGCTTCCTGGAATAAACAAAAACTTGAACACTAATAATGATACAAAAGAATATTTC
129 CTGGGCAGGAGCTTCCTGTAATAAACAAAAACTTGATCATTAACAATCATAC-AAAGAATATTTC
* * *
859565 CCACCATGCTAATACTATA
193 CAATCATGCTAGTACTATA
* * * * * * * *
859584 ACCAT-AGGATAATACTCACTTCGTCGGAGGATGAGTCATCCTCACTACTAGAATCAGAACCGCT
1 AGCATGAGCATAATACTCACTTCGTCGGAGGATGAATCTTCCTCACTACTAGACTCGGAACTGTT
859648 ATCAGCTTTCACTGTCTTAGCAGCTGGAACAGAGACACTTTTT-GCAACTACAGGTTTTTTATTC
66 ATCAGCTTTCACTGTCTTAGCAGCTGGAACAGAGACA-TTTTTGGCAACTACAGGTTTTTTATTC
* * * *
859712 TGGGCAGTAGGTTCCTGTAATAAACAAAAACTTGATCATTAACAATCATAC-AAGAGTATTTCTA
130 TGGGCAGGAGCTTCCTGTAATAAACAAAAACTTGATCATTAACAATCATACAAAGAATATTTCCA
*
859776 AACATGCTAGTACTATA
195 ATCATGCTAGTACTATA
* * * * *
859793 AGCATGAGAATAATGCTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCGGAACTTTT
1 AGCATGAGCATAATACTCACTTCGTCGGAGGATGAATCTTCCTCACTACTAGACTCGGAACTGTT
* *
859858 ATCAGCTTTCACTGTCTTAGCATCTGGAACAGAGACACTTTTT-GCAACTACTGGTTTTTTATTC
66 ATCAGCTTTCACTGTCTTAGCAGCTGGAACAGAGACA-TTTTTGGCAACTACAGGTTTTTTATTC
* * * * * *
859922 TGTGCAGTAGGTTCCGGTAATAAACAAAAACTTGATCATTAACAATCATAC-AAGAGTATTTCTA
130 TGGGCAGGAGCTTCCTGTAATAAACAAAAACTTGATCATTAACAATCATACAAAGAATATTTCCA
859986 ATCATGCTAGTACTATA
195 ATCATGCTAGTACTATA
* *
860003 AGCATGAGCATAATGCTCACTTCGTCGGAGGATGAATCTTCCTCACTACTAGACTCGGAACTTTT
1 AGCATGAGCATAATACTCACTTCGTCGGAGGATGAATCTTCCTCACTACTAGACTCGGAACTGTT
* * ** ***
860068 ATCAGCTTTAACAGTCTTAGCAGCAAGAACAGAGACATTTTTGGCAACTGTGGGTTTTTTATT-T
66 ATCAGCTTTCACTGTCTTAGCAGCTGGAACAGAGACATTTTTGGCAACTACAGGTTTTTTATTCT
* * * * *
860132 GGAGCAGGAGCTTCCTGAAATAAAACAAAAAATTGA--AGTAATAATCATACAAAAGAATATGTC
131 GG-GCAGGAGCTTCCTGTAAT-AAACAAAAACTTGATCATTAACAATCATAC-AAAGAATATTTC
* *
860195 CAATCATGCTA-AATTTATA
193 CAATCATGCTAGTA-CTATA
* * * * *
860214 AGCATGAGCAGAATACTCACTTCGTCGGAGGATGAATCTTTCTCACTACTAGACTCAGAACCGCT
1 AGCATGAGCATAATACTCACTTCGTCGGAGGATGAATCTTCCTCACTACTAGACTCGGAACTGTT
* * *
860279 ATCAGCTTTCACTGTCTT---A----G--C--AGA-ATTTTTAGCAACTACAGCTTTTTTGTTCT
66 ATCAGCTTTCACTGTCTTAGCAGCTGGAACAGAGACATTTTTGGCAACTACAGGTTTTTTATTCT
* * * * *
860332 GAGCTGGAGCTTCCTGGAATTAAGAGGGAAAAA-TTGAACATTAAAATCAATCATACAAAAGAAT
131 GGGCAGGAGCTTCCTGTAA-TAA-A--CAAAAACTTGATCATT--AA-CAATCATAC-AAAGAAT
* * * * * ** *
860396 ATGTGCAAACATGATAATGTTACA
188 ATTTCCAATCATGCTAGTACTATA
* * * *
860420 AGCATGAGCATAATACTTACTTCATCAGAGGATGAATCTTCCTCGCTACTAGACTC
1 AGCATGAGCATAATACTCACTTCGTCGGAGGATGAATCTTCCTCACTACTAGACTC
860476 AGAAGCACCC
Statistics
Matches: 766, Mismatches: 105, Indels: 48
0.83 0.11 0.05
Matches are distributed among these distances:
199 38 0.05
200 7 0.01
201 4 0.01
202 6 0.01
203 2 0.00
204 1 0.00
205 2 0.00
206 83 0.11
208 1 0.00
209 48 0.06
210 314 0.41
211 249 0.33
212 11 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (211 bp):
AGCATGAGCATAATACTCACTTCGTCGGAGGATGAATCTTCCTCACTACTAGACTCGGAACTGTT
ATCAGCTTTCACTGTCTTAGCAGCTGGAACAGAGACATTTTTGGCAACTACAGGTTTTTTATTCT
GGGCAGGAGCTTCCTGTAATAAACAAAAACTTGATCATTAACAATCATACAAAGAATATTTCCAA
TCATGCTAGTACTATA
Found at i:860160 original size:421 final size:419
Alignment explanation
Indices: 859346--860479 Score: 1119
Period size: 421 Copynumber: 2.7 Consensus size: 419
859336 AATGTAACAG
* * * * **
859346 ATATGTCCAACCATGC-AAATGT-TACGAGCATGAGCATATTACTCACTTCTTCGGAGGATGACC
1 ATATGTCCAAACATGCTAAATCTATA--AGCATGAGCATAATACTCACTTCATCGGAGGATGAAT
* * * *
859409 CTTCCTCACTACTAGACTTGGAA-TCATCATCAGCTTTCACTGTCTTAGCAACTAAAGTAGAGTC
64 CTTCCTCACTACTAGACTCGGAACT-ATTATCAGCTTTCACTGTCTTAGCAACTAAAGCAGAGAC
859473 ATTTTTGGCAACTACAGGTTTTTTATTCTGAGCAGGAGCTTCCTGGAATAAACAAAAACTTGAAC
128 ATTTTTGGCAACTACAGGTTTTTTATTCTGAGCAGGAGCTTCCTGGAATAAACAAAAACTTGAAC
* * * *
859538 ACTAATAATGATACAAAAGAATATTTCCCACCATGCTAATACTATAACCATAGGATAATACTCAC
193 ACTAACAATCATAC-AAAGAATATTTCCAACCATGCTAATACTATAACCATAGCATAATACTCAC
* * *
859603 TTCGTCGGAGGATGAGTCATCCTCACTACTAGAATCAGAACCGCTATCAGCTTTCACTGTCTTAG
257 TTCGTCGGAGGATGAATCATCCTCACTACTAGAATCAGAACCGCTATCAGCTTTAACAGTCTTAG
** * * *
859668 CAGCTGGAACAGAGACACTTTTTGCAACTACAGGTTTTTTATTCTGGGCAGTAGGTTCCTGTAAT
322 CAGCAAGAACAGAGACACTTTTTGCAACTACAGGTTTTTTATTCTGGGCAGGAGCTTCCTGAAAT
* *
859733 AAACAAAAACTTGATCATTAACAATCATAC-AAGA
387 AAACAAAAAATTGA--AGTAACAATCATACAAAGA
* * * * * * *
859767 GTATTTCTAAACATGCT-AGTACTATAAGCATGAGAATAATGCTCACTTCATCAGAGGATGAATC
1 ATATGTCCAAACATGCTAAAT-CTATAAGCATGAGCATAATACTCACTTCATCGGAGGATGAATC
* * *
859831 TTCCTCACTACTAGACTCGGAACTTTTATCAGCTTTCACTGTCTTAGCATCTGGAA-CAGAGACA
65 TTCCTCACTACTAGACTCGGAACTATTATCAGCTTTCACTGTCTTAGCAACT-AAAGCAGAGACA
* * * * *
859895 CTTTTT-GCAACTACTGGTTTTTTATTCTGTGCAGTAGGTTCC-GGTAATAAACAAAAACTTGAT
129 -TTTTTGGCAACTACAGGTTTTTTATTCTGAGCAGGAGCTTCCTGG-AATAAACAAAAACTTGAA
* * * * * * *
859958 CATTAACAATCATAC-AAGAGTATTTCTAATCATGCTAGTACTATAAGCATGAGCATAATGCTCA
192 CACTAACAATCATACAAAGAATATTTCCAACCATGCTAATACTATAACCAT-AGCATAATACTCA
* * * ***
860022 CTTCGTCGGAGGATGAATCTTCCTCACTACTAGACTCGGAACTTTTATCAGCTTTAACAGTCTTA
256 CTTCGTCGGAGGATGAATCATCCTCACTACTAGAATCAGAACCGCTATCAGCTTTAACAGTCTTA
***
860087 GCAGCAAGAACAGAGACA-TTTTTGGCAACTGTGGGTTTTTTATT-TGGAGCAGGAGCTTCCTGA
321 GCAGCAAGAACAGAGACACTTTTT-GCAACTACAGGTTTTTTATTCTGG-GCAGGAGCTTCCTGA
*
860150 AATAAAACAAAAAATTGAAGTAATAATCATACAAAAGA
384 AAT-AAACAAAAAATTGAAGTAACAATCATAC-AAAGA
* * * *
860188 ATATGTCCAATCATGCTAAATTTATAAGCATGAGCAGAATACTCACTTCGTCGGAGGATGAATCT
1 ATATGTCCAAACATGCTAAATCTATAAGCATGAGCATAATACTCACTTCATCGGAGGATGAATCT
* * ***
860253 TTCTCACTACTAGACTCAGAACCGCTATCAGCTTTCACTGTC-T------T--AGC--AGA-ATT
66 TCCTCACTACTAGACTCGGAACTATTATCAGCTTTCACTGTCTTAGCAACTAAAGCAGAGACATT
* * * * *
860306 TTTAGCAACTACAGCTTTTTTGTTCTGAGCTGGAGCTTCCTGGAATTAAGAGGGAAAAA-TTGAA
131 TTTGGCAACTACAGGTTTTTTATTCTGAGCAGGAGCTTCCTGGAA-TAA-A--CAAAAACTTGAA
* * * * * ** * *
860370 CATTAAAATCAATCATACAAAAGAATATGTGCAAACATGATAATGTTACAAGCATGAGCATAATA
192 CACT--AA-CAATCATAC-AAAGAATATTTCCAACCATGCTAATACTATAACCAT-AGCATAATA
* * * * * *
860435 CTTACTTCATCAGAGGATGAATCTTCCTCGCTACTAGACTCAGAA
252 CTCACTTCGTCGGAGGATGAATCATCCTCACTACTAGAATCAGAA
860480 GCACCCGAAC
Statistics
Matches: 590, Mismatches: 97, Indels: 56
0.79 0.13 0.08
Matches are distributed among these distances:
408 5 0.01
409 32 0.05
410 8 0.01
411 2 0.00
412 9 0.02
413 5 0.01
414 3 0.01
415 9 0.02
417 74 0.13
419 49 0.08
420 118 0.20
421 263 0.45
422 11 0.02
423 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (419 bp):
ATATGTCCAAACATGCTAAATCTATAAGCATGAGCATAATACTCACTTCATCGGAGGATGAATCT
TCCTCACTACTAGACTCGGAACTATTATCAGCTTTCACTGTCTTAGCAACTAAAGCAGAGACATT
TTTGGCAACTACAGGTTTTTTATTCTGAGCAGGAGCTTCCTGGAATAAACAAAAACTTGAACACT
AACAATCATACAAAGAATATTTCCAACCATGCTAATACTATAACCATAGCATAATACTCACTTCG
TCGGAGGATGAATCATCCTCACTACTAGAATCAGAACCGCTATCAGCTTTAACAGTCTTAGCAGC
AAGAACAGAGACACTTTTTGCAACTACAGGTTTTTTATTCTGGGCAGGAGCTTCCTGAAATAAAC
AAAAAATTGAAGTAACAATCATACAAAGA
Found at i:861647 original size:21 final size:22
Alignment explanation
Indices: 861599--861661 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
861589 TAAGTAGTGG
*
861599 ATTTATAATAAATGAATT-ATTGTT
1 ATTTATTATAAAT--ATTAATT-TT
*
861623 ATTTATTA-AAATTTTAATTTT
1 ATTTATTATAAATATTAATTTT
861644 ATTTATTATAAATATTAA
1 ATTTATTATAAATATTAA
861662 AGATGTGAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 12 0.35
22 11 0.32
23 4 0.12
24 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (22 bp):
ATTTATTATAAATATTAATTTT
Found at i:864111 original size:20 final size:20
Alignment explanation
Indices: 864088--864164 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 20
864078 AACTTAAATC
864088 AAAATAATTAAAATAAATAT
1 AAAATAATTAAAATAAATAT
*
864108 AAAAT--TT-TAATAATATAT
1 AAAATAATTAAAATAA-ATAT
* * *
864126 AAAATAATTTATAT-GATAT
1 AAAATAATTAAAATAAATAT
864145 AAAATAAATTTAAAA-AAATA
1 AAAAT-AA-TTAAAATAAATA
864165 ATATTAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
17 5 0.12
18 11 0.26
19 9 0.21
20 9 0.21
21 9 0.21
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (20 bp):
AAAATAATTAAAATAAATAT
Found at i:864224 original size:23 final size:26
Alignment explanation
Indices: 864162--864232 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 26
864152 ATTTAAAAAA
864162 ATAATATT-AAAATTAATATCTATAAT
1 ATAATATTAAAAATTAATAT-TATAAT
864188 ATAATATTAAAAATTAATATT-TAAT
1 ATAATATTAAAAATTAATATTATAAT
*
864213 -TTAT-TTAAAAATTAATATTA
1 ATAATATTAAAAATTAATATTA
864233 AAATTAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
23 15 0.36
24 3 0.07
25 4 0.10
26 9 0.21
27 11 0.26
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (26 bp):
ATAATATTAAAAATTAATATTATAAT
Found at i:864236 original size:12 final size:12
Alignment explanation
Indices: 864158--864239 Score: 78
Period size: 12 Copynumber: 6.7 Consensus size: 12
864148 ATAAATTTAA
*
864158 AAAAATAATATT
1 AAAATTAATATT
864170 AAAATTAATATCT
1 AAAATTAATAT-T
*
864183 ATAATATAATATT
1 AAAAT-TAATATT
864196 AAAAATTAATATT
1 -AAAATTAATATT
* *
864209 -TAATTTAT-TT
1 AAAATTAATATT
864219 AAAAATTAATATT
1 -AAAATTAATATT
864232 AAAATTAA
1 AAAATTAA
864240 AATCAAATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
10 2 0.04
11 6 0.11
12 24 0.42
13 15 0.26
14 10 0.18
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAATTAATATT
Found at i:864661 original size:29 final size:29
Alignment explanation
Indices: 864619--864675 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
864609 AAATAAACAC
864619 TTTTAAAATATATTATATTATGGCATACG
1 TTTTAAAATATATTATATTATGGCATACG
864648 TTTTAAAATATATTATATTATGGCATAC
1 TTTTAAAATATATTATATTATGGCATAC
864676 TTATTATACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (29 bp):
TTTTAAAATATATTATATTATGGCATACG
Found at i:868643 original size:21 final size:21
Alignment explanation
Indices: 868619--868668 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
868609 GACTGATCCG
868619 TATAGTAGTGTATTTAATCAA
1 TATAGTAGTGTATTTAATCAA
868640 TATAGTAGTGTATTTAATCAA
1 TATAGTAGTGTATTTAATCAA
*
868661 TGTAGTAG
1 TATAGTAG
868669 CCTTTCTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.42
Consensus pattern (21 bp):
TATAGTAGTGTATTTAATCAA
Found at i:869376 original size:17 final size:17
Alignment explanation
Indices: 869354--869388 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
869344 TGTATTCGAC
*
869354 ACTCGTATGCTACATAT
1 ACTCGTATCCTACATAT
869371 ACTCGTATCCTACATAT
1 ACTCGTATCCTACATAT
869388 A
1 A
869389 TGTATGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (17 bp):
ACTCGTATCCTACATAT
Found at i:869649 original size:23 final size:23
Alignment explanation
Indices: 869622--869839 Score: 215
Period size: 23 Copynumber: 9.5 Consensus size: 23
869612 TGAATCATTC
*
869622 TTCTTCTTCTTCCATAAACACAT
1 TTCTTCTTCTTCCATAAACTCAT
* * *
869645 TTCTTATTCTTTCATAAGCTCAT
1 TTCTTCTTCTTCCATAAACTCAT
* * *
869668 TTTTTATTCTTCCATAAACCCAT
1 TTCTTCTTCTTCCATAAACTCAT
* *
869691 TGCTTCTTCTT-CATAAACCCAT
1 TTCTTCTTCTTCCATAAACTCAT
* *
869713 TTCTTCTTATTCCATAAACTCGT
1 TTCTTCTTCTTCCATAAACTCAT
* * *
869736 TCCTTCTTCTTCCATAATCCCAT
1 TTCTTCTTCTTCCATAAACTCAT
* * *
869759 TTATTATTCTTCCATAATCTCAT
1 TTCTTCTTCTTCCATAAACTCAT
* *
869782 TTATTCTTCTTCCATAATCTCAT
1 TTCTTCTTCTTCCATAAACTCAT
* * *
869805 TTATTCTTCTTTCATAAAGTCAT
1 TTCTTCTTCTTCCATAAACTCAT
869828 TTC-TCATTCTTC
1 TTCTTC-TTCTTC
869840 AATTCGTCTG
Statistics
Matches: 163, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
22 22 0.13
23 141 0.87
ACGTcount: A:0.22, C:0.27, G:0.02, T:0.49
Consensus pattern (23 bp):
TTCTTCTTCTTCCATAAACTCAT
Found at i:869760 original size:114 final size:115
Alignment explanation
Indices: 869624--869831 Score: 292
Period size: 114 Copynumber: 1.8 Consensus size: 115
869614 AATCATTCTT
* * *
869624 CTTCTTCTTCCATAAACACATTTCTTATTCTTTCATAAGCTCATTTTTTATTCTTCCATAAACCC
1 CTTCTTCTTCCATAAACACATTTATTATTCTTCCATAAGCTCATTTATTATTCTTCCATAAACCC
*
869689 ATTGCTTCTTC-TTCATAAACCCATTTCTTCTTATTCCATAAACTCGTTC
66 ATTGATTCTTCTTTCATAAACCCATTTCTTCTTATTCCATAAACTCGTTC
* * * * * *
869738 CTTCTTCTTCCATAATCCCATTTATTATTCTTCCATAATCTCATTTATTCTTCTTCCATAATCTC
1 CTTCTTCTTCCATAAACACATTTATTATTCTTCCATAAGCTCATTTATTATTCTTCCATAAACCC
* **
869803 ATTTATTCTTCTTTCATAAAGTCATTTCT
66 ATTGATTCTTCTTTCATAAACCCATTTCT
869832 CATTCTTCAA
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
114 65 0.81
115 15 0.19
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (115 bp):
CTTCTTCTTCCATAAACACATTTATTATTCTTCCATAAGCTCATTTATTATTCTTCCATAAACCC
ATTGATTCTTCTTTCATAAACCCATTTCTTCTTATTCCATAAACTCGTTC
Found at i:869886 original size:48 final size:47
Alignment explanation
Indices: 869826--869918 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 47
869816 TCATAAAGTC
* *
869826 ATTTCTCATTCTTCAATTCGTCTGAGAAAAAAAGTTGTGAGAAAAATG
1 ATTTCTCATTCTTCAATTCGTATGAGAAAAAAA-TAGTGAGAAAAATG
* * *
869874 ATTTCTTC-TTCTTCCATTTGTATGAGAGAAAAATAGTGAGAAAAA
1 ATTTC-TCATTCTTCAATTCGTATGAGAAAAAAATAGTGAGAAAAA
869919 CAAGCAAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
47 11 0.28
48 26 0.67
49 2 0.05
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (47 bp):
ATTTCTCATTCTTCAATTCGTATGAGAAAAAAATAGTGAGAAAAATG
Found at i:872294 original size:16 final size:16
Alignment explanation
Indices: 872273--872312 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
872263 TAAACTTTTT
872273 GTCAAAGTCAACTCTA
1 GTCAAAGTCAACTCTA
*
872289 GTCAAAGTCAACTCTT
1 GTCAAAGTCAACTCTA
872305 GTCAAAGT
1 GTCAAAGT
872313 TAATGGCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.28
Consensus pattern (16 bp):
GTCAAAGTCAACTCTA
Found at i:873300 original size:7 final size:7
Alignment explanation
Indices: 873271--873387 Score: 72
Period size: 7 Copynumber: 16.7 Consensus size: 7
873261 GTTAGATTAC
873271 ACCCTAA
1 ACCCTAA
*
873278 ATCCTAA
1 ACCCTAA
*
873285 AACCTAA
1 ACCCTAA
873292 ACCCTAA
1 ACCCTAA
**
873299 ACTATAA
1 ACCCTAA
*
873306 ACCTTAA
1 ACCCTAA
***
873313 ATTATAA
1 ACCCTAA
*
873320 ACCTTAA
1 ACCCTAA
** *
873327 TTCATAA
1 ACCCTAA
*
873334 ACCATAA
1 ACCCTAA
*
873341 ACCATAA
1 ACCCTAA
873348 ACCCTAA
1 ACCCTAA
873355 ACCCTAA
1 ACCCTAA
**
873362 ACTATAA
1 ACCCTAA
**
873369 GTCCTAA
1 ACCCTAA
873376 ACCCTAA
1 ACCCTAA
873383 ACCCT
1 ACCCT
873388 TAATCTAATT
Statistics
Matches: 83, Mismatches: 27, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 83 1.00
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (7 bp):
ACCCTAA
Found at i:873320 original size:28 final size:29
Alignment explanation
Indices: 873284--873384 Score: 86
Period size: 28 Copynumber: 3.6 Consensus size: 29
873274 CTAAATCCTA
*
873284 AAACC-TAAACCCTAAACT-ATAAACCTT
1 AAACCATAAACCCTAAACTCATAAACCAT
** * *
873311 AAATTATAAA-CCTTAATTCATAAACCAT
1 AAACCATAAACCCTAAACTCATAAACCAT
* *
873339 AAACCATAAACCCTAAAC-CCTAAACTAT
1 AAACCATAAACCCTAAACTCATAAACCAT
*
873367 AAGTCC-TAAACCCTAAAC
1 AA-ACCATAAACCCTAAAC
873385 CCTTAATCTA
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
27 9 0.16
28 42 0.72
29 7 0.12
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.23
Consensus pattern (29 bp):
AAACCATAAACCCTAAACTCATAAACCAT
Found at i:874764 original size:12 final size:11
Alignment explanation
Indices: 874738--874799 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
874728 ATAAAACCCG
*
874738 TCGAGCTTGAA
1 TCGAGCTTAAA
874749 TCGAGCTTAAAA
1 TCGAGCTT-AAA
*
874761 TCGAGCTTGAA
1 TCGAGCTTAAA
* *
874772 TTGAGTTTAAAA
1 TCGAGCTT-AAA
* *
874784 TTGAGCTTCAA
1 TCGAGCTTAAA
874795 TCGAG
1 TCGAG
874800 TTCGAGTCTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
11 22 0.54
12 19 0.46
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31
Consensus pattern (11 bp):
TCGAGCTTAAA
Found at i:874800 original size:23 final size:23
Alignment explanation
Indices: 874738--874801 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
874728 ATAAAACCCG
*
874738 TCGAGCTTGAATCGAGCTTAAAA
1 TCGAGCTTGAATCGAGTTTAAAA
*
874761 TCGAGCTTGAATTGAGTTTAAAA
1 TCGAGCTTGAATCGAGTTTAAAA
* *
874784 TTGAGCTTCAATCGAGTT
1 TCGAGCTTGAATCGAGTT
874802 CGAGTCTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (23 bp):
TCGAGCTTGAATCGAGTTTAAAA
Found at i:877460 original size:23 final size:25
Alignment explanation
Indices: 877415--877469 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
877405 CAATATTAAC
*
877415 AAAAAAA-AGTAAATATTTGATTC-T
1 AAAAAAATA-TAAATATTTAATTCAT
*
877439 ACAAAAATATAAATA-TTAATTCAT
1 AAAAAAATATAAATATTTAATTCAT
877463 AAAAAAA
1 AAAAAAA
877470 ACATTGGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 6 0.23
24 19 0.73
25 1 0.04
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAAAAATATAAATATTTAATTCAT
Found at i:877468 original size:24 final size:24
Alignment explanation
Indices: 877415--877470 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
877405 CAATATTAAC
*
877415 AAAAAAAAGTAAATATTTGATTCT
1 AAAAAAAAGTAAATATTTAATTCT
*
877439 ACAAAAATA-TAAATA-TTAATTCAT
1 A-AAAAAAAGTAAATATTTAATTC-T
877463 AAAAAAAA
1 AAAAAAAA
877471 CATTGGGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 12 0.44
24 9 0.33
25 6 0.22
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (24 bp):
AAAAAAAAGTAAATATTTAATTCT
Found at i:881415 original size:19 final size:20
Alignment explanation
Indices: 881391--881469 Score: 85
Period size: 19 Copynumber: 4.0 Consensus size: 20
881381 GAAAAAATTA
881391 TAATATTTTTA-ATAATATT
1 TAATATTTTTATATAATATT
*
881410 TAATATTTTTATAAAATATT
1 TAATATTTTTATATAATATT
*
881430 T-TTATTTTTATAT-AT-TT
1 TAATATTTTTATATAATATT
*
881447 AAATAATTTTTATATAAATATT
1 TAAT-ATTTTTATAT-AATATT
881469 T
1 T
881470 TATTACTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
17 2 0.04
18 3 0.06
19 31 0.65
20 8 0.17
21 2 0.04
22 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAATATTTTTATATAATATT
Found at i:881436 original size:38 final size:39
Alignment explanation
Indices: 881394--881470 Score: 115
Period size: 38 Copynumber: 2.0 Consensus size: 39
881384 AAAATTATAA
881394 TATTTTTAATAATATTT-AAT-ATTTTTATA-AAATATTTT
1 TATTTTT-AT-ATATTTAAATAATTTTTATATAAATATTTT
881432 TATTTTTATATATTTAAATAATTTTTATATAAATATTTT
1 TATTTTTATATATTTAAATAATTTTTATATAAATATTTT
881471 ATTACTTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
36 6 0.17
37 5 0.14
38 16 0.44
39 9 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (39 bp):
TATTTTTATATATTTAAATAATTTTTATATAAATATTTT
Found at i:887065 original size:4 final size:4
Alignment explanation
Indices: 887056--887082 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
887046 ACACCTTATT
887056 GAAA GAAA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAA
887083 TAAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:890401 original size:43 final size:43
Alignment explanation
Indices: 890340--890466 Score: 202
Period size: 43 Copynumber: 3.0 Consensus size: 43
890330 ATATTGTTAA
*
890340 AGATAATGCTTAATTTTAAATTAAAAAATCATGAAAATTAATT
1 AGATAGTGCTTAATTTTAAATTAAAAAATCATGAAAATTAATT
* * *
890383 AGATAGTTCTTAATTTTAAATTAAAACATCATGAAAACTAATT
1 AGATAGTGCTTAATTTTAAATTAAAAAATCATGAAAATTAATT
*
890426 AGATAGTGCTTAATTTTAAATT-AAAAATCATGAAATTTAAT
1 AGATAGTGCTTAATTTTAAATTAAAAAATCATGAAAATTAAT
890467 AAAATTATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
42 16 0.21
43 60 0.79
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (43 bp):
AGATAGTGCTTAATTTTAAATTAAAAAATCATGAAAATTAATT
Found at i:898700 original size:23 final size:23
Alignment explanation
Indices: 898665--898712 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
898655 ATCAAGTACA
*
898665 ATAATATATTAGGTAACGCTTAT
1 ATAATATAATAGGTAACGCTTAT
* *
898688 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAACGCTTAT
898711 AT
1 AT
898713 TAACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAACGCTTAT
Found at i:899582 original size:180 final size:183
Alignment explanation
Indices: 899377--899803 Score: 622
Period size: 182 Copynumber: 2.4 Consensus size: 183
899367 TTGAAACAAA
*
899377 TTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACAT-T
1 TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACATCT
* *
899441 TTATTGGCGCTATAACTT-TT-T-TTTTAAAATTCTAAAAGTGTCGATACTTATAATAAAGTATC
66 TTATTAGCGCTATAACTTATTCTCTTTT-AAATTCTAAAAGTATCGATACTTATAATAAAGTATC
* *
899503 GACACTTTCAACATATCAGATAGC-TCTTTACCTGTTTTGTCATTT-CGAGACCGG
130 AACACTATCAACATATCAGATAGCGT-TTTACCTGTTTTGTCATTTACGA-ACCGG
* **
899557 TTTTGTTATATTTTTACATGTTATATTGTTATGGATTAATACATTTTTATAAAGTATC-AGC-TC
1 TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA-CATC
*
899620 TTTATTAGCGCTATAACTTATTCTCTTTTAAATTCTAAAAGTATCGATACTTATAATAAAGTATT
65 TTTATTAGCGCTATAACTTATTCTCTTTTAAATTCTAAAAGTATCGATACTTATAATAAAGTATC
* * * *
899685 AACACTATCAACATATCCGGTAGCGTTTTACCTGTTTTGTCATTTATGAACTGG
130 AACACTATCAACATATCAGATAGCGTTTTACCTGTTTTGTCATTTACGAACCGG
*
899739 TTTTGTCAT-TTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACA-CT
1 TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACATCT
899802 TT
66 TT
899804 CAATATATCT
Statistics
Matches: 221, Mismatches: 17, Indels: 17
0.87 0.07 0.07
Matches are distributed among these distances:
179 2 0.01
180 73 0.33
181 52 0.24
182 87 0.39
183 7 0.03
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (183 bp):
TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACATCT
TTATTAGCGCTATAACTTATTCTCTTTTAAATTCTAAAAGTATCGATACTTATAATAAAGTATCA
ACACTATCAACATATCAGATAGCGTTTTACCTGTTTTGTCATTTACGAACCGG
Found at i:899871 original size:20 final size:20
Alignment explanation
Indices: 899822--899871 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
899812 CTGGTAGCGC
899822 TTTACTTGTTTTGTCATTTA
1 TTTACTTGTTTTGTCATTTA
** *
899842 TAGACTTGTTTTGTCATTTT
1 TTTACTTGTTTTGTCATTTA
*
899862 TTTACCTGTT
1 TTTACTTGTT
899872 ATATTGTTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.62
Consensus pattern (20 bp):
TTTACTTGTTTTGTCATTTA
Found at i:899912 original size:112 final size:112
Alignment explanation
Indices: 899662--900359 Score: 1071
Period size: 112 Copynumber: 6.3 Consensus size: 112
899652 TTCTAAAAGT
* * ** * * *
899662 ATCGATAC-TTATAATAAAGTATTAACACTATCAACATATCCGGTAGCGTTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
*
899726 ATTTAT-GAACTGGTTTTGTCA-TTTTTTACCTGTTATATTGTTATGG
66 ATTTATAG-ACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
* *
899772 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACTTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
** *
899837 ATTTATAGACTTGTTTTGTCATTTTTTTACCTGTTATATTGTTATAG
66 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
** *
899884 ATTAATACATTTTTATAAAGTATCGACACTTTCAATATATCCTGTAGCGCTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
*
899949 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTATTATGG
66 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
899996 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
* *
900061 ATTTATAGACCGATTTTGTCATTTTTTTACCTGTTATATTATTATGG
66 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
* * * *
900108 ATCGATACATTTTTATAAAGTATCAACACTTTTAATATATCCGGTAACACTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
* *
900173 ATTTATAAACCAGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
66 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
** *
900220 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATATGGTAGCACTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
900285 ATTTATAGACCGGTTTTGTCA-TTTTTTACCTGTTATATTGTTATGG
66 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
* * * *
900331 ATCAATATAATTTTATAAAGTATCTACAC
1 ATCGATACATTTTTATAAAGTATCGACAC
900360 AAACCGACAA
Statistics
Matches: 542, Mismatches: 43, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
110 8 0.01
111 115 0.21
112 419 0.77
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (112 bp):
ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
Found at i:903256 original size:3 final size:3
Alignment explanation
Indices: 903241--903277 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
903231 AAAATAAAAA
*
903241 AAT ATT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
903278 CAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:904417 original size:20 final size:20
Alignment explanation
Indices: 904375--904418 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
904365 AAAAATATTA
*
904375 ATAATAATAATAAATAAATT
1 ATAATAATAATAAATAAAAT
904395 ATAATAATAA-AAATAAAAAT
1 ATAATAATAATAAAT-AAAAT
904415 ATAA
1 ATAA
904419 AACCCGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAATAATAATAAATAAAAT
Found at i:904775 original size:84 final size:83
Alignment explanation
Indices: 904641--905244 Score: 598
Period size: 84 Copynumber: 7.2 Consensus size: 83
904631 CTGAATGAAA
*
904641 TCGAACTCGTCAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TCGAACTCG-AAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
904706 TGCCTCAGAGCTGAGCGTAG
65 TGCCTC-GAGCTGAGCGTAG
* * * * * * *
904726 TCAAACTCGAAGGTCTTTGGTTGGAAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* *
904791 ACCTTGGAGCTGAGCGTAG
66 GCC-TCGAGCTGAGCGTAG
* * * * *
904810 TCGAACTCAAAGGTCTTTGGTTGGCATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGACGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* *
904875 GCCCTCGAAGCTGAGTGTAA
66 G-CCTCG-AGCTGAGCGTAG
* *
904895 TCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* *
904956 GCCTTAGAGCTGAGAGTAG
66 GCC-TCGAGCTGAGCGTAG
* * * * * * ** *
904975 TCGAACTCAAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGCTATATTGTAAATGATG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* *
905039 TGCCCTCGAAGCTGAGTGTAA
65 TG-CCTCG-AGCTGAGCGTAG
**
905060 TCGAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
*
905121 GCCTTGGAGCTGAGCGTAG
66 GCC-TCGAGCTGAGCGTAG
* * * * * * * *
905140 TCAAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* *
905204 TGCCCTCGAAGCTGAGTGTAA
65 TG-CCTCG-AGCTGAGCGTAG
**
905225 TCGAACTCGGGGGTCTTTGG
1 TCGAACTCGAAGGTCTTTGG
905245 CAGATAGCCT
Statistics
Matches: 422, Mismatches: 77, Indels: 41
0.78 0.14 0.08
Matches are distributed among these distances:
80 49 0.12
81 82 0.19
82 1 0.00
83 3 0.01
84 205 0.49
85 82 0.19
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (83 bp):
TCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
GCCTCGAGCTGAGCGTAG
Found at i:904985 original size:165 final size:165
Alignment explanation
Indices: 904652--905260 Score: 805
Period size: 165 Copynumber: 3.7 Consensus size: 165
904642 CGAACTCGTC
* * *
904652 AGGTC-TTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTC-AG
1 AGGTCTTTTGG-TGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCCTCGA-
* * * * * * * * * *
904714 AGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGAAAATAGCCCTTCTTGCCTTGAGCTATGT
64 AGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
*
904779 TGCAAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCAA
125 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAA
* * * * *
904820 AGGTC-TTTGGTTGGCATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGACGTGCCCTCGAA
1 AGGTCTTTTGG-TGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAA
*
904884 GCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAA
65 GCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAA
* *
904949 ATGATGTGCCTTAGAGCTGAGAGTAGTCGAACTCAA
130 ATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAA
* * ** *
904985 AGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGCTATATTGTAAATGATGTGCCCTCGAAG
1 AGGTCTTTTGGTGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAG
*
905050 CTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
66 CTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
* *
905115 TGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGA
131 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAA
* * * *
905150 AGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAG
1 AGGTCTTTTGGTGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAG
*
905215 CTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAG-CCTTCTCGA
66 CTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGA
905261 GTTTGATATC
Statistics
Matches: 401, Mismatches: 37, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
164 9 0.02
165 306 0.76
166 5 0.01
167 1 0.00
168 52 0.13
169 27 0.07
170 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (165 bp):
AGGTCTTTTGGTGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAG
CTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAA
Found at i:905177 original size:249 final size:249
Alignment explanation
Indices: 904652--905232 Score: 681
Period size: 249 Copynumber: 2.3 Consensus size: 249
904642 CGAACTCGTC
*
904652 AGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCAGAGC
1 AGGTCTTTGG-T-GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGC
* * * * * *
904717 TGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGAAAATAGCCCTTCTTGCCTTGAGCTATGTTGC
64 TGAGAGTAGTCGAACTCAAAGGTCTTTGGTTGGAAAATAACCCTTCTAGCCTTGAGCTATATTGC
* * * *
904782 AAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCATATAACCCTTC
129 AAATGATGTACCTCGAAGCTGAGCGTAATCGAACTCAAAGGTC-TT-GTTGGCAGATAACCCTTC
* * *
904847 TCGACTTAAGTTATGCTGCAAATGACGTGCCCTCGAAGCTGAGTGTAATCGAACTCGA
192 TCGACTTAAGCTATGCTGCAAATGACGTGCCCTCGAAGCTGAGCGTAATCAAACTCGA
* *
904905 GGGTCTTT-G-GCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGCTG
1 AGGTCTTTGGTGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTG
* *
904968 AGAGTAGTCGAACTCAAAGGTCTTTTGG-T-GACAGATAACCCTTCTAGCCTTGAGCTATATTGT
66 AGAGTAGTCGAACTCAAAGGTC-TTTGGTTGGA-AAATAACCCTTCTAGCCTTGAGCTATATTGC
* * *** *
905031 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-T-TTGGCAGATAGCCCTTCT
129 AAATGATGT-ACCTCGAAGCTGAGCGTAATCGAACTCAAAGGTCTTGTTGGCAGATAACCCTTCT
* * * *
905094 CGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCAAACTCGA
193 CGACTTAAGCTATGCTGCAAATGACGTGCCCTCGAAGCTGAGCGTAATCAAACTCGA
* * * * * * * *
905150 AGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAG
1 AGGTC-TTTGGTG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAG-AG
* *
905215 CTGAGTGTAATCGAACTC
63 CTGAGAGTAGTCGAACTC
905233 GGGGGTCTTT
Statistics
Matches: 280, Mismatches: 40, Indels: 19
0.83 0.12 0.06
Matches are distributed among these distances:
245 27 0.10
246 45 0.16
247 1 0.00
248 4 0.01
249 146 0.52
250 49 0.17
252 1 0.00
253 7 0.03
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (249 bp):
AGGTCTTTGGTGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTG
AGAGTAGTCGAACTCAAAGGTCTTTGGTTGGAAAATAACCCTTCTAGCCTTGAGCTATATTGCAA
ATGATGTACCTCGAAGCTGAGCGTAATCGAACTCAAAGGTCTTGTTGGCAGATAACCCTTCTCGA
CTTAAGCTATGCTGCAAATGACGTGCCCTCGAAGCTGAGCGTAATCAAACTCGA
Found at i:905529 original size:106 final size:106
Alignment explanation
Indices: 905332--906393 Score: 1689
Period size: 106 Copynumber: 10.0 Consensus size: 106
905322 TCCTCCGTCA
* *
905332 TGAAGTTGA-AAGTTGTTTATTGACAACCATCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * ** *
905396 CTTGAGTCCAATATTCTTCACTGTGAAGTTGAAATTGACTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
905437 TGAAATTGTGAAATTGTTTATTGACAACTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
905502 CTGGAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
905543 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
905608 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * * *
905649 TGAAATTGAGAAGTTGTTTGTTGATAACCAGCAGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
905714 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * * * *
905755 TGATATTGGGAAATTG-TTATTGACAACCAGCGGTCCTTTCGTCGTAAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
905819 CTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
905860 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
905925 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
905966 TGAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
906031 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
906072 TGAAATTGAGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAATTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
906137 CTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
906178 TGAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTAT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
906243 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * * *
906284 TAGAAGTGGA-AAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 T-GAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* * * * * *
906348 TCTGGAGTCCAATTTTCTTCGCTGCGAAGTTGAAATAGACTC
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
906390 TGAA
1 TGAA
906394 TGAAATTGGA
Statistics
Matches: 891, Mismatches: 63, Indels: 6
0.93 0.07 0.01
Matches are distributed among these distances:
105 104 0.12
106 781 0.88
107 6 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:911368 original size:23 final size:23
Alignment explanation
Indices: 911338--911394 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
911328 GACATGCAAA
911338 AAAAATAAAAAAA-TATTAATAAT
1 AAAAATAAAAAAATTA-TAATAAT
* *
911361 AATAATAAATAAATTATAATAAT
1 AAAAATAAAAAAATTATAATAAT
911384 AAAAATAAAAA
1 AAAAATAAAAA
911395 TATAAAACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 27 0.93
24 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (23 bp):
AAAAATAAAAAAATTATAATAAT
Found at i:911398 original size:20 final size:20
Alignment explanation
Indices: 911356--911399 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
911346 AAAAATATTA
*
911356 ATAATAATAATAAATAAATT
1 ATAATAATAATAAATAAAAT
911376 ATAATAATAA-AAATAAAAAT
1 ATAATAATAATAAAT-AAAAT
911396 ATAA
1 ATAA
911400 AACCCGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAATAATAATAAATAAAAT
Found at i:912521 original size:17 final size:17
Alignment explanation
Indices: 912493--912532 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
912483 CGAAAATTTT
912493 AAATATTATTAAATATAA
1 AAATATTATTAAA-ATAA
912511 AAATATT-TTAAAATAA
1 AAATATTATTAAAATAA
912527 ATAATA
1 A-AATA
912533 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 9 0.43
18 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATTATTAAAATAA
Found at i:922007 original size:24 final size:24
Alignment explanation
Indices: 921979--922026 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
921969 TCATGAACTC
* *
921979 TAAATAAATATGTTGACGAATATA
1 TAAATAAACAGGTTGACGAATATA
*
922003 TAAATAAGCAGGTTGACGAATATA
1 TAAATAAACAGGTTGACGAATATA
922027 CACACGAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (24 bp):
TAAATAAACAGGTTGACGAATATA
Found at i:928047 original size:35 final size:35
Alignment explanation
Indices: 927969--928048 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
927959 TTTTAAATGC
*
927969 AACAAACTTACAATAAGTATTAAATGGTAAATGAT
1 AACAAAATTACAATAAGTATTAAATGGTAAATGAT
*
928004 AACCAAATTACAATAACTGATATTAAATGGT-AAT-A-
1 AACAAAATTACAATAA--G-TATTAAATGGTAAATGAT
928039 AACAAAATTA
1 AACAAAATTA
928049 ACTGAAATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
35 23 0.59
36 1 0.03
37 4 0.10
38 11 0.28
ACGTcount: A:0.54, C:0.10, G:0.09, T:0.28
Consensus pattern (35 bp):
AACAAAATTACAATAAGTATTAAATGGTAAATGAT
Found at i:929843 original size:48 final size:45
Alignment explanation
Indices: 929781--929901 Score: 134
Period size: 48 Copynumber: 2.6 Consensus size: 45
929771 TTATTACCTT
*
929781 TTATCCCATAAGCTCATAAGCTTATTTTTACCAAAATACTTACCA
1 TTATTCCATAAGCTCATAAGCTTATTTTTACCAAAATACTTACCA
* ** * *
929826 TTTAAATTCCATAAGCTCGTAAGCTTATTTTTTTTCAATATACTTGCCA
1 -TT--ATTCCATAAGCTCATAAGCTTA-TTTTTACCAAAATACTTACCA
* *
929875 TTATTTCGTAAGCTCATAAGCTTATTT
1 TTATTCCATAAGCTCATAAGCTTATTT
929902 GCATGGTTAC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 3 0.05
46 21 0.33
48 22 0.35
49 17 0.27
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (45 bp):
TTATTCCATAAGCTCATAAGCTTATTTTTACCAAAATACTTACCA
Found at i:929899 original size:46 final size:48
Alignment explanation
Indices: 929786--929901 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 48
929776 ACCTTTTATC
929786 CCATAAGCTCATAAGCTTA-TTTTTACCAAAATACTTACCATTTAAATT
1 CCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCATTT-AATT
* ** * *
929834 CCATAAGCTCGTAAGCTTATTTTTTTTCAATATACTTGCCA-TT-ATT
1 CCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCATTTAATT
* *
929880 TCGTAAGCTCATAAGCTTATTT
1 CCATAAGCTCATAAGCTTATTT
929902 GCATGGTTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 22 0.37
48 20 0.34
49 17 0.29
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (48 bp):
CCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCATTTAATT
Found at i:937088 original size:15 final size:15
Alignment explanation
Indices: 937055--937095 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
937045 TAATGGAAGT
* *
937055 AATCCCTGCA-AATA
1 AATCTCTGCATAAAA
937069 AATCTCTGCATAAAA
1 AATCTCTGCATAAAA
937084 AATCTCTGCATA
1 AATCTCTGCATA
937096 TAGACAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.27
Consensus pattern (15 bp):
AATCTCTGCATAAAA
Found at i:938925 original size:23 final size:23
Alignment explanation
Indices: 938899--938955 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
938889 AAATTTGAAT
938899 TTTTTA-ATAATAATTATTTTAAG
1 TTTTTATA-AATAATTATTTTAAG
* * *
938922 TTTTTTTAAATAATTTTTTTAAA
1 TTTTTATAAATAATTATTTTAAG
*
938945 ATTTTATAAAT
1 TTTTTATAAAT
938956 GCCCCACGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTTATAAATAATTATTTTAAG
Found at i:941209 original size:25 final size:26
Alignment explanation
Indices: 941158--941215 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
941148 TGTTTTTTTA
*
941158 AAATTAAAATATATTAAATTATAAGAT
1 AAATAAAAATATATTAAA-TATAAGAT
* *
941185 AGATAAAAATATATTAAA-ATCAGAT
1 AAATAAAAATATATTAAATATAAGAT
941210 AAATAA
1 AAATAA
941216 TCATACCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 11 0.41
27 16 0.59
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (26 bp):
AAATAAAAATATATTAAATATAAGAT
Found at i:941254 original size:20 final size:20
Alignment explanation
Indices: 941229--941281 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
941219 TACCAATTTT
941229 TTTTTTTGTAATTTTTT-GGA
1 TTTTTTTGT-ATTTTTTCGGA
*
941249 TTTTTTTGTATTTTTTCTGA
1 TTTTTTTGTATTTTTTCGGA
*
941269 TTTTTTTATATTT
1 TTTTTTTGTATTT
941282 GTAAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.75
Consensus pattern (20 bp):
TTTTTTTGTATTTTTTCGGA
Found at i:941281 original size:10 final size:10
Alignment explanation
Indices: 941229--941281 Score: 63
Period size: 10 Copynumber: 5.3 Consensus size: 10
941219 TACCAATTTT
941229 TTTTTTTGTA
1 TTTTTTTGTA
* *
941239 ATTTTTTGGA
1 TTTTTTTGTA
941249 TTTTTTTGTA
1 TTTTTTTGTA
941259 TTTTTTCTG-A
1 TTTTTT-TGTA
*
941269 TTTTTTTATA
1 TTTTTTTGTA
941279 TTT
1 TTT
941282 GTAAAATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 1 0.03
10 33 0.92
11 2 0.06
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.75
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:941311 original size:16 final size:16
Alignment explanation
Indices: 941286--941319 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
941276 ATATTTGTAA
941286 AATTAATATTAT-AAT
1 AATTAATATTATGAAT
941301 AATTAAATATTATGAAT
1 AATT-AATATTATGAAT
941318 AA
1 AA
941320 AGTAGAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 8 0.47
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AATTAATATTATGAAT
Found at i:946949 original size:4 final size:4
Alignment explanation
Indices: 946931--946964 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
946921 GTATTGTTGT
946931 AATA AATA ACTATA AATA AATA AATA AATA AATA
1 AATA AATA A--ATA AATA AATA AATA AATA AATA
946965 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 24 0.86
6 4 0.14
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:950155 original size:18 final size:18
Alignment explanation
Indices: 950110--950164 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
950100 GAACTTTGTA
*
950110 TATATAATTAAATAAAAT
1 TATATATTTAAATAAAAT
* * * *
950128 TATTTTTTTATATAATAT
1 TATATATTTAAATAAAAT
*
950146 TATATATTTAATTAAAAT
1 TATATATTTAAATAAAAT
950164 T
1 T
950165 CATCTGTAAT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATATTTAAATAAAAT
Found at i:951386 original size:10 final size:9
Alignment explanation
Indices: 951351--951449 Score: 72
Period size: 10 Copynumber: 10.3 Consensus size: 9
951341 GCTGCTGGAA
*
951351 ACCGGTTTA
1 ACCGGTTTG
*
951360 ACCGGTTTTCA
1 ACCGG-TTT-G
951371 ACCGGTTCTG
1 ACCGGTT-TG
951381 ACCGGTTTG
1 ACCGGTTTG
*
951390 ACCGGTTTCA
1 ACCGGTTT-G
*
951400 ACCGGTTCG
1 ACCGGTTTG
*
951409 AACCGATTTG
1 -ACCGGTTTG
*
951419 ACCGGTCTG
1 ACCGGTTTG
*
951428 AATCGGTTTG
1 -ACCGGTTTG
*
951438 ACCGGTCTG
1 ACCGGTTTG
951447 ACC
1 ACC
951450 CGACCCGACC
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
9 32 0.44
10 33 0.46
11 7 0.10
ACGTcount: A:0.17, C:0.27, G:0.26, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:951395 original size:19 final size:19
Alignment explanation
Indices: 951352--951449 Score: 69
Period size: 19 Copynumber: 5.1 Consensus size: 19
951342 CTGCTGGAAA
* * *
951352 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
951372 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
951391 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
*
951411 CCGATTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
*
951430 TCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
951448 CC
1 CC
951450 CGACCCGACC
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
18 5 0.08
19 38 0.58
20 14 0.22
21 8 0.12
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:951413 original size:29 final size:30
Alignment explanation
Indices: 951350--951449 Score: 109
Period size: 29 Copynumber: 3.4 Consensus size: 30
951340 GGCTGCTGGA
*
951350 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
951381 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * * *
951409 AACCGATTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
951438 -ACCGGTCTGACC
1 AACCGGTTTGACC
951450 CGACCCGACC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
28 11 0.18
29 36 0.60
30 13 0.22
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:951467 original size:17 final size:17
Alignment explanation
Indices: 951445--951483 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
951435 TTGACCGGTC
951445 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
951462 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
951479 TGACC
1 TGACC
951484 GTTGACCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:958672 original size:20 final size:21
Alignment explanation
Indices: 958647--958705 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
958637 GGCTGCTGGA
958647 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
958667 AACCGGTTCTGACCGG-TTTC
1 AACCGGTTCTAACCGGTTTTC
*
958687 AACCGGTTCGAACCGGTTT
1 AACCGGTTCTAACCGGTTT
958706 GACCGGTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 26 0.76
21 8 0.24
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:958683 original size:10 final size:10
Alignment explanation
Indices: 958668--958737 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
958658 CCGGTTTTCA
958668 ACCGGTTCTG
1 ACCGGTTCTG
*
958678 ACCGGTT-TCA
1 ACCGGTTCT-G
958688 ACCGGTTC-G
1 ACCGGTTCTG
958697 AACCGGTT-TG
1 -ACCGGTTCTG
958707 ACCGG-TCTG
1 ACCGGTTCTG
*
958716 AATCGGTT-TG
1 -ACCGGTTCTG
958726 ACCGG-TCTG
1 ACCGGTTCTG
958735 ACC
1 ACC
958738 CGACCCGACC
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
8 2 0.04
9 17 0.35
10 28 0.58
11 1 0.02
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.27
Consensus pattern (10 bp):
ACCGGTTCTG
Found at i:958684 original size:30 final size:29
Alignment explanation
Indices: 958648--958712 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
958638 GCTGCTGGAA
958648 ACCGGTTT-AACCGGTTTTC-AACCGGTTCTG
1 ACCGGTTTCAACCGG--TTCGAACCGGTT-TG
958678 ACCGGTTTCAACCGGTTCGAACCGGTTTG
1 ACCGGTTTCAACCGGTTCGAACCGGTTTG
958707 ACCGGT
1 ACCGGT
958713 CTGAATCGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 11 0.33
30 16 0.48
31 6 0.18
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.29
Consensus pattern (29 bp):
ACCGGTTTCAACCGGTTCGAACCGGTTTG
Found at i:958712 original size:19 final size:20
Alignment explanation
Indices: 958668--958735 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 20
958658 CCGGTTTTCA
*
958668 ACCGGTTCTG-ACCGGTTTCA
1 ACCGGTTCTGAACCGGTTT-G
958688 ACCGGTTC-GAACCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
*
958707 ACCGG-TCTGAATCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
958726 ACCGG-TCTGA
1 ACCGGTTCTGA
958736 CCCGACCCGA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 2 0.05
19 26 0.59
20 16 0.36
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.28
Consensus pattern (20 bp):
ACCGGTTCTGAACCGGTTTG
Found at i:958755 original size:17 final size:17
Alignment explanation
Indices: 958733--958771 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
958723 TTGACCGGTC
958733 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
958750 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
958767 TGACC
1 TGACC
958772 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:958771 original size:7 final size:7
Alignment explanation
Indices: 958761--958791 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
958751 GACCCGACCC
958761 GACCGTT
1 GACCGTT
958768 GACCGTT
1 GACCGTT
958775 GACCGTT
1 GACCGTT
*
958782 GACCATT
1 GACCGTT
958789 GAC
1 GAC
958792 TTTCTTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:966041 original size:28 final size:28
Alignment explanation
Indices: 965992--966046 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
965982 CTCCGTTTGC
*
965992 ATTATGTCATTGAACTAGTGCTTAAAAT
1 ATTATGTCATCGAACTAGTGCTTAAAAT
* * *
966020 ATTATGTCGTCGAGCTATTGCTTAAAA
1 ATTATGTCATCGAACTAGTGCTTAAAA
966047 ACAACGATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (28 bp):
ATTATGTCATCGAACTAGTGCTTAAAAT
Found at i:968397 original size:30 final size:30
Alignment explanation
Indices: 968334--968412 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
968324 TATTTTAGAC
* * * **
968334 AAAATATTAATTTAACTCTAAACTTTAGGT
1 AAAATACTAATTTAACCCTAAACCTTAAAT
*
968364 AAAATACTAATTTAACCCTGAACCTTAAAT
1 AAAATACTAATTTAACCCTAAACCTTAAAT
*
968394 AAAATATCAAATTT-ACCCT
1 AAAATA-CTAATTTAACCCT
968413 TAAATCCAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 35 0.85
31 6 0.15
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (30 bp):
AAAATACTAATTTAACCCTAAACCTTAAAT
Found at i:975664 original size:16 final size:17
Alignment explanation
Indices: 975624--975664 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
975614 TTAGGGTTTT
975624 TTTATAATTTTATAAAA
1 TTTATAATTTTATAAAA
**
975641 TTTA-AATTTT-TTTAA
1 TTTATAATTTTATAAAA
975656 TTTATAATT
1 TTTATAATT
975665 CCGAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 10 0.48
17 4 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATAATTTTATAAAA
Found at i:977471 original size:21 final size:19
Alignment explanation
Indices: 977441--977535 Score: 73
Period size: 21 Copynumber: 4.6 Consensus size: 19
977431 TTCTATTTCG
* *
977441 CGTTGTGATAGTCCAAGTTGT
1 CGTTGCGATAGTCCAA-AT-T
977462 CGTTGCGATAGTTTCCAAATT
1 CGTTGCGATAG--TCCAAATT
**
977483 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTC--CAAAT-T
**
977505 CGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCCAAATT
977524 CGTTGCGATAGT
1 CGTTGCGATAGT
977536 AAAAAAAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
19 13 0.22
20 3 0.05
21 25 0.42
22 13 0.22
23 5 0.08
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCCAAATT
Found at i:977528 original size:41 final size:41
Alignment explanation
Indices: 977441--977535 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
977431 TTCTATTTCG
*
977441 CGTTGTGATAGTCCAAGTTGTCGTTGCGATAGTTTCCAAATT
1 CGTTGCGATAGTCCAAGTTGTCGTTGCGATA-TTTCCAAATT
*
977483 CGTTGCGATAGTCTACAGTTGTCGTTGCGAT-TTTCCAAATT
1 CGTTGCGATAGTCCA-AGTTGTCGTTGCGATATTTCCAAATT
977524 CGTTGCGATAGT
1 CGTTGCGATAGT
977536 AAAAAAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
41 22 0.44
42 13 0.26
43 15 0.30
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
CGTTGCGATAGTCCAAGTTGTCGTTGCGATATTTCCAAATT
Found at i:977644 original size:6 final size:6
Alignment explanation
Indices: 977611--977643 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
977601 GACACGTATT
*
977611 ACCACG ACCACG ACCACG ACCACG ACCCCG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
977644 CGAGACGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.30, C:0.55, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:978645 original size:13 final size:13
Alignment explanation
Indices: 978627--978652 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
978617 TTTTTAACTA
978627 TCACAACGAATTT
1 TCACAACGAATTT
978640 TCACAACGAATTT
1 TCACAACGAATTT
978653 GGAAAATCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TCACAACGAATTT
Found at i:978667 original size:19 final size:19
Alignment explanation
Indices: 978643--978708 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
978633 CGAATTTTCA
*
978643 CAACGAATTTGGAAAATCG
1 CAACGAATTTAGAAAATCG
* **
978662 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTAGAAAATCG
*
978684 TAACGAATTTAGAAAATCG
1 CAACGAATTTAGAAAATCG
978703 CAACGA
1 CAACGA
978709 CAACTGTAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 19 0.54
20 2 0.06
21 2 0.06
22 12 0.34
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (19 bp):
CAACGAATTTAGAAAATCG
Found at i:978688 original size:22 final size:22
Alignment explanation
Indices: 978658--978729 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
978648 AATTTGGAAA
978658 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
978680 ATCGTAACG--AA-TTTAGAAA
1 ATCGCAACGACAACTGTAGACT
978699 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
978721 ATCGCAACG
1 ATCGCAACG
978730 CGAAATGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:978689 original size:41 final size:41
Alignment explanation
Indices: 978643--978729 Score: 156
Period size: 41 Copynumber: 2.1 Consensus size: 41
978633 CGAATTTTCA
*
978643 CAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCG
1 CAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCG
*
978684 TAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCG
1 CAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCG
978725 CAACG
1 CAACG
978730 CGAAATGGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (41 bp):
CAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCG
Found at i:978770 original size:21 final size:21
Alignment explanation
Indices: 978741--978794 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
978731 GAAATGGAAA
*
978741 ATCGTAACGCGATTTTTAACT
1 ATCGTAACGCGATTTTCAACT
*
978762 ATCGCAACGCGATTTTCAACT
1 ATCGTAACGCGATTTTCAACT
978783 ATCGTAACGCGA
1 ATCGTAACGCGA
978795 AATGCAACGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (21 bp):
ATCGTAACGCGATTTTCAACT
Found at i:978802 original size:21 final size:21
Alignment explanation
Indices: 978718--978802 Score: 64
Period size: 21 Copynumber: 4.1 Consensus size: 21
978708 ACAACTGTAG
*
978718 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** **
978739 A-AATCGTAACGCGATTTTTA
1 ACTATCGCAACGCGAAATGCA
** *
978759 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
978780 ACTATCGTAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
978801 AC
1 AC
978803 GAGAATTTGC
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 14 0.28
21 36 0.72
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:978844 original size:19 final size:19
Alignment explanation
Indices: 978820--978872 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
978810 TGCGATAGTG
*
978820 GAGATCGCAATTCGAATTA
1 GAGATCGCAATGCGAATTA
978839 GAGATCGCAATGCGAATTA
1 GAGATCGCAATGCGAATTA
*
978858 GAGATCGCATTGCGA
1 GAGATCGCAATGCGA
978873 TTTTGTTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (19 bp):
GAGATCGCAATGCGAATTA
Found at i:979133 original size:11 final size:10
Alignment explanation
Indices: 979117--979271 Score: 81
Period size: 12 Copynumber: 14.2 Consensus size: 10
979107 TAATATTTAA
979117 TATTTAATATT
1 TATTTAAT-TT
979128 TATTTAATTT
1 TATTTAATTT
979138 TAATTTTAATTT
1 T-A-TTTAATTT
979150 TAATTTTAATTT
1 T-A-TTTAATTT
979162 TAATTTTAATTT
1 T-A-TTTAATTT
979174 TAATTTTAATTT
1 T-A-TTTAATTT
979186 TAATTTTAATTT
1 T-A-TTTAATTT
979198 TAATTT--TTT
1 T-ATTTAATTT
979207 T-TTTAA--T
1 TATTTAATTT
979214 T-TTTAATTTT
1 TATTTAA-TTT
979224 TAATTTTAATTT
1 T-A-TTTAATTT
979236 T-TTTAATTT
1 TATTTAATTT
979245 TAATTTTAATTTT
1 T-A-TTTAA-TTT
979258 TAATTTTAATTT
1 T-A-TTTAATTT
979270 TA
1 TA
979272 ATTTTTAATT
Statistics
Matches: 130, Mismatches: 0, Indels: 28
0.82 0.00 0.18
Matches are distributed among these distances:
7 10 0.08
9 13 0.10
10 5 0.04
11 13 0.10
12 72 0.55
13 17 0.13
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTTAATTT
Found at i:979909 original size:6 final size:7
Alignment explanation
Indices: 979085--979906 Score: 1200
Period size: 7 Copynumber: 125.3 Consensus size: 7
979075 AGGTAAGGAA
979085 TTTAATT
1 TTTAATT
979092 TTTAA-T
1 TTTAATT
979098 TTTAATT
1 TTTAATT
*
979105 TTTAATA
1 TTTAATT
*
979112 TTTAATA
1 TTTAATT
*
979119 TTTAATA
1 TTTAATT
979126 TTT-A--
1 TTTAATT
979130 TTTAA-T
1 TTTAATT
979136 TTTAA-T
1 TTTAATT
979142 TTTAA-T
1 TTTAATT
979148 TTTAA-T
1 TTTAATT
979154 TTTAA-T
1 TTTAATT
979160 TTTAA-T
1 TTTAATT
979166 TTTAA-T
1 TTTAATT
979172 TTTAA-T
1 TTTAATT
979178 TTTAA-T
1 TTTAATT
979184 TTTAA-T
1 TTTAATT
979190 TTTAA-T
1 TTTAATT
979196 TTTAATT
1 TTTAATT
979203 TTT--TT
1 TTTAATT
979208 TTTAATT
1 TTTAATT
979215 TTTAATT
1 TTTAATT
979222 TTTAA-T
1 TTTAATT
979228 TTTAATTTT
1 TTTAA--TT
979237 TTTAA-T
1 TTTAATT
979243 TTTAA-T
1 TTTAATT
979249 TTTAATT
1 TTTAATT
979256 TTTAA-T
1 TTTAATT
979262 TTTAA-T
1 TTTAATT
979268 TTTAATT
1 TTTAATT
979275 TTTAATT
1 TTTAATT
979282 TTTAATT
1 TTTAATT
979289 TTTAATT
1 TTTAATT
979296 TTTAA-T
1 TTTAATT
979302 TTTAA-T
1 TTTAATT
979308 TTTAATT
1 TTTAATT
979315 TTTAA-T
1 TTTAATT
979321 TTTAATT
1 TTTAATT
979328 TTTAATT
1 TTTAATT
979335 TTTAATT
1 TTTAATT
979342 TTTAA-T
1 TTTAATT
979348 TTTAATT
1 TTTAATT
979355 TTTAA-T
1 TTTAATT
979361 TTTAATT
1 TTTAATT
979368 TTTAATT
1 TTTAATT
979375 TTTAATT
1 TTTAATT
979382 TTTAATT
1 TTTAATT
979389 TTTAATT
1 TTTAATT
979396 TTTAATT
1 TTTAATT
979403 TTT--TT
1 TTTAATT
979408 TTTAA-T
1 TTTAATT
979414 TTTAATT
1 TTTAATT
979421 TTTAA-T
1 TTTAATT
979427 TTTAATT
1 TTTAATT
979434 TTTAA-T
1 TTTAATT
979440 TTTAATT
1 TTTAATT
979447 TTTAATT
1 TTTAATT
979454 TTTAATT
1 TTTAATT
979461 TTTAATT
1 TTTAATT
979468 TTTAATT
1 TTTAATT
979475 TTTAATT
1 TTTAATT
979482 TTTAATT
1 TTTAATT
979489 TTTAATT
1 TTTAATT
979496 TTTAATT
1 TTTAATT
979503 TTTAATT
1 TTTAATT
979510 TTTAA-T
1 TTTAATT
979516 TTTAATT
1 TTTAATT
979523 TTTAATT
1 TTTAATT
979530 TTTAA-T
1 TTTAATT
979536 TTTAATT
1 TTTAATT
979543 TTTAATT
1 TTTAATT
979550 TTTAATT
1 TTTAATT
979557 TTTAA-T
1 TTTAATT
979563 TTTAATT
1 TTTAATT
979570 TTTAATT
1 TTTAATT
979577 TTTAATT
1 TTTAATT
979584 TTTAA-T
1 TTTAATT
979590 TTTAA-T
1 TTTAATT
979596 TTTAATT
1 TTTAATT
979603 TTTAATT
1 TTTAATT
979610 TTTAA-T
1 TTTAATT
979616 TTTAA-T
1 TTTAATT
979622 TTTAATT
1 TTTAATT
979629 TTTAA-T
1 TTTAATT
979635 TTTAA-T
1 TTTAATT
979641 TTTAA-T
1 TTTAATT
979647 TTTAA-T
1 TTTAATT
979653 TTTAA-T
1 TTTAATT
979659 TTTAA-T
1 TTTAATT
979665 TTTAA-T
1 TTTAATT
979671 TTTAA-T
1 TTTAATT
979677 TTTAA-T
1 TTTAATT
979683 TTTAA--
1 TTTAATT
979688 TTTAA-T
1 TTTAATT
979694 TTTAA-T
1 TTTAATT
979700 TTTAA-T
1 TTTAATT
979706 TTTAA-T
1 TTTAATT
979712 TTTAA-T
1 TTTAATT
979718 TTTAA-T
1 TTTAATT
979724 TTTAA-T
1 TTTAATT
979730 TTTAATT
1 TTTAATT
979737 TTTAATT
1 TTTAATT
979744 TTTAATT
1 TTTAATT
979751 TTTAATT
1 TTTAATT
979758 TTTAATT
1 TTTAATT
979765 TTTAATT
1 TTTAATT
979772 TTTAATT
1 TTTAATT
979779 TTTAATT
1 TTTAATT
979786 TTTAATT
1 TTTAATT
979793 TTTAATT
1 TTTAATT
979800 TTTAATT
1 TTTAATT
979807 TTTAATT
1 TTTAATT
979814 TTTAATT
1 TTTAATT
979821 TTTAATT
1 TTTAATT
979828 TTTAATT
1 TTTAATT
979835 TTTAATT
1 TTTAATT
979842 TTTAATT
1 TTTAATT
979849 TTTAATT
1 TTTAATT
979856 TTTAATT
1 TTTAATT
979863 TTTAATT
1 TTTAATT
979870 TTTAATT
1 TTTAATT
979877 TTTAATT
1 TTTAATT
979884 TTTAATT
1 TTTAATT
979891 TTTAATT
1 TTTAATT
979898 TTTAATT
1 TTTAATT
979905 TT
1 TT
979907 AATAGCCCTA
Statistics
Matches: 787, Mismatches: 1, Indels: 54
0.93 0.00 0.06
Matches are distributed among these distances:
4 3 0.00
5 16 0.02
6 287 0.36
7 475 0.60
9 6 0.01
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTAATT
Found at i:991395 original size:11 final size:11
Alignment explanation
Indices: 991379--991403 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
991369 TAATTTTTGC
991379 CTCTTTTAAAA
1 CTCTTTTAAAA
991390 CTCTTTTAAAA
1 CTCTTTTAAAA
991401 CTC
1 CTC
991404 ATGAGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTTTTAAAA
Found at i:994250 original size:20 final size:20
Alignment explanation
Indices: 994225--994276 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
994215 TATTCCCAGA
*
994225 TAATCTTATATTCTCACTGG
1 TAATCTTACATTCTCACTGG
**
994245 TAATCTTACATTCTCACTTA
1 TAATCTTACATTCTCACTGG
*
994265 TAATATTACATT
1 TAATCTTACATT
994277 TCGTGAACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (20 bp):
TAATCTTACATTCTCACTGG
Found at i:1010303 original size:44 final size:43
Alignment explanation
Indices: 1010253--1010369 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 43
1010243 AAGATATTTC
* *
1010253 GCGACGTTTTTTGGATACAAACGCCGCTAAAGCTCTAGTATATA
1 GCGACGTTTTTTGGATACAAACGCCGCTAAAG-TATAATATATA
* *
1010297 GCGACGTTTTTAGGATACAAACGCCGCAAAATGTATAATATATA
1 GCGACGTTTTTTGGATACAAACGCCGCTAAA-GTATAATATATA
* * *
1010341 GCGGCATTTTTT---TACAAACACCGCTAAAG
1 GCGACGTTTTTTGGATACAAACGCCGCTAAAG
1010370 AACACAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
40 1 0.02
41 14 0.22
44 47 0.75
45 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (43 bp):
GCGACGTTTTTTGGATACAAACGCCGCTAAAGTATAATATATA
Found at i:1011496 original size:64 final size:64
Alignment explanation
Indices: 1011427--1011585 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 64
1011417 TTGAAGGTGT
** *** *
1011427 ATCGATGCATTGGTAGTGCATCGATGCACT-CTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATGCA-TACCAGTAATAAT-AAAACATCGAATGCAATTCATA
1011490 C
64 C
* * *
1011491 ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATACAACATCGAATGCATTTTATAC
1 ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGCAATTCATAC
* *
1011555 ACCGATGCATCAGTAGTGCATCGATGCATAC
1 ATCGATGCATAAGTAGTGCATCGATGCATAC
1011586 TTTCATTGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 1 0.01
64 78 0.95
65 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGCAATTCATAC
Found at i:1012278 original size:31 final size:31
Alignment explanation
Indices: 1012240--1012426 Score: 340
Period size: 31 Copynumber: 6.0 Consensus size: 31
1012230 AGGGTCGAGG
1012240 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1012271 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1012302 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1012333 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1012364 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1012395 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
1012426 G
1 G
1012427 GTCCTTCGAG
Statistics
Matches: 152, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
31 151 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1016007 original size:64 final size:64
Alignment explanation
Indices: 1015938--1016096 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 64
1015928 TTGAAGGTGT
** ***
1015938 ATCGATGCATTGGTAGTGCATCGATGCACT-CTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATGCA-TACCAGTAATAAT-AAAACATCGAATGCAATTCATG
1016001 C
64 C
* * * *
1016002 ATCGATGTATAAGTAGTGCATCGATGCATACCAGTAATAATACAACATCGAATGCATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGCAATTCATGC
* *
1016066 ACCGATGCATCAGTAGTGCATCGATGCATAC
1 ATCGATGCATAAGTAGTGCATCGATGCATAC
1016097 TTTCATTGTA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 1 0.01
64 77 0.95
65 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGCAATTCATGC
Found at i:1016789 original size:31 final size:31
Alignment explanation
Indices: 1016751--1016891 Score: 237
Period size: 31 Copynumber: 4.5 Consensus size: 31
1016741 AGGGTCGAGG
*
1016751 GTTTACCTATGTTCTTCGGGACATATGAACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1016782 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1016813 GTTTACCTATGTTATTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1016844 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1016875 GTTTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
1016892 AGGATCTATA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1017685 original size:21 final size:21
Alignment explanation
Indices: 1017661--1017712 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1017651 GATATGTTGT
*
1017661 TTCTCTCTGTG-TTGCTGCTGC
1 TTCTCTCTCTGCTT-CTGCTGC
1017682 TTCTCTCTCTGCTTCTGCTGC
1 TTCTCTCTCTGCTTCTGCTGC
*
1017703 TGCTCTCTCT
1 TTCTCTCTCT
1017713 TTTTCCCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.00, C:0.35, G:0.17, T:0.48
Consensus pattern (21 bp):
TTCTCTCTCTGCTTCTGCTGC
Found at i:1019963 original size:82 final size:81
Alignment explanation
Indices: 1019773--1020073 Score: 270
Period size: 82 Copynumber: 3.7 Consensus size: 81
1019763 ATGGCGTTTA
* * * * *
1019773 TATACAAACGCCACTAAAGTACAAATATTTTACGACGTTTGTCTAAAAAATGCCACTATA-TATT
1 TATAAAAACGCCGCTAAAGTACAAATATTTTGCGACGTTTGT-TGAAAAACGCCACTATAGT-TT
1019837 ACACCTATTACGACGTTTT-
64 ACACCTATTAC-A-GTTTTG
* * * * * *
1019856 TATAAAAACACAGCT-GAGTATAAATATTTTGCGGCGTTTGTTGAAAAACGCCAATATAGTTTAC
1 TATAAAAACGCCGCTAAAGTACAAATATTTTGCGACGTTTGTTGAAAAACGCCACTATAGTTTAC
1019920 ACCTATTACAGTGTTTG
66 ACCTATTACAGT-TTTG
* * * * * *
1019937 TATAACAACGCCCCTAAAGTACAAATATTTTGAGACATTTGTTGATAAACGCCACTATAGATCTA
1 TATAAAAACGCCGCTAAAGTACAAATATTTTGCGACGTTTGTTGAAAAACGCCACTATAG-TTTA
* **
1020002 -ACCTATTGCGACATTTG
65 CACCTATTAC-AGTTTTG
* * *
1020019 TATAAAAACGCCGCTAATGTACAATTATATTT-CGGCGTTTGTTGATATAAACGCC
1 TATAAAAACGCCGCTAAAGTACAAATAT-TTTGCGACGTTTGTTGA-A-AAACGCC
1020074 GTAAAAATTT
Statistics
Matches: 175, Mismatches: 34, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
79 2 0.01
80 4 0.02
81 38 0.22
82 106 0.61
83 18 0.10
84 7 0.04
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (81 bp):
TATAAAAACGCCGCTAAAGTACAAATATTTTGCGACGTTTGTTGAAAAACGCCACTATAGTTTAC
ACCTATTACAGTTTTG
Found at i:1026956 original size:2 final size:2
Alignment explanation
Indices: 1026949--1026978 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1026939 GAAAATACAA
1026949 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
1026979 TTAATATAAT
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:1027097 original size:117 final size:122
Alignment explanation
Indices: 1026968--1027204 Score: 333
Period size: 125 Copynumber: 2.0 Consensus size: 122
1026958 TATATATATA
* * * *
1026968 TATATATATATTTAATATAATACAAAACATGC-TTAATATATGTAACAAAT-T-GAAAAAA-TAT
1 TATATATATATTTAATATAATACAAAACATACTTTAACATAGGTAACAAATATAAAAAAAAGTAT
*
1027029 -TGTACGTACATAATATATACATATTTAAT-GGAAGTAACTATTTATAAGGGATAGGT
66 ATGTACGTACACAATATATACATATTTAATAGG-AGTAACTATTTATAAGGGATAGGT
1027085 TATATATATATTTAATATAATACAAAACATACTTTAACATAGGTAACAAATATAAAAAAAAAGGT
1 TATATATATATTTAATATAATACAAAACATACTTTAACATAGGTAACAAATAT-AAAAAAAA-GT
* *
1027150 ATACTGTACGTACACAATATATACATATTTAATAGGAGTGACTATTTATGAGGGA
64 ATA-TGTACGTACACAATATATACATATTTAATAGGAGTAACTATTTATAAGGGA
1027205 ATTTACATAT
Statistics
Matches: 104, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
117 31 0.30
118 16 0.15
119 1 0.01
121 6 0.06
123 3 0.03
125 45 0.43
126 2 0.02
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (122 bp):
TATATATATATTTAATATAATACAAAACATACTTTAACATAGGTAACAAATATAAAAAAAAGTAT
ATGTACGTACACAATATATACATATTTAATAGGAGTAACTATTTATAAGGGATAGGT
Found at i:1028907 original size:23 final size:22
Alignment explanation
Indices: 1028865--1028925 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
1028855 GAGTGCTTTG
* * *
1028865 GGCTTGTAATTAGGCTCTGAGTAT
1 GGCTTG-AATTGGGCCCTGAAT-T
1028889 GGCTTGAATTGGGCCCTGAATT
1 GGCTTGAATTGGGCCCTGAATT
* *
1028911 AGCTTGTATTGGGCC
1 GGCTTGAATTGGGCC
1028926 TGTAAAAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 14 0.44
23 12 0.38
24 6 0.19
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.34
Consensus pattern (22 bp):
GGCTTGAATTGGGCCCTGAATT
Found at i:1028961 original size:13 final size:13
Alignment explanation
Indices: 1028945--1028973 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1028935 TATAAACAAG
1028945 ATTAATAATAATA
1 ATTAATAATAATA
1028958 ATTAATAATAATA
1 ATTAATAATAATA
1028971 ATT
1 ATT
1028974 TTTAAATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTAATAATAATA
Found at i:1029941 original size:21 final size:20
Alignment explanation
Indices: 1029917--1029992 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
1029907 GATATGTTGT
*
1029917 TTCTTTCTGTGTTGCTGCTGC
1 TTCTCTCTGTGTT-CTGCTGC
* *
1029938 TTCTCTCTGTGCTACCGCTGC
1 TTCTCTCTGTG-TTCTGCTGC
*
1029959 TTCTCTCTCTGCTTCTGCTGC
1 TTCTCTCTGTG-TTCTGCTGC
* *
1029980 TGCTCTCTCTGTT
1 TTCTCTCTGTGTT
1029993 TCCCTTGCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
20 2 0.04
21 44 0.94
22 1 0.02
ACGTcount: A:0.01, C:0.33, G:0.18, T:0.47
Consensus pattern (20 bp):
TTCTCTCTGTGTTCTGCTGC
Found at i:1032463 original size:82 final size:82
Alignment explanation
Indices: 1032367--1032655 Score: 268
Period size: 82 Copynumber: 3.5 Consensus size: 82
1032357 ACAAACGCCA
* * *
1032367 CTAAAGTACAAATATTTTACGACGTTTGTCTAAAAAATGCCACTATATATTACACCTATTACGAC
1 CTAAAGTACAAATATTTTGCGACGTTTGT-TGAAAAACGCCACTATATATTACACCTATTACGAC
*
1032432 GTTTTTATAAAAACACAG
65 GTTTTTATAAAAACACAC
* * * *
1032450 CT-GAGTATAAATATTTTGCGGCGTTTGTTGAAAAACGCCAATATAGT-TTACACCTATTAC-A-
1 CTAAAGTACAAATATTTTGCGACGTTTGTTGAAAAACGCCACTATA-TATTACACCTATTACGAC
* * *
1032511 GTGTTTGTATAACAACGCCC
65 GT-TTT-TATAAAAACACAC
* * * *
1032531 CTAAAGTACAAATATTTTGCGACATTTGTTGATAAACGCCACTATAGATCTA-ACCTATTGCGAC
1 CTAAAGTACAAATATTTTGCGACGTTTGTTGAAAAACGCCACTATATAT-TACACCTATTACGAC
* *
1032595 ATTTGTATAAAAACAC-C
65 GTTTTTATAAAAACACAC
* * *
1032612 GCTAATGTACAATTATATTT-CGGCGTTTGTTGATATAAACGCCA
1 -CTAAAGTACAAATAT-TTTGCGACGTTTGTTGA-A-AAACGCCA
1032656 TAAAAATTTA
Statistics
Matches: 166, Mismatches: 28, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
79 2 0.01
80 4 0.02
81 39 0.23
82 102 0.61
83 10 0.06
84 9 0.05
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (82 bp):
CTAAAGTACAAATATTTTGCGACGTTTGTTGAAAAACGCCACTATATATTACACCTATTACGACG
TTTTTATAAAAACACAC
Found at i:1032638 original size:164 final size:166
Alignment explanation
Indices: 1032347--1032655 Score: 405
Period size: 164 Copynumber: 1.9 Consensus size: 166
1032337 CTTTGTCATG
* *
1032347 GTGTTTATATACAAACGCCACTAAAGTACAAATATTTTACGACGTTTGTCTAAAAAATGCCACTA
1 GTGTTTATATACAAACGCCACTAAAGTACAAATATTTTACGACATTTGTCTAAAAAACGCCACTA
* * * * *
1032412 TATATTACACCTATTACGACGTTTTTATAAAAACACAGCTGAGTATAAATATTTTGCGGCGTTTG
66 TAGATTACACCTATTACGACATTTGTATAAAAACACAGCTAAGTACAAATATTTTGCGGCGTTTG
1032477 TTGA-A-AAACGCCAATATAGTTTACACCTATTACA
131 TTGATATAAACGCCAATATAGTTTACACCTATTACA
* * * * *
1032511 GTGTTTGTATA-ACAACGCCCCTAAAGTACAAATATTTTGCGACATTTGT-TGATAAACGCCACT
1 GTGTTTATATACA-AACGCCACTAAAGTACAAATATTTTACGACATTTGTCTAAAAAACGCCACT
* * *
1032574 ATAGATCTA-ACCTATTGCGACATTTGTATAAAAACACCGCTAATGTACAATTATATTT-CGGCG
65 ATAGAT-TACACCTATTACGACATTTGTATAAAAACACAGCTAA-GTACAAATAT-TTTGCGGCG
1032637 TTTGTTGATATAAACGCCA
127 TTTGTTGATATAAACGCCA
1032656 TAAAAATTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
163 46 0.37
164 66 0.53
165 4 0.03
166 8 0.06
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (166 bp):
GTGTTTATATACAAACGCCACTAAAGTACAAATATTTTACGACATTTGTCTAAAAAACGCCACTA
TAGATTACACCTATTACGACATTTGTATAAAAACACAGCTAAGTACAAATATTTTGCGGCGTTTG
TTGATATAAACGCCAATATAGTTTACACCTATTACA
Found at i:1033678 original size:22 final size:22
Alignment explanation
Indices: 1033650--1033696 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1033640 CACGTTTTCA
1033650 AAAGCTATTATTTTCCTATTCG
1 AAAGCTATTATTTTCCTATTCG
*
1033672 AAAGCTATTATTTTTCTATTCG
1 AAAGCTATTATTTTCCTATTCG
1033694 AAA
1 AAA
1033697 CCGGAAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.45
Consensus pattern (22 bp):
AAAGCTATTATTTTCCTATTCG
Found at i:1042822 original size:13 final size:13
Alignment explanation
Indices: 1042804--1042832 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1042794 TGGTAACAAG
1042804 ATTAATAATAATA
1 ATTAATAATAATA
1042817 ATTAATAATAATA
1 ATTAATAATAATA
1042830 ATT
1 ATT
1042833 TTTAAATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTAATAATAATA
Found at i:1043844 original size:21 final size:22
Alignment explanation
Indices: 1043800--1043845 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1043790 CTGTGCTACC
**
1043800 GCTGCTTCTCTCTGCTTCTGTT
1 GCTGCTTCTCTCTGCTTCCCTT
*
1043822 GCTGC-TCTCTCTGTTTCCCTT
1 GCTGCTTCTCTCTGCTTCCCTT
1043843 GCT
1 GCT
1043846 TCATTTTCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.00, C:0.35, G:0.17, T:0.48
Consensus pattern (22 bp):
GCTGCTTCTCTCTGCTTCCCTT
Found at i:1051833 original size:47 final size:45
Alignment explanation
Indices: 1051763--1051888 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
1051753 TATAAAATCT
*
1051763 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1051808 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1051855 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1051889 ACATGGTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:1054893 original size:83 final size:80
Alignment explanation
Indices: 1054806--1055161 Score: 351
Period size: 83 Copynumber: 4.3 Consensus size: 80
1054796 ACTCTGTCAT
* * *
1054806 GGCGTTTATATACAAACGCCGCTAAAGTACAAATATTTTACGACGTTTGTCTCAAAAACGCCACT
1 GGCGTTTGTATAAAAACGCCGCTAAAGTACAAATATTTTACGGCGTTTGT-T-AAAAACGCCACT
*
1054871 ATATATTACACCTATTGC
64 ATAGATTA-ACCTATTGC
* ** * * * *
1054889 GGCGTTTTTATAAAAATACCGCT-GAGTATAAATATTTTGCGGCGTTTGTTGAAAAAACGCCAAT
1 GGCGTTTGTATAAAAACGCCGCTAAAGTACAAATATTTTACGGCGTTTGTT--AAAAACGCCACT
*
1054953 ATAGATTACACCTATTAC
64 ATAGATTA-ACCTATTGC
** *
1054971 GGCGTTTGTATAACGACGCCCCTAAAGTACAAATATTTTACGGCGTTTGTTGATAAAACGCCACT
1 GGCGTTTGTATAAAAACGCCGCTAAAGTACAAATATTTTACGGCGTTTGTT-A-AAAACGCCACT
1055036 ATAGATCTAACCTATTGC
64 ATAGAT-TAACCTATTGC
* * * * *
1055054 GACGTTTGTATAAAAACGCCGCTAATGTACAATTA-TATATCGGCGTTTGATT-TAAACGCCACT
1 GGCGTTTGTATAAAAACGCCGCTAAAGTACAAATATTTTA-CGGCGTTTG-TTAAAAACGCCACT
*
1055117 ATATATTAACCATATTGC
64 ATAGATTAACC-TATTGC
* *
1055135 GGTGTTTGTTGATATAAACGCCG-TAAA
1 GGCGTTTG-T-ATAAAAACGCCGCTAAA
1055162 AATTTAAGTA
Statistics
Matches: 227, Mismatches: 37, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
80 5 0.02
81 28 0.12
82 74 0.33
83 116 0.51
84 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (80 bp):
GGCGTTTGTATAAAAACGCCGCTAAAGTACAAATATTTTACGGCGTTTGTTAAAAACGCCACTAT
AGATTAACCTATTGC
Found at i:1056909 original size:42 final size:41
Alignment explanation
Indices: 1056764--1056909 Score: 113
Period size: 41 Copynumber: 3.6 Consensus size: 41
1056754 AACAACCCTG
* * * *
1056764 TTGCGGCATTT-TTATAAAAACGCCACTAAATTACTACTCTT
1 TTGCGGCGTTTGTTGTAAAAACGCCACAAAATTAC-ACTCTA
* *
1056805 TTGCGGCGTTTGTTG-AAAAATGCCACTATAAA-GA-ACTCTA
1 TTGCGGCGTTTGTTGTAAAAACGCCAC-A-AAATTACACTCTA
** * * *
1056845 TACCGGTGTTTG-TGTCATAAACGCCGCAAAATTACCACTCTA
1 TTGCGGCGTTTGTTGT-AAAAACGCCACAAAATTA-CACTCTA
1056887 TTGCGGCGTTTGTTGTAAAAACG
1 TTGCGGCGTTTGTTGTAAAAACG
1056910 TCGCTAACGT
Statistics
Matches: 79, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
39 5 0.06
40 16 0.20
41 28 0.35
42 24 0.30
43 6 0.08
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (41 bp):
TTGCGGCGTTTGTTGTAAAAACGCCACAAAATTACACTCTA
Found at i:1060565 original size:22 final size:23
Alignment explanation
Indices: 1060510--1060569 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
1060500 AGTGCTTTGG
* * *
1060510 GCTTGTAATTGGGCTCTGAGTATG
1 GCTTGT-ATTGGGCCCTGAATATA
*
1060534 GCTTGAATTGGGCCCTGAAT-TA
1 GCTTGTATTGGGCCCTGAATATA
1060556 GCTTGTATTGGGCC
1 GCTTGTATTGGGCC
1060570 TGTAAAAGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 14 0.45
23 12 0.39
24 5 0.16
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.35
Consensus pattern (23 bp):
GCTTGTATTGGGCCCTGAATATA
Found at i:1060605 original size:13 final size:13
Alignment explanation
Indices: 1060589--1060617 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1060579 TATAAACAAG
1060589 ATTAATAATAATA
1 ATTAATAATAATA
1060602 ATTAATAATAATA
1 ATTAATAATAATA
1060615 ATT
1 ATT
1060618 TTTAAATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTAATAATAATA
Found at i:1061585 original size:21 final size:20
Alignment explanation
Indices: 1061561--1061636 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 20
1061551 GATATGTTGT
*
1061561 TTCTTTCTGTGTTGCTGCTGC
1 TTCTCTCTGTGTT-CTGCTGC
* *
1061582 TTCTCTCTGTGCTACCGCTGC
1 TTCTCTCTGTG-TTCTGCTGC
1061603 TTCTCTCTGTGCTTCTGCTGC
1 TTCTCTCTGTG-TTCTGCTGC
* *
1061624 TGCTCTCTCTGTT
1 TTCTCTCTGTGTT
1061637 TCCCTTGCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
20 2 0.04
21 44 0.94
22 1 0.02
ACGTcount: A:0.01, C:0.32, G:0.20, T:0.47
Consensus pattern (20 bp):
TTCTCTCTGTGTTCTGCTGC
Found at i:1070909 original size:2 final size:2
Alignment explanation
Indices: 1070902--1070954 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1070892 AGGGCTAGTC
1070902 TA TA TA TA TA 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 TA TA TA TA TA
1070944 TA TA TA TA TA T
1 TA TA TA TA TA T
1070955 TTAAGAACAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1072968 original size:31 final size:31
Alignment explanation
Indices: 1072933--1072995 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
1072923 CACAAATAAA
* * *
1072933 TATTTAAAGTATTCTATCTTTTTTATTTAAG
1 TATTTAAAGTATTCAATCTTTTTCATCTAAG
1072964 TATTTAAAGTATTCAATCTTTTTCATCTAAG
1 TATTTAAAGTATTCAATCTTTTTCATCTAAG
1072995 T
1 T
1072996 TCTAAAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (31 bp):
TATTTAAAGTATTCAATCTTTTTCATCTAAG
Done.