Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_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: 4138222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 22
Found at i:626239 original size:19 final size:18
Alignment explanation
Indices: 626215--626264 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
626205 GGTCGGGTCG
626215 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
*
626233 GGTTCAGACCGGTCAAATC
1 GG-TCAGACCGGTCAAACC
626252 GGTCAGAACCGGT
1 GGTCAG-ACCGGT
626265 TAAAAACCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.26, C:0.28, G:0.30, T:0.16
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:626282 original size:9 final size:9
Alignment explanation
Indices: 626215--626264 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
626205 GGTCGGGTCG
*
626215 GGTCAGACC
1 GGTCAAACC
626224 GGTCAAACC
1 GGTCAAACC
*
626233 GGTTCAGACC
1 GG-TCAAACC
*
626243 GGTCAAATC
1 GGTCAAACC
626252 GGTCAGAACC
1 GGTCA-AACC
626262 GGT
1 GGT
626265 TAAAAACCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.26, C:0.28, G:0.30, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:633507 original size:19 final size:19
Alignment explanation
Indices: 633485--633562 Score: 88
Period size: 19 Copynumber: 4.1 Consensus size: 19
633475 TCGGGTCGGG
633485 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
633504 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
633523 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
* *
633542 TCAAACTGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
633562 T
1 T
633563 GAAAACCGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
18 3 0.06
19 38 0.76
20 9 0.18
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:633513 original size:10 final size:10
Alignment explanation
Indices: 633485--633533 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
633475 TCGGGTCGGG
633485 TCAGACCGG-
1 TCAGACCGGT
*
633494 TCAAACCGGT
1 TCAGACCGGT
633504 TCAGACCGG-
1 TCAGACCGGT
*
633513 TCAAACCGGT
1 TCAGACCGGT
633523 TC-GAACCGGT
1 TCAG-ACCGGT
633533 T
1 T
633534 GAAACCGGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 16 0.48
10 17 0.52
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (10 bp):
TCAGACCGGT
Found at i:633539 original size:10 final size:10
Alignment explanation
Indices: 633489--633582 Score: 81
Period size: 9 Copynumber: 9.7 Consensus size: 10
633479 GTCGGGTCAG
633489 ACCGG-TCAA
1 ACCGGTTCAA
*
633498 ACCGGTTCAG
1 ACCGGTTCAA
633508 ACCGG-TCAA
1 ACCGGTTCAA
*
633517 ACCGGTTCGA
1 ACCGGTTCAA
*
633527 ACCGGTTGAA
1 ACCGGTTCAA
633537 ACCGG-TCAA
1 ACCGGTTCAA
*
633546 ACTGG-TCAGA
1 ACCGGTTCA-A
*
633556 ACCGGTTGAAA
1 ACCGGTT-CAA
*
633567 ACCGGTT-AT
1 ACCGGTTCAA
633576 ACCGGTT
1 ACCGGTT
633583 TCCAGCAGCC
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
9 31 0.44
10 29 0.41
11 9 0.13
12 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.19
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:633540 original size:29 final size:28
Alignment explanation
Indices: 633484--633581 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 28
633474 GTCGGGTCGG
* *
633484 GTCAGACCGGTCAAACCGGTTCAGACCG
1 GTCAAACCGGTCAAACCGGTTAAGACCG
*
633512 GTCAAACCGGTTCGAACCGGTTGAA-ACCG
1 GTCAAACCGG-TCAAACCGGTT-AAGACCG
* *
633541 GTCAAACTGGTCAGAACCGGTTGAAAACCG
1 GTCAAACCGGTCA-AACCGGTT-AAGACCG
* *
633571 GTTATACCGGT
1 GTCAAACCGGT
633582 TTCCAGCAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
28 11 0.19
29 34 0.59
30 13 0.22
ACGTcount: A:0.28, C:0.27, G:0.28, T:0.18
Consensus pattern (28 bp):
GTCAAACCGGTCAAACCGGTTAAGACCG
Found at i:640543 original size:22 final size:21
Alignment explanation
Indices: 640488--640543 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
640478 AGACCCCGTA
640488 GGGGTATCGATT-CCCTACGG
1 GGGGTATCGATTCCCCTACGG
* *
640508 GGGGAATC-AGTTCCCCTACATG
1 GGGGTATCGA-TTCCCCTAC-GG
640530 GGGGTATCGATTCC
1 GGGGTATCGATTCC
640544 TCCTGCACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.31
21 6 0.21
22 12 0.41
23 1 0.03
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (21 bp):
GGGGTATCGATTCCCCTACGG
Found at i:649832 original size:65 final size:64
Alignment explanation
Indices: 649709--649842 Score: 171
Period size: 65 Copynumber: 2.1 Consensus size: 64
649699 ACCATAATTT
* * * * *
649709 GAATGTATTTTGTGTATAGATGCATAGCCATGCATCGATGCACTCCTGATTTTATTGAAACATC
1 GAATGCATTTTATGTACAGATGCACAGCCATGCATCGATGCACTCCTGATCTTATTGAAACATC
* *
649773 GAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTT-TTGAAACAT
1 GAATGCATTTTATGTACAGATGCACAG-CCATGCATCGATGCACTCCT-GATCTTATTGAAACAT
649837 C
64 C
*
649838 AAATG
1 GAATG
649843 TAATTAGTGT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 22 0.37
65 34 0.57
66 4 0.07
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (64 bp):
GAATGCATTTTATGTACAGATGCACAGCCATGCATCGATGCACTCCTGATCTTATTGAAACATC
Found at i:649854 original size:65 final size:64
Alignment explanation
Indices: 649727--649862 Score: 168
Period size: 65 Copynumber: 2.1 Consensus size: 64
649717 TTTGTGTATA
* * * *
649727 GATGCATAGCCATGCATCGATGCACTCCTGATTTTATTGAAACATCGAATGCATTTTATGTACC
1 GATGCACAGCCATGCATCGATGCACTCCTGATCTTATTGAAACATCAAATGCATATTATGTACC
* *
649791 GATGCACAGACCATGCATCGATGCACTCCTGGCTCTT-TTGAAACATCAAATGTA-ATTAGTGTA
1 GATGCACAG-CCATGCATCGATGCACTCCT-GATCTTATTGAAACATCAAATGCATATTA-TGTA
*
649854 CT
63 CC
649856 GATGCAC
1 GATGCAC
649863 CCCAAGTGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
64 11 0.18
65 47 0.76
66 4 0.06
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (64 bp):
GATGCACAGCCATGCATCGATGCACTCCTGATCTTATTGAAACATCAAATGCATATTATGTACC
Found at i:653216 original size:13 final size:13
Alignment explanation
Indices: 653198--653224 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
653188 ATTACAGTCG
653198 TGCATATGAAGAT
1 TGCATATGAAGAT
653211 TGCATATGAAGAT
1 TGCATATGAAGAT
653224 T
1 T
653225 ATTCGACTAT
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:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (13 bp):
TGCATATGAAGAT
Found at i:653245 original size:4 final size:4
Alignment explanation
Indices: 653236--653262 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
653226 TTCGACTATG
653236 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
653263 ACATGCATTG
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:655974 original size:44 final size:44
Alignment explanation
Indices: 655905--656003 Score: 153
Period size: 44 Copynumber: 2.2 Consensus size: 44
655895 ACTATGCATT
* *
655905 GATACACTATGAAAGTGTACTGATGCATTCCTTGAATATGAATC
1 GATACACTATGAAAGTGCACCGATGCATTCCTTGAATATGAATC
* * *
655949 GATACACTATGAAGGTGCACCGATGCATTCCTTGAATGTGCATC
1 GATACACTATGAAAGTGCACCGATGCATTCCTTGAATATGAATC
655993 GATACACTATG
1 GATACACTATG
656004 TAGTGTACTG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
GATACACTATGAAAGTGCACCGATGCATTCCTTGAATATGAATC
Found at i:656461 original size:18 final size:19
Alignment explanation
Indices: 656421--656461 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
656411 ATAAAAAATG
*
656421 TTTTGATTTAATTGTTGTT
1 TTTTGATTTAATTGATGTT
656440 TTTT-ATTTAATT-ATGTT
1 TTTTGATTTAATTGATGTT
656457 ATTTT
1 -TTTT
656462 CATGAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 12 0.60
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (19 bp):
TTTTGATTTAATTGATGTT
Found at i:656504 original size:13 final size:13
Alignment explanation
Indices: 656486--656523 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
656476 GTATGATAAT
656486 TTTTCAAACATTG
1 TTTTCAAACATTG
*
656499 TTTTCAAA-ATTA
1 TTTTCAAACATTG
656511 TTTTCAAACATTG
1 TTTTCAAACATTG
656524 CCCATTAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.34, C:0.13, G:0.05, T:0.47
Consensus pattern (13 bp):
TTTTCAAACATTG
Found at i:663410 original size:32 final size:33
Alignment explanation
Indices: 663342--663454 Score: 110
Period size: 33 Copynumber: 3.5 Consensus size: 33
663332 CTAAAAAAGC
* *
663342 AAAGAGAAAATAAAAAAAGAGCAATTAGAGCAA
1 AAAGAGAAAATAAAAAAAGAGCAATCAAAGCAA
* *
663375 AAAGAGAAAATAAAAAAAGAGTAATCAAAG-TA
1 AAAGAGAAAATAAAAAAAGAGCAATCAAAGCAA
* **
663407 AAAGAGAAAGA-AAAAGAAG-G-AAAAAAAGCAA
1 AAAGAGAAA-ATAAAAAAAGAGCAATCAAAGCAA
*
663438 AAAGA-AAATTAAAAAAA
1 AAAGAGAAAATAAAAAAA
663455 ACAACAAAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
30 15 0.22
31 7 0.10
32 17 0.25
33 28 0.42
ACGTcount: A:0.72, C:0.04, G:0.17, T:0.08
Consensus pattern (33 bp):
AAAGAGAAAATAAAAAAAGAGCAATCAAAGCAA
Found at i:663441 original size:31 final size:30
Alignment explanation
Indices: 663406--663483 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
663396 TAATCAAAGT
**
663406 AAAAGAGAAAGAAAAAGAAGGAA-AAAAAGCA
1 AAAAGA-AAAGAAAAA-AAACAACAAAAAGCA
* *
663437 AAAAGAAAATTAAAAAAAACAACAAAGAGCA
1 AAAAGAAAA-GAAAAAAAACAACAAAAAGCA
663468 AAAAGAAAAGAAAAAA
1 AAAAGAAAAGAAAAAA
663484 GAAAAAGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 13 0.32
31 27 0.68
ACGTcount: A:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (30 bp):
AAAAGAAAAGAAAAAAAACAACAAAAAGCA
Found at i:663484 original size:12 final size:13
Alignment explanation
Indices: 663413--663510 Score: 65
Period size: 15 Copynumber: 7.2 Consensus size: 13
663403 AGTAAAAGAG
*
663413 AAAGAAAAAGAAG
1 AAAGAAAAAGAAA
* *
663426 GAA-AAAAAGCAA
1 AAAGAAAAAGAAA
*
663438 AAAGAAAATTAAAAA
1 AAAGAAAA--AGAAA
*
663453 AAACAACAAAGAGCAA
1 AAAGAA-AAAGA--AA
663469 AAAG-AAAAGAAA
1 AAAGAAAAAGAAA
663481 AAAGAAAAAGAAA
1 AAAGAAAAAGAAA
*
663494 TAAAAAACAAAGAAA
1 -AAAGAA-AAAGAAA
663509 AA
1 AA
663511 GGGACGAGAA
Statistics
Matches: 66, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
12 15 0.23
13 14 0.21
14 14 0.21
15 16 0.24
16 7 0.11
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:663511 original size:6 final size:6
Alignment explanation
Indices: 663401--663493 Score: 57
Period size: 6 Copynumber: 15.2 Consensus size: 6
663391 AAGAGTAATC
* * * **
663401 AAAGTA AAAGAG AAAGAA AAAGAA GGAA-AA AAAGCAA AAAGAA AATTAA
1 AAAGAA AAAGAA AAAGAA AAAGAA -AAAGAA AAAG-AA AAAGAA AAAGAA
* *
663450 AAA-AA ACAACAA AGAGCAA AAAG-A AAAGAAA AAAGAA AAAGAA A
1 AAAGAA A-AAGAA AAAG-AA AAAGAA AAAG-AA AAAGAA AAAGAA A
663494 TAAAAAACAA
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
5 10 0.15
6 37 0.54
7 21 0.31
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:665209 original size:86 final size:86
Alignment explanation
Indices: 665063--665319 Score: 388
Period size: 86 Copynumber: 3.0 Consensus size: 86
665053 ATATCCAACT
* * *
665063 GAGGAATATACCACATGGTTTTCCCATGAATGAGAGTCATCTAAAGATCATCTCACTTGGTTCAG
1 GAGGAATATACCACATGGTTTTCCCGTGAAGGGGAGTCATCTAAAGATCATCTCACTTGGTTCAG
*
665128 ACCCGCTAAGGGGAACCACTC
66 ACCCGCTAAGGGGAACCACCC
* * *
665149 GAGGAATATACCACATGGCTTTCCCGTGAAGGGGAGTCATCTAAAGACCATCTCATTTGGTTCAG
1 GAGGAATATACCACATGGTTTTCCCGTGAAGGGGAGTCATCTAAAGATCATCTCACTTGGTTCAG
665214 ACCCGCTAAGGGGAACCACCC
66 ACCCGCTAAGGGGAACCACCC
* * * * *
665235 GATGAATATACCACATGGTTTTCCCGTGAAGGGGAGTCATCCAAAGATTATATCACTTGGTTTAG
1 GAGGAATATACCACATGGTTTTCCCGTGAAGGGGAGTCATCTAAAGATCATCTCACTTGGTTCAG
* *
665300 ACTCGTTAAGGGGAACCACC
66 ACCCGCTAAGGGGAACCACC
665320 TGAAGAATTA
Statistics
Matches: 154, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 154 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (86 bp):
GAGGAATATACCACATGGTTTTCCCGTGAAGGGGAGTCATCTAAAGATCATCTCACTTGGTTCAG
ACCCGCTAAGGGGAACCACCC
Found at i:665597 original size:85 final size:83
Alignment explanation
Indices: 665385--665632 Score: 284
Period size: 85 Copynumber: 2.9 Consensus size: 83
665375 AACTATTAGT
* * *
665385 AGCATAACTCAAGGCGAGAAGGGTTATTTGTCAACCAAAACCTTCGAGTTCGATTCCATTCAGTT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGACAA-CAAAACCTTCGAGTTCGATT-CATTCAGCT
* *
665450 CAAGGACA-ACCAAATTCAC
64 CAATGACATATCAAATTCAC
* * * *
665469 AACATAGCTTAAGGCGAGAAGGGCTATCT-ATCAACACAAACCTTCGAGTTCGATTACATTCAGC
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGA-CAACA-AAACCTTCGAGTTCGATT-CATTCAGC
* **
665533 TCAATGACATGTCAAATTTTC
63 TCAATGACATATCAAATTCAC
* *
665554 AGCATAACTCAAGGTGAGAAGGGTTATCTGACAACAAACACCTTCGAGTTCGATTCACTTCAACT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGACAACAAA-ACCTTCGAGTTCGATTCA-TTCAGCT
*
665619 CGATGACATATCAA
64 CAATGACATATCAA
665633 CTGCATGGTA
Statistics
Matches: 137, Mismatches: 21, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
83 2 0.01
84 64 0.47
85 70 0.51
86 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (83 bp):
AGCATAACTCAAGGCGAGAAGGGTTATCTGACAACAAAACCTTCGAGTTCGATTCATTCAGCTCA
ATGACATATCAAATTCAC
Found at i:666253 original size:40 final size:40
Alignment explanation
Indices: 666208--666475 Score: 103
Period size: 40 Copynumber: 6.4 Consensus size: 40
666198 TGACCTAACG
666208 TCCTCATCACGTAGGAACCATGTCATCACTTGACCTGATC
1 TCCTCATCACGTAGGAACCATGTCATCACTTGACCTGATC
* * * * ** * * * *
666248 TCCTCATCATGTAGGAGCCGTGTCAAACCCAGATAACCAGCTA
1 TCCTCATCACGTAGGAACCATGTC--A-TCACTTGACCTGATC
* * *
666291 TTCTCATCACGTAGGAACCGTGTTATCACCTATAGA--TGGTATGCC
1 TCCTCATCACGTAGGAACCATGTCATCA-CT-T-GACCT-G-AT--C
* * *
666336 ATCCTCATCACGTAGGAACCGTGTCATCACCTGATCTGATC
1 -TCCTCATCACGTAGGAACCATGTCATCACTTGACCTGATC
* * * ** *
666377 TCCTCATTATGTAGG-AGCAGTGTCAATC-CTTGATAACCAAAAC
1 TCCTCATCACGTAGGAACCA-TGTC-ATCACTTG---ACCTGATC
* * * * *
666420 TCTTCATCACGTATGAGCCATGTCATCACCTGACCTGGTC
1 TCCTCATCACGTAGGAACCATGTCATCACTTGACCTGATC
* *
666460 TCCTCATTATGTAGGA
1 TCCTCATCACGTAGGA
666476 GTTATGTCAA
Statistics
Matches: 160, Mismatches: 48, Indels: 40
0.65 0.19 0.16
Matches are distributed among these distances:
39 2 0.01
40 59 0.37
41 5 0.03
42 6 0.04
43 56 0.35
44 4 0.03
45 2 0.01
46 26 0.16
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCATGTCATCACTTGACCTGATC
Found at i:666415 original size:129 final size:129
Alignment explanation
Indices: 666147--666402 Score: 370
Period size: 129 Copynumber: 2.0 Consensus size: 129
666137 ATTTTTCACT
* * * * *
666147 CCAGATAACCAG-TCGTCCTCATTACGTAGGAACCGTGTTATCACCTATAGATGACCTAACGTCC
1 CCAGATAACCAGCT-ATTCTCATCACGTAGGAACCGTGTTATCACCTATAGATGACATAACATCC
* *
666211 TCATCACGTAGGAACCATGTCATCACTTGACCTGATCTCCTCATCATGTAGGAGCCGTGTCAAAC
65 TCATCACGTAGGAACCATGTCATCACCTGACCTGATCTCCTCATCATGTAGGAGCAGTGTCAAAC
** **
666276 CCAGATAACCAGCTATTCTCATCACGTAGGAACCGTGTTATCACCTATAGATGGTATGCCATCCT
1 CCAGATAACCAGCTATTCTCATCACGTAGGAACCGTGTTATCACCTATAGATGACATAACATCCT
* * *
666341 CATCACGTAGGAACCGTGTCATCACCTGATCTGATCTCCTCATTATGTAGGAGCAGTGTCAA
66 CATCACGTAGGAACCATGTCATCACCTGACCTGATCTCCTCATCATGTAGGAGCAGTGTCAA
666403 TCCTTGATAA
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
129 111 0.99
130 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (129 bp):
CCAGATAACCAGCTATTCTCATCACGTAGGAACCGTGTTATCACCTATAGATGACATAACATCCT
CATCACGTAGGAACCATGTCATCACCTGACCTGATCTCCTCATCATGTAGGAGCAGTGTCAAAC
Found at i:666427 original size:129 final size:129
Alignment explanation
Indices: 666164--666450 Score: 360
Period size: 129 Copynumber: 2.2 Consensus size: 129
666154 ACCAGTCGTC
* * *
666164 CTCATTACGTAGGAACCGTGTTATCACCTATAGATGACCTAACGTCCTCATCACGTAGGAACCAT
1 CTCATCACGTAGGAACCGTGTTATCACCTATAGATGACATAACATCCTCATCACGTAGGAACCAT
* * ** *
666229 GTCATCACTTGACCTGATCTCCTCATCATGTAGGAGCCGTGTCAAACCCAGATAACCAGCTATT
66 GTCATCACCTGACCTGATCTCCTCATCATGTAGGAGCAGTGTCAAACCCAGATAACCAGAAACT
** ** *
666293 CTCATCACGTAGGAACCGTGTTATCACCTATAGATGGTATGCCATCCTCATCACGTAGGAACCGT
1 CTCATCACGTAGGAACCGTGTTATCACCTATAGATGACATAACATCCTCATCACGTAGGAACCAT
* * * **
666358 GTCATCACCTGATCTGATCTCCTCATTATGTAGGAGCAGTGTCAATCCTTGATAACCA-AAACT
66 GTCATCACCTGACCTGATCTCCTCATCATGTAGGAGCAGTGTCAAACCCAGATAACCAGAAACT
* * * *
666421 CTTCATCACGTATGAGCCATGTCATCACCT
1 C-TCATCACGTAGGAACCGTGTTATCACCT
666451 GACCTGGTCT
Statistics
Matches: 135, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
128 3 0.02
129 132 0.98
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (129 bp):
CTCATCACGTAGGAACCGTGTTATCACCTATAGATGACATAACATCCTCATCACGTAGGAACCAT
GTCATCACCTGACCTGATCTCCTCATCATGTAGGAGCAGTGTCAAACCCAGATAACCAGAAACT
Found at i:666484 original size:83 final size:82
Alignment explanation
Indices: 666335--666521 Score: 236
Period size: 83 Copynumber: 2.3 Consensus size: 82
666325 GATGGTATGC
* * *
666335 CATCCTCATCACGTAGGAACCGTGTCATCACCTGATCTGATCTCCTCATTATGTAGGAGCAGTGT
1 CATCTTCATCACGTAGGAACCATGTCATCACCTGACCTGATCTCCTCATTATGTAGGAGCAGTGT
666400 CAATCCTT-GATAACCAAA
66 CAA--CTTAGATAACCAAA
* * * *
666418 -ACTCTTCATCACGTATGAGCCATGTCATCACCTGACCTGGTCTCCTCATTATGTAGGAGTTA-T
1 CA-TCTTCATCACGTAGGAACCATGTCATCACCTGACCTGATCTCCTCATTATGTAGGAG-CAGT
* *
666481 GTCAACTTAGATAATCAAC
64 GTCAACTTAGATAACCAAA
666500 CATCTTCATCACGTAGGAACCA
1 CATCTTCATCACGTAGGAACCA
666522 AATTATCACT
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
81 3 0.03
82 27 0.30
83 58 0.65
84 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (82 bp):
CATCTTCATCACGTAGGAACCATGTCATCACCTGACCTGATCTCCTCATTATGTAGGAGCAGTGT
CAACTTAGATAACCAAA
Found at i:668455 original size:30 final size:31
Alignment explanation
Indices: 668403--668460 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
668393 TAAACTTATT
* **
668403 TAATTTTTATTTTTGGTTCTTTAAGTTTCTG
1 TAATTATTATTTTTGGGACTTTAAGTTTCTG
668434 TAATTATTA-TTTTGGGACTTTAAGTTT
1 TAATTATTATTTTTGGGACTTTAAGTTT
668461 ATGTTTTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.21, C:0.05, G:0.14, T:0.60
Consensus pattern (31 bp):
TAATTATTATTTTTGGGACTTTAAGTTTCTG
Found at i:671774 original size:25 final size:28
Alignment explanation
Indices: 671740--671799 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 28
671730 ATTTTTAAAT
*
671740 TTAAACTATACAAATA-TAGAAA-AAAAA
1 TTAAA-TATACAAATACTAAAAATAAAAA
*
671767 -TAAATATAGAAATACTAAAAATAAAAA
1 TTAAATATACAAATACTAAAAATAAAAA
671794 TTAAAT
1 TTAAAT
671800 TACTAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 9 0.32
26 9 0.32
27 5 0.18
28 5 0.18
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (28 bp):
TTAAATATACAAATACTAAAAATAAAAA
Found at i:671788 original size:21 final size:21
Alignment explanation
Indices: 671762--671808 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
671752 AATATAGAAA
*
671762 AAAAATAAATA-TAGAAATACT
1 AAAAATAAAAATTA-AAATACT
*
671783 AAAAATAAAAATTAAATTACT
1 AAAAATAAAAATTAAAATACT
671804 AAAAA
1 AAAAA
671809 ATTATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAATAAAAATTAAAATACT
Found at i:672806 original size:31 final size:31
Alignment explanation
Indices: 672764--672828 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
672754 AGGGTATATG
* *
672764 GTCCCTTACGTTATCGATCAGATCGATTTTA
1 GTCCCTAACGTTACCGATCAGATCGATTTTA
* *
672795 GTCCCTAACGTTACCGATCCGTTCGATTTTA
1 GTCCCTAACGTTACCGATCAGATCGATTTTA
672826 GTC
1 GTC
672829 TCTCAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (31 bp):
GTCCCTAACGTTACCGATCAGATCGATTTTA
Found at i:679716 original size:100 final size:100
Alignment explanation
Indices: 679596--679861 Score: 360
Period size: 100 Copynumber: 2.7 Consensus size: 100
679586 ATTATAATAT
* * * *
679596 TATATATATACAGTAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAAACACCCCGACTTTATG
1 TATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATG
* **
679661 GATAAGATTCAGCTATCCTGATAAAGGTGGTTATAA
65 GATAAGATTCAGCTAACCTGATAAAGGTAATTATAA
679697 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAA-CAATTGGTTAAACGCCCCGACTTTATG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTA-AAGCAATTGGTTAAACGCCCCGACTTTATG
*
679761 GATAATATTCAGCTAACCTGATAAAGGTAATTATAA
65 GATAAGATTCAGCTAACCTGATAAAGGTAATTATAA
* * * * *
679797 TAT-ATATACAATGATA--TTAAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATG
1 TATAATATACAAT-AAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATG
679859 GAT
65 GAT
679862 CTAGCTAGCC
Statistics
Matches: 149, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
97 1 0.01
98 43 0.29
99 9 0.06
100 90 0.60
101 6 0.04
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (100 bp):
TATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATGG
ATAAGATTCAGCTAACCTGATAAAGGTAATTATAA
Found at i:681140 original size:37 final size:36
Alignment explanation
Indices: 681094--681252 Score: 124
Period size: 36 Copynumber: 4.4 Consensus size: 36
681084 CAAGGGGTCA
*
681094 TCTCGCTTGAGACTAATCT-ACTCAAAATAAAGTTTTG
1 TCTCTCTTGAGAC-AATCTCACTCAAAATAAA-TTTTG
* * * **
681131 TCTCTCTTGAGACAGTTTCCCTTTAAATAAATTTTG
1 TCTCTCTTGAGACAATCTCACTCAAAATAAATTTTG
* * * ** *
681167 TCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTG
1 TCTCTCTTGAGACAATCTCACTCAAAATAAATTTTG
* * ** *
681203 TCCCTCTTGAGACAATTTC-CATTGAAACAAATTTTG
1 TCTCTCTTGAGACAATCTCAC-TCAAAATAAATTTTG
681239 TCTCTCTTGAGACA
1 TCTCTCTTGAGACA
681253 GTTTCCATTG
Statistics
Matches: 109, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
35 1 0.01
36 87 0.80
37 21 0.19
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (36 bp):
TCTCTCTTGAGACAATCTCACTCAAAATAAATTTTG
Found at i:681173 original size:36 final size:36
Alignment explanation
Indices: 681126--681305 Score: 272
Period size: 36 Copynumber: 5.0 Consensus size: 36
681116 CAAAATAAAG
* *
681126 TTTTGTCTCTCTTGAGACAGTTTCCCTTTAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
681162 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
681198 TTTTGTCCCTCTTGAGACAATTTCCATTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
681234 TTTTGTCTCTCTTGAGACAGTTTCCATTGAAA-AAGT
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA-A
*
681270 TTTTGTCCCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
681306 ATCTTTGAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
35 2 0.02
36 127 0.97
37 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:681212 original size:21 final size:21
Alignment explanation
Indices: 681187--681248 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
681177 GACAGTTTCC
681187 CTTGAAACAAATTTTGTCCCT
1 CTTGAAACAAATTTTGTCCCT
*
681208 CTTGAGAC-AA--TT-T-CC-
1 CTTGAAACAAATTTTGTCCCT
* *
681223 ATTGAAACAAATTTTGTCTCT
1 CTTGAAACAAATTTTGTCCCT
681244 CTTGA
1 CTTGA
681249 GACAGTTTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 6 0.20
16 4 0.13
17 1 0.03
18 4 0.13
19 1 0.03
20 3 0.10
21 11 0.37
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (21 bp):
CTTGAAACAAATTTTGTCCCT
Found at i:681375 original size:101 final size:102
Alignment explanation
Indices: 681218--681402 Score: 259
Period size: 101 Copynumber: 1.8 Consensus size: 102
681208 CTTGAGACAA
* * *
681218 TTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCATTGAAAAAGTTTTTGTCCCTCTT
1 TTTCCATTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCATTGAAAAAGTTTTTGTCCCACTT
681283 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGT
66 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGT
** * *
681320 TTTCC-TTGAAACAAATTTCGTCTCCCTTGAGACAGTTT-TTTTGGAACTAAG-TTTTGTCTCAC
1 TTTCCATTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCATT-GAA-AAAGTTTTTGTCCCAC
*
681382 TTGAGACAGTTTCTCTTGAAA
64 TTGAGACAGTTTCCCTTGAAA
681403 TAAATTTTGT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
100 2 0.03
101 63 0.86
102 8 0.11
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (102 bp):
TTTCCATTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCATTGAAAAAGTTTTTGTCCCACTT
GAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGT
Found at i:681379 original size:36 final size:36
Alignment explanation
Indices: 681339--681472 Score: 153
Period size: 36 Copynumber: 3.7 Consensus size: 36
681329 AACAAATTTC
* *
681339 GTCTCCCTTGAGACAGTTTTTTTGGAACTAAGTTTT
1 GTCTCTCTTGAGACAGTTTTCTTGGAACTAAGTTTT
* * *
681375 GTCTCACTTGAGACAGTTTCTCTT-GAAATAAATTTT
1 GTCTCTCTTGAGACAGTTT-TCTTGGAACTAAGTTTT
* * * *
681411 GTCTCTCTTGAGATAGTTACTCTTGAAACAAAGTTTT
1 GTCTCTCTTGAGACAGTT-TTCTTGGAACTAAGTTTT
681448 GTCTCTCTTGAGACAGTTTCTCTTG
1 GTCTCTCTTGAGACAGTTT-TCTTG
681473 AAACACTAAC
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
36 48 0.59
37 33 0.41
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (36 bp):
GTCTCTCTTGAGACAGTTTTCTTGGAACTAAGTTTT
Found at i:681379 original size:137 final size:137
Alignment explanation
Indices: 681181--681442 Score: 343
Period size: 137 Copynumber: 1.9 Consensus size: 137
681171 TCTTGAGACA
* *
681181 GTTTCCCTTGAAACAAATTTTGTCCCTCTTGAGACAATTTCCATTGAAACAAATTTTGTCTCTCT
1 GTTTCCCTTGAAACAAATTTCGTCCCTCTTGAGACAATTTCCATTGAAACAAATTTTGTCTCACT
* *
681246 TGAGACAGTTTC-CATTGAAA-AAGTTTTTGTCCCTCTTGAGACAGTTTCCCTTGAAACAAAATC
66 TGAGACAGTTTCTC-TTGAAATAA-ATTTTGTCCCTCTTGAGACAGTTACCCTTGAAACAAAATC
681309 TTTGAATAT
129 TTTGAATAT
* * ** * *
681318 GTTTTCCTTGAAACAAATTTCGTCTCC-CTTGAGACAGTTT-TTTTGGAACTAAGTTTTGTCTCA
1 GTTTCCCTTGAAACAAATTTCGTC-CCTCTTGAGACAATTTCCATTGAAAC-AAATTTTGTCTCA
* * *
681381 CTTGAGACAGTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTACTCTTGAAACAAA
64 CTTGAGACAGTTTCTCTTGAAATAAATTTTGTCCCTCTTGAGACAGTTACCCTTGAAACAAA
681443 GTTTTGTCTC
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
136 6 0.06
137 97 0.90
138 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (137 bp):
GTTTCCCTTGAAACAAATTTCGTCCCTCTTGAGACAATTTCCATTGAAACAAATTTTGTCTCACT
TGAGACAGTTTCTCTTGAAATAAATTTTGTCCCTCTTGAGACAGTTACCCTTGAAACAAAATCTT
TGAATAT
Found at i:681466 original size:73 final size:72
Alignment explanation
Indices: 681320--681477 Score: 219
Period size: 73 Copynumber: 2.2 Consensus size: 72
681310 TTGAATATGT
* * * *
681320 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTTTTTGGAACTAAGTTTTGTCTCACTT
1 TTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTCTCTTGAAACAAAGTTTTGTCTCACTT
681384 GAGACAG
66 GAGACAG
* * * * *
681391 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTACTCTTGAAACAAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACAGTT-CTCTTGAAACAAAGTTTTGTCTCACT
681456 TGAGACAG
65 TGAGACAG
681464 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
681478 CTAACCTTTA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
71 4 0.05
72 29 0.39
73 42 0.56
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.41
Consensus pattern (72 bp):
TTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTCTCTTGAAACAAAGTTTTGTCTCACTT
GAGACAG
Found at i:681564 original size:33 final size:33
Alignment explanation
Indices: 681522--681608 Score: 124
Period size: 33 Copynumber: 2.7 Consensus size: 33
681512 TTTGTCTCCC
681522 TGGAGACTGTTTCTCTTGAAACAAAAAAAACCA
1 TGGAGACTGTTTCTCTTGAAACAAAAAAAACCA
* *
681555 TGGAGACTGTTTCTCTTGAAACACAAAAAACCT
1 TGGAGACTGTTTCTCTTGAAACAAAAAAAACCA
* *
681588 TTGA-AATGTTTC-CTTGAAACA
1 TGGAGACTGTTTCTCTTGAAACA
681609 CAAAGACCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 9 0.18
32 7 0.14
33 34 0.68
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (33 bp):
TGGAGACTGTTTCTCTTGAAACAAAAAAAACCA
Found at i:690262 original size:14 final size:14
Alignment explanation
Indices: 690245--690292 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
690235 ATAATAAATA
690245 ATTATAAATATATT
1 ATTATAAATATATT
*
690259 ATTATAAAATATATA
1 ATTAT-AAATATATT
*
690274 ATT-TAAAAATATT
1 ATTATAAATATATT
*
690287 AATATA
1 ATTATA
690293 TTTGAGTCGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 9 0.32
14 8 0.29
15 11 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTATAAATATATT
Found at i:690270 original size:15 final size:15
Alignment explanation
Indices: 690245--690292 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
690235 ATAATAAATA
690245 ATTAT-AAATATATT
1 ATTATAAAATATATT
*
690259 ATTATAAAATATATA
1 ATTATAAAATATATT
690274 ATT-TAAAA-ATATT
1 ATTATAAAATATATT
*
690287 AATATA
1 ATTATA
690293 TTTGAGTCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 6 0.21
14 12 0.41
15 11 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTATAAAATATATT
Found at i:690287 original size:28 final size:29
Alignment explanation
Indices: 690237--690292 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
690227 TTTAGAATAT
* *
690237 AATAAATAATTATAAATATATTATTATAA
1 AATAAATAATTATAAAAATATTAATATAA
*
690266 AATATATAATT-TAAAAATATTAATATA
1 AATAAATAATTATAAAAATATTAATATA
690293 TTTGAGTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AATAAATAATTATAAAAATATTAATATAA
Found at i:690758 original size:21 final size:21
Alignment explanation
Indices: 690726--690932 Score: 169
Period size: 21 Copynumber: 10.0 Consensus size: 21
690716 GATTTACATA
*
690726 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
690747 TTTGTGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
690768 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
690789 TT--CGTTGCGATAATCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
690808 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
690831 TT--TGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
690850 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
690873 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
690892 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
690915 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
690933 AATCGCAACG
Statistics
Matches: 148, Mismatches: 26, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
19 41 0.28
21 80 0.54
23 27 0.18
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:690778 original size:42 final size:40
Alignment explanation
Indices: 690752--690932 Score: 272
Period size: 42 Copynumber: 4.4 Consensus size: 40
690742 CCAAGTTTGT
* *
690752 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTC
1 GTTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATTC
* *
690792 GTTGCGATAATCCAAGTTCGCGTTGCGATTTATTCCAAATTT
1 GTTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAATTC
690834 GTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTC
1 GTTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAATTC
690876 GTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTC
1 GTTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAATTC
690918 GTTGCGATAGTCCAA
1 GTTGCGATAGTCCAA
690933 AATCGCAACG
Statistics
Matches: 133, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
40 26 0.20
42 107 0.80
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (40 bp):
GTTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATTC
Found at i:690890 original size:84 final size:82
Alignment explanation
Indices: 690751--690932 Score: 319
Period size: 84 Copynumber: 2.2 Consensus size: 82
690741 TCCAAGTTTG
*
690751 TGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAATCCAAGTTCGCGTT
1 TGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAATCCAAGTTCGCGTT
690816 GCGATTTATTCCAAATT
66 GCGATTTATTCCAAATT
*
690833 TGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCG
1 TGTTGCGATAGTCCAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAATCCAAGTTCGCG
690898 TTGCGATTTATTCCAAATT
64 TTGCGATTTATTCCAAATT
*
690917 CGTTGCGATAGTCCAA
1 TGTTGCGATAGTCCAA
690933 AATCGCAACG
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
82 28 0.29
83 2 0.02
84 65 0.68
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (82 bp):
TGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAATCCAAGTTCGCGTT
GCGATTTATTCCAAATT
Found at i:691826 original size:42 final size:41
Alignment explanation
Indices: 691769--691966 Score: 255
Period size: 42 Copynumber: 4.8 Consensus size: 41
691759 CGTTGCGATT
691769 TTGGACTATCGCAACGAATTTGGAATAAATCGCAA-CGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACCGAAC
* * * *
691809 TTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAA-CGAAC
1 TTGGACT--ATCGCAA--CGAATTTGGAATAAATCGCAACCGAAC
*
691851 TTGGACTATCGCAACGAATTTGGAATAAATCACAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAAC-CGAAC
691893 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAAC-CGAAC
691935 TTGGACTATCGCAACGAATTTGG-A-AAATCGCA
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCA
691967 TTGCGATAGT
Statistics
Matches: 140, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
38 9 0.06
40 27 0.19
41 1 0.01
42 94 0.67
44 9 0.06
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (41 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACCGAAC
Found at i:691878 original size:61 final size:62
Alignment explanation
Indices: 691772--691939 Score: 248
Period size: 61 Copynumber: 2.7 Consensus size: 62
691762 TGCGATTTTG
*
691772 GACTATCGCAACGAATTTGGAATAAATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAAT-AATCGCAACGAACTTGGAATAAATCACAACGCGAACTTC
* * * *
691835 GACTATCGCAACGAACTTGGACT-ATCGCAACGAATTTGGAATAAATCACAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAATCGCAACGAACTTGGAATAAATCACAACGCGAACTTC
691896 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGA
1 GACTATCGCAACGAATTTGGAAT-AATCGCAA--CGAACTTGGA
691940 CTATCGCAAC
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
61 56 0.60
63 28 0.30
65 9 0.10
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (62 bp):
GACTATCGCAACGAATTTGGAATAATCGCAACGAACTTGGAATAAATCACAACGCGAACTTC
Found at i:691966 original size:61 final size:61
Alignment explanation
Indices: 691769--691958 Score: 235
Period size: 61 Copynumber: 3.1 Consensus size: 61
691759 CGTTGCGATT
691769 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAACTTGGAAT-AATCGCAAC-CGAAC
* * * * *
691832 TTCGACTATCGCAACGAACTTGGACT--ATCGCAACGAATTTGGAATAAATCACAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAACTTGGAAT-AATCGCAAC-CGAAC
* *
691893 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACT-ATCGCAA-CGAAT
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAACTTGGAATAATCGCAACCGAAC
691954 TTGGA
1 TTGGA
691959 AAATCGCATT
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
61 65 0.59
63 36 0.32
65 10 0.09
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (61 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAACTTGGAATAATCGCAACCGAAC
Found at i:691993 original size:21 final size:21
Alignment explanation
Indices: 691967--692014 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
691957 GAAAATCGCA
691967 TTGCGATAGTCGAAGTTCACG
1 TTGCGATAGTCGAAGTTCACG
* *
691988 TTGCGATAGTCGATGTTCGCG
1 TTGCGATAGTCGAAGTTCACG
692009 TTGCGA
1 TTGCGA
692015 ATCTATAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (21 bp):
TTGCGATAGTCGAAGTTCACG
Found at i:694478 original size:36 final size:36
Alignment explanation
Indices: 694437--694512 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
694427 ATTTTCGGGA
*
694437 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
694473 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
694509 TTTT
1 TTTT
694513 TTTGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:694957 original size:15 final size:15
Alignment explanation
Indices: 694937--694966 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
694927 TATCACAATC
694937 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
694952 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
694967 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:699477 original size:36 final size:36
Alignment explanation
Indices: 699436--699511 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
699426 ATTTTCGGGA
*
699436 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
699472 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
699508 TTTT
1 TTTT
699512 TTTGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:702898 original size:24 final size:24
Alignment explanation
Indices: 702811--702882 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
702801 AAGCGGATAT
* *
702811 ATCAAAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATCCAG
* * * *
702835 ATAAGATATTATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATCCAG
702859 ATCAGAAATCAAAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATCCAG
702883 GTCCGGTATC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATCCAG
Found at i:704876 original size:17 final size:17
Alignment explanation
Indices: 704854--704886 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
704844 TTTTTTGTCA
704854 AAGTCAACAGTCAATGG
1 AAGTCAACAGTCAATGG
*
704871 AAGTCAACGGTCAATG
1 AAGTCAACAGTCAATG
704887 ACGTTCAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (17 bp):
AAGTCAACAGTCAATGG
Found at i:705865 original size:24 final size:24
Alignment explanation
Indices: 705833--705879 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
705823 ATATTGGTCC
* *
705833 TCTATTAATCCTTAACCAGCTGAA
1 TCTATTAATCATTAACCAACTGAA
705857 TCTATTAATCATTAACCAACTGA
1 TCTATTAATCATTAACCAACTGA
705880 GTATACATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.34
Consensus pattern (24 bp):
TCTATTAATCATTAACCAACTGAA
Found at i:707098 original size:24 final size:24
Alignment explanation
Indices: 707056--707154 Score: 90
Period size: 24 Copynumber: 4.1 Consensus size: 24
707046 AAACGGATAT
* * *
707056 ATCAGAAATCAAAATAGAATTCAA
1 ATCAGATATCAGAACAGAATTCAA
* * * *
707080 ATCAGATTTTAGAACAGAATCCAG
1 ATCAGATATCAGAACAGAATTCAA
* * *
707104 ATAAGAAATCAGAACAGAATTCAG
1 ATCAGATATCAGAACAGAATTCAA
* *
707128 GTCAGGTATCAGAACAGAATTCAA
1 ATCAGATATCAGAACAGAATTCAA
707152 ATC
1 ATC
707155 GAAATTCAGA
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGATATCAGAACAGAATTCAA
Found at i:707163 original size:24 final size:23
Alignment explanation
Indices: 707071--707164 Score: 62
Period size: 24 Copynumber: 3.9 Consensus size: 23
707061 AAATCAAAAT
* *
707071 AGAATTCAAATCAGATTTTAGAAC
1 AGAATTCAAATCA-AATTCAGAAC
* * * *
707095 AGAATCCAGATAAGAAATCAGAAC
1 AGAATTCAAATCA-AATTCAGAAC
** **
707119 AGAATTCAGGTCAGGTATCAGAAC
1 AGAATTCAAATCAAAT-TCAGAAC
707143 AGAATTCAAATCGAAATTCAGA
1 AGAATTCAAATC-AAATTCAGA
707165 TAAAACATTC
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
24 50 0.96
25 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (23 bp):
AGAATTCAAATCAAATTCAGAAC
Found at i:728519 original size:291 final size:293
Alignment explanation
Indices: 728077--728611 Score: 824
Period size: 291 Copynumber: 1.8 Consensus size: 293
728067 CATATGCCTG
* * * *
728077 ATATCACTAGAAACTATTGAATTTTTATTTTGGATTGAATTGATACGTGTGTGTGTGTATTTCTA
1 ATATCACTAGAAACTATTGAAGTTTTATTTTGGATTGAATTAATAC-TGAGTGTGTGTAGTTCTA
* *
728142 TTTGGTCTTAATGAGCCTTTCCCTTTCCAATTTGGCTCAATTAAGTCGCAATTATTCGTGATACA
65 TTTGGTCTTAATGAGCCTTTCCCTTTCCAATTTAGATCAATTAAGTCGCAATTATTCGTGATACA
* * *
728207 GGGCTTGCTGCTCAATCATGTTAATGTGGTAA-TATAAATATGGCATAGATCACTATAGAAGACT
130 AGGCTTGCTGCTCAATCATGTTAATGTGGTAAGT-TAAATACGGCATAGATCACCATAGAAGACT
728271 GTTAAAGAACTACTCATGACAATTTCTTCCTAATTGAATGATGTAAATTGTGATGTATATTCTAT
194 GTTAAAGAACTACTCATGACAATTTCTTCCTAATTGAATGATGTAAATTGTGATGTATATTCTAT
728336 ATTAAACATACGATAAAAACCTTATTACAAATTTA
259 ATTAAACATACGATAAAAACCTTATTACAAATTTA
* * * *
728371 ATATCAGTAGAAATTATTTAAGTTTTATTTTGGGTTGAATTAATA-TGAGTGTGTGTAGTTCTAT
1 ATATCACTAGAAACTATTGAAGTTTTATTTTGGATTGAATTAATACTGAGTGTGTGTAGTTCTAT
* ** * *
728435 TTGTTCTTGTTGAGCTTTTCCCTTTTCAATTTAGATCAATTAAGTC-CAATTATTCGTGATACAA
66 TTGGTCTTAATGAGCCTTTCCCTTTCCAATTTAGATCAATTAAGTCGCAATTATTCGTGATACAA
* *
728499 GGCTTGCTGCTCAATCATGTTGATGTTGTAAGTTAAATACGGCATAGATCACCATAGAAGACTGT
131 GGCTTGCTGCTCAATCATGTTAATGTGGTAAGTTAAATACGGCATAGATCACCATAGAAGACTGT
* * *
728564 TAAAGAACTACTCGTGATAATTTCTTCGTAATTGAATGATGTAAATTG
196 TAAAGAACTACTCATGACAATTTCTTCCTAATTGAATGATGTAAATTG
728612 CGATCCTATA
Statistics
Matches: 217, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
291 121 0.56
292 57 0.26
294 39 0.18
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (293 bp):
ATATCACTAGAAACTATTGAAGTTTTATTTTGGATTGAATTAATACTGAGTGTGTGTAGTTCTAT
TTGGTCTTAATGAGCCTTTCCCTTTCCAATTTAGATCAATTAAGTCGCAATTATTCGTGATACAA
GGCTTGCTGCTCAATCATGTTAATGTGGTAAGTTAAATACGGCATAGATCACCATAGAAGACTGT
TAAAGAACTACTCATGACAATTTCTTCCTAATTGAATGATGTAAATTGTGATGTATATTCTATAT
TAAACATACGATAAAAACCTTATTACAAATTTA
Found at i:737897 original size:18 final size:18
Alignment explanation
Indices: 737874--737943 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
737864 TAGCAGCGAC
737874 AGCGACAACAACGACAGT
1 AGCGACAACAACGACAGT
* *
737892 AGCGACATCAATGACA--
1 AGCGACAACAACGACAGT
**
737908 ACGACGACAACAACGATGGT
1 A-G-CGACAACAACGACAGT
* *
737928 AGCGATAACGACGACA
1 AGCGACAACAACGACA
737944 ACAACGATGG
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
16 1 0.03
17 1 0.03
18 34 0.89
19 1 0.03
20 1 0.03
ACGTcount: A:0.43, C:0.26, G:0.23, T:0.09
Consensus pattern (18 bp):
AGCGACAACAACGACAGT
Found at i:737944 original size:36 final size:36
Alignment explanation
Indices: 737876--737950 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
737866 GCAGCGACAG
* * *
737876 CGACAACAACGACAGTAGCGACATCAATGACAACGA
1 CGACAACAACGACAGTAGCGACAACAACGACAACAA
** * *
737912 CGACAACAACGATGGTAGCGATAACGACGACAACAA
1 CGACAACAACGACAGTAGCGACAACAACGACAACAA
737948 CGA
1 CGA
737951 TGGCAGTGAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.44, C:0.27, G:0.21, T:0.08
Consensus pattern (36 bp):
CGACAACAACGACAGTAGCGACAACAACGACAACAA
Found at i:737977 original size:27 final size:27
Alignment explanation
Indices: 737903--737970 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
737893 GCGACATCAA
*
737903 TGACAACGACGACAACAACGATGGTAG
1 TGACAACGACGACAACAACGATGGCAG
* *
737930 CGATAACGACGACAACAACGATGGCAG
1 TGACAACGACGACAACAACGATGGCAG
*
737957 TGACAACGATGACA
1 TGACAACGACGACA
737971 GTAACGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.41, C:0.24, G:0.25, T:0.10
Consensus pattern (27 bp):
TGACAACGACGACAACAACGATGGCAG
Found at i:739445 original size:20 final size:20
Alignment explanation
Indices: 739420--739459 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
739410 AAGTCCCTAC
739420 GGTTAGAGATGTATTAGTAG
1 GGTTAGAGATGTATTAGTAG
739440 GGTTAGAGATGTATTAGTAG
1 GGTTAGAGATGTATTAGTAG
739460 AAAAATGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (20 bp):
GGTTAGAGATGTATTAGTAG
Found at i:741632 original size:18 final size:18
Alignment explanation
Indices: 741595--741643 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
741585 AGAAAGAATA
741595 GATCCTTTTATGAAAGGGATC
1 GATCCTTTTAT---AGGGATC
* *
741616 GATTCTTTTATAGGGATT
1 GATCCTTTTATAGGGATC
741634 GATCCTTTTA
1 GATCCTTTTA
741644 GGATTTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 15 0.60
21 10 0.40
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.43
Consensus pattern (18 bp):
GATCCTTTTATAGGGATC
Found at i:744138 original size:21 final size:20
Alignment explanation
Indices: 744096--744139 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
744086 CTAAAACATA
**
744096 TAAAATTAAAATAATAGGAT
1 TAAAATTAAAATAATAAAAT
*
744116 TAAAATATAAAATATTAAAAT
1 TAAAAT-TAAAATAATAAAAT
744137 TAA
1 TAA
744140 TGGGCATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
TAAAATTAAAATAATAAAAT
Found at i:746043 original size:3 final size:3
Alignment explanation
Indices: 746011--746078 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
746001 TTGTAATATT
* * *
746011 TAA TAAA TAA TATA TAT TAT TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
746058 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
746079 ATTTAAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:753762 original size:2 final size:2
Alignment explanation
Indices: 753755--753793 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
753745 CAATAGTGTT
*
753755 TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
753794 TTTTGTATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.03, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:753901 original size:3 final size:3
Alignment explanation
Indices: 753893--753940 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
753883 TGAATTCCAG
*
753893 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
753941 GATGAGTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:756077 original size:50 final size:50
Alignment explanation
Indices: 756023--756119 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
756013 GGTTTCAAAC
*
756023 ATCTCCAGAATATTCCAGAGGATTTTACACTCTTCCACAAGCTTCTACAA
1 ATCTCCAGAATATTCCAGAGGATTCTACACTCTTCCACAAGCTTCTACAA
756073 ATCTCCAGAATATTCCAGAGGATTCTACACTCTTCCACAAGCTTCTA
1 ATCTCCAGAATATTCCAGAGGATTCTACACTCTTCCACAAGCTTCTA
756120 GAGAGTTCTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.30
Consensus pattern (50 bp):
ATCTCCAGAATATTCCAGAGGATTCTACACTCTTCCACAAGCTTCTACAA
Found at i:759553 original size:50 final size:50
Alignment explanation
Indices: 759499--759595 Score: 160
Period size: 50 Copynumber: 1.9 Consensus size: 50
759489 GGTTTCACAC
*
759499 ATCTCCAGAATATTCCAGATGATT-TCACACTCTTCAACAAGCTTCTACAA
1 ATCTCCAGAATATTCCAGAGGATTCT-ACACTCTTCAACAAGCTTCTACAA
*
759549 ATCTCCAGAATATTCCAGAGGATTCTACACTCTTCCACAAGCTTCTA
1 ATCTCCAGAATATTCCAGAGGATTCTACACTCTTCAACAAGCTTCTA
759596 GAGAGTTCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 43 0.98
51 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.30
Consensus pattern (50 bp):
ATCTCCAGAATATTCCAGAGGATTCTACACTCTTCAACAAGCTTCTACAA
Found at i:761513 original size:20 final size:21
Alignment explanation
Indices: 761485--761525 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
761475 TTGATCAATA
* *
761485 TTATTTTTATT-TAATAAAAT
1 TTATCTTTATTGTAAAAAAAT
761505 TTATCTTTATTGTAAAAAAAT
1 TTATCTTTATTGTAAAAAAAT
761526 AATGTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTATCTTTATTGTAAAAAAAT
Found at i:765059 original size:3 final size:3
Alignment explanation
Indices: 765051--765194 Score: 261
Period size: 3 Copynumber: 47.7 Consensus size: 3
765041 TATGTAACTT
765051 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
* *
765099 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAT TAT TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
765147 TACC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TA-C TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
765193 TA
1 TA
765195 TATTATTTAT
Statistics
Matches: 138, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
3 135 0.98
4 3 0.02
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:765380 original size:185 final size:185
Alignment explanation
Indices: 765176--765734 Score: 1091
Period size: 185 Copynumber: 3.0 Consensus size: 185
765166 TACTACTACT
765176 ACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATATGT
1 ACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATATGT
765241 ATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCATGC
66 ATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCATGC
765306 ATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTA
131 ATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTA
765361 ACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATATGT
1 ACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATATGT
765426 ATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCATGC
66 ATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCATGC
765491 ATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTAA
131 ATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATT-A
765547 CTACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATAT
1 --ACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATAT
765612 GTATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCAT
64 GTATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCAT
765677 GCATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTA
129 GCATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTA
765734 A
1 A
765735 GATAGTCAAC
Statistics
Matches: 371, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
185 185 0.50
186 1 0.00
187 1 0.00
188 184 0.50
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (185 bp):
ACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATATGT
ATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCATGC
ATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTA
Found at i:765565 original size:188 final size:188
Alignment explanation
Indices: 765173--765734 Score: 1103
Period size: 188 Copynumber: 3.0 Consensus size: 188
765163 TACTACTACT
765173 ACTACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATA
1 ACTACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATA
765238 TGTATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCA
66 TGTATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCA
765303 TGCATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATT-
131 TGCATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTA
765360 A--ACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATA
1 ACTACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATA
765423 TGTATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCA
66 TGTATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCA
765488 TGCATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTA
131 TGCATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTA
765546 ACTACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATA
1 ACTACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATA
765611 TGTATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCA
66 TGTATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCA
765676 TGCATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTA
131 TGCATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTA
765734 A
1 A
765735 GATAGTCAAC
Statistics
Matches: 372, Mismatches: 0, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
185 184 0.49
186 1 0.00
187 1 0.00
188 186 0.50
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (188 bp):
ACTACTACTACTACTACTACTATATTATTTATTATTATTATCATCATCACCATTAACATTATATA
TGTATACATATATAATTTATGTTTTCATATTAATTTTAATTGTTTAGTATGTTCCAAATCATGCA
TGCATCTCTAATAAAATGGTTTTCATTTTGTAGAACTTAAAAAATGATTATTTTATTA
Found at i:769074 original size:26 final size:26
Alignment explanation
Indices: 769038--769090 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
769028 CGTTCAGAAT
769038 TCATTCAAGGGGTATTTAAACAAGTC
1 TCATTCAAGGGGTATTTAAACAAGTC
769064 TCATTCAAGGGGTATTTAAACAAGTC
1 TCATTCAAGGGGTATTTAAACAAGTC
769090 T
1 T
769091 TGAAGCCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (26 bp):
TCATTCAAGGGGTATTTAAACAAGTC
Found at i:780997 original size:57 final size:58
Alignment explanation
Indices: 780930--781052 Score: 169
Period size: 58 Copynumber: 2.1 Consensus size: 58
780920 GGATCCCAAA
* * *
780930 CAGAAACAGGACATGGAT-TAATCC-CATGTATAATCAGGACGGAGATATAATCCCATG
1 CAGAAACAGGACAAGGATATAA-CCTCATGGAGAATCAGGACGGAGATATAATCCCATG
* * *
780987 CAGAATCAGGACAAGGATATAACCTCATGGAGAATCATGACGGGGATATAATCCCATG
1 CAGAAACAGGACAAGGATATAACCTCATGGAGAATCAGGACGGAGATATAATCCCATG
781045 CAGAAACA
1 CAGAAACA
781053 TGTATGCATC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
57 18 0.32
58 39 0.68
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.19
Consensus pattern (58 bp):
CAGAAACAGGACAAGGATATAACCTCATGGAGAATCAGGACGGAGATATAATCCCATG
Found at i:781054 original size:29 final size:29
Alignment explanation
Indices: 780930--781049 Score: 129
Period size: 29 Copynumber: 4.2 Consensus size: 29
780920 GGATCCCAAA
* *
780930 CAGAAACAGGACATGGAT-TAATCCCATG
1 CAGAATCAGGACAGGGATATAATCCCATG
* *
780958 TATAATCAGGAC-GGAGATATAATCCCATG
1 CAGAATCAGGACAGG-GATATAATCCCATG
*
780987 CAGAATCAGGACAAGGATATAA-CCTCATG
1 CAGAATCAGGACAGGGATATAATCC-CATG
* * *
781016 GAGAATCATGACGGGGATATAATCCCATG
1 CAGAATCAGGACAGGGATATAATCCCATG
781045 CAGAA
1 CAGAA
781050 ACATGTATGC
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
27 1 0.01
28 14 0.19
29 57 0.76
30 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (29 bp):
CAGAATCAGGACAGGGATATAATCCCATG
Found at i:783838 original size:18 final size:19
Alignment explanation
Indices: 783815--783850 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
783805 AGGAACACCC
783815 AAGAAAAAAGAAA-GGAAA
1 AAGAAAAAAGAAATGGAAA
*
783833 AAGAAAATAGAAATGGAA
1 AAGAAAAAAGAAATGGAA
783851 TTTCTCTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (19 bp):
AAGAAAAAAGAAATGGAAA
Found at i:784037 original size:31 final size:31
Alignment explanation
Indices: 783997--784070 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
783987 TAAAACTTAT
* *
783997 AATACAGTCCCCCAACATTTAGTCTGTTTAC
1 AATATAGTCCCCCAACATTTAGTCCGTTTAC
** * *
784028 AATATAGTCCCTTAATATTTAGTCCGTTTGC
1 AATATAGTCCCCCAACATTTAGTCCGTTTAC
784059 AATATAGTCCCC
1 AATATAGTCCCC
784071 AATATAACTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (31 bp):
AATATAGTCCCCCAACATTTAGTCCGTTTAC
Found at i:789880 original size:24 final size:24
Alignment explanation
Indices: 789853--789916 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
789843 ATTTCCGACT
789853 TGAATTCTGTTTTGATACATGACC
1 TGAATTCTGTTTTGATACATGACC
* * * ***
789877 TGAATTATGTTCTGATATATGTTT
1 TGAATTCTGTTTTGATACATGACC
789901 TGAATTCTGTTTTGAT
1 TGAATTCTGTTTTGAT
789917 TTCTGATATC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.50
Consensus pattern (24 bp):
TGAATTCTGTTTTGATACATGACC
Found at i:793538 original size:21 final size:21
Alignment explanation
Indices: 793512--793558 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
793502 GAAAAAAAGT
*
793512 AAAAGTTAAGAATGAAAGAGA
1 AAAAGTTAAGAATGAAAGAAA
*
793533 AAAAGTTAAGAATGATAGAAA
1 AAAAGTTAAGAATGAAAGAAA
793554 AAAAG
1 AAAAG
793559 AAAAAGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (21 bp):
AAAAGTTAAGAATGAAAGAAA
Found at i:793863 original size:6 final size:6
Alignment explanation
Indices: 793852--793901 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
793842 AATTATCTAC
793852 AAAATT AAAATT -AAATT AAAATT AAAATT -AAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
793898 AAAA
1 AAAA
793902 AAAGAAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.24
6 32 0.76
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:793869 original size:11 final size:12
Alignment explanation
Indices: 793852--793901 Score: 86
Period size: 11 Copynumber: 4.3 Consensus size: 12
793842 AATTATCTAC
793852 AAAATTAAAATT
1 AAAATTAAAATT
793864 -AAATTAAAATT
1 AAAATTAAAATT
793875 AAAATT-AAATT
1 AAAATTAAAATT
793886 AAAATTAAAATT
1 AAAATTAAAATT
793898 AAAA
1 AAAA
793902 AAAGAAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
11 22 0.61
12 14 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:793874 original size:17 final size:17
Alignment explanation
Indices: 793852--793900 Score: 98
Period size: 17 Copynumber: 2.9 Consensus size: 17
793842 AATTATCTAC
793852 AAAATTAAAATTAAATT
1 AAAATTAAAATTAAATT
793869 AAAATTAAAATTAAATT
1 AAAATTAAAATTAAATT
793886 AAAATTAAAATTAAA
1 AAAATTAAAATTAAA
793901 AAAAGAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTAAAATTAAATT
Found at i:817112 original size:21 final size:20
Alignment explanation
Indices: 817088--817126 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
817078 AACTTGAAGA
*
817088 TGAGAATTTATACGAAGTTTG
1 TGAGAATTT-TAAGAAGTTTG
*
817109 TGAGCATTTTAAGAAGTT
1 TGAGAATTTTAAGAAGTT
817127 GCTTCCAAAG
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:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (20 bp):
TGAGAATTTTAAGAAGTTTG
Found at i:826720 original size:21 final size:21
Alignment explanation
Indices: 826678--826720 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
826668 GGGTGTCAAA
***
826678 GTGCATCCATGCACCCCTGCT
1 GTGCATCCATGCACCAAGGCT
*
826699 GTGCATCCATGCGCCAAGGCT
1 GTGCATCCATGCACCAAGGCT
826720 G
1 G
826721 CAACGGCTAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.16, C:0.37, G:0.26, T:0.21
Consensus pattern (21 bp):
GTGCATCCATGCACCAAGGCT
Found at i:829602 original size:30 final size:30
Alignment explanation
Indices: 829566--829622 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
829556 GGGGGAGAAA
829566 TTTGGTTTGAAAAATTCAATTTCTTAAAAG
1 TTTGGTTTGAAAAATTCAATTTCTTAAAAG
*
829596 TTTGGTTTGAAAAATTTAATTTCTTAA
1 TTTGGTTTGAAAAATTCAATTTCTTAA
829623 TGAAAAAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (30 bp):
TTTGGTTTGAAAAATTCAATTTCTTAAAAG
Found at i:829695 original size:21 final size:21
Alignment explanation
Indices: 829669--829708 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
829659 AAACAATTGG
829669 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
829690 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
829709 CATTAAACAT
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:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:829974 original size:21 final size:21
Alignment explanation
Indices: 829932--829974 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
829922 GGGTGTCAAA
***
829932 GTGCATCCAGGCACCCCTGTT
1 GTGCATCCAGGCACCAAGGTT
*
829953 GTGCATCCATGCACCAAGGTT
1 GTGCATCCAGGCACCAAGGTT
829974 G
1 G
829975 CAACGGCTAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.33, G:0.26, T:0.23
Consensus pattern (21 bp):
GTGCATCCAGGCACCAAGGTT
Found at i:835333 original size:23 final size:24
Alignment explanation
Indices: 835290--835344 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
835280 AACGAGACAC
835290 TCAGCCAAGAAAAAGAGGGAACGA
1 TCAGCCAAGAAAAAGAGGGAACGA
835314 TCAGCCAAGAAAAAGA-GGAACGA
1 TCAGCCAAGAAAAAGAGGGAACGA
835337 TCAGCCAA
1 TCAGCCAA
835345 AAGCATGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.49, C:0.20, G:0.25, T:0.05
Consensus pattern (24 bp):
TCAGCCAAGAAAAAGAGGGAACGA
Found at i:835515 original size:31 final size:31
Alignment explanation
Indices: 835477--835538 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
835467 GTAGACATCG
835477 ATATTGGTTGAGTGAATAGGAATTTGATGCA
1 ATATTGGTTGAGTGAATAGGAATTTGATGCA
835508 ATATTGGTTGAGTGAATAGGAATTTGATGCA
1 ATATTGGTTGAGTGAATAGGAATTTGATGCA
835539 TACTCCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.35
Consensus pattern (31 bp):
ATATTGGTTGAGTGAATAGGAATTTGATGCA
Found at i:845329 original size:3 final size:3
Alignment explanation
Indices: 845311--845370 Score: 102
Period size: 3 Copynumber: 19.7 Consensus size: 3
845301 ATTAGCTTTC
*
845311 TTA TTA TTT TTAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
845357 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
845371 GGTTGCCCTC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 52 0.96
4 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:846410 original size:19 final size:19
Alignment explanation
Indices: 846369--846407 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
846359 ATATTATAAA
*
846369 TTATTACATTAATATATTT
1 TTATAACATTAATATATTT
846388 TTATAACATTAA-ATATTT
1 TTATAACATTAATATATTT
846406 TT
1 TT
846408 TATTGTGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATAACATTAATATATTT
Found at i:846798 original size:36 final size:35
Alignment explanation
Indices: 846692--846801 Score: 148
Period size: 35 Copynumber: 3.1 Consensus size: 35
846682 AAAGATGAAC
* *
846692 ACTTGAATCGAAAGTGTGATGCCTCATTCCGTTCG
1 ACTTGAATCGAAAGTGTGATGCTTCATTTCGTTCG
*
846727 ACTTGAATCGAAAGTGTGATGCTTCCTTTCGTTCG
1 ACTTGAATCGAAAGTGTGATGCTTCATTTCGTTCG
*** *
846762 ACTTGAATCGAAAGTACCAATGCTTCATTTCATTCG
1 ACTTGAATCGAAAGT-GTGATGCTTCATTTCGTTCG
846798 ACTT
1 ACTT
846802 TATTCACCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
35 47 0.71
36 19 0.29
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (35 bp):
ACTTGAATCGAAAGTGTGATGCTTCATTTCGTTCG
Found at i:853789 original size:29 final size:29
Alignment explanation
Indices: 853755--853842 Score: 158
Period size: 29 Copynumber: 3.0 Consensus size: 29
853745 CCTAAATTAA
*
853755 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATTTCATTGCTTACATCAATTTAGT
853784 TTTGATTTCATTGCTTACATCAATTTAGT
1 TTTGATTTCATTGCTTACATCAATTTAGT
*
853813 TTTGATTTTATTGCTTACATCAATTTAGT
1 TTTGATTTCATTGCTTACATCAATTTAGT
853842 T
1 T
853843 AGGTGAAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.24, C:0.12, G:0.11, T:0.52
Consensus pattern (29 bp):
TTTGATTTCATTGCTTACATCAATTTAGT
Found at i:856702 original size:23 final size:26
Alignment explanation
Indices: 856672--856732 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 26
856662 GCAATTTACT
856672 CATTTTAGTCACTTTTTAATTTC-TG
1 CATTTTAGTCACTTTTTAATTTCTTG
*
856697 -A-TTTAG-CTAC-TTTTATTTTCTTG
1 CATTTTAGTC-ACTTTTTAATTTCTTG
856720 CATTTTAGTCACT
1 CATTTTAGTCACT
856733 ATTATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 11
0.71 0.02 0.27
Matches are distributed among these distances:
22 10 0.34
23 9 0.31
24 2 0.07
25 7 0.24
26 1 0.03
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (26 bp):
CATTTTAGTCACTTTTTAATTTCTTG
Found at i:856737 original size:25 final size:24
Alignment explanation
Indices: 856672--856740 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
856662 GCAATTTACT
*
856672 CATTTTAGTCACTTTTTAATTTCTG
1 CATTTTAGTCAC-TTTTATTTTCTG
856697 -A-TTTAG-CTACTTTTATTTTCTTG
1 CATTTTAGTC-ACTTTTATTTTC-TG
*
856720 CATTTTAGTCACTATTATTTT
1 CATTTTAGTCACTTTTATTTT
856741 ATTTTATGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 10 0.27
23 9 0.24
24 2 0.05
25 15 0.41
26 1 0.03
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.58
Consensus pattern (24 bp):
CATTTTAGTCACTTTTATTTTCTG
Found at i:861070 original size:17 final size:18
Alignment explanation
Indices: 861033--861118 Score: 61
Period size: 18 Copynumber: 4.6 Consensus size: 18
861023 TGTTAGAGGG
*
861033 AAAAAAATGAATAAATGA
1 AAAAAAATGAATAAATAA
*
861051 AAAAAAATGAA-GAATAA
1 AAAAAAATGAATAAATAA
*
861068 AAATAAGTAA-AAATAAATAA
1 AAA-AA--AATGAATAAATAA
*
861088 AAATAAAAGGAA-AAATAA
1 AAA-AAAATGAATAAATAA
861106 ATAAATAAATGAA
1 A-AAA-AAATGAA
861119 ATATTAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
17 7 0.13
18 23 0.42
19 12 0.22
20 13 0.24
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (18 bp):
AAAAAAATGAATAAATAA
Found at i:861078 original size:10 final size:10
Alignment explanation
Indices: 861063--861110 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
861053 AAAAATGAAG
861063 AATAAAAATA
1 AATAAAAATA
*
861073 AGTAAAAATA
1 AATAAAAATA
861083 AATAAAAATAA
1 AATAAAAAT-A
*
861094 AAGGAAAAATA
1 AA-TAAAAATA
861105 AATAAA
1 AATAAA
861111 TAAATGAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 20 0.62
11 6 0.19
12 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (10 bp):
AATAAAAATA
Found at i:861094 original size:16 final size:15
Alignment explanation
Indices: 861033--861110 Score: 57
Period size: 16 Copynumber: 4.7 Consensus size: 15
861023 TGTTAGAGGG
861033 AAAAAAATGAATAAATGA
1 AAAAAAAT-AA-AAAT-A
*
861051 AAAAAAATGAAGAATA
1 AAAAAAAT-AAAAATA
*
861067 AAAATAAGTAAAAATA
1 AAAA-AAATAAAAATA
**
861083 AATAAAAATAAAAGGA
1 AA-AAAAATAAAAATA
861099 AAAATAAATAAA
1 AAAA-AAATAAA
861111 TAAATGAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
15 2 0.04
16 30 0.59
17 8 0.16
18 11 0.22
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (15 bp):
AAAAAAATAAAAATA
Found at i:861104 original size:22 final size:20
Alignment explanation
Indices: 861063--861110 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
861053 AAAAATGAAG
*
861063 AATAAAAATAAGTAAAAATA
1 AATAAAAATAAGGAAAAATA
861083 AATAAAAATAAAAGGAAAAATA
1 AATAAAAAT--AAGGAAAAATA
861105 AATAAA
1 AATAAA
861111 TAAATGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.36
22 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (20 bp):
AATAAAAATAAGGAAAAATA
Found at i:861368 original size:2 final size:2
Alignment explanation
Indices: 861361--861388 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
861351 GATAATTAAA
861361 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
861389 GGTAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:861432 original size:2 final size:2
Alignment explanation
Indices: 861427--861462 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
861417 TTTAAAAAAG
861427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
861463 TAAAAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:862030 original size:37 final size:37
Alignment explanation
Indices: 861989--862093 Score: 140
Period size: 37 Copynumber: 2.8 Consensus size: 37
861979 GTGCTTGTGG
* *
861989 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATCTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
862026 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATCTTTAGGAGTTTGAATCCTAGTAGAACTCT
862063 ATCCTA-CTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATC-TTTAGGAGTTTGAATCCTAGTAG
862094 GACGAAAATG
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (37 bp):
ATCCTATCTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:863103 original size:106 final size:106
Alignment explanation
Indices: 862766--863716 Score: 1256
Period size: 106 Copynumber: 9.0 Consensus size: 106
862756 GCATTATTCT
* * * * *
862766 GAGTCCAATATTCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACTGGTAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * *
862830 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
862872 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T---AAAAT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * * *
862931 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGCCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * * *
862973 G-GTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAACTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
863037 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
863078 GAGTCCAATAT-CTTACGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 GAGTCCAATATCCTT-CGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
863142 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
863184 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
863249 CCAGCGGTCCCTTCGTCGTGAATTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** *
863290 GAGTCCAGTATCCTTCATTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
863355 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
863396 GAGTCTAATATCTTTCGCTGTGAAGTTAAAATTGGCTATGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
** *
863461 CCAGCAATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
863502 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * * * * *
863567 TCAGCCGCCCCTTC-ACTGTGAAGTTGAGCTTGTGCTGTCTT
66 CCAGCGGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTCTG
*
863608 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
863673 CCAGCGCTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
863714 GAG
1 GAG
863717 AGAAACTATC
Statistics
Matches: 744, Mismatches: 88, Indels: 26
0.87 0.10 0.03
Matches are distributed among these distances:
100 79 0.11
101 8 0.01
102 1 0.00
104 1 0.00
105 11 0.01
106 639 0.86
107 5 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:863839 original size:37 final size:36
Alignment explanation
Indices: 863717--863854 Score: 147
Period size: 37 Copynumber: 3.8 Consensus size: 36
863707 TTGTCTGGAG
*
863717 AGAA-ACTATCTCAATG-GAGACAAAATTTGTTTCAA
1 AGAAGACTGTCTCAA-GCGAGACAAAATTTGTTTCAA
* * *
863752 GGAAGACTGTCTCAAGGGAGACGAAATTTGTTTCAA
1 AGAAGACTGTCTCAAGCGAGACAAAATTTGTTTCAA
* * * *
863788 AGAAAAACTATCTCAAGCGAGATAAAATCTTGTTTTAA
1 AG-AAGACTGTCTCAAGCGAGACAAAAT-TTGTTTCAA
863826 ATG-AGACTGTCTCAAGCGAGACAAAATTT
1 A-GAAGACTGTCTCAAGCGAGACAAAATTT
863855 ATATTGGAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
35 4 0.05
36 30 0.35
37 41 0.48
38 9 0.11
39 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (36 bp):
AGAAGACTGTCTCAAGCGAGACAAAATTTGTTTCAA
Found at i:864180 original size:18 final size:19
Alignment explanation
Indices: 864151--864187 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
864141 TGTTGAATCC
864151 CCAAATAATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
864170 CCAAA-AATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
864188 TTGATGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.43, C:0.32, G:0.05, T:0.19
Consensus pattern (19 bp):
CCAAATAATGCCCCAATAT
Found at i:865222 original size:9 final size:9
Alignment explanation
Indices: 865210--865277 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
865200 TTTTGATTTT
865210 TTTTCTTTC
1 TTTTCTTTC
865219 TTTT-TTTC
1 TTTTCTTTC
865227 TTTTCTTTC
1 TTTTCTTTC
865236 TCTTT-TTTCC
1 T-TTTCTTT-C
*
865246 TTGT-TTT-
1 TTTTCTTTC
865253 TTTTC-TTC
1 TTTTCTTTC
865261 TTTTAC-TTC
1 TTTT-CTTTC
865270 TTTTCTTT
1 TTTTCTTT
865278 TTTGTTATTG
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
7 5 0.10
8 13 0.26
9 27 0.54
10 5 0.10
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:865222 original size:12 final size:12
Alignment explanation
Indices: 865207--865273 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 12
865197 TCTTTTTGAT
865207 TTTTTTTCTTTC
1 TTTTTTTCTTTC
865219 TTTTTTTCTTTTC
1 TTTTTTTC-TTTC
865232 TTTCTCTTT-TTTCC
1 TTT-T-TTTCTTT-C
865246 TTGTTTTT-TTTC
1 TT-TTTTTCTTTC
*
865258 TTCTTTTAC-TTC
1 TT-TTTTTCTTTC
865270 TTTT
1 TTTT
865274 CTTTTTTGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
11 2 0.04
12 20 0.43
13 16 0.34
14 5 0.11
15 4 0.09
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.79
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:869662 original size:18 final size:19
Alignment explanation
Indices: 869626--869710 Score: 61
Period size: 19 Copynumber: 4.5 Consensus size: 19
869616 TGTTAGAGGG
*
869626 AAAAATGAATAAATGAAAA
1 AAAAATGAATAAATAAAAA
*
869645 AAAAATGAA-GAATAAAAA
1 AAAAATGAATAAATAAAAA
869663 TAAGTAAA--AATAAATAAAAA
1 -AA--AAATGAATAAATAAAAA
* *
869683 TAAAAGGAA-AAATAAATAA
1 AAAAATGAATAAATAAA-AA
*
869702 ATAAATGAA
1 AAAAATGAA
869711 ATATTAATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
17 3 0.06
18 14 0.27
19 24 0.46
20 8 0.15
21 3 0.06
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (19 bp):
AAAAATGAATAAATAAAAA
Found at i:869672 original size:10 final size:10
Alignment explanation
Indices: 869655--869702 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
869645 AAAAATGAAG
869655 AATAAAAATA
1 AATAAAAATA
*
869665 AGTAAAAATA
1 AATAAAAATA
869675 AATAAAAATAA
1 AATAAAAAT-A
*
869686 AAGGAAAAATA
1 AA-TAAAAATA
869697 AATAAA
1 AATAAA
869703 TAAATGAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 20 0.62
11 6 0.19
12 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (10 bp):
AATAAAAATA
Found at i:869686 original size:16 final size:16
Alignment explanation
Indices: 869636--869702 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
869626 AAAAATGAAT
*
869636 AAATGAAAAAAAAATGAA
1 AAAT-AAAAATAAAT-AA
* *
869654 GAATAAAAATAAGTAA
1 AAATAAAAATAAATAA
869670 AAATAAATAA-AAATAA
1 AAATAAA-AATAAATAA
**
869686 AAGGAAAAATAAATAA
1 AAATAAAAATAAATAA
869702 A
1 A
869703 TAAATGAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
15 2 0.05
16 25 0.62
17 10 0.25
18 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAATAAATAA
Found at i:869696 original size:22 final size:20
Alignment explanation
Indices: 869655--869702 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
869645 AAAAATGAAG
*
869655 AATAAAAATAAGTAAAAATA
1 AATAAAAATAAGGAAAAATA
869675 AATAAAAATAAAAGGAAAAATA
1 AATAAAAAT--AAGGAAAAATA
869697 AATAAA
1 AATAAA
869703 TAAATGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.36
22 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (20 bp):
AATAAAAATAAGGAAAAATA
Found at i:869854 original size:21 final size:21
Alignment explanation
Indices: 869799--869865 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
869789 ATATAATATA
*
869799 ATATAAA-CAAATAAAAAAAA
1 ATATAAATCAAATAAAAAAAT
* * *
869819 ACCAAAAATAAAAATAAAAAAAT
1 A-TATAAAT-CAAATAAAAAAAT
* *
869842 ATATAAATCAAATATAAAAGT
1 ATATAAATCAAATAAAAAAAT
869863 ATA
1 ATA
869866 CATATAATGA
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
20 1 0.03
21 17 0.49
22 5 0.14
23 12 0.34
ACGTcount: A:0.73, C:0.06, G:0.01, T:0.19
Consensus pattern (21 bp):
ATATAAATCAAATAAAAAAAT
Found at i:869858 original size:23 final size:22
Alignment explanation
Indices: 869798--869860 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
869788 AATATAATAT
869798 AATATAAA-CAAATA-AAAAAA
1 AATATAAATCAAATATAAAAAA
* * *
869818 AACCAAAAAT-AAAAATAAAAAA
1 AA-TATAAATCAAATATAAAAAA
869840 ATATATAAATCAAATATAAAA
1 A-ATATAAATCAAATATAAAA
869861 GTATACATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
20 2 0.06
21 8 0.25
22 12 0.38
23 10 0.31
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.17
Consensus pattern (22 bp):
AATATAAATCAAATATAAAAAA
Found at i:870593 original size:37 final size:37
Alignment explanation
Indices: 870547--870648 Score: 150
Period size: 37 Copynumber: 2.8 Consensus size: 37
870537 CTTGTGGATT
* * *
870547 CTATCTTTAGGAGTTTAAATCATAGTAGAACTCTATC
1 CTATTTTTAGGAGTTTGAATCCTAGTAGAACTCTATC
* * *
870584 CTATTTTTAGGAGTTTGAATCCTAGCAAAATTCTATC
1 CTATTTTTAGGAGTTTGAATCCTAGTAGAACTCTATC
870621 CTATTTTTAGGAGTTTGAATCCTAGTAG
1 CTATTTTTAGGAGTTTGAATCCTAGTAG
870649 GACGAAAAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (37 bp):
CTATTTTTAGGAGTTTGAATCCTAGTAGAACTCTATC
Found at i:872802 original size:54 final size:54
Alignment explanation
Indices: 872702--872910 Score: 280
Period size: 54 Copynumber: 3.9 Consensus size: 54
872692 TGATGTTTTT
872702 AAATGAATTTTGAAAGAAGCTAAG-CTGATTTTCAGGGGTTTCTTGATTTCTTC
1 AAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATTTCTTC
* * * * *
872755 AAATGAATTTTGAAATAAGTTAAGCCTGATTTTTAAGGGTTTCTTGATGTCTTC
1 AAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATTTCTTC
* * *
872809 AAATGAATTTTGAAAGGAGTTAAGCCTGATTTTCAGGGGTTTCTTGATGTT-TTT
1 AAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGAT-TTCTTC
* * *
872863 AATTGAATTTTTAAAGAAGCTAAGCCTAATTTT-AGGGGTTTTCTTGAT
1 AAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAGGGG-TTTCTTGAT
872911 AATTGTAAAT
Statistics
Matches: 137, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
53 27 0.20
54 109 0.80
55 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (54 bp):
AAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATTTCTTC
Found at i:872921 original size:108 final size:106
Alignment explanation
Indices: 872700--872941 Score: 285
Period size: 108 Copynumber: 2.2 Consensus size: 106
872690 TATGATGTTT
872700 TTAAATGAATTTTGAAAGAAGCTAAGCTGATTTTCAGGGGTTTCTTGATTTCTTCAAATGAATTT
1 TTAAATGAATTTTGAAAGAAGCTAAGCTGATTTTCAGGGGTTTCTTGATTTCTTCAAATGAATTT
* * * *
872765 TGAAATAAGTTAAGCCTGATTTTTAAGGGTTTCTTGATGTC
66 TGAAAGAAGCTAAGCCTGAATTTTAAGGGTTTCTTGATATC
* * * *
872806 TTCAAATGAATTTTGAAAGGAGTTAAGCCTGATTTTCAGGGGTTTCTTGATGTT-TTTAATTGAA
1 TT-AAATGAATTTTGAAAGAAGCTAAG-CTGATTTTCAGGGGTTTCTTGAT-TTCTTCAAATGAA
* *
872870 TTTTTAAAGAAGCTAAGCCT-AATTTTAGGGGTTTTCTTGATAAT-
63 TTTTGAAAGAAGCTAAGCCTGAATTTTAAGGG-TTTCTTGAT-ATC
872914 TGTAAATGAATCTTTTTG-AAGAAGCTAA
1 T-TAAATGAA---TTTTGAAAGAAGCTAA
872942 ATTTATCAAA
Statistics
Matches: 115, Mismatches: 12, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
106 2 0.02
107 31 0.27
108 65 0.57
109 4 0.03
110 8 0.07
111 5 0.04
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (106 bp):
TTAAATGAATTTTGAAAGAAGCTAAGCTGATTTTCAGGGGTTTCTTGATTTCTTCAAATGAATTT
TGAAAGAAGCTAAGCCTGAATTTTAAGGGTTTCTTGATATC
Found at i:872924 original size:54 final size:52
Alignment explanation
Indices: 872697--872941 Score: 244
Period size: 54 Copynumber: 4.5 Consensus size: 52
872687 CAATATGATG
*
872697 TTTTTAAATGAATTTTGAAAGAAGCTAAG-CTGATTTTCAGGGGTTTCTTGA
1 TTTTTAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGA
* * * * *
872748 TTTCTTCAAATGAATTTTGAAATAAGTTAAGCCTGATTTTTAAGGGTTTCTTGA
1 TTT-TT-AAATGAATTTTGAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGA
* * * *
872802 TGTCTTCAAATGAATTTTGAAAGGAGTTAAGCCTGATTTTCAGGGGTTTCTTGA
1 T-T-TTTAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGA
* *
872856 TGTTTTTAATTGAATTTTTAAAGAAGCTAAGCCTAATTTT-AGGGGTTTTCTTGA
1 --TTTTTAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTCAGGGG-TTTCTTGA
*
872910 TAATTGTAAATGAATCTTTTTG-AAGAAGCTAA
1 T--TTTTAAATGAA---TTTTGAAAGAAGCTAA
872942 ATTTATCAAA
Statistics
Matches: 163, Mismatches: 18, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
51 3 0.02
52 3 0.02
53 27 0.17
54 111 0.68
55 3 0.02
56 12 0.07
57 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (52 bp):
TTTTTAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGA
Found at i:873107 original size:18 final size:18
Alignment explanation
Indices: 873057--873112 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
873047 CCAGGAAAAG
*
873057 AATGAAGACTGCCCTAGC
1 AATGAAGACTGCTCTAGC
873075 AATGAAGACTGCTCTAGC
1 AATGAAGACTGCTCTAGC
* *
873093 AATGAAGACTACTCTTGC
1 AATGAAGACTGCTCTAGC
873111 AA
1 AA
873113 CCATTTCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (18 bp):
AATGAAGACTGCTCTAGC
Found at i:873945 original size:91 final size:91
Alignment explanation
Indices: 873832--873997 Score: 253
Period size: 91 Copynumber: 1.8 Consensus size: 91
873822 AAGGACTAAA
*
873832 ATTTCCAGCGGAGAGTTCATAATGAGAACAACTCATCCAACGAGAGA-AACGAAGATCATAATGA
1 ATTTCCAACGGAGAGTTCATAATGAGAACAACTCATCCAACGAGAGAGAA-GAAGATCATAATGA
873896 GAAGAACTTGTTCAACCTTAGATCAAT
65 GAAGAACTTGTTCAACCTTAGATCAAT
* * * * *
873923 ATTTCCAATGGAGAGTTTATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
1 ATTTCCAACGGAGAGTTCATAATGAGAACAACTCATCCAACGAGAGAGAAGAAGATCATAATGAG
*
873988 AATAACTTGT
66 AAGAACTTGT
873998 AAGAAATTGG
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
91 65 0.97
92 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.23
Consensus pattern (91 bp):
ATTTCCAACGGAGAGTTCATAATGAGAACAACTCATCCAACGAGAGAGAAGAAGATCATAATGAG
AAGAACTTGTTCAACCTTAGATCAAT
Found at i:876209 original size:41 final size:41
Alignment explanation
Indices: 876149--876229 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
876139 GATTTAAAAC
* * *
876149 TAAAATCCAAAACAAAACCAACTTATGTTGGACTACGAGAT
1 TAAAACCCAAAACAAAACCAACTTATGTTGAACAACGAGAT
* * * *
876190 TAAAACCCAAAATAGAACCAATTTCTGTTGAACAACGAGA
1 TAAAACCCAAAACAAAACCAACTTATGTTGAACAACGAGA
876230 ATTTAATAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.21
Consensus pattern (41 bp):
TAAAACCCAAAACAAAACCAACTTATGTTGAACAACGAGAT
Found at i:877874 original size:162 final size:162
Alignment explanation
Indices: 877607--877921 Score: 540
Period size: 162 Copynumber: 1.9 Consensus size: 162
877597 CTCTCCTCGG
* *
877607 TGCTTTGAGTAACATTAGACGTCGGTCTCCCAGGAGACAACAACAAACGATCACAACAGTAAGGA
1 TGCTTTGAGTAACATTAGACGTCGATCTCCCAGGAGACAACAACAAACGATCACAACAGTAAGCA
* *
877672 CAACCGTAGTGATCAGTCGAACACAGTCTTGCCTTTCTCTATCACCGGAAAGAACGAATTTGAAA
66 CAACCGTAGTGATCAGTCGAACACAATCTTGCCTTTCTCTATCACCGAAAAGAACGAATTTGAAA
877737 GGAATTTTCTAACTGATTTCCTATCTCCATGA
131 GGAATTTTCTAACTGATTTCCTATCTCCATGA
* * * *
877769 TGCTTTGAGTAACGTTGGACGTCGATCTCCCAGGATACAACAACAAACGATCACAATAGTAAGCA
1 TGCTTTGAGTAACATTAGACGTCGATCTCCCAGGAGACAACAACAAACGATCACAACAGTAAGCA
877834 CAACCGTAGTGATCAGTCGAACACAATCTTGCCTTTCTCTATCACCGAAAAGAACGAATTTGAAA
66 CAACCGTAGTGATCAGTCGAACACAATCTTGCCTTTCTCTATCACCGAAAAGAACGAATTTGAAA
**
877899 GGAATTTTCTATGTGATTTCCTA
131 GGAATTTTCTAACTGATTTCCTA
877922 ATTCAACTTT
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 143 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (162 bp):
TGCTTTGAGTAACATTAGACGTCGATCTCCCAGGAGACAACAACAAACGATCACAACAGTAAGCA
CAACCGTAGTGATCAGTCGAACACAATCTTGCCTTTCTCTATCACCGAAAAGAACGAATTTGAAA
GGAATTTTCTAACTGATTTCCTATCTCCATGA
Done.