Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5046466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 21
Found at i:4866488 original size:12 final size:12
Alignment explanation
Indices: 4866473--4866517 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
4866463 ATTATATATT
4866473 TTATTTTTTATA
1 TTATTTTTTATA
4866485 TTA-TTTTTATTA
1 TTATTTTTTA-TA
4866497 TTATTATTTTATA
1 TTATT-TTTTATA
4866510 TT-TTTTTT
1 TTATTTTTT
4866518 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 10 0.33
12 10 0.33
13 5 0.17
14 5 0.17
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATTTTTTATA
Found at i:4866518 original size:27 final size:27
Alignment explanation
Indices: 4866464--4866519 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
4866454 TTAAAAAATA
*
4866464 TTATATATTTTATTTTTTATATTATTT
1 TTATATATTTTATTTTATATATTATTT
* *
4866491 TTAT-TATTATTATTTTATATTTTTTTT
1 TTATATATT-TTATTTTATATATTATTT
4866518 TT
1 TT
4866520 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (27 bp):
TTATATATTTTATTTTATATATTATTT
Found at i:4867991 original size:53 final size:53
Alignment explanation
Indices: 4867924--4868046 Score: 158
Period size: 53 Copynumber: 2.3 Consensus size: 53
4867914 GATACCATGA
* * * *
4867924 TAAGGGGAATCGATACCAAGAAACATCAAATCTAATATTGGTATCGATATTGG
1 TAAGGGGTATCGATACCAAGAAACATCAAACCTAATATTGGTATCGATACTCG
* * * *
4867977 TAAGGGGTATCGATACCAGGCAACATCAAACCTATTTTTGGTATCGATACTCG
1 TAAGGGGTATCGATACCAAGAAACATCAAACCTAATATTGGTATCGATACTCG
4868030 -AATGGGGTATCGATACC
1 TAA-GGGGTATCGATACC
4868047 CGAATGGGGT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 2 0.03
53 59 0.97
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (53 bp):
TAAGGGGTATCGATACCAAGAAACATCAAACCTAATATTGGTATCGATACTCG
Found at i:4868040 original size:19 final size:19
Alignment explanation
Indices: 4868016--4868065 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
4868006 ACCTATTTTT
*
4868016 GGTATCGATACTCGAATGG
1 GGTATCGATACCCGAATGG
4868035 GGTATCGATACCCGAATGG
1 GGTATCGATACCCGAATGG
*
4868054 GGTATCGGTACC
1 GGTATCGATACC
4868066 ATAGTATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (19 bp):
GGTATCGATACCCGAATGG
Found at i:4868528 original size:59 final size:58
Alignment explanation
Indices: 4868426--4868591 Score: 210
Period size: 58 Copynumber: 2.8 Consensus size: 58
4868416 ATTACCAAAT
* *
4868426 GGCACTTCGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTGCAATA-TA
1 GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTGCAATATTA
* * * * **
4868483 GGGCACTTCATGTGCTAACATGATAAAAAATTCATACCAAGTGTATGAATTTCTGTATTA
1 -GGCACTTCGTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTGCAATATTA
*
4868543 GGCACCTT-GTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATT
1 GGCA-CTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATT
4868592 TTCGTATGGG
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
58 44 0.47
59 44 0.47
60 5 0.05
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (58 bp):
GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTGCAATATTA
Found at i:4868592 original size:58 final size:59
Alignment explanation
Indices: 4868447--4868592 Score: 190
Period size: 59 Copynumber: 2.5 Consensus size: 59
4868437 TGCAAAATGT
* *
4868447 TAAGAAATTCATACTAAGTGTATGAATTGCAATATAGGGCACTTCATGTGCTAACATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCAATATAGGGCACTTCATGTGCTAACAGGA
* * ** *
4868506 TAAAAAATTCATACCAAGTGTATGAATTTCTGTATTA-GGCACCTT-GTGTGCTAA-AGGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCAATA-TAGGGCA-CTTCATGTGCTAACAGGA
4868564 TAAGAAATTCATACTAAGTGTATGAATTT
1 TAAGAAATTCATACTAAGTGTATGAATTT
4868593 TCGTATGGGA
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 30 0.39
59 41 0.54
60 5 0.07
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (59 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCAATATAGGGCACTTCATGTGCTAACAGGA
Found at i:4869388 original size:68 final size:68
Alignment explanation
Indices: 4868922--4869379 Score: 711
Period size: 68 Copynumber: 6.7 Consensus size: 68
4868912 AGATCAAGAT
* * * * * *
4868922 GCCTAACTGAGCATATGAAAGAAATGTGTCATTTATACGAGTTAGATGAAAGACTAAGTGTATTT
1 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
4868987 GAG
66 GAG
*
4868990 GCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
1 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
4869055 GAG
66 GAG
* *
4869058 GCCTAACTGTACATATGACAGAAAGGTTTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
1 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
4869123 GAG
66 GAG
* *
4869126 GCTTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
1 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
4869191 GAG
66 GAG
*
4869194 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTATTT
1 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
4869259 GAG
66 GAG
* * *
4869262 GGCTAACTGTTCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAATACTAAGTGTCTTT
1 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
4869327 GAG
66 GAG
** * * * *
4869330 GCCTAGTTGTGCA-ATTGGCAGAAAGGTGTCAATTATGCCAATAAGATGAA
1 GCCTAACTGTGCATA-TGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
4869380 CGGTTAAGTA
Statistics
Matches: 362, Mismatches: 27, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
67 1 0.00
68 361 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (68 bp):
GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
GAG
Found at i:4869524 original size:2 final size:2
Alignment explanation
Indices: 4869517--4869571 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
4869507 GATATGAAGG
4869517 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4869559 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
4869572 CATACATATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4871792 original size:15 final size:15
Alignment explanation
Indices: 4871768--4871814 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
4871758 TTCTATGCGT
*
4871768 TGTTTTTTTATTTTA
1 TGTTTATTTATTTTA
*
4871783 TGTTTATTTAGTTT-
1 TGTTTATTTATTTTA
4871797 TGCTTTATTTTATTTTA
1 TG-TTTA-TTTATTTTA
4871814 T
1 T
4871815 TTATCTACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 16 0.62
16 7 0.27
17 1 0.04
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.74
Consensus pattern (15 bp):
TGTTTATTTATTTTA
Found at i:4872130 original size:100 final size:99
Alignment explanation
Indices: 4871934--4872134 Score: 242
Period size: 100 Copynumber: 2.0 Consensus size: 99
4871924 AACTCTAACC
** * ** * ****
4871934 TTTTTATTAATTTGTTTGAATTATTATACAACCTTGTGGTGACTTGATCTGGGGTATGATTTGCA
1 TTTTTATTAATTTGTTTGAATTATTATACAACCTTACGGTGACTCGATCCAGGGTACGACCCACA
* **
4871999 TTATTATGGTCCGACTTCTATTAACTCCTAACCTT
66 TTATTACGGTCCGACTTCTATTAACAACTAA-CTT
**
4872034 TTTTTATTAATTTGTTTGAATTATTATATGACCTTACGGTGACTCGATCCAGGGTACGACCCACA
1 TTTTTATTAATTTGTTTGAATTATTATACAACCTTACGGTGACTCGATCCAGGGTACGACCCACA
4872099 TTATTACGGTCCAGAC-TCTATTAACAACTAACTT
66 TTATTACGGTCC-GACTTCTATTAACAACTAACTT
4872133 TT
1 TT
4872135 CTAACTTCTA
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
99 5 0.06
100 77 0.91
101 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (99 bp):
TTTTTATTAATTTGTTTGAATTATTATACAACCTTACGGTGACTCGATCCAGGGTACGACCCACA
TTATTACGGTCCGACTTCTATTAACAACTAACTT
Found at i:4872381 original size:14 final size:14
Alignment explanation
Indices: 4872362--4872396 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4872352 TTTTATTTAA
*
4872362 TTAATTTCAGTCCT
1 TTAATTTCAGTACT
*
4872376 TTAATTTCATTACT
1 TTAATTTCAGTACT
4872390 TTAATTT
1 TTAATTT
4872397 ACTATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.03, T:0.57
Consensus pattern (14 bp):
TTAATTTCAGTACT
Found at i:4876139 original size:11 final size:11
Alignment explanation
Indices: 4876125--4876209 Score: 59
Period size: 11 Copynumber: 7.6 Consensus size: 11
4876115 AAAAATAAAG
4876125 GAAAGAAAAAA
1 GAAAGAAAAAA
* *
4876136 GAAAGAATAGA
1 GAAAGAAAAAA
4876147 GTAAA-AAAAGAA
1 G-AAAGAAAA-AA
* *
4876159 GAATGCAAAAA
1 GAAAGAAAAAA
* *
4876170 GAGAGAGAAAA
1 GAAAGAAAAAA
4876181 GAAAGTAAAAGAA
1 GAAAG-AAAA-AA
4876194 -AAAG-AAAAA
1 GAAAGAAAAAA
4876203 GAAAGAA
1 GAAAGAA
4876210 GCAAAAAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
9 2 0.04
10 7 0.13
11 29 0.53
12 15 0.27
13 2 0.04
ACGTcount: A:0.72, C:0.01, G:0.22, T:0.05
Consensus pattern (11 bp):
GAAAGAAAAAA
Found at i:4876160 original size:23 final size:22
Alignment explanation
Indices: 4876104--4876161 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
4876094 AAAAAAACAT
4876104 AAAAAAGAGAGAAAAATAAAGGA
1 AAAAAAGA-AGAAAAATAAAGGA
* *
4876127 AAGAAAA-AAGAAAGAATAGAGTA
1 AA-AAAAGAAGAAA-AATAAAGGA
4876150 AAAAAAGAAGAA
1 AAAAAAGAAGAA
4876162 TGCAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 9 0.30
23 17 0.57
24 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (22 bp):
AAAAAAGAAGAAAAATAAAGGA
Found at i:4876207 original size:16 final size:16
Alignment explanation
Indices: 4876074--4876209 Score: 59
Period size: 17 Copynumber: 8.2 Consensus size: 16
4876064 ACAGAGAGAC
4876074 AGAAAAAG-AAAAGATA
1 AGAAAAAGAAAAAGA-A
* *
4876090 TAGAAAAA-AAACATAA
1 -AGAAAAAGAAAAAGAA
*
4876106 A-AAAGAGAGAAAAATAA
1 AGAAA-A-AGAAAAAGAA
*
4876123 AG-GAAAGAAAAAAGAA
1 AGAAAAAG-AAAAAGAA
* *
4876139 AGAATAGAGTAAAA-AA
1 AGAA-AAAGAAAAAGAA
* *
4876155 AGAAGAATGCAAAAAGAG
1 AGAA-AAAG-AAAAAGAA
*
4876173 AGAGAAAAGAAAGTA-AA
1 AGA-AAAAGAAA-AAGAA
4876190 AGAAAAAGAAAAAGAA
1 AGAAAAAGAAAAAGAA
4876206 AGAA
1 AGAA
4876210 GCAAAAAAAA
Statistics
Matches: 89, Mismatches: 17, Indels: 27
0.67 0.13 0.20
Matches are distributed among these distances:
14 3 0.03
15 5 0.06
16 34 0.38
17 35 0.39
18 11 0.12
19 1 0.01
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.06
Consensus pattern (16 bp):
AGAAAAAGAAAAAGAA
Found at i:4876217 original size:22 final size:22
Alignment explanation
Indices: 4876151--4876218 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
4876141 AATAGAGTAA
4876151 AAAAAG-AAGAATGCAAAAAGAGAG
1 AAAAAGAAAGAA-GCAAAAA-A-AG
4876175 AGAAAAGAAAGTAA--AAGAAAAAG
1 A-AAAAGAAAG-AAGCAA-AAAAAG
4876198 AAAAAGAAAGAAGCAAAAAAA
1 AAAAAGAAAGAAGCAAAAAAA
4876219 ATATCAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
21 2 0.05
22 14 0.37
23 5 0.13
24 4 0.11
25 8 0.21
26 3 0.08
27 2 0.05
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (22 bp):
AAAAAGAAAGAAGCAAAAAAAG
Found at i:4880518 original size:16 final size:17
Alignment explanation
Indices: 4880497--4880529 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4880487 TTATCATGAT
4880497 CTCTATCAT-ATTCATA
1 CTCTATCATCATTCATA
*
4880513 CTCTATTATCATTCATA
1 CTCTATCATCATTCATA
4880530 TTTCTTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.45
Consensus pattern (17 bp):
CTCTATCATCATTCATA
Found at i:4880864 original size:22 final size:22
Alignment explanation
Indices: 4880839--4880899 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
4880829 GGCATATGAA
4880839 ATTTGTCCCGAAGGACCTA-TGT
1 ATTTGTCCCGAAGGACC-ACTGT
*
4880861 ATTTGTCTCGAAGGACCACTGT
1 ATTTGTCCCGAAGGACCACTGT
**
4880883 ATAGGTCCCGAAGGACC
1 ATTTGTCCCGAAGGACC
4880900 GCGTAGACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCACTGT
Found at i:4883006 original size:8 final size:8
Alignment explanation
Indices: 4882995--4883028 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
4882985 TTTCAATTTT
*
4882995 TTTATTTC
1 TTTATTCC
4883003 TTTATTCC
1 TTTATTCC
*
4883011 ATTATTCC
1 TTTATTCC
4883019 TTTATTCC
1 TTTATTCC
4883027 TT
1 TT
4883029 CAAAGTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTATTCC
Found at i:4888592 original size:58 final size:60
Alignment explanation
Indices: 4888480--4888716 Score: 286
Period size: 59 Copynumber: 4.0 Consensus size: 60
4888470 TGACATGATA
* * *
4888480 TTCCAATGAATTTTCTTAAAAAAAGTTAAGCCTGATTTTCATG-GGTTTCTTGATGATTAC
1 TTCCAATGATTTTTTTTAAAAAAAGCTAAGCCTGATTTTCA-GAGGTTTCTTGATGATTAC
* *
4888540 TTCCAATGATTTTTTTT-AAAGAAGCTAAGTCTGATTTTCA-AGGTTTCTTGATGATTAC
1 TTCCAATGATTTTTTTTAAAAAAAGCTAAGCCTGATTTTCAGAGGTTTCTTGATGATTAC
** * *
4888598 TTCCAATGATTTTTTTTAAAAAAAAAAGCTAATTCTGATTTTCAGAGTTTTCTTGATGATTAA
1 TTCCAATGATTTTTTTT---AAAAAAAGCTAAGCCTGATTTTCAGAGGTTTCTTGATGATTAC
* * *
4888661 TTCTAATGATTTTTTTTAAAAGAAA-CTAAGCCTAATTTT-AGGGGTTTCTTGATGAT
1 TTCCAATGATTTTTTTTAAAA-AAAGCTAAGCCTGATTTTCAGAGGTTTCTTGATGAT
4888717 ATTCGTAAAT
Statistics
Matches: 155, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
58 34 0.22
59 35 0.23
60 30 0.19
61 3 0.02
62 21 0.14
63 32 0.21
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (60 bp):
TTCCAATGATTTTTTTTAAAAAAAGCTAAGCCTGATTTTCAGAGGTTTCTTGATGATTAC
Found at i:4888650 original size:121 final size:122
Alignment explanation
Indices: 4888497--4888716 Score: 311
Period size: 121 Copynumber: 1.8 Consensus size: 122
4888487 GAATTTTCTT
* *
4888497 AAAAAAAGTTAAGCCTGATTTTCATGGGTTTCTTGATGATTACTTCCAATGATTTTTTTT-AAAG
1 AAAAAAAGCTAAGCCTGATTTTCATGGGTTTCTTGATGATTAATTCCAATGATTTTTTTTAAAAG
* * *
4888561 AAGCTAAGTCTGATTTTCA-AGGTTTCTTGATGATTACTTCCAATGATTTTTTTTAAA
66 AAACTAAGCCTAATTTT-AGAGGTTTCTTGATGATTACTTCCAATGATTTTTTTTAAA
** * *
4888618 AAAAAAAGCTAATTCTGATTTTCA-GAGTTTTCTTGATGATTAATTCTAATGATTTTTTTTAAAA
1 AAAAAAAGCTAAGCCTGATTTTCATG-GGTTTCTTGATGATTAATTCCAATGATTTTTTTTAAAA
*
4888682 GAAACTAAGCCTAATTTTAGGGGTTTCTTGATGAT
65 GAAACTAAGCCTAATTTTAGAGGTTTCTTGATGAT
4888717 ATTCGTAAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
120 1 0.01
121 53 0.62
122 32 0.37
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.43
Consensus pattern (122 bp):
AAAAAAAGCTAAGCCTGATTTTCATGGGTTTCTTGATGATTAATTCCAATGATTTTTTTTAAAAG
AAACTAAGCCTAATTTTAGAGGTTTCTTGATGATTACTTCCAATGATTTTTTTTAAA
Found at i:4890410 original size:91 final size:90
Alignment explanation
Indices: 4890256--4890440 Score: 302
Period size: 91 Copynumber: 2.0 Consensus size: 90
4890246 ACTCGAGGGA
*
4890256 TCAACATTTGCAGTGGAGAGTTCATAATTGAAGAACTCATCCGATGAGTGAGAAGAAGTTCATAA
1 TCAACATTTGCAGTGGAGAGTTCATAATAGAAGAACTCATCCGATGAGTGAGAAGAAGTTCATAA
*
4890321 TGAGAAGAACTTGTTCAACCTTGTC
66 TGAGAAGAACTTGTTCAACCTTATC
*
4890346 TCAACATTT-CTAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAG-GAAGAATAAGTTCA
1 TCAACATTTGC-AGTGGAGAGTTCATAAT-AGAAGAACTCATCCGATGAGTG-AGAAGAAGTTCA
4890409 TAATGAGAAGAACTTGTTCAACCTTATC
63 TAATGAGAAGAACTTGTTCAACCTTATC
4890437 TCAA
1 TCAA
4890441 TTCATCATAT
Statistics
Matches: 89, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
89 1 0.01
90 27 0.30
91 61 0.69
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (90 bp):
TCAACATTTGCAGTGGAGAGTTCATAATAGAAGAACTCATCCGATGAGTGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTATC
Found at i:4891043 original size:28 final size:27
Alignment explanation
Indices: 4891000--4891069 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 27
4890990 GCCAAAATCA
4891000 TCCCCAACACTCCACGCTACCACCTGCT
1 TCCCCAACACTCCACGCTACCACCTG-T
*
4891028 TCCCCAACACTTCACGCTACCACCTGT
1 TCCCCAACACTCCACGCTACCACCTGT
*
4891055 TGCCCCAACATTCCA
1 T-CCCCAACACTCCA
4891070 TGCCACCATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.23, C:0.50, G:0.07, T:0.20
Consensus pattern (27 bp):
TCCCCAACACTCCACGCTACCACCTGT
Found at i:4892457 original size:171 final size:173
Alignment explanation
Indices: 4892164--4892508 Score: 660
Period size: 171 Copynumber: 2.0 Consensus size: 173
4892154 TTTAATTATG
4892164 TTCGATTCTATGCATTGCTTTTTTATGTTTATGTTTATTTGGTTTTGCTTTATTTTATTTTATTT
1 TTCGATTCTATGCATTGCTTTTTTATGTTTATGTTTATTTGGTTTTGCTTTATTTTATTTTATTT
4892229 ATTTACCATTAACTTTTATTTTATCGCTCCTAATTATTATATGATCTTGTGGTGACCCGATCCGA
66 ATTTACCATTAACTTTTATTTTATCGCTCCTAATTATTATATGATCTTGTGGTGACCCGATCCGA
4892294 GTATGACATGCATTATTACAATCCAGACTTTACTAATTTCTAAC
131 GTATGACATGCA-TATTACAATCCAGACTTTACTAATTTCTAAC
4892338 TTCGA-TCTATGCATTGC-TTTTTATGTTTATGTTTATTTGGTTTTGCTTTA-TTTATTTTATTT
1 TTCGATTCTATGCATTGCTTTTTTATGTTTATGTTTATTTGGTTTTGCTTTATTTTATTTTATTT
4892400 ATTTACCATTAACTTTTATTTTATCGCTCCTAATTATTATATGATCTTGTGGTGACCCGATCCGA
66 ATTTACCATTAACTTTTATTTTATCGCTCCTAATTATTATATGATCTTGTGGTGACCCGATCCGA
4892465 GTATGACATGCATATTACAATCCAGACTTTACTAATTTCTAAC
131 GTATGACATGCATATTACAATCCAGACTTTACTAATTTCTAAC
4892508 T
1 T
4892509 CTAACCATTT
Statistics
Matches: 171, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
170 32 0.19
171 89 0.52
172 33 0.19
173 12 0.07
174 5 0.03
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.50
Consensus pattern (173 bp):
TTCGATTCTATGCATTGCTTTTTTATGTTTATGTTTATTTGGTTTTGCTTTATTTTATTTTATTT
ATTTACCATTAACTTTTATTTTATCGCTCCTAATTATTATATGATCTTGTGGTGACCCGATCCGA
GTATGACATGCATATTACAATCCAGACTTTACTAATTTCTAAC
Found at i:4892727 original size:14 final size:14
Alignment explanation
Indices: 4892708--4892739 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4892698 ACTAACTTTT
4892708 CTAACCACTAACCG
1 CTAACCACTAACCG
4892722 CTAACCACTAACCG
1 CTAACCACTAACCG
4892736 CTAA
1 CTAA
4892740 TTTTTATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.41, G:0.06, T:0.16
Consensus pattern (14 bp):
CTAACCACTAACCG
Found at i:4892943 original size:14 final size:14
Alignment explanation
Indices: 4892924--4892959 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4892914 TTTTTATTTA
*
4892924 TTTAATTTCAATCC
1 TTTAATTTCAATAC
*
4892938 TTTAATTTCATTAC
1 TTTAATTTCAATAC
4892952 TTTAATTT
1 TTTAATTT
4892960 ACTAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAATAC
Found at i:4896231 original size:2 final size:2
Alignment explanation
Indices: 4896224--4896257 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4896214 TATTATTTAA
*
4896224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4896258 GACTAAGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4897534 original size:3 final size:3
Alignment explanation
Indices: 4897526--4897610 Score: 122
Period size: 3 Copynumber: 29.0 Consensus size: 3
4897516 GGTCTATTTG
* *
4897526 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4897574 TAA TAA TAA TAA -ACA -AA TAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
4897611 AAACAAAATG
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
2 4 0.05
3 71 0.95
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:4898253 original size:112 final size:113
Alignment explanation
Indices: 4898091--4898305 Score: 353
Period size: 112 Copynumber: 1.9 Consensus size: 113
4898081 TGATAGCGTC
* * *
4898091 GGTTGAAAAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
1 GGTTGAAAAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATG
4898156 AACTCTT-TC-GGAAATGTTGATCCATTGAATGATGGATTCGAGCGAAA
66 AACTCTTCTCTGG-AATGTTGATCCATTGAATGATGGATTCGAGCGAAA
* * *
4898203 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCTTTCTTCAGATGAGTTCTTCTCATTATG
1 GGTTGAAAAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATG
4898268 AACTCTTCTCTGGAATGTTGATCCATTGAATGATGGAT
66 AACTCTTCTCTGGAATGTTGATCCATTGAATGATGGAT
4898306 CCTTCTTCAG
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
112 66 0.69
113 27 0.28
114 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (113 bp):
GGTTGAAAAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATG
AACTCTTCTCTGGAATGTTGATCCATTGAATGATGGATTCGAGCGAAA
Found at i:4898413 original size:181 final size:178
Alignment explanation
Indices: 4898126--4898456 Score: 511
Period size: 181 Copynumber: 1.8 Consensus size: 178
4898116 AATTTTTTCT
* * * *
4898126 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCGGAAATGTTGATCCATTGAATGATGG
1 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCGGAAAAGTTGATCCATTCAATAATGA
* * *
4898191 ATTCGAGCGAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCTTTCTTCAGATGAGTT
66 ATTCGAGCAAAAGGTTGAACAAGTTATTCTCATTATGAACTT-TTATTCCTTCTTCAGATGAGTT
*
4898256 CTTCTCATTATGAACTCTTCTCTGGAATGTTGATCCATTGAATGATGGA
130 CTTCTCAGTATGAACTCTTCTCTGGAATGTTGATCCATTGAATGATGGA
*
4898305 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAAGTTGATGCA-TCAAGTAA
1 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTT-TC-GGAAAAGTTGATCCATTCAA-TAA
* *
4898369 TGAATTCGAGCAAAAGGTTGAACAATTTATTCTCATTATGAACTTTTCTTCCTTCTTCAGATGAG
63 TGAATTCGAGCAAAAGGTTGAACAAGTTATTCTCATTATGAACTTTTATTCCTTCTTCAGATGAG
*
4898434 TTGTTCTCAGTATGAACTCTTCT
128 TTCTTCTCAGTATGAACTCTTCT
4898457 AGAAATGTTG
Statistics
Matches: 137, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
179 37 0.27
180 44 0.32
181 56 0.41
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (178 bp):
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCGGAAAAGTTGATCCATTCAATAATGA
ATTCGAGCAAAAGGTTGAACAAGTTATTCTCATTATGAACTTTTATTCCTTCTTCAGATGAGTTC
TTCTCAGTATGAACTCTTCTCTGGAATGTTGATCCATTGAATGATGGA
Found at i:4899384 original size:22 final size:22
Alignment explanation
Indices: 4899359--4899435 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
4899349 CAATAAGTTT
*
4899359 TCATCTTTGAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
*
4899381 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
4899403 TCATCTTT--AAAGAATGTATCTA
1 TCATCTTTGAAAAG-A-GAATCTA
*
4899425 TAATCTTTGAA
1 TCATCTTTGAA
4899436 GAATGTAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
20 3 0.07
21 1 0.02
22 41 0.89
24 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:4899437 original size:22 final size:22
Alignment explanation
Indices: 4899383--4899442 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
4899373 AGAATTTATC
* *
4899383 ATCTTTGAAGAGA-GAATCTATC
1 ATCTTTGAAGA-ATGTATCTATA
*
4899405 ATCTTTAAAGAATGTATCTATA
1 ATCTTTGAAGAATGTATCTATA
4899427 ATCTTTGAAGAATGTA
1 ATCTTTGAAGAATGTA
4899443 GATGTAGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (22 bp):
ATCTTTGAAGAATGTATCTATA
Found at i:4899947 original size:54 final size:54
Alignment explanation
Indices: 4899799--4899940 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 54
4899789 ATAATCACTG
* * * *
4899799 GTTCGTAAAACATGTGAC-ACTATATTCATCATTTCTCGTGGCTTCTGCCCGGAT
1 GTTCGTAAAGCATTTGACAAC-ATATTCATCATTTCTTGTGGCTTCTGCCCAGAT
* * * * * * *
4899853 TTTCATAAAGCTTTTGATAACACATTCATCCTTTCTTGTGGCTTCTGGCCAGAT
1 GTTCGTAAAGCATTTGACAACATATTCATCATTTCTTGTGGCTTCTGCCCAGAT
4899907 GTTCGTAAAGCATTTGACAACATATTCATCATTT
1 GTTCGTAAAGCATTTGACAACATATTCATCATTT
4899941 TATGTGGTTT
Statistics
Matches: 70, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
54 68 0.97
55 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAGCATTTGACAACATATTCATCATTTCTTGTGGCTTCTGCCCAGAT
Found at i:4899960 original size:54 final size:53
Alignment explanation
Indices: 4899799--4899960 Score: 139
Period size: 54 Copynumber: 3.0 Consensus size: 53
4899789 ATAATCACTG
* * * * * *
4899799 GTTCGTAAAACATGTGAC-ACTATATTCATCATTTCTCGTGGCTTCTGCCCGGAT
1 GTTCGTAAAGCATTTGACAAC-ATATTCATCATTTCTTGTGGTTTTTG-CCAGAT
* * * * * * * *
4899853 TTTCATAAAGCTTTTGATAACACATTCATCCTTTCTTGTGGCTTCTGGCCAGAT
1 GTTCGTAAAGCATTTGACAACATATTCATCATTTCTTGTGG-TTTTTGCCAGAT
4899907 GTTCGTAAAGCATTTGACAACATATTCATCATTT-TATGTGGTTTTTGCACAGAT
1 GTTCGTAAAGCATTTGACAACATATTCATCATTTCT-TGTGGTTTTTGC-CAGAT
4899961 TTCTGATCAA
Statistics
Matches: 82, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
53 6 0.07
54 72 0.88
55 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (53 bp):
GTTCGTAAAGCATTTGACAACATATTCATCATTTCTTGTGGTTTTTGCCAGAT
Found at i:4906696 original size:14 final size:14
Alignment explanation
Indices: 4906677--4906706 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4906667 AAATGTAATT
*
4906677 ATGCAAAGATGAAA
1 ATGCAAAAATGAAA
4906691 ATGCAAAAATGAAA
1 ATGCAAAAATGAAA
4906705 AT
1 AT
4906707 ATAAATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.17, T:0.17
Consensus pattern (14 bp):
ATGCAAAAATGAAA
Found at i:4907006 original size:43 final size:43
Alignment explanation
Indices: 4906926--4907011 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
4906916 TCGTGCATCA
* *
4906926 AACAAAACTTTACATATAGGGGACAACTTTTAGTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* *
4906969 AACAAAACTTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
4907012 TCTAAAGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.30
Consensus pattern (43 bp):
AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:4909346 original size:2 final size:2
Alignment explanation
Indices: 4909339--4909370 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4909329 ATTTAAACAA
4909339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4909371 GACTAAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4909474 original size:27 final size:29
Alignment explanation
Indices: 4909422--4909478 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
4909412 ACTTAAATAT
4909422 ATCAAAAGTAATAACAAAATAAAATTATA
1 ATCAAAAGTAATAACAAAATAAAATTATA
* *
4909451 ATCAAAA-TAA-AAGAAATTAAAATTATA
1 ATCAAAAGTAATAACAAAATAAAATTATA
4909478 A
1 A
4909479 AATTAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 16 0.62
28 3 0.12
29 7 0.27
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.25
Consensus pattern (29 bp):
ATCAAAAGTAATAACAAAATAAAATTATA
Found at i:4910705 original size:3 final size:3
Alignment explanation
Indices: 4910697--4910796 Score: 145
Period size: 3 Copynumber: 34.0 Consensus size: 3
4910687 GGCCTGTTTG
4910697 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
4910743 TAA TAA T-A TAA TAA TAA TAAA TAAA TAA -AA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA
4910788 TAA TAA TAA
1 TAA TAA TAA
4910797 AATGAAAAAA
Statistics
Matches: 90, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
2 8 0.09
3 75 0.83
4 7 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4915953 original size:17 final size:17
Alignment explanation
Indices: 4915915--4915960 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
4915905 TAAACTTAAT
4915915 TAAAATAATTAAAACAAA
1 TAAAATAA-TAAAACAAA
4915933 -AAAATAATAAAA-AAA
1 TAAAATAATAAAACAAA
4915948 GTAAAAT-ATAAAA
1 -TAAAATAATAAAA
4915961 TAAACATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.12
16 11 0.42
17 12 0.46
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (17 bp):
TAAAATAATAAAACAAA
Found at i:4921626 original size:59 final size:58
Alignment explanation
Indices: 4921563--4921727 Score: 240
Period size: 59 Copynumber: 2.8 Consensus size: 58
4921553 CATTGATTTG
* *
4921563 AAGTGTTGTGAATCGAGAAAAGAAAATATGAACCCCTCTAGTGGGGCGTTGCTGATTCA
1 AAGTGTTGTGAATCGAGAAAAG-AAATGTTAACCCCTCTAGTGGGGCGTTGCTGATTCA
* * *
4921622 AAGTGTTGTGAATTGAGCAAAGGAAATGTTAACCCCTCTAGTGGGGCGTTGCTGATTTA
1 AAGTGTTGTGAATCGAG-AAAAGAAATGTTAACCCCTCTAGTGGGGCGTTGCTGATTCA
* *
4921681 AAGTGTTGTGAATCGAGGAAAAGAACTGTTAACCCCTCTGGTGGGGC
1 AAGTGTTGTGAATCGA-GAAAAGAAATGTTAACCCCTCTAGTGGGGC
4921728 TTAGTTTGTT
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
59 90 0.95
60 5 0.05
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (58 bp):
AAGTGTTGTGAATCGAGAAAAGAAATGTTAACCCCTCTAGTGGGGCGTTGCTGATTCA
Found at i:4921824 original size:39 final size:39
Alignment explanation
Indices: 4921745--4922230 Score: 679
Period size: 39 Copynumber: 12.5 Consensus size: 39
4921735 GTTTTAAGGA
* * *
4921745 AAACAATCTCAAGTGAGAT-AAAT-TTTTGGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCT-GTTTCGAGTG
* *
4921783 AAACTATCTCGAGCGAGATAAAATCTTCAGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
4921822 AAACTATCTCAAGCGAGATAAAATCTTCTATTTCGAATG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
4921861 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
**
4921900 AAACTATCTCAAGAAAGATAAAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
*
4921939 AAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * * * *
4921978 AAACTATCTCAAGTGAGATAAAATCTTCTGCTTCAAATA
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * * * *
4922017 AAACTACCCCAAGTGAGATAAAATCTTCTATTTCGGGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
4922056 AAACTATCTCAAGCGAGATAAAATCTTCTATTTTGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
4922095 AAACTATCTCAAGCAAGATAAAACCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * *
4922134 AAACTATCACAAGCGAGATAAAATCTTTTGTTTCGAGTA
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
4922173 AAACTATCTCAAGCGAGATAAAATCTTCTATTTTGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
*
4922212 AAACTATCTCAAACGAGAT
1 AAACTATCTCAAGCGAGAT
4922231 GTTGATCCCT
Statistics
Matches: 396, Mismatches: 50, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
38 16 0.04
39 378 0.95
40 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (39 bp):
AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
Found at i:4922394 original size:42 final size:42
Alignment explanation
Indices: 4922323--4922421 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
4922313 TTGTGGATAG
* *
4922323 CCCGAAGGACTT-ATCATCTTGCTCAAAAGACTTA-TAGATGA
1 CCCGAAGGACTTAAGCATCATGCTCAAAAGACTTACT-GATGA
* *
4922364 CCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGA
1 CCCGAAGGACTTAAGCATCATGCTCAAAAGACTTACTGATGA
4922406 CCCGAAGGACTTAAGC
1 CCCGAAGGACTTAAGC
4922422 TGATTCAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
41 11 0.22
42 39 0.76
43 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (42 bp):
CCCGAAGGACTTAAGCATCATGCTCAAAAGACTTACTGATGA
Found at i:4922514 original size:59 final size:59
Alignment explanation
Indices: 4922420--4922538 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 59
4922410 AAGGACTTAA
* * * *
4922420 GCTGATTCAAAGTGTTGTGAATAAAGCAAATGAAATGTTAACCCCTTTGGTGGGGCGTT
1 GCTGATTCAAAGTGTTATGAATAAAGCAAAGGAAATGTGAACCCCTCTGGTGGGGCGTT
**
4922479 GCTGATTCAAAGTGTTATGAATCTAGCAAAGGAAATGTGAACCCCTCTGGTGGGGCGTT
1 GCTGATTCAAAGTGTTATGAATAAAGCAAAGGAAATGTGAACCCCTCTGGTGGGGCGTT
4922538 G
1 G
4922539 TTTGTTTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (59 bp):
GCTGATTCAAAGTGTTATGAATAAAGCAAAGGAAATGTGAACCCCTCTGGTGGGGCGTT
Found at i:4927307 original size:11 final size:11
Alignment explanation
Indices: 4927271--4927318 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
4927261 TTAAAACAAA
4927271 AAAAATAAAA-
1 AAAAATAAAAT
4927281 AAAAAGTAAAAT
1 AAAAA-TAAAAT
4927293 ATAAAATAAACAT
1 A-AAAATAAA-AT
*
4927306 AAACATAAAAT
1 AAAAATAAAAT
4927317 AA
1 AA
4927319 GGACCTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
10 5 0.15
11 9 0.27
12 12 0.36
13 7 0.21
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:4930316 original size:15 final size:15
Alignment explanation
Indices: 4930296--4930325 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4930286 TATCACAATC
4930296 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
4930311 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
4930326 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:4935956 original size:31 final size:31
Alignment explanation
Indices: 4935915--4935974 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4935905 CGGAAGTAAC
*
4935915 ATTTTATTACAAATCGATAATGTTAGTGACT
1 ATTTTATTACAAATCGATAATATTAGTGACT
* * *
4935946 ATTTTGTTACATATCTATAATATTAGTGA
1 ATTTTATTACAAATCGATAATATTAGTGA
4935975 ACAATTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (31 bp):
ATTTTATTACAAATCGATAATATTAGTGACT
Found at i:4940838 original size:21 final size:21
Alignment explanation
Indices: 4940812--4940851 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4940802 CCGAAGTACC
*
4940812 ACATATATGTTCCAAAGGATT
1 ACATATATGTCCCAAAGGATT
*
4940833 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCAAAGGA
4940852 CCACGTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
ACATATATGTCCCAAAGGATT
Found at i:4941313 original size:2 final size:2
Alignment explanation
Indices: 4941306--4941350 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4941296 CTTATGCATT
4941306 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
4941348 TA T
1 TA T
4941351 CACTTATATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4941373 original size:14 final size:15
Alignment explanation
Indices: 4941312--4941374 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 15
4941302 CATTTATATA
4941312 TATATATATAT-A-T
1 TATATATATATCACT
4941325 ATATATATATAT-A-T
1 -TATATATATATCACT
4941339 ATATATATATATCACT
1 -TATATATATATCACT
* *
4941355 TATAT-TATTTCATT
1 TATATATATATCACT
4941369 TATATA
1 TATATA
4941375 CTAATTTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
14 37 0.84
15 6 0.14
16 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATATATATCACT
Found at i:4942437 original size:21 final size:21
Alignment explanation
Indices: 4942410--4942457 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
4942400 CCCTTGGTAA
4942410 CGATACTACCCTCCCAAGTAT
1 CGATACTACCCTCCCAAGTAT
* *
4942431 TGATACTACCCTCCCAGGTAT
1 CGATACTACCCTCCCAAGTAT
4942452 CGATAC
1 CGATAC
4942458 CCCTTGAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.35, G:0.12, T:0.25
Consensus pattern (21 bp):
CGATACTACCCTCCCAAGTAT
Found at i:4945611 original size:3 final size:3
Alignment explanation
Indices: 4945603--4945673 Score: 72
Period size: 3 Copynumber: 22.3 Consensus size: 3
4945593 GTTTAAGAAA
*
4945603 TAT TAT TAT TGATT TATT TATT TAT TAT TGT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-A-T TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4945652 TAT TAT TAT CT-T TGT TAT TAT T
1 TAT TAT TAT -TAT TAT TAT TAT T
4945674 TTTCGTAGTT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 47 0.77
4 11 0.18
5 2 0.03
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4947547 original size:64 final size:64
Alignment explanation
Indices: 4947468--4947615 Score: 242
Period size: 64 Copynumber: 2.3 Consensus size: 64
4947458 TGCAGCTTTT
* *
4947468 AGAGTCAATTTCAACTTCACAGGGAAGAATATTGGACTCAACAAACAACTTTCCAGTTTTATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGAATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* *
4947532 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGAATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* *
4947596 AGAGCCAGTTTCAACTTCAC
1 AGAGTCAATTTCAACTTCAC
4947616 GACAAAGGAT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 78 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAGCGAAGAATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
Found at i:4947758 original size:124 final size:124
Alignment explanation
Indices: 4947604--4948040 Score: 588
Period size: 124 Copynumber: 3.5 Consensus size: 124
4947594 TCAGAGCCAG
* * *
4947604 TTTCAACTTCACGACAAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTAGATTTCAAC
1 TTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTCTAGATTGGATTTCAAC
* *
4947669 TTCACGACGAAGGATATCCAATTTAAGGATCAACTTCACAACGAAGGGGTCATCCACGA
66 TTCACGACGAAGGATATCCAATTCAAGGATCAACTTCACAACGAAGGGGCCATCCACGA
* * * * * *
4947728 TTTCAACTTCACGACGAAGGATATTGTGCCCACTAGTAACGTTCATCTTTAAATTGGATTTCAAC
1 TTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTCTAGATTGGATTTCAAC
** * * * * *
4947793 TTCACGATAAAGGGTATCCAATTCAAGGCTCAACTTCACAACGAATGGACCATCCACAA
66 TTCACGACGAAGGATATCCAATTCAAGGATCAACTTCACAACGAAGGGGCCATCCACGA
* * * * * *
4947852 TTTCAACTTCACAACGAAGGATAT-GTGCCCACCAGAAATATTCATCTCAAGAATGGATTTCAAA
1 TTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTCTAGATTGGATTTCAAC
* *
4947916 TTCACGACGAAGGATATCCAATTCAAGGTTAAACTTCACAACGAAGGGGCCATCCACGA
66 TTCACGACGAAGGATATCCAATTCAAGGATCAACTTCACAACGAAGGGGCCATCCACGA
* * * * *
4947975 TTTCAACTTCACGACGAAAGATATCGTGCCCACAAGCAACATCCATCTCTATATTGGATTTTAAC
1 TTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTCTAGATTGGATTTCAAC
4948040 T
66 T
4948041 CAAAGGCAAT
Statistics
Matches: 267, Mismatches: 45, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
123 104 0.39
124 163 0.61
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (124 bp):
TTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTCTAGATTGGATTTCAAC
TTCACGACGAAGGATATCCAATTCAAGGATCAACTTCACAACGAAGGGGCCATCCACGA
Found at i:4948777 original size:124 final size:123
Alignment explanation
Indices: 4948532--4948919 Score: 467
Period size: 124 Copynumber: 3.1 Consensus size: 123
4948522 GGTCATCCAC
* ** * * * *
4948532 GATTTCAACTTCATGACGAAGGATAT-CATCTTCAAGGAAT-AATTTCATAACAAAGGGGCCATC
1 GATTTCAACTTCACGAAAAAGGATATCCA-ATTCAAGG-CTCAACTTCACAACAAAGGGGCCATC
* * * *
4948595 CACGATTGGATTTCAACTTCACGACGAAGGATATCGTGCCCGCCAGCAACATTTATCTCAAGACT
64 CAC-----GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACATTCATCTCAAGATT
*
4948660 GAATTTCAACTTCACGAAAAAGGATATCCAATTCAAGGCTCAA-TGTCACAATAAAGGGGCCATC
1 G-ATTTCAACTTCACGAAAAAGGATATCCAATTCAAGGCTCAACT-TCACAACAAAGGGGCCATC
*
4948724 CACGATTTCAACTTCACGACGAAGGATATCGTGCCCACTAGCAACATTCATCTCAAGATTT
64 CACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACATTCATCTCAAGA-TT
** * *
4948785 GATTTCAACTTCACGATTAAGGATATCCAATTCAAGTCTCAACTTCACAACGAAGGGGCCATCCA
1 GATTTCAACTTCACGAAAAAGGATATCCAATTCAAGGCTCAACTTCACAACAAAGGGGCCATCCA
* * * *
4948850 CGATTTCAACTTCACGATGAAGGATATCGTGACCACAAGCAACATCCATCTCTAGATT
66 CGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACATTCATCTCAAGATT
4948908 GGATTTCAACTT
1 -GATTTCAACTT
4948920 AAAGCCAATT
Statistics
Matches: 232, Mismatches: 21, Indels: 18
0.86 0.08 0.07
Matches are distributed among these distances:
123 2 0.01
124 171 0.74
125 3 0.01
128 3 0.01
129 51 0.22
130 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (123 bp):
GATTTCAACTTCACGAAAAAGGATATCCAATTCAAGGCTCAACTTCACAACAAAGGGGCCATCCA
CGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACATTCATCTCAAGATT
Found at i:4949769 original size:3 final size:3
Alignment explanation
Indices: 4949761--4949821 Score: 52
Period size: 3 Copynumber: 18.3 Consensus size: 3
4949751 GTTTAAAAAA
4949761 TAT TAT TAT TGAT TGATT TATT TATT TATT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT T-A-T TA-T TA-T TA-T TAT TAT TAT TAT TAT TAT
4949809 CT-T TAT TAT TAT T
1 -TAT TAT TAT TAT T
4949822 TTTCGCAGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
2 1 0.02
3 32 0.59
4 19 0.35
5 2 0.04
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4954741 original size:64 final size:64
Alignment explanation
Indices: 4954641--4954790 Score: 205
Period size: 64 Copynumber: 2.4 Consensus size: 64
4954631 TTTTGCAGCT
*
4954641 TTTAGAGTCAATTTC-ACTTCACAGTGAAGGATATTGGACTC-ACTAAACAACTTTCCAATTTCA
1 TTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAC-AAACAACTTTCCAATTTCA
* * * *
4954704 TTTAGAGTTAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAATAACTTTTCAGTTTCA
1 TTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAATTTCA
* * *
4954768 TTCAGAGCCAATTTTAACTTCAC
1 TTTAGAGTCAATTTCAACTTCAC
4954791 GATGAAGCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
63 14 0.18
64 60 0.79
65 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (64 bp):
TTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAATTTCA
Found at i:4954940 original size:92 final size:92
Alignment explanation
Indices: 4954783--4954974 Score: 330
Period size: 92 Copynumber: 2.1 Consensus size: 92
4954773 AGCCAATTTT
* *
4954783 AACTTCACGATGAAGCATATCGTGCCCACCAGCAACATTCATCTTTAGATTAGATTTAAACTTCA
1 AACTTCACGACGAAGAATATCGTGCCCACCAGCAACATTCATCTTTAGATTAGATTTAAACTTCA
4954848 CGACGAAGGATATCCAATTCAAGGATC
66 CGACGAAGGATATCCAATTCAAGGATC
* * *
4954875 AACTTCACGACGAAGAATATCGTGCCCACTAGCAACATTCATCTTTAGATTGGATTTCAACTTCA
1 AACTTCACGACGAAGAATATCGTGCCCACCAGCAACATTCATCTTTAGATTAGATTTAAACTTCA
*
4954940 CGACGAAGGATATCCAATTCAAGGCTC
66 CGACGAAGGATATCCAATTCAAGGATC
4954967 AACTTCAC
1 AACTTCAC
4954975 AAAGAAGTGG
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (92 bp):
AACTTCACGACGAAGAATATCGTGCCCACCAGCAACATTCATCTTTAGATTAGATTTAAACTTCA
CGACGAAGGATATCCAATTCAAGGATC
Found at i:4955760 original size:66 final size:66
Alignment explanation
Indices: 4955654--4955868 Score: 254
Period size: 66 Copynumber: 3.2 Consensus size: 66
4955644 ATCAGTTCCA
* *
4955654 GACGAAGGATATCCAATTCAATGCTCAATTTCACAACAAAGGTGCCATCCACGATTTTAACTTCA
1 GACGAAGGATATCCAATTCAATGCTCAACTTCACAACAAAGGGGCCATCCACGATTTTAACTTCA
*
4955719 T
66 C
*** * * **
4955720 GACGAAGGATATCGTCTTCAA-GGTACAACTTCAGAACAAAGGGGCCAGACACGATTGGATTTCA
1 GACGAAGGATATCCAATTCAATGCT-CAACTTCACAACAAAGGGGCCATCCACGA-T---TTT-A
4955784 ACTTCAC
60 ACTTCAC
* *
4955791 GA-GTAGGATATCCAATTCAATGCTCAACTTCACAACGAAGGGGCCATCCACGATTTTAACTTCA
1 GACGAAGGATATCCAATTCAATGCTCAACTTCACAACAAAGGGGCCATCCACGATTTTAACTTCA
4955855 C
66 C
4955856 GACGAAGGATATC
1 GACGAAGGATATC
4955869 ATGCCCACCA
Statistics
Matches: 121, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
65 12 0.10
66 54 0.45
67 1 0.01
69 1 0.01
70 42 0.35
71 11 0.09
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (66 bp):
GACGAAGGATATCCAATTCAATGCTCAACTTCACAACAAAGGGGCCATCCACGATTTTAACTTCA
C
Found at i:4956646 original size:31 final size:31
Alignment explanation
Indices: 4956622--4956825 Score: 372
Period size: 31 Copynumber: 6.6 Consensus size: 31
4956612 CCATAGATTT
* *
4956622 CGAAGAACCTAGGTAATCAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
4956653 CGAAGAACATAGGTAAACAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
*
4956684 CGAAGAACATAGGTAAACAGTCCATATATCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
*
4956715 CGAAGAACATAGGTAAACATTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
4956746 CGAAGAACATAGGTAAACAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
4956777 CGAAGAACATAGGTAAACAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
4956808 CGAAGAACATAGGTAAAC
1 CGAAGAACATAGGTAAAC
4956826 CCTCGACCCT
Statistics
Matches: 167, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 167 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CGAAGAACATAGGTAAACAGTCCATATGTCC
Found at i:4959518 original size:124 final size:124
Alignment explanation
Indices: 4959280--4959657 Score: 533
Period size: 124 Copynumber: 3.0 Consensus size: 124
4959270 CGATTTGAAA
* *
4959280 TTTACGACGAAGGATAT-CATCTTCAAGGCACAACTTCACAACGAAGGGGCCATCCACGATTGGA
1 TTTACGACGAAGGATATCCA-ATTCAAGGCTCAACTTCACAACGAAGGGGCCAT-C-C--TT-GA
* * **
4959344 TTTCAACTTCACAACGAAGGATATCGTTCTCACCAATAACATTCATCTCAAGATTGAATTTCAAC
60 TTTCAACTTCACGACGAAGGATATCGTTCCCACCAGCAACATTCATCTCAAGATTGAATTTCAAC
* *
4959409 TTTACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACAAATGGGCCATCCTTGATTTCAA
1 TTTACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCTTGATTTCAA
*
4959474 CTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTCAAGATTGAATTTCAAC
66 CTTCACGACGAAGGATATCGTTCCCACCAGCAACATTCATCTCAAGATTGAATTTCAAC
* * * *
4959533 TTCACGACGAAGGATATCCAATTCAAGCCTCAACTTCACAACGAAGGGGCCATCCATAATTTCAA
1 TTTACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCTTGATTTCAA
* * * * *
4959598 CTTCATGACGAAGGATATCGTTCCCACAAGCAACATCCATCTCTAGATTGGATTTCAAC
66 CTTCACGACGAAGGATATCGTTCCCACCAGCAACATTCATCTCAAGATTGAATTTCAAC
4959657 T
1 T
4959658 CAAATCCAAT
Statistics
Matches: 227, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
124 175 0.77
125 2 0.01
127 1 0.00
128 1 0.00
129 46 0.20
130 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (124 bp):
TTTACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCTTGATTTCAA
CTTCACGACGAAGGATATCGTTCCCACCAGCAACATTCATCTCAAGATTGAATTTCAAC
Found at i:4960509 original size:3 final size:3
Alignment explanation
Indices: 4960501--4960570 Score: 97
Period size: 3 Copynumber: 22.3 Consensus size: 3
4960491 TTTTAAAAAA
4960501 TAT TAT TAT TGAT TGATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT T-A-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4960549 TAT TAT TAT CT-T TAT TAT TAT T
1 TAT TAT TAT -TAT TAT TAT TAT T
4960571 TTTGCAAGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.02
3 53 0.84
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4961704 original size:20 final size:21
Alignment explanation
Indices: 4961666--4961704 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
4961656 GTCTGAATTT
* *
4961666 TTTTTTTTGTTATTGTTTTCC
1 TTTTTTTTGTTAATATTTTCC
4961687 TTTTTTTT-TTAATATTTT
1 TTTTTTTTGTTAATATTTT
4961705 TCATTATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.79
Consensus pattern (21 bp):
TTTTTTTTGTTAATATTTTCC
Found at i:4965481 original size:64 final size:64
Alignment explanation
Indices: 4965381--4965530 Score: 207
Period size: 64 Copynumber: 2.4 Consensus size: 64
4965371 TTTTGCAGCT
*
4965381 TTTAGAGTCAATTTC-ACTTCACAGTGAAGGATATTGGACTC-ACTAAACAACTTTCCAATTTCA
1 TTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAC-AAACAACTTTCCAATTTCA
* * * *
4965444 TTTAGAGTTAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAATAACTTTTCAGTTTCA
1 TTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAATTTCA
*
4965508 TTCAGAG-CGAATTTCAACTTCAC
1 TTTAGAGTC-AATTTCAACTTCAC
4965531 GACGAAGCAT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
63 14 0.18
64 61 0.79
65 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (64 bp):
TTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAATTTCA
Found at i:4965678 original size:92 final size:92
Alignment explanation
Indices: 4965521--4965714 Score: 334
Period size: 92 Copynumber: 2.1 Consensus size: 92
4965511 AGAGCGAATT
*
4965521 TCAACTTCACGACGAAGCATATCGTGCCCACCAGCAACATTCATCTTTAGATTAGATTTAAACTT
1 TCAACTTCACGACGAAGAATATCGTGCCCACCAGCAACATTCATCTTTAGATTAGATTTAAACTT
4965586 CACGACAAAGGATATCCAATTCAAGGA
66 CACGACAAAGGATATCCAATTCAAGGA
* * *
4965613 TCAACTTCACGACGAAGAATATCGTGCCCACTAGCAACATTCATCTTTAGATTGGATTTCAACTT
1 TCAACTTCACGACGAAGAATATCGTGCCCACCAGCAACATTCATCTTTAGATTAGATTTAAACTT
* *
4965678 CACGACGAAGGATATCCAATTCAAGGC
66 CACGACAAAGGATATCCAATTCAAGGA
4965705 TCAACTTCAC
1 TCAACTTCAC
4965715 AAAGAAGTGG
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 96 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (92 bp):
TCAACTTCACGACGAAGAATATCGTGCCCACCAGCAACATTCATCTTTAGATTAGATTTAAACTT
CACGACAAAGGATATCCAATTCAAGGA
Found at i:4965821 original size:66 final size:66
Alignment explanation
Indices: 4965667--4965825 Score: 246
Period size: 66 Copynumber: 2.4 Consensus size: 66
4965657 CTTTAGATTG
* *
4965667 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAAAGAAGTGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTAACAAAGAAGGGGCCATCCA
4965732 C
66 C
* * * * *
4965733 AATTTGAACTTCACAACAAAGGATATCCAATTCAAGGCTCAACTTAACAATGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTAACAAAGAAGGGGCCATCCA
4965798 C
66 C
*
4965799 GATTTCAACTTCACGATGAAGGATATC
1 GATTTCAACTTCACGACGAAGGATATC
4965826 GTGCCCACAA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 81 1.00
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (66 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTAACAAAGAAGGGGCCATCCA
C
Found at i:4967537 original size:3 final size:3
Alignment explanation
Indices: 4967529--4967588 Score: 59
Period size: 3 Copynumber: 18.3 Consensus size: 3
4967519 GTTTAAAAAA
4967529 TAT TAT TAT TGATT TATT TATT TATT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-A-T TA-T TA-T TA-T TAT TAT TAT TAT TAT TAT TAT
4967576 CT-T TAT TAT TAT T
1 -TAT TAT TAT TAT T
4967589 TTTCGTAGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
2 1 0.02
3 35 0.66
4 15 0.28
5 2 0.04
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4972923 original size:2 final size:2
Alignment explanation
Indices: 4972916--4972958 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4972906 AACATATAAC
4972916 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4972958 A
1 A
4972959 ATAACTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4973156 original size:2 final size:2
Alignment explanation
Indices: 4973149--4973188 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4973139 CATATGGCTC
4973149 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
4973189 ACCCATATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4977704 original size:18 final size:20
Alignment explanation
Indices: 4977680--4977728 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4977670 ATTTAACTAT
*
4977680 ATATATATTAAAAAGTATAAG
1 ATATATA-TAAAAACTATAAG
*
4977701 -TATATATATAAACTATAAG
1 ATATATATAAAAACTATAAG
4977720 ATATATATA
1 ATATATATA
4977729 CTTTAAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (20 bp):
ATATATATAAAAACTATAAG
Found at i:4977767 original size:42 final size:43
Alignment explanation
Indices: 4977691--4977782 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 43
4977681 TATATATTAA
* *
4977691 AAAGTAT-AAGTATATATATAAACTATAAGATATATATACTTT
1 AAAGTATAAAGTATATATATAAACTATAAGATATATAAACTAT
* *** *
4977733 AAAGTATAAAGTATATATATATA-TATACTCTATATAAAGTAT
1 AAAGTATAAAGTATATATATAAACTATAAGATATATAAACTAT
4977775 AAAGTATA
1 AAAGTATA
4977783 TATACATACA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 28 0.67
43 14 0.33
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (43 bp):
AAAGTATAAAGTATATATATAAACTATAAGATATATAAACTAT
Found at i:4977771 original size:35 final size:34
Alignment explanation
Indices: 4977732--4977917 Score: 200
Period size: 35 Copynumber: 5.5 Consensus size: 34
4977722 ATATATACTT
* * *
4977732 TAAAGTATAAAGTATATATATATATATACTCTATA
1 TAAAGTATAAAGTATATATACATATATAAT-AATA
*
4977767 TAAAGTATAAAGTATATATACATACATAATAATA
1 TAAAGTATAAAGTATATATACATATATAATAATA
* ** *
4977801 TAAAGTAT-AAGTAGATTATTTATATATAA-AGT-
1 TAAAGTATAAAGTATA-TATACATATATAATAATA
** *
4977833 TTTAGTATAAAGTGTATATACATATATAATAATA
1 TAAAGTATAAAGTATATATACATATATAATAATA
4977867 TAAAGTATATAAGTATATATACATATATAATTAATA
1 TAAAGTATA-AAGTATATATACATATATAA-TAATA
*
4977903 TAAAGTA-CAAGTATA
1 TAAAGTATAAAGTATA
4977918 AGTATATTAT
Statistics
Matches: 125, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
32 17 0.14
33 15 0.12
34 35 0.28
35 46 0.37
36 12 0.10
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (34 bp):
TAAAGTATAAAGTATATATACATATATAATAATA
Found at i:4977851 original size:101 final size:104
Alignment explanation
Indices: 4977735--4977933 Score: 289
Period size: 101 Copynumber: 1.9 Consensus size: 104
4977725 TATACTTTAA
* * *
4977735 AGTATAAAGTATATATATATATATACTCTATATAAAGTATA-AAGTATATATACATACATAA-TA
1 AGTATAAAGTATATATACATATATAAT-AATATAAAGTATATAAGTATATATACATACATAATTA
* * *
4977798 ATATAAAGTATAAGTA-GATTAT-TTATATATAAAGTTTT
65 ATATAAAGTACAAGTATAAGTATATTATATATAAAGTTTT
* *
4977836 AGTATAAAGTGTATATACATATATAATAATATAAAGTATATAAGTATATATACATATATAATTAA
1 AGTATAAAGTATATATACATATATAATAATATAAAGTATATAAGTATATATACATACATAATTAA
4977901 TATAAAGTACAAGTATAAGTATATTATATATAA
66 TATAAAGTACAAGTATAAGTATATTATATATAA
4977934 TGTTGAAAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
100 12 0.14
101 43 0.50
102 17 0.20
103 4 0.05
104 10 0.12
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (104 bp):
AGTATAAAGTATATATACATATATAATAATATAAAGTATATAAGTATATATACATACATAATTAA
TATAAAGTACAAGTATAAGTATATTATATATAAAGTTTT
Found at i:4977883 original size:25 final size:25
Alignment explanation
Indices: 4977846--4977893 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
4977836 AGTATAAAGT
4977846 GTATATACATATATAATA-ATATAAA
1 GTATATACATATAT-ATACATATAAA
4977871 GTATATA-AGTATATATACATATA
1 GTATATACA-TATATATACATATA
4977894 TAATTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (25 bp):
GTATATACATATATATACATATAAA
Found at i:4984513 original size:17 final size:17
Alignment explanation
Indices: 4984480--4984512 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4984470 AAAACACAAA
4984480 AAATTTTCAGAAATTTT
1 AAATTTTCAGAAATTTT
4984497 AAATTTTC-GAAATTTT
1 AAATTTTCAGAAATTTT
4984513 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AAATTTTCAGAAATTTT
Found at i:4987550 original size:22 final size:21
Alignment explanation
Indices: 4987525--4987582 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
4987515 AATAAAAAGT
4987525 ATAATTATAAAGACTAAAGTAC
1 ATAATTATAAAGA-TAAAGTAC
* * *
4987547 ATAAGTATATAATATAAAGTAT
1 ATAATTATA-AAGATAAAGTAC
4987569 ATAAGTATATAAAG
1 ATAA-T-TATAAAG
4987583 TTTATATACA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 19 0.68
23 5 0.18
24 4 0.14
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.31
Consensus pattern (21 bp):
ATAATTATAAAGATAAAGTAC
Found at i:4987558 original size:8 final size:8
Alignment explanation
Indices: 4987541--4987914 Score: 110
Period size: 8 Copynumber: 49.2 Consensus size: 8
4987531 ATAAAGACTA
*
4987541 AAGTACAT
1 AAGTATAT
4987549 AAGTATAT
1 AAGTATAT
4987557 AA-TATA-
1 AAGTATAT
4987563 AAGTATAT
1 AAGTATAT
4987571 AAGTATAT
1 AAGTATAT
4987579 AAAGTTTATAT
1 -AAG--TATAT
4987590 ACA-TATAT
1 A-AGTATAT
4987598 AA-TAATAT
1 AAGT-ATAT
4987606 AA--ACTAT
1 AAGTA-TAT
4987613 AAG--TAT
1 AAGTATAT
4987619 AAGTATAT
1 AAGTATAT
*
4987627 TA-TATAT
1 AAGTATAT
4987634 AA--A-A-
1 AAGTATAT
4987638 AAGTATAT
1 AAGTATAT
*
4987646 --TTATA-
1 AAGTATAT
4987651 AAG-ACTA-
1 AAGTA-TAT
4987658 AAGTATAT
1 AAGTATAT
4987666 AAGTATAT
1 AAGTATAT
*
4987674 AAATATA-
1 AAGTATAT
4987681 AAGTATAT
1 AAGTATAT
4987689 ATACGTATAT
1 A-A-GTATAT
4987699 AA-TAATAT
1 AAGT-ATAT
4987707 AAAGTATAT
1 -AAGTATAT
4987716 AAGTATAT
1 AAGTATAT
*
4987724 AAGCAT-T
1 AAGTATAT
*
4987731 AA--ATTT
1 AAGTATAT
*
4987737 AAGTGTAT
1 AAGTATAT
*
4987745 ATGTATAT
1 AAGTATAT
4987753 -A-TATA-
1 AAGTATAT
4987758 AAGT-T-T
1 AAGTATAT
*
4987764 TAGTATAAT
1 AAGTAT-AT
**
4987773 GTGTATAT
1 AAGTATAT
* *
4987781 ATATTGTACAC
1 A-A--GTATAT
*
4987792 ACGTATAT
1 AAGTATAT
*
4987800 AA-TAACAT
1 AAGT-ATAT
4987808 AAAGTATAT
1 -AAGTATAT
*
4987817 GAGTAT-T
1 AAGTATAT
*
4987824 AAATATA-
1 AAGTATAT
4987831 AAGTATAT
1 AAGTATAT
4987839 -A-TATAT
1 AAGTATAT
4987845 -A-TATAAT
1 AAGTAT-AT
4987852 AA-TATA-
1 AAGTATAT
4987858 AAGTATAT
1 AAGTATAT
4987866 AAGTATAT
1 AAGTATAT
4987874 ATA-TATAT
1 A-AGTATAT
4987882 AAAGT-T-T
1 -AAGTATAT
*
4987889 TAGTATA-
1 AAGTATAT
4987896 AAGTATAT
1 AAGTATAT
4987904 AAGTAATAT
1 AAGT-ATAT
4987913 AA
1 AA
4987915 AGTGTATATA
Statistics
Matches: 280, Mismatches: 32, Indels: 107
0.67 0.08 0.26
Matches are distributed among these distances:
4 2 0.01
5 3 0.01
6 42 0.15
7 69 0.25
8 113 0.40
9 30 0.11
10 10 0.04
11 11 0.04
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (8 bp):
AAGTATAT
Found at i:4987590 original size:19 final size:17
Alignment explanation
Indices: 4987558--4987725 Score: 55
Period size: 17 Copynumber: 9.4 Consensus size: 17
4987548 TAAGTATATA
4987558 ATATAAAGTATATA-AGT
1 ATATAAAGTATATACA-T
4987575 ATATAAAGTTTATATACAT
1 ATATAAAG--TATATACAT
* *
4987594 ATATAATAATATAAAC-T
1 ATATAA-AGTATATACAT
*
4987611 ATAAGTATAAGTATATTATAT
1 AT-A-TA-AAGTATA-TACAT
* * *
4987632 ATAAAAAAGTATATTTATAA
1 AT-ATAAAGTATA--TACAT
*
4987652 AGACTAAAGTATATA-AGT
1 ATA-TAAAGTATATACA-T
4987670 ATATAAA-TATA-A-AGT
1 ATATAAAGTATATACA-T
*
4987685 ATATATACGTATATA-AT
1 ATATA-AAGTATATACAT
4987702 AATATAAAGTATATA-AGT
1 -ATATAAAGTATATACA-T
4987720 ATATAA
1 ATATAA
4987726 GCATTAAATT
Statistics
Matches: 121, Mismatches: 13, Indels: 34
0.72 0.08 0.20
Matches are distributed among these distances:
15 9 0.07
16 5 0.04
17 36 0.30
18 19 0.16
19 28 0.23
20 19 0.16
21 5 0.04
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (17 bp):
ATATAAAGTATATACAT
Found at i:4987699 original size:27 final size:25
Alignment explanation
Indices: 4987539--4987930 Score: 156
Period size: 27 Copynumber: 15.8 Consensus size: 25
4987529 TTATAAAGAC
*
4987539 TAAAGTACATAAG--TAT-ATAATA
1 TAAAGTATATAAGTATATAATAATA
*
4987561 TAAAGTATATAAGTATATAAAGTTTATA
1 TAAAGTATATAAGTATAT-AA--TAATA
* *
4987589 TACA-TATATAA-TAATATAA-ACTA
1 TAAAGTATATAAGT-ATATAATAATA
*
4987612 T-AAG--TATAAGTATATTATATATAA
1 TAAAGTATATAAGTATATAATA-AT-A
* *
4987636 AAAAGTATAT---T-TATAA-AGA-C
1 TAAAGTATATAAGTATATAATA-ATA
4987656 TAAAGTATATAAGTATAT-A-AATA
1 TAAAGTATATAAGTATATAATAATA
4987679 TAAAGTATATATACGTATATAATAATA
1 TAAAGTATATA-A-GTATATAATAATA
**
4987706 TAAAGTATATAAGTATATAAGCAT-
1 TAAAGTATATAAGTATATAATAATA
*
4987730 TAAA-T-T-TAAGTGTATATGTATATATA
1 TAAAGTATATAA--GTATAT-AATA-ATA
* **
4987756 TAAAGT-T-TTAGTATAATGTGTATATA
1 TAAAGTATATAAGTAT-AT-AATA-ATA
** * * * *
4987782 TATTGTACACACGTATATAATAACA
1 TAAAGTATATAAGTATATAATAATA
*
4987807 TAAAGTATATGAGTAT-T-A-AATA
1 TAAAGTATATAAGTATATAATAATA
*
4987829 TAAAGTATATATATATATATAATAATA
1 TAAAGTATATA-A-GTATATAATAATA
4987856 TAAAGTATATAAGTATAT-ATATATA
1 TAAAGTATATAAGTATATAATA-ATA
4987881 TAAAGTTTTAGTATAAAGTATATAAGTAATA
1 TAAAG---TA-TAT-AAGTATATAA-TAATA
*
4987912 TAAAGTGTATATA-TATATA
1 TAAAGTATATA-AGTATATA
4987931 TATACTTATA
Statistics
Matches: 282, Mismatches: 41, Indels: 90
0.68 0.10 0.22
Matches are distributed among these distances:
20 9 0.03
21 13 0.05
22 32 0.11
23 31 0.11
24 21 0.07
25 51 0.18
26 35 0.12
27 54 0.19
28 14 0.05
29 3 0.01
30 8 0.03
31 9 0.03
32 2 0.01
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (25 bp):
TAAAGTATATAAGTATATAATAATA
Found at i:4987894 original size:31 final size:31
Alignment explanation
Indices: 4987818--4987917 Score: 89
Period size: 33 Copynumber: 3.1 Consensus size: 31
4987808 AAAGTATATG
4987818 AGTATTAAA-TATAAAGTATATATATATATATAA
1 AGTA-TAAAGTATAAAG--TATATATATATATAA
*
4987851 TAATATAAAGTATATAAGTATATATATATATAA
1 -AGTATAAAGTATA-AAGTATATATATATATAA
**
4987884 AGT-TTTAGTATAAAGTATATA-AGTAATATAA
1 AGTATAAAGTATAAAGTATATATA-T-ATATAA
4987915 AGT
1 AGT
4987918 GTATATATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
29 1 0.02
30 10 0.17
31 16 0.28
32 2 0.03
33 19 0.33
34 7 0.12
35 3 0.05
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (31 bp):
AGTATAAAGTATAAAGTATATATATATATAA
Found at i:4988088 original size:26 final size:26
Alignment explanation
Indices: 4988057--4988266 Score: 136
Period size: 26 Copynumber: 8.2 Consensus size: 26
4988047 ACTAAAACTT
4988057 TATATATATATATACTTTATAGTTTA
1 TATATATATATATACTTTATAGTTTA
* *
4988083 TTTATATACT-TTTACTTTATAGTTTA
1 TATATATA-TATATACTTTATAGTTTA
** * **
4988109 TATATATATATGTATA-TACATACATACA
1 TATATATATA--TATACTTTATA-GTTTA
* * *
4988137 TACATATATATATA-TATATA-TATA
1 TATATATATATATACTTTATAGTTTA
*
4988161 TATATATATATATATTTTATAGTTTA
1 TATATATATATATACTTTATAGTTTA
4988187 TATATACT-TATATA-TTTAT-GTTTA
1 TATATA-TATATATACTTTATAGTTTA
* *
4988211 -A-ACTATATA-A-ACTATATAATTTA
1 TATA-TATATATATACTTTATAGTTTA
* * *
4988234 TACATTGTATATATAATTTATAGTTTA
1 TATA-TATATATATACTTTATAGTTTA
4988261 TATATA
1 TATATA
4988267 GTTTATATTA
Statistics
Matches: 144, Mismatches: 24, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
21 1 0.01
22 7 0.05
23 9 0.06
24 22 0.15
25 17 0.12
26 55 0.38
27 19 0.13
28 14 0.10
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.51
Consensus pattern (26 bp):
TATATATATATATACTTTATAGTTTA
Found at i:4988219 original size:2 final size:2
Alignment explanation
Indices: 4987834--4988201 Score: 124
Period size: 2 Copynumber: 180.5 Consensus size: 2
4987824 AAATATAAAG
*
4987834 TA TA TA TA TA TA TA TA -A TA -A TA TA AA GTA TA TA -A GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA
* * * *
4987875 TA TA TA TA AA GT- TT TA GTA TA AA GTA TA TA -A GTA -A TA TA AA
1 TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA
* *
4987916 GTG TA TA TA TA TA TA TA TA CT- TA TA CT- TA TA CTT 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
* * * *
4987958 CA TA CTT TA TA GTT TA TA TA TA TA CT- TA TA TA CA T- TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* *
4987999 TA TA -A TA TA CT- TA TA CTT TA TA T- TA T- TA TA TA TG 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
* * * * *
4988039 TA CTT TA TA CTA -A AA CTT TA TA TA TA TA TA TA CTT TA TA GTT TA
1 TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * * *
4988083 TT TA TA TA CT- TT TA CTT TA TA GTT TA TA TA TA TA TA TG TA TA
1 TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * *
4988125 TA CA TA CA TA CA TA CA 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
* *
4988167 TA TA TA TA T- TT TA TA GTT TA TA TA TA CT- TA TA TA T
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA T
4988202 TTATGTTTAA
Statistics
Matches: 269, Mismatches: 54, Indels: 86
0.66 0.13 0.21
Matches are distributed among these distances:
1 18 0.07
2 227 0.84
3 24 0.09
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4988248 original size:20 final size:18
Alignment explanation
Indices: 4988223--4988321 Score: 71
Period size: 20 Copynumber: 5.3 Consensus size: 18
4988213 CTATATAAAC
4988223 TATATAATTTATACATTGTA
1 TATATAATTTATA-ATT-TA
*
4988243 TATATAATTTATAGTTTA
1 TATATAATTTATAATTTA
*
4988261 TATATAGTTTAT-A-TTA
1 TATATAATTTATAATTTA
*
4988277 -ATA-AACTATATAATTTA
1 TATATAA-TTTATAATTTA
4988294 TATTAATAAATTATATAATTTA
1 TA-T-AT-AATT-TATAATTTA
*
4988316 CATATA
1 TATATA
4988322 GTTCAATAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
14 1 0.02
15 7 0.11
16 4 0.06
17 3 0.05
18 14 0.22
19 4 0.06
20 16 0.25
21 2 0.03
22 12 0.19
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TATATAATTTATAATTTA
Found at i:4988262 original size:18 final size:17
Alignment explanation
Indices: 4988143--4988275 Score: 86
Period size: 18 Copynumber: 7.4 Consensus size: 17
4988133 TACATACATA
* *
4988143 TATATATATATATATATA
1 TATATTTATATATA-ATT
* *
4988161 TATATATATATATATTT
1 TATATTTATATATAATT
*
4988178 TATAGTTTATATATACTT
1 TATA-TTTATATATAATT
* * **
4988196 ATATATTTATGTTTAAAC
1 -TATATTTATATATAATT
**
4988214 TATATAAACTATATAATT
1 TATATTTA-TATATAATT
4988232 TATACATTGTATATATAATT
1 TAT--ATT-TATATATAATT
*
4988252 TATAGTTTATATATAGTT
1 TATA-TTTATATATAATT
4988270 TATATT
1 TATATT
4988276 AATAAACTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
17 13 0.14
18 56 0.62
19 6 0.07
20 14 0.16
21 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (17 bp):
TATATTTATATATAATT
Found at i:4988286 original size:22 final size:22
Alignment explanation
Indices: 4988261--4988315 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
4988251 TTATAGTTTA
*
4988261 TATATAGTTTATATTAATAAAC
1 TATATAATTTATATTAATAAAC
*
4988283 TATATAATTTATATTAATAAAT
1 TATATAATTTATATTAATAAAC
4988305 TATATAATTTA
1 TATATAATTTA
4988316 CATATAGTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TATATAATTTATATTAATAAAC
Found at i:4988888 original size:54 final size:55
Alignment explanation
Indices: 4988822--4988951 Score: 199
Period size: 54 Copynumber: 2.4 Consensus size: 55
4988812 TTCCATGATT
* *
4988822 TTGCACATATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCGT-GGA
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCGTGGGA
* *
4988876 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTTGTGGGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCGTGGGA
* *
4988931 TTGCACACACAGTTCCAATAC
1 TTGCACACATAGTGCCAATAC
4988952 ATAAATTACA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 48 0.70
55 21 0.30
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (55 bp):
TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCGTGGGA
Found at i:4991488 original size:18 final size:18
Alignment explanation
Indices: 4991445--4991489 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4991435 TAGTTTGATT
*
4991445 AATGAACAAACATTATTC
1 AATGAACTAACATTATTC
*
4991463 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
4991481 AATGAACTA
1 AATGAACTA
4991490 GATGCATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.31
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:4992205 original size:20 final size:20
Alignment explanation
Indices: 4992171--4992217 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4992161 CTATATTTGG
*
4992171 GGTAT-TATTGTTTATACAT
1 GGTATATATAGTTTATACAT
*
4992190 GGTATATATAGTTTATATAT
1 GGTATATATAGTTTATACAT
*
4992210 AGTATATA
1 GGTATATA
4992218 ATAATATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (20 bp):
GGTATATATAGTTTATACAT
Found at i:4996012 original size:17 final size:17
Alignment explanation
Indices: 4995990--4996028 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
4995980 TAAATCAAAT
4995990 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
4996007 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
4996024 -AATTA
1 TAATTA
4996029 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:4996907 original size:16 final size:16
Alignment explanation
Indices: 4996878--4996911 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4996868 TCAATTCTAA
*
4996878 TAATTTGGTAAATAAT
1 TAATTAGGTAAATAAT
*
4996894 TAATTAGGTTAATAAT
1 TAATTAGGTAAATAAT
4996910 TA
1 TA
4996912 GAGCCTTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
TAATTAGGTAAATAAT
Found at i:4998107 original size:32 final size:31
Alignment explanation
Indices: 4998029--4998117 Score: 124
Period size: 31 Copynumber: 2.8 Consensus size: 31
4998019 GTCTTGTAGA
* * * *
4998029 GGTTTGTATACTTGTCAATTGATTAAAATAT
1 GGTTTGTGTGCTTGTCAATTGATTAAAACAG
*
4998060 GGTTTATGTGCTTGTCAATTGATTAAAACAG
1 GGTTTGTGTGCTTGTCAATTGATTAAAACAG
4998091 GAGTTTGTGTGCTTGTCAATTGATTAA
1 G-GTTTGTGTGCTTGTCAATTGATTAA
4998118 GAAAAATTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 27 0.53
32 24 0.47
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (31 bp):
GGTTTGTGTGCTTGTCAATTGATTAAAACAG
Found at i:4998640 original size:13 final size:13
Alignment explanation
Indices: 4998622--4998648 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4998612 TTCAATGATA
4998622 ATTATTTGTCTTG
1 ATTATTTGTCTTG
4998635 ATTATTTGTCTTG
1 ATTATTTGTCTTG
4998648 A
1 A
4998649 GTTGTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.07, G:0.15, T:0.59
Consensus pattern (13 bp):
ATTATTTGTCTTG
Found at i:5000407 original size:7 final size:7
Alignment explanation
Indices: 5000391--5000447 Score: 73
Period size: 7 Copynumber: 8.4 Consensus size: 7
5000381 TAACATGGAT
5000391 TTTA-GG
1 TTTAGGG
5000397 TTTAGGG
1 TTTAGGG
5000404 TTTAGGG
1 TTTAGGG
5000411 TTTAGGG
1 TTTAGGG
5000418 TTTA-GG
1 TTTAGGG
*
5000424 TTTAGAG
1 TTTAGGG
*
5000431 TTTAGGA
1 TTTAGGG
*
5000438 TTTAAGG
1 TTTAGGG
5000445 TTT
1 TTT
5000448 GATACCAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
6 10 0.23
7 34 0.77
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:5000423 original size:27 final size:27
Alignment explanation
Indices: 5000391--5000447 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
5000381 TAACATGGAT
* * *
5000391 TTTAGGTTTAGGGTTTAGGGTTTAGGG
1 TTTAGGTTTAGAGTTTAGGATTTAAGG
5000418 TTTAGGTTTAGAGTTTAGGATTTAAGG
1 TTTAGGTTTAGAGTTTAGGATTTAAGG
5000445 TTT
1 TTT
5000448 GATACCAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.47
Consensus pattern (27 bp):
TTTAGGTTTAGAGTTTAGGATTTAAGG
Found at i:5002012 original size:53 final size:53
Alignment explanation
Indices: 5001931--5002037 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 53
5001921 ACATCTTGAT
* * *
5001931 TCAATAGCTCCTAAATCTTTCCTAGTCTTCACTTCAGATATTCTTCTCATTTG
1 TCAATAACTCCCAAATCTTTCCTAGTCTTCACTTCAGACATTCTTCTCATTTG
* *
5001984 TCAATAACTCCCAAATCTTTCTTGGTCTTCACTTCAGACATTCTTCTCATTTG
1 TCAATAACTCCCAAATCTTTCCTAGTCTTCACTTCAGACATTCTTCTCATTTG
5002037 T
1 T
5002038 GATTGACTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.22, C:0.27, G:0.07, T:0.43
Consensus pattern (53 bp):
TCAATAACTCCCAAATCTTTCCTAGTCTTCACTTCAGACATTCTTCTCATTTG
Found at i:5008078 original size:237 final size:237
Alignment explanation
Indices: 5007663--5008127 Score: 894
Period size: 237 Copynumber: 2.0 Consensus size: 237
5007653 GTCTGGAAAT
5007663 GTTGATGACTTTTATGATGTACTGTACCTAAGGGTTATGAAAGTACATTGACAATTCCTGATATT
1 GTTGATGACTTTTATGATGTACTGTACCTAAGGGTTATGAAAGTACATTGACAATTCCTGATATT
*
5007728 GTTGAAATGTGGAAATGAAATAAAGACCATTGGAATATCTGTTCGTATTCTTAAGATATATTCAA
66 GTTGAAATGTGGAAATGAAATAAAGACCATTGGAATATCTGTTCGTATCCTTAAGATATATTCAA
5007793 CGATGATTCTGAAGGTGATCTATGGACAAGAAATATTGGTATTAAAGAGTGAATACCCTGGAAGG
131 CGATGATTCTGAAGGTGATCTATGGACAAGAAATATTGGTATTAAAGAGTGAATACCCTGGAAGG
*
5007858 GCAACGAATTGACCGGTCTACATGCATTAGTTCAGAATCATC
196 GCAACGAATTGACCGGTCGACATGCATTAGTTCAGAATCATC
5007900 GTTGATGACTTTTATGATGTACTGTACCTAAGGGTTATGAAAGTACATTGACAATTCCTGATATT
1 GTTGATGACTTTTATGATGTACTGTACCTAAGGGTTATGAAAGTACATTGACAATTCCTGATATT
*
5007965 GTTGAAATGTGGAAATGAAATAAAGACCATTGGAATATCTGTTCGTCTCCTTAAGATATATTCAA
66 GTTGAAATGTGGAAATGAAATAAAGACCATTGGAATATCTGTTCGTATCCTTAAGATATATTCAA
*
5008030 CGATGATTCTGAAGGTGATCTATGGACAAGAAATGTTGGTATTAAAGAGTGAATACCCTGGAAGG
131 CGATGATTCTGAAGGTGATCTATGGACAAGAAATATTGGTATTAAAGAGTGAATACCCTGGAAGG
5008095 GCAACGAATTGACCGGTCGACATGCATTAGTTC
196 GCAACGAATTGACCGGTCGACATGCATTAGTTC
5008128 TGAGACTTGT
Statistics
Matches: 224, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
237 224 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (237 bp):
GTTGATGACTTTTATGATGTACTGTACCTAAGGGTTATGAAAGTACATTGACAATTCCTGATATT
GTTGAAATGTGGAAATGAAATAAAGACCATTGGAATATCTGTTCGTATCCTTAAGATATATTCAA
CGATGATTCTGAAGGTGATCTATGGACAAGAAATATTGGTATTAAAGAGTGAATACCCTGGAAGG
GCAACGAATTGACCGGTCGACATGCATTAGTTCAGAATCATC
Found at i:5022136 original size:78 final size:78
Alignment explanation
Indices: 5022007--5022162 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
5021997 GGAATGCAAT
5022007 GACGATGGTCATGTCATCACTGGAGTGGAGAACGAAGACAAAATAGAGGTGGAAGATTTCTTGAA
1 GACGATGGTCATGTCATCACTGGAGTGGAGAACGAAGACAAAATAGAGGTGGAAGATTTCTTGAA
5022072 AAAAGAGAAAGAA
66 AAAAGAGAAAGAA
*
5022085 GACGATGGTCATGTCATCACTGGAGTGGAGAACGATGACAAAATAGAGGTGGAAGATTTCTTGAA
1 GACGATGGTCATGTCATCACTGGAGTGGAGAACGAAGACAAAATAGAGGTGGAAGATTTCTTGAA
5022150 AAAAGAGAAAGAA
66 AAAAGAGAAAGAA
5022163 AGTTGGAAGA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.42, C:0.10, G:0.29, T:0.19
Consensus pattern (78 bp):
GACGATGGTCATGTCATCACTGGAGTGGAGAACGAAGACAAAATAGAGGTGGAAGATTTCTTGAA
AAAAGAGAAAGAA
Found at i:5023479 original size:17 final size:18
Alignment explanation
Indices: 5023446--5023479 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5023436 TATTCTGATA
5023446 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
5023464 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
5023480 ATACTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:5023704 original size:59 final size:59
Alignment explanation
Indices: 5023641--5023752 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 59
5023631 ATTCCCCTTT
* *
5023641 CATTTTAACACA-CAAAGTGCCCTATTCAAAAATTCATACCATTAGTATGATTTTGTTAC
1 CATTTTAACACATCAAA-TGCCCTATGCAAAAATCCATACCATTAGTATGATTTTGTTAC
* * *
5023700 CATTTTAGCACATGAAATGCCCTATGCGAAAATCCATACCATTAGTATGATTT
1 CATTTTAACACATCAAATGCCCTATGCAAAAATCCATACCATTAGTATGATTT
5023753 CCTTATCTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 44 0.94
60 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.34
Consensus pattern (59 bp):
CATTTTAACACATCAAATGCCCTATGCAAAAATCCATACCATTAGTATGATTTTGTTAC
Found at i:5023769 original size:59 final size:59
Alignment explanation
Indices: 5023611--5023757 Score: 158
Period size: 59 Copynumber: 2.5 Consensus size: 59
5023601 CTTTATCTGG
* * * * *
5023611 AAAAT-CATACGC-TTAGTATGATTCCCCTT-TCATTTTAACACA-CAAAGTGCCCTATTCA
1 AAAATCCATAC-CATTAGTATGATT-TCCTTACCATTTTAGCACATGAAA-TGCCCTATGCA
* ** *
5023669 AAAATTCATACCATTAGTATGATTTTGTTACCATTTTAGCACATGAAATGCCCTATGCG
1 AAAATCCATACCATTAGTATGATTTCCTTACCATTTTAGCACATGAAATGCCCTATGCA
5023728 AAAATCCATACCATTAGTATGATTTCCTTA
1 AAAATCCATACCATTAGTATGATTTCCTTA
5023758 TCTTTGTAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
58 8 0.11
59 63 0.85
60 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (59 bp):
AAAATCCATACCATTAGTATGATTTCCTTACCATTTTAGCACATGAAATGCCCTATGCA
Found at i:5023778 original size:118 final size:117
Alignment explanation
Indices: 5023656--5023895 Score: 245
Period size: 118 Copynumber: 2.0 Consensus size: 117
5023646 TAACACACAA
* *** * * *
5023656 AGTGCCCTAT-TCAAAAATTCATACCATT-AGTATGATTTTGTTACCATTTTAGCACATGAAATG
1 AGTGCCCTATCT-AAAAATCCATA-CATTCAGTATGATTCCCTTACAATTTTACCACATAAAATG
* * * *
5023719 CCCTATGC-GAAAATCCATACCATT-AGTATGATTTCCTTATCTTTGTAGCACCCTT
64 CCCTAT-CTGAAAATCCATA-CATTCAATATGATTTCCTTATCATT-TAGCACACTC
** **
5023774 AGTGCTTTATCTGGAAATCCATACATTCAGTATGATTCCCTTACAATTTTACCACATAAAATGCC
1 AGTGCCCTATCTAAAAATCCATACATTCAGTATGATTCCCTTACAATTTTACCACATAAAATGCC
* **
5023839 CTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTC
66 CTATCTGAAAATCCATACATTCAATATGATTTCCTTATCATTTAGCACACTC
5023891 AGTGC
1 AGTGC
5023896 TCCATATGAA
Statistics
Matches: 100, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
117 20 0.20
118 79 0.79
119 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (117 bp):
AGTGCCCTATCTAAAAATCCATACATTCAGTATGATTCCCTTACAATTTTACCACATAAAATGCC
CTATCTGAAAATCCATACATTCAATATGATTTCCTTATCATTTAGCACACTC
Found at i:5029793 original size:17 final size:18
Alignment explanation
Indices: 5029760--5029793 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5029750 TATTCTGATA
5029760 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
5029778 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
5029794 ATACTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:5030082 original size:59 final size:59
Alignment explanation
Indices: 5029955--5030202 Score: 184
Period size: 59 Copynumber: 4.2 Consensus size: 59
5029945 CTTCCCCTTT
* * * **
5029955 CATTTTAGCACACGAAGTGCCCTATTCAAAAATTCATACCATTAGTATGATTTTGTTAC
1 CATTTTAGCACACGAAATGCCCTATGCAAAAATCCATACCATTAGTATGATTTCCTTAC
* * *
5030014 CATTTTAGCACATGAAATGCCCTATGCGAAAATCCATACCATTAGTATGATTTCCTTAT
1 CATTTTAGCACACGAAATGCCCTATGCAAAAATCCATACCATTAGTATGATTTCCTTAC
* ** * *** ** *
5030073 C-TTTGTAGCACCCTTAGTGATTTAT-CTGGAAATCCATA-CATTCAGTATGATTCCCTTAC
1 CATTT-TAGCACACGAAATGCCCTATGC-AAAAATCCATACCATT-AGTATGATTTCCTTAC
** * *** *
5030132 CATTTTAGCACATAAAATGCCCTAT-CTAGAAATCCATATTTTTTA-TATGATTTCCTTAT
1 CATTTTAGCACACGAAATGCCCTATGC-AAAAATCCATA-CCATTAGTATGATTTCCTTAC
5030191 CA-TTTAGCACAC
1 CATTTTAGCACAC
5030203 TCAGTGCTCC
Statistics
Matches: 150, Mismatches: 33, Indels: 13
0.77 0.17 0.07
Matches are distributed among these distances:
58 17 0.11
59 127 0.85
60 4 0.03
61 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (59 bp):
CATTTTAGCACACGAAATGCCCTATGCAAAAATCCATACCATTAGTATGATTTCCTTAC
Found at i:5030083 original size:118 final size:117
Alignment explanation
Indices: 5029950--5030202 Score: 255
Period size: 118 Copynumber: 2.2 Consensus size: 117
5029940 GTATGCTTCC
* * ***
5029950 CCTT-TCATTTTAGCACACGAAGTGCCCTAT-TCAAAAATTCATACCATT-AGTATGATTTTGTT
1 CCTTATCA-TTTAGCACACGAAGTGACCTATCT-AAAAATCCATA-CATTCAGTATGATTCCCTT
*
5030012 ACCATTTTAGCACATGAAATGCCCTATGCGA-AAATCCATA-CCATTAGTATGATTT
63 ACCATTTTAGCACATAAAATGCCCTAT-CGAGAAATCCATATCCATTA-TATGATTT
* * ** ** **
5030067 CCTTATCTTTGTAGCACCCTTAGTGATTTATCTGGAAATCCATACATTCAGTATGATTCCCTTAC
1 CCTTATCATT-TAGCACACGAAGTGACCTATCTAAAAATCCATACATTCAGTATGATTCCCTTAC
* ***
5030132 CATTTTAGCACATAAAATGCCCTATCTAGAAATCCATATTTTTTATATGATTT
65 CATTTTAGCACATAAAATGCCCTATCGAGAAATCCATATCCATTATATGATTT
5030185 CCTTATCATTTAGCACAC
1 CCTTATCATTTAGCACAC
5030203 TCAGTGCTCC
Statistics
Matches: 110, Mismatches: 20, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
117 19 0.17
118 87 0.79
119 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (117 bp):
CCTTATCATTTAGCACACGAAGTGACCTATCTAAAAATCCATACATTCAGTATGATTCCCTTACC
ATTTTAGCACATAAAATGCCCTATCGAGAAATCCATATCCATTATATGATTT
Found at i:5031449 original size:21 final size:22
Alignment explanation
Indices: 5031411--5031469 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
5031401 GCATTACATT
*
5031411 ATTT-CTCTTTCATTTTCCTAC
1 ATTTGCTCTTTCTTTTTCCTAC
* * *
5031432 TTTTGCT-TTTGTTTTTCCTCC
1 ATTTGCTCTTTCTTTTTCCTAC
5031453 ATTTGCTCTTTCTTTTT
1 ATTTGCTCTTTCTTTTT
5031470 ATTTATTCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.07, C:0.24, G:0.05, T:0.64
Consensus pattern (22 bp):
ATTTGCTCTTTCTTTTTCCTAC
Found at i:5031536 original size:28 final size:28
Alignment explanation
Indices: 5031466--5031541 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 28
5031456 TGCTCTTTCT
5031466 TTTTATTTATTCTT-TTTTTTGTTCATTA
1 TTTTATTT-TTCTTCTTTTTTGTTCATTA
*
5031494 TTTCT-TTTTTC--CTTTTTT-TTCATTGG
1 TTT-TATTTTTCTTCTTTTTTGTTCATT-A
*
5031520 TTTTATTTTTCTTCTTTCTTGT
1 TTTTATTTTTCTTCTTTTTTGT
5031542 AGGGTTTGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
25 7 0.18
26 15 0.38
27 3 0.08
28 12 0.31
29 2 0.05
ACGTcount: A:0.08, C:0.12, G:0.05, T:0.75
Consensus pattern (28 bp):
TTTTATTTTTCTTCTTTTTTGTTCATTA
Found at i:5032561 original size:42 final size:42
Alignment explanation
Indices: 5032509--5032603 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
5032499 GACGAAAACA
* * *
5032509 TTTTGCCACTACTCTTAGTTTGTGATTAGTGACGACAATTGT
1 TTTTGTCACTACTCTTAGTTGGTGATTAGTGACGACAATTAT
* * * *
5032551 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGATGATAATTAT
1 TTTTGTCACTACTCTTAGTTGGTGATTAGTGACGACAATTAT
5032593 TTTTGTCACTA
1 TTTTGTCACTA
5032604 TTGAAGTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (42 bp):
TTTTGTCACTACTCTTAGTTGGTGATTAGTGACGACAATTAT
Found at i:5034879 original size:28 final size:28
Alignment explanation
Indices: 5034854--5034944 Score: 182
Period size: 28 Copynumber: 3.2 Consensus size: 28
5034844 TTGAACATCG
5034854 AATGCATTTCATGCATCGATGCACATAC
1 AATGCATTTCATGCATCGATGCACATAC
5034882 AATGCATTTCATGCATCGATGCACATAC
1 AATGCATTTCATGCATCGATGCACATAC
5034910 AATGCATTTCATGCATCGATGCACATAC
1 AATGCATTTCATGCATCGATGCACATAC
5034938 AATGCAT
1 AATGCAT
5034945 CGATGCACTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (28 bp):
AATGCATTTCATGCATCGATGCACATAC
Found at i:5034887 original size:56 final size:55
Alignment explanation
Indices: 5034827--5034945 Score: 143
Period size: 56 Copynumber: 2.1 Consensus size: 55
5034817 CCATGCATCG
*
5034827 ATGCA-CCATGAATTTAATTGAACAT-CGAATGCATTTCATGCATCGATGCACATACA
1 ATGCATCCATGAA-TCAA-TGAACATAC-AATGCATTTCATGCATCGATGCACATACA
* * * *
5034883 ATGCATTTCATGCATCGATGCACATACAATGCATTTCATGCATCGATGCACATACA
1 ATGCA-TCCATGAATCAATGAACATACAATGCATTTCATGCATCGATGCACATACA
5034939 ATGCATC
1 ATGCATC
5034946 GATGCACTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
55 1 0.02
56 45 0.83
57 3 0.06
58 5 0.09
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (55 bp):
ATGCATCCATGAATCAATGAACATACAATGCATTTCATGCATCGATGCACATACA
Found at i:5035031 original size:45 final size:46
Alignment explanation
Indices: 5034939--5035046 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 46
5034929 TGCACATACA
** *
5034939 ATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTCTGGATTTTATGAAAACATCGAATGCACTTG
*
5034985 ATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACTTG
1 ATGCATCGATGCACTCTGGAT-TTTATGAAAACATCGAATGCACTTG
5035030 ATGCATCGATGCACTCT
1 ATGCATCGATGCACTCT
5035047 TAGTGCACCG
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
45 34 0.60
46 20 0.35
47 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (46 bp):
ATGCATCGATGCACTCTGGATTTTATGAAAACATCGAATGCACTTG
Found at i:5035043 original size:17 final size:19
Alignment explanation
Indices: 5035015--5035063 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
5035005 TATTTTGAAA
5035015 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
5035033 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
5035052 CACCGATGCACT
1 CATCGATGCACT
5035064 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:5040910 original size:23 final size:22
Alignment explanation
Indices: 5040839--5040911 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 22
5040829 CTAACAGTGT
*
5040839 ATCGATGCATCCTTGAATGTGC
1 ATCGATGCAACCTTGAATGTGC
* * *
5040861 ATCGAT--ATACCATGAAGGTTC
1 ATCGATGCA-ACCTTGAATGTGC
*
5040882 ACCGATGCACACCTTGAATGTGC
1 ATCGATGCA-ACCTTGAATGTGC
5040905 ATCGATG
1 ATCGATG
5040912 TACAAGACCA
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
20 1 0.03
21 14 0.37
22 6 0.16
23 17 0.45
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (22 bp):
ATCGATGCAACCTTGAATGTGC
Found at i:5040931 original size:43 final size:43
Alignment explanation
Indices: 5040839--5040933 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
5040829 CTAACAGTGT
* * ** *
5040839 ATCGATGCATCCTTGAATGTGCATCGATATACCATGAAGGTTC
1 ATCGATGCAACCTTGAATGTGCATCGATATACCAAGAACATGC
* * *
5040882 ACCGATGCACACCTTGAATGTGCATCGATGTA-CAAGACCATGC
1 ATCGATGCA-ACCTTGAATGTGCATCGATATACCAAGAACATGC
5040925 ATCGATGCA
1 ATCGATGCA
5040934 TCAGTCGGGT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
43 22 0.52
44 20 0.48
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (43 bp):
ATCGATGCAACCTTGAATGTGCATCGATATACCAAGAACATGC
Found at i:5041345 original size:19 final size:20
Alignment explanation
Indices: 5041307--5041347 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
5041297 AAATTTTCAA
**
5041307 AAAAAAAAATTGAATTTTTG
1 AAAAAAAAATTGAAAATTTG
5041327 AAAAAAAAA-TGAAAATTTG
1 AAAAAAAAATTGAAAATTTG
5041346 AA
1 AA
5041348 TTTAATCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (20 bp):
AAAAAAAAATTGAAAATTTG
Found at i:5043599 original size:19 final size:19
Alignment explanation
Indices: 5043575--5043612 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5043565 ACATCCAATG
5043575 CATACCATGCATCGATGCA
1 CATACCATGCATCGATGCA
5043594 CATACCATGCATCGATGCA
1 CATACCATGCATCGATGCA
5043613 GTGAGGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (19 bp):
CATACCATGCATCGATGCA
Found at i:5043694 original size:65 final size:65
Alignment explanation
Indices: 5043584--5043723 Score: 178
Period size: 65 Copynumber: 2.2 Consensus size: 65
5043574 GCATACCATG
* * *
5043584 CATCGATGCA-CATACCATGCATCGATGCAGTGAGGATTTTATGAAAACATCGAATGCATTTGAT
1 CATCGATGCACCATACCATGCATCGATGCACTCAGGATTTTATG-AAACATCGAATGCACTTGAT
5043648 C
65 C
* * *
5043649 CATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-TGAAACATCGAATGCACTTGAT
1 CATCGATGCACCATACCATGCATCGATGCACTCAGGAT-TTTATGAAACATCGAATGCACTTGAT
*
5043712 G
65 C
5043713 CATCGATGCAC
1 CATCGATGCAC
5043724 TCTTAGTGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
64 30 0.45
65 31 0.47
66 5 0.08
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (65 bp):
CATCGATGCACCATACCATGCATCGATGCACTCAGGATTTTATGAAACATCGAATGCACTTGATC
Found at i:5043723 original size:17 final size:19
Alignment explanation
Indices: 5043695--5043743 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
5043685 TATTTTGAAA
5043695 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
5043713 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
5043732 CACCGATGCACT
1 CATCGATGCACT
5043744 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Done.