Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_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: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 39
Found at i:4848300 original size:14 final size:15
Alignment explanation
Indices: 4848278--4848346 Score: 106
Period size: 14 Copynumber: 4.7 Consensus size: 15
4848268 CACTCAACTT
4848278 TATAATTTAATTT-A
1 TATAATTTAATTTGA
*
4848292 TATATTTTAATTTGA
1 TATAATTTAATTTGA
4848307 TATAATTTAATTT-A
1 TATAATTTAATTTGA
*
4848321 TATATTTTAATTTGA
1 TATAATTTAATTTGA
4848336 TATAATTTAAT
1 TATAATTTAAT
4848347 CTTTTATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
14 25 0.51
15 24 0.49
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TATAATTTAATTTGA
Found at i:4848358 original size:29 final size:29
Alignment explanation
Indices: 4848278--4848346 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
4848268 CACTCAACTT
4848278 TATAATTTAATTTATATATTTTAATTTGA
1 TATAATTTAATTTATATATTTTAATTTGA
4848307 TATAATTTAATTTATATATTTTAATTTGA
1 TATAATTTAATTTATATATTTTAATTTGA
4848336 TATAATTTAAT
1 TATAATTTAAT
4848347 CTTTTATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
TATAATTTAATTTATATATTTTAATTTGA
Found at i:4859502 original size:2 final size:2
Alignment explanation
Indices: 4859495--4859534 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
4859485 AACGGAGTGG
* *
4859495 GA GA GA GA GA GA TA GA GA GA GA GA GA TA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4859535 TGGCATTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.45, T:0.05
Consensus pattern (2 bp):
GA
Found at i:4859514 original size:14 final size:14
Alignment explanation
Indices: 4859495--4859535 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
4859485 AACGGAGTGG
4859495 GAGAGAGAGAGATA
1 GAGAGAGAGAGATA
4859509 GAGAGAGAGAGATA
1 GAGAGAGAGAGATA
4859523 GAGAGAGAGAGAT
1 GAGAGAGAGAGAT
4859536 GGCATTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.44, T:0.07
Consensus pattern (14 bp):
GAGAGAGAGAGATA
Found at i:4862026 original size:2 final size:2
Alignment explanation
Indices: 4862019--4862046 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4862009 CTAACACCAC
4862019 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
4862047 GAATTAATTA
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):
TA
Found at i:4862626 original size:17 final size:17
Alignment explanation
Indices: 4862589--4862627 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4862579 CGATTCAAAT
* *
4862589 AAATTTTAATATATAAT
1 AAATTTTAATATAAAAA
*
4862606 AAATTTTAATTTAAAAA
1 AAATTTTAATATAAAAA
4862623 AAATT
1 AAATT
4862628 GTAAATAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTTTAATATAAAAA
Found at i:4863869 original size:22 final size:22
Alignment explanation
Indices: 4863841--4863891 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
4863831 TATATTATGG
4863841 TATATTTACAAATTAGTAAAAT
1 TATATTTACAAATTAGTAAAAT
4863863 TATATTTACAAATTAGTAAAAT
1 TATATTTACAAATTAGTAAAAT
4863885 TATATTT
1 TATATTT
4863892 TATGGATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (22 bp):
TATATTTACAAATTAGTAAAAT
Found at i:4868318 original size:23 final size:23
Alignment explanation
Indices: 4868292--4868337 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4868282 ATTTATCTTT
*
4868292 TAAATTTTATAAAAAATTATATA
1 TAAATTTTATAAAAAAGTATATA
*
4868315 TAAATTTTATTAAAAAGTATATA
1 TAAATTTTATAAAAAAGTATATA
4868338 AATTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAATTTTATAAAAAAGTATATA
Found at i:4868582 original size:20 final size:20
Alignment explanation
Indices: 4868557--4868630 Score: 139
Period size: 20 Copynumber: 3.7 Consensus size: 20
4868547 CTATTCCCTA
*
4868557 GTAATCTTACATTCTCACTG
1 GTAATCTTACATTCCCACTG
4868577 GTAATCTTACATTCCCACTG
1 GTAATCTTACATTCCCACTG
4868597 GTAATCTTACATTCCCACTG
1 GTAATCTTACATTCCCACTG
4868617 GTAATCTTACATTC
1 GTAATCTTACATTC
4868631 AAACATCTTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.26, C:0.27, G:0.09, T:0.38
Consensus pattern (20 bp):
GTAATCTTACATTCCCACTG
Found at i:4870139 original size:229 final size:219
Alignment explanation
Indices: 4869648--4870304 Score: 802
Period size: 220 Copynumber: 3.0 Consensus size: 219
4869638 GAATCAAGAA
* * *
4869648 ATTACAATAGGCACACAACAAAATGAAGGTTCCAATACAGAAACATAGAACAGTAAAAGGAGAGT
1 ATTACAATAGGCACACAACAAAATGCAGGTTCCAGTACAGAAACATAGAACAGTAAAAGGAGATT
* * * * *
4869713 CCAAAAAGGAAATGAGAAACCCATGATACTCGGATTCATGAGCAAGTGTAGGATGCAAATATCTG
66 CCAAAAAGGAAATGAAAAACCTATGTTACTCGGATTCATGTGCAAGTGTAGGATG-AGATATCTG
* ** *
4869778 TCCAACATATGTTCTCACAATCATGTTCGTAAATGCATCGAACTCGAATGACAAAGCAACAAACA
130 TCCAACATATGTTCTCATAATCATAATCGTAAATGCATCGAACTCGAATGACAAAACAACAAACA
*
4869843 TACATTGAACAAAACATCCACTAGG
195 AACATTGAACAAAACATCCACTAGG
*
4869868 ATTACAATAGGCACACAACAAAATGCAGGTTCCAGTACAGAAACATAGAACATTAAAAGGAGATT
1 ATTACAATAGGCACACAACAAAATGCAGGTTCCAGTACAGAAACATAGAACAGTAAAAGGAGATT
* * *
4869933 CCAAAAAGGAAATGAAAAACCTATGTTACTCGGATTCATTTGCATGTGTAGGATGTGATATCTGT
66 CCAAAAAGGAAATGAAAAACCTATGTTACTCGGATTCATGTGCAAGTGTAGGATGAGATATCTGT
* * *
4869998 CCAACATATGTTCTCATAAATCATAATCAAGTTTTATATGCATC-AGATTCGACTGACAGAAACA
131 CCAACATATGTTCTCAT-AATCATAATC--G---TAAATGCATCGA-ACTCGAATGACA-AAACA
*
4870062 ACGAACAAACATTGAACAAAACAACATCCACTAGG
188 ACAAACAAACATTGAAC--AA-AACATCCACTAGG
* * *
4870097 ATTACAATAGGAACACAACAAAATGCAGATTCCAGTACAGAAACATGGAACAGT-AAA--AGATT
1 ATTACAATAGGCACACAACAAAATGCAGGTTCCAGTACAGAAACATAGAACAGTAAAAGGAGATT
* * * *
4870159 CCAAAAAGGAAATGAAAAACTTATGTTACTCGGGTTCATGTGCAAGTGTAGTATGCGATATTCCT
66 CCAAAAAGGAAATGAAAAACCTATGTTACTCGGATTCATGTGCAAGTGTAGGATGAGATA-T-CT
* ** * * * * * *
4870224 -TCCAACATATGTTCCCATAATCATGTTCGTATATGCATTGGACTCAAATGACAGAGCAACAAAC
129 GTCCAACATATGTTCTCATAATCATAATCGTAAATGCATCGAACTCGAATGACAAAACAACAAAC
* *
4870288 ATACATTGAACGAAACA
194 AAACATTGAACAAAACA
4870305 ACATCCACAA
Statistics
Matches: 379, Mismatches: 44, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
217 4 0.01
218 1 0.00
219 24 0.06
220 136 0.36
221 18 0.05
222 1 0.00
224 2 0.01
225 19 0.05
226 86 0.23
227 18 0.05
228 7 0.02
229 63 0.17
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.23
Consensus pattern (219 bp):
ATTACAATAGGCACACAACAAAATGCAGGTTCCAGTACAGAAACATAGAACAGTAAAAGGAGATT
CCAAAAAGGAAATGAAAAACCTATGTTACTCGGATTCATGTGCAAGTGTAGGATGAGATATCTGT
CCAACATATGTTCTCATAATCATAATCGTAAATGCATCGAACTCGAATGACAAAACAACAAACAA
ACATTGAACAAAACATCCACTAGG
Found at i:4879203 original size:19 final size:19
Alignment explanation
Indices: 4879175--4879226 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
4879165 AATGCATTTT
4879175 ATGCATCGATGCACAAGCC
1 ATGCATCGATGCACAAGCC
*
4879194 ATGTATCGATGCACAAGCC
1 ATGCATCGATGCACAAGCC
4879213 ATGCATCGATGCAC
1 ATGCATCGATGCAC
4879227 TCAGGCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (19 bp):
ATGCATCGATGCACAAGCC
Found at i:4882313 original size:21 final size:21
Alignment explanation
Indices: 4882289--4882348 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
4882279 ATAAAACCTG
*
4882289 CTGAAAATCCTATAGCCACTA
1 CTGAAAATCCTACAGCCACTA
*
4882310 CTGAAAATCCTACAGCCACTG
1 CTGAAAATCCTACAGCCACTA
4882331 CT-AAAATTCCTACAGCCA
1 CTGAAAA-TCCTACAGCCA
4882349 TTATAATTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.11
21 32 0.89
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (21 bp):
CTGAAAATCCTACAGCCACTA
Found at i:4888852 original size:29 final size:30
Alignment explanation
Indices: 4888781--4888840 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
4888771 CAATTTAAGG
4888781 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
4888812 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
4888841 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:4888978 original size:19 final size:20
Alignment explanation
Indices: 4888930--4888992 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
4888920 TTCAAGATTG
* *
4888930 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGA-TACCC
4888951 CCCAGGGGGTACAGATACCC
1 CCCAGGGGGTACAGATACCC
4888971 CCCAGGGGGTACAGATACCC
1 CCCAGGGGGTACAGATACCC
4888991 CC
1 CC
4888993 TGCAGGTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 26 0.65
21 14 0.35
ACGTcount: A:0.22, C:0.37, G:0.29, T:0.13
Consensus pattern (20 bp):
CCCAGGGGGTACAGATACCC
Found at i:4889066 original size:20 final size:21
Alignment explanation
Indices: 4889026--4889069 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4889016 AACAGAATGT
4889026 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
4889047 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
4889068 CC
1 CC
4889070 CTGTTCAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:4889132 original size:21 final size:21
Alignment explanation
Indices: 4889106--4889148 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4889096 ATTTGAATAT
* * *
4889106 TATGAAGGGGTATCGATTCCC
1 TATGAAGAGGTACCAATTCCC
4889127 TATGAAGAGGTACCAATTCCC
1 TATGAAGAGGTACCAATTCCC
4889148 T
1 T
4889149 CTATTCTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
TATGAAGAGGTACCAATTCCC
Found at i:4889214 original size:20 final size:22
Alignment explanation
Indices: 4889176--4889215 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
4889166 TTTGAGTATA
4889176 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
4889198 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
4889216 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:4889469 original size:34 final size:32
Alignment explanation
Indices: 4889430--4889499 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
4889420 TTTTGTAAAG
*
4889430 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
* *
4889464 GGGAAATGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
4889496 GGGA
1 GGGA
4889500 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:4892386 original size:29 final size:30
Alignment explanation
Indices: 4892315--4892374 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
4892305 CAATTTAAGG
4892315 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
4892346 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
4892375 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:4892492 original size:20 final size:21
Alignment explanation
Indices: 4892464--4892542 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
4892454 TTCAAGATTG
* *
4892464 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATACCCC
4892485 CCCA-GGGGTACAGATA---C
1 CCCAGGGGGTACAGATACCCC
4892502 CCC---GGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
4892520 CCCAGGGGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
4892541 CC
1 CC
4892543 TGCAGGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
15 11 0.22
17 4 0.08
18 4 0.08
20 10 0.20
21 21 0.42
ACGTcount: A:0.23, C:0.38, G:0.27, T:0.13
Consensus pattern (21 bp):
CCCAGGGGGTACAGATACCCC
Found at i:4892510 original size:15 final size:15
Alignment explanation
Indices: 4892490--4892519 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4892480 TCCCCCCCAG
4892490 GGGTACAGATACCCC
1 GGGTACAGATACCCC
4892505 GGGTACAGATACCCC
1 GGGTACAGATACCCC
4892520 CCCAGGGGGT
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:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:4892520 original size:35 final size:36
Alignment explanation
Indices: 4892470--4892540 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 36
4892460 ATTGCCCAGG
* *
4892470 GGGTATAGATTCCCCCCCA-GGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
4892505 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
4892541 CCTGCAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 17 0.52
36 16 0.48
ACGTcount: A:0.24, C:0.35, G:0.27, T:0.14
Consensus pattern (36 bp):
GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
Found at i:4892605 original size:21 final size:21
Alignment explanation
Indices: 4892576--4892618 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4892566 AACAGAATGT
*
4892576 CCAGGGGGTACCGATTCCCCC
1 CCAGAGGGTACCGATTCCCCC
4892597 CCAGAGGGTACCGATTCCCCC
1 CCAGAGGGTACCGATTCCCCC
4892618 C
1 C
4892619 TGTTCAACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.44, G:0.26, T:0.14
Consensus pattern (21 bp):
CCAGAGGGTACCGATTCCCCC
Found at i:4892680 original size:21 final size:21
Alignment explanation
Indices: 4892654--4892696 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4892644 ATTTGAATAT
* *
4892654 TATGAAGGGGTATCGATTCCC
1 TATGAAGAGGTACCGATTCCC
4892675 TATGAAGAGGTACCGATTCCC
1 TATGAAGAGGTACCGATTCCC
4892696 T
1 T
4892697 CTATTCTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (21 bp):
TATGAAGAGGTACCGATTCCC
Found at i:4892763 original size:20 final size:22
Alignment explanation
Indices: 4892725--4892764 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
4892715 TTGAGTATAA
4892725 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
4892747 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
4892765 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:4893018 original size:34 final size:32
Alignment explanation
Indices: 4892979--4893048 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
4892969 TTTTGTAAAG
*
4892979 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
4893013 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
4893045 GGGA
1 GGGA
4893049 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:4893873 original size:44 final size:44
Alignment explanation
Indices: 4893790--4893886 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
4893780 TTGTGCATAA
* *
4893790 TGCATCGATACACTGAATAGTGCATCGATGCATCCCCTTGAATG
1 TGCATCGATACACTGAAGAGTGCACCGATGCATCCCCTTGAATG
* *
4893834 TGCATCGATACATCATGAAGA-TGTACCGATGCA-CTCCTTGAATG
1 TGCATCGATACA-C-TGAAGAGTGCACCGATGCATCCCCTTGAATG
*
4893878 TACATCGAT
1 TGCATCGAT
4893887 GCACAAGGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 30 0.65
45 11 0.24
46 5 0.11
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
TGCATCGATACACTGAAGAGTGCACCGATGCATCCCCTTGAATG
Found at i:4893886 original size:23 final size:23
Alignment explanation
Indices: 4893803--4893890 Score: 67
Period size: 23 Copynumber: 3.8 Consensus size: 23
4893793 ATCGATACAC
* *
4893803 TGAATAGTGCATCGATGCATCCCCT
1 TGAAT-GTACATCGATGCA-CTCCT
* * *
4893828 TGAATGTGCATCGATACA-T-CA
1 TGAATGTACATCGATGCACTCCT
4893849 TGAAGATGTAC--CGATGCACTCCT
1 TG-A-ATGTACATCGATGCACTCCT
4893872 TGAATGTACATCGATGCAC
1 TGAATGTACATCGATGCAC
4893891 AAGGCCATGC
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 15 0.29
22 3 0.06
23 16 0.31
24 12 0.24
25 5 0.10
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (23 bp):
TGAATGTACATCGATGCACTCCT
Found at i:4895906 original size:2 final size:2
Alignment explanation
Indices: 4895899--4895969 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
4895889 ATATTAAATC
4895899 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
4895941 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4895970 GTTTGGTTTG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4896688 original size:65 final size:64
Alignment explanation
Indices: 4896616--4896774 Score: 232
Period size: 65 Copynumber: 2.5 Consensus size: 64
4896606 AATAAATTGG
** *
4896616 ACATCGAATATATTTTATGCATCGATGCACATA-CCATGCATCGATGCACTCAGG-TTTTTATGA
1 ACATCGAATGCATTTTATGCATCGATGCACA-AGCCATGCATCGATGCACTCAGGCTATTT-TG-
4896679 AA
63 AA
4896681 ACATCGAATGCATTTTATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGAA
1 ACATCGAATGCATTTTATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGAA
* *
4896745 ACATCGAATGCACTTCATGCATCGATGCAC
1 ACATCGAATGCATTTTATGCATCGATGCAC
4896775 TCTTAGTGCA
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
64 31 0.36
65 52 0.60
66 4 0.05
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (64 bp):
ACATCGAATGCATTTTATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGAA
Found at i:4896774 original size:17 final size:19
Alignment explanation
Indices: 4896746--4896794 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
4896736 TATTTTGAAA
4896746 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
4896764 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
4896783 CACCGATGCACT
1 CATCGATGCACT
4896795 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:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:4902221 original size:30 final size:30
Alignment explanation
Indices: 4902187--4902256 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
4902177 TTCCCCGACT
4902187 GAACTAATTCGGTGGCCGACCGAATTAACC
1 GAACTAATTCGGTGGCCGACCGAATTAACC
* *
4902217 GAACTAATTCGGTGGCTGACCGAATTAATC
1 GAACTAATTCGGTGGCCGACCGAATTAACC
*
4902247 AAACTAATTC
1 GAACTAATTC
4902257 AGTTCGATCG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (30 bp):
GAACTAATTCGGTGGCCGACCGAATTAACC
Found at i:4906263 original size:138 final size:139
Alignment explanation
Indices: 4905988--4906296 Score: 337
Period size: 138 Copynumber: 2.3 Consensus size: 139
4905978 ATAAGTGAGG
* * * *
4905988 ACCAAA-TCACAAATTCTCCTAAATTAAAGGACTAAATATGAAATTAGGCCAAAAGTGAAGGCTC
1 ACCAAATTAACAATTTCTCCTAAATTAAAGGACTAAATATGAAATTAAGCCAAAAGTGAAGGCCC
* * ** *
4906052 TAATTATTAACCTAATTAATTTTAACCAATCATTTGATTCGAATAATTAAAATGGAACTCGAGAA
66 TAATTATTAACCTAATTAATTTTAACCAATCATCTGAATCGAATAATTAAAATAAAACTCAAGAA
4906117 AAAACGAGA
131 AAAACGAGA
* * * * * *
4906126 TCCAAATTAACAATTTCT-CTAATTTTAAGGACTAAGTTTGAAATTAAGCCTAAAA-TGGAGGCC
1 ACCAAATTAACAATTTCTCCTAAATTAAAGGACTAAATATGAAATTAAGCC-AAAAGTGAAGGCC
* ***
4906189 CTAATTATTAACCTAGTTAATTTTAATTGA-C-TACTGAATCGAATAATTAAAATAAAACCTCAA
65 CTAATTATTAACCTAATTAATTTTAACCAATCAT-CTGAATCGAATAATTAAAATAAAA-CTCAA
* *
4906252 GCAAAAGCGAGA
128 GAAAAAACGAGA
*
4906264 ACCAAATTAA-AAATTC-CCTAAATTAAA-GACTAA
1 ACCAAATTAACAATTTCTCCTAAATTAAAGGACTAA
4906297 CTACAAATCG
Statistics
Matches: 141, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
136 7 0.05
137 34 0.24
138 87 0.62
139 13 0.09
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (139 bp):
ACCAAATTAACAATTTCTCCTAAATTAAAGGACTAAATATGAAATTAAGCCAAAAGTGAAGGCCC
TAATTATTAACCTAATTAATTTTAACCAATCATCTGAATCGAATAATTAAAATAAAACTCAAGAA
AAAACGAGA
Found at i:4907394 original size:28 final size:27
Alignment explanation
Indices: 4907330--4907395 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 27
4907320 AAAAAAAAGT
* *
4907330 ACTACTAAAACTACCAAGTCAACCCCC
1 ACTACTTAAACTACCAAGTCAAACCCC
*
4907357 ACT-CTATTAAACTTACCAAGTCAAACCTC
1 ACTAC--TTAAAC-TACCAAGTCAAACCCC
4907386 ACTACTTAAA
1 ACTACTTAAA
4907396 ATTTTAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 1 0.03
27 3 0.09
28 10 0.31
29 17 0.53
30 1 0.03
ACGTcount: A:0.41, C:0.33, G:0.03, T:0.23
Consensus pattern (27 bp):
ACTACTTAAACTACCAAGTCAAACCCC
Found at i:4907920 original size:13 final size:13
Alignment explanation
Indices: 4907903--4907936 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
4907893 AAAATAAATG
4907903 AAAAATACTTTAAT
1 AAAAA-ACTTTAAT
4907917 AAAAAACTTTAAT
1 AAAAAACTTTAAT
4907930 AATAAAA
1 AA-AAAA
4907937 AAAGAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAAACTTTAAT
Found at i:4908330 original size:17 final size:17
Alignment explanation
Indices: 4908304--4908345 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
4908294 AAAAATAATT
4908304 TAAT-AAAAAATTTTAA
1 TAATAAAAAAATTTTAA
4908320 TAATAAAAAAATTTTAA
1 TAATAAAAAAATTTTAA
4908337 TAA-AAAAAA
1 TAATAAAAAA
4908346 TAATCATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAATAAAAAAATTTTAA
Found at i:4910276 original size:13 final size:13
Alignment explanation
Indices: 4910242--4910295 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
4910232 ATTATTAACA
4910242 TATTTAA-AATA-
1 TATTTAATAATAT
*
4910253 TATTTATTAATAT
1 TATTTAATAATAT
*
4910266 TTTTTAATAATAT
1 TATTTAATAATAT
* *
4910279 AATATAATAATAT
1 TATTTAATAATAT
4910292 TATT
1 TATT
4910296 ATTACAATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
11 6 0.18
12 4 0.12
13 23 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTTAATAATAT
Found at i:4910537 original size:21 final size:23
Alignment explanation
Indices: 4910498--4910544 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
4910488 ATAAAATTCC
*
4910498 TTAAAATATATTTATTAATAATT
1 TTAAAATATATATATTAATAATT
*
4910521 TTAAAATATA-ATA-TAATATTT
1 TTAAAATATATATATTAATAATT
4910542 TTA
1 TTA
4910545 TTTTTATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAATATATATATTAATAATT
Found at i:4911880 original size:20 final size:19
Alignment explanation
Indices: 4911849--4911891 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4911839 AATATCGATA
4911849 TATT-TTTT-ATTTAATAT
1 TATTATTTTAATTTAATAT
*
4911866 TAATTATTTTAATTTAGTAT
1 T-ATTATTTTAATTTAATAT
4911886 TATTAT
1 TATTAT
4911892 GAGTATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 3 0.14
19 9 0.41
20 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTATTTTAATTTAATAT
Found at i:4916595 original size:19 final size:19
Alignment explanation
Indices: 4916561--4916718 Score: 226
Period size: 19 Copynumber: 8.3 Consensus size: 19
4916551 TAACGGAGAT
*
4916561 ATCAGAAATCAAAACAGAG
1 ATCAGAAATCATAACAGAG
* * * * *
4916580 ATAAAAAATAATAACAAAT
1 ATCAGAAATCATAACAGAG
*
4916599 ATAAGAAATCATAACAGAG
1 ATCAGAAATCATAACAGAG
*
4916618 ATCAGAAATCATAATAGAG
1 ATCAGAAATCATAACAGAG
4916637 ATCAGAAATCATAACAGAG
1 ATCAGAAATCATAACAGAG
*
4916656 ATCAGAAATCATAATAGAG
1 ATCAGAAATCATAACAGAG
4916675 ATCAGAAATCATAACAGAG
1 ATCAGAAATCATAACAGAG
*
4916694 ATCAGAAATCATAACAGAA
1 ATCAGAAATCATAACAGAG
4916713 ATCAGA
1 ATCAGA
4916719 GAAAACATCC
Statistics
Matches: 123, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 123 1.00
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (19 bp):
ATCAGAAATCATAACAGAG
Found at i:4917934 original size:37 final size:37
Alignment explanation
Indices: 4917887--4917965 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
4917877 TGACTTTTTG
*
4917887 GTCAA-AGTCAACGATCAACGAGTTGACTCAGTCAAA
1 GTCAACAGTCAAAGATCAACGAGTTGACTCAGTCAAA
* * *
4917923 GTCAACAGTCAAATATCAATGGGTTGACTCAGTCAAA
1 GTCAACAGTCAAAGATCAACGAGTTGACTCAGTCAAA
4917960 GTCAAC
1 GTCAAC
4917966 GAGCTGATCC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
36 5 0.13
37 33 0.87
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCAACAGTCAAAGATCAACGAGTTGACTCAGTCAAA
Found at i:4918854 original size:25 final size:24
Alignment explanation
Indices: 4918826--4918883 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 24
4918816 TAATTTTATA
*
4918826 TAAAGATAAATGAATTATAAATATTT
1 TAAAGA-AAACGAATTATAAA-ATTT
*
4918852 AAAAGGAAAACGAATTATAAAATTT
1 TAAA-GAAAACGAATTATAAAATTT
4918877 TAAAGAA
1 TAAAGAA
4918884 CAAAAACAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 3 0.11
25 7 0.25
26 16 0.57
27 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (24 bp):
TAAAGAAAACGAATTATAAAATTT
Found at i:4920122 original size:2 final size:2
Alignment explanation
Indices: 4920115--4920155 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4920105 ATTATAGTAA
4920115 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4920156 AAAAAGAGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4922087 original size:64 final size:65
Alignment explanation
Indices: 4922008--4922167 Score: 232
Period size: 64 Copynumber: 2.5 Consensus size: 65
4921998 GGAGACAAAA
* * *
4922008 TTTTTTCAAGAGAAACTGTCTCGAGAGAGACAAAATTTGTTTAAAGGAAAACATATTAAAAGA-T
1 TTTTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACAGATTAAAAGATT
* * * * *
4922072 TTTTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAATAGATTCAAAGATT
1 TTTTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACAGATTAAAAGATT
4922137 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 TTT-TTTCAAGGGAAACTGTCTCAAGAGAGA
4922168 ATTTTTTTTA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
64 55 0.65
65 4 0.05
66 26 0.31
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (65 bp):
TTTTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACAGATTAAAAGATT
Found at i:4922207 original size:36 final size:36
Alignment explanation
Indices: 4922137--4922561 Score: 325
Period size: 36 Copynumber: 12.5 Consensus size: 36
4922127 TTCAAAGATT
* * *
4922137 TTTGTTTCAAGGGAAACTGTCTCAAGAGAG----AA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
*
4922169 TTTTTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
*
4922205 TTTGTTTTAAAAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
* * *
4922241 TTTGTTTTAAAAGAAACTGTCTCAATG-GAGACGAAA
1 TTTGTTTTAAGAGAAAATGTCTCAA-GAGAGACAAAA
* * *
4922277 TTTGTTTAAAG-GAAAACAGAT-TC-A-A-AG----AT
1 TTTGTTTTAAGAGAAAA-TG-TCTCAAGAGAGACAAAA
* * *
4922306 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
*
4922342 -AT-TTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
* * * *
4922376 TTTGTTTTAAAAGAAACTGTCTCAAGGGAGACGAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
* * *
4922412 TTTGTTTCAAG-GAAAACAGAT-TC-A-A-AG----AT
1 TTTGTTTTAAGAGAAAA-TG-TCTCAAGAGAGACAAAA
* * *
4922441 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
4922477 -TT-TTTTAAGAG-AAATGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
* * *
4922510 TTTGTTTTAAAAGAAACTGTCTCAA-AGGAGACGAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGA-GAGACAAAA
*
4922546 TTTGTTTCAAG-GAAAA
1 TTTGTTTTAAGAGAAAA
4922562 CAGATTCAAA
Statistics
Matches: 315, Mismatches: 44, Indels: 65
0.74 0.10 0.15
Matches are distributed among these distances:
28 2 0.01
29 29 0.09
30 10 0.03
31 2 0.01
32 30 0.10
33 25 0.08
34 38 0.12
35 27 0.09
36 149 0.47
37 3 0.01
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (36 bp):
TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
Found at i:4922373 original size:171 final size:172
Alignment explanation
Indices: 4921941--4922418 Score: 613
Period size: 171 Copynumber: 2.8 Consensus size: 172
4921931 TAAACTTAAT
* * ** * *
4921941 TTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAAAGAAACCGTCTCAAGGGAGACAA
1 TTTGTTTAAAGGGAAATAGATTCAAAGATTTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
* * * ** * *
4922006 AATTTTTTCAAGAGAAACTGTCTCGAGAGAGACAAAATTTG-TTTAAAGGAAAACATATTAA-A-
65 AATTTTTT-AAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAATGTCTCAAGAG
*
4922068 AG----ATTT-TTTTAAAGGGAAACTGTCTCAAGAGAGACAAAA
129 AGACAAATTTGTTTTAAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
4922107 TTTGTTTCAAGGGAAATAGATTCAAAGATTTTTGTTTCAAGGGAAACTGTCTCAAGAGAG--AAT
1 TTTGTTTAAAGGGAAATAGATTCAAAGATTTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
*
4922170 TTTTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAATGTCTCAAGAGAG
66 ATTTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAATGTCTCAAGAGAG
*
4922235 ACAAAATTTGTTTTAAA-AGAAACTGTCTCAATG-GAGACGAAA
131 AC-AAATTTGTTTTAAAGAGAAACTGTCTCAA-GAGAGACAAAA
* *
4922277 TTTGTTTAAAGGAAAACAGATTCAAAGA-TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 TTTGTTTAAAGGGAAATAGATTCAAAGATTTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
* * *
4922341 AATTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTGTCTCAAGGGAG
66 ATTTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAATGTCTCAAGAGAG
4922406 ACGAAATTTGTTT
131 AC-AAATTTGTTT
4922419 CAAGGAAAAC
Statistics
Matches: 274, Mismatches: 26, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
162 30 0.11
163 23 0.08
164 1 0.00
165 26 0.09
166 30 0.11
169 31 0.11
170 50 0.18
171 83 0.30
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (172 bp):
TTTGTTTAAAGGGAAATAGATTCAAAGATTTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
ATTTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAATGTCTCAAGAGAG
ACAAATTTGTTTTAAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:4922495 original size:33 final size:34
Alignment explanation
Indices: 4922453--4922548 Score: 133
Period size: 33 Copynumber: 2.8 Consensus size: 34
4922443 TGTTTCAAGG
*
4922453 GAAACTGTCTCAAGAGAGACAAAATTTTTTAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTTTTTAAAA
4922487 GAAA-TGTCTCAAGAGAGACAAAATTTGTTTTAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TT-TTTTAAAA
*
4922522 GAAACTGTCTCAA-AGGAGACGAAATTT
1 GAAACTGTCTCAAGA-GAGACAAAATTT
4922549 GTTTCAAGGA
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
33 19 0.34
34 7 0.12
35 14 0.25
36 16 0.29
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (34 bp):
GAAACTGTCTCAAGAGAGACAAAATTTTTTAAAA
Found at i:4922553 original size:134 final size:135
Alignment explanation
Indices: 4922168--4922579 Score: 720
Period size: 135 Copynumber: 3.1 Consensus size: 135
4922158 TCAAGAGAGA
* * * *
4922168 ATTTT-TTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAATGTCTCAAGA
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT-TTTTAAGAGAAAATGTCTCAAGA
* *
4922232 GAGACAAAATTTGTTTTAAAAGAAACTGTCTCAATGGAGACGAAATTTGTTTAAAGGAAAACAGA
64 GAGACAAAATTTGTTTTAAAAGAAACTGTCTCAAAGGAGACGAAATTTGTTTCAAGGAAAACAGA
4922297 TTCAAAG
129 TTCAAAG
*
4922304 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTTTTAAGAGAAAATGTCTCAAGAGA
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTTTAAGAGAAAATGTCTCAAGAGA
*
4922369 GACAAAATTTGTTTTAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACAGATT
66 GACAAAATTTGTTTTAAAAGAAACTGTCTCAAAGGAGACGAAATTTGTTTCAAGGAAAACAGATT
4922434 CAAAG
131 CAAAG
4922439 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTTTAAGAG-AAATGTCTCAAGAGA
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTTTAAGAGAAAATGTCTCAAGAGA
4922503 GACAAAATTTGTTTTAAAAGAAACTGTCTCAAAGGAGACGAAATTTGTTTCAAGGAAAACAGATT
66 GACAAAATTTGTTTTAAAAGAAACTGTCTCAAAGGAGACGAAATTTGTTTCAAGGAAAACAGATT
4922568 CAAAG
131 CAAAG
4922573 ATTTTGT
1 ATTTTGT
4922580 AACATCCTCA
Statistics
Matches: 266, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
134 91 0.34
135 140 0.53
136 6 0.02
137 29 0.11
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (135 bp):
ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTTTAAGAGAAAATGTCTCAAGAGA
GACAAAATTTGTTTTAAAAGAAACTGTCTCAAAGGAGACGAAATTTGTTTCAAGGAAAACAGATT
CAAAG
Found at i:4924840 original size:37 final size:37
Alignment explanation
Indices: 4924748--4925000 Score: 207
Period size: 36 Copynumber: 7.2 Consensus size: 37
4924738 TATTACATAT
* *
4924748 TTTGTTT-TAAGGGAAACTGTCTCAAAAGAGACAAAA
1 TTTGTTTCTAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
4924784 ---GTTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTCTAAGAGAAACTGTCTCAAGAGAGACAAAA
*
4924818 TTTGTTTCTAAAAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCTAAGAGAAACTGTCTCAAGAGAGACAAAA
** **
4924855 CTTTGTTTC-AAG-GAAAACAAAT-TC-A-A-AG----TT
1 -TTTGTTTCTAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
* ** *
4924885 TTTGTTTC-AAGGGAAACCATATCAAGAGAGACAAAA
1 TTTGTTTCTAAGAGAAACTGTCTCAAGAGAGACAAAA
*
4924921 TTTGTTT-TAAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTCTAAGAGAAACTGTCTCAAGAGAGACAAAA
**
4924957 TTTGTTT-TAAGAGAAACCATCTCAAGAGAGACAAAA
1 TTTGTTTCTAAGAGAAACTGTCTCAAGAGAGACAAAA
4924993 CTTTGTTT
1 -TTTGTTT
4925001 TGAGTAAATT
Statistics
Matches: 177, Mismatches: 22, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
28 2 0.01
29 17 0.10
30 2 0.01
31 1 0.01
32 2 0.01
33 4 0.02
34 28 0.16
35 1 0.01
36 65 0.37
37 46 0.26
38 9 0.05
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (37 bp):
TTTGTTTCTAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:4924969 original size:19 final size:19
Alignment explanation
Indices: 4924911--4924970 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
4924901 CCATATCAAG
4924911 AGAGACAAAATTTGTTTTA
1 AGAGACAAAATTTGTTTTA
**
4924930 AGAG--AAAA--TGTCTCAA
1 AGAGACAAAATTTGT-TTTA
4924946 GAGAGACAAAATTTGTTTTA
1 -AGAGACAAAATTTGTTTTA
4924966 AGAGA
1 AGAGA
4924971 AACCATCTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
15 3 0.10
16 2 0.06
17 8 0.26
19 13 0.42
20 2 0.06
21 3 0.10
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (19 bp):
AGAGACAAAATTTGTTTTA
Found at i:4926428 original size:83 final size:89
Alignment explanation
Indices: 4926341--4926552 Score: 215
Period size: 95 Copynumber: 2.4 Consensus size: 89
4926331 GAGACGTTTT
* * *
4926341 ACCAATTGCTCTAGAGGGACAACTCAATATGTA-A-AT-A-C-C-TTTATCAGGTTAGCTGAATC
1 ACCAATTGCTCTAGAGGGACAACTCAATATGTATAGATAATCACATTTATCAGGCTAGATGAATA
4926400 TTATCCATAAAGCCGGGGAATTTA
66 TTATCCATAAAGCCGGGGAATTTA
* *
4926424 ACCAATTACAT-TAGAGGGACATCTCAAGCTTTATTGTATAGTATAATCACATTTATCAGGCTAG
1 ACCAATTGC-TCTAGAGGGACAACTCAA----TA-TGTATAG-ATAATCACATTTATCAGGCTAG
** **
4926488 ATGAATATTATCCATAAAGTTGGGGCGTTTA
59 ATGAATATTATCCATAAAGCCGGGGAATTTA
*
4926519 ACCAATTGCTCTAGAGGGATAACTCAAT-TGTATA
1 ACCAATTGCTCTAGAGGGACAACTCAATATGTATA
4926553 TATATAATAT
Statistics
Matches: 103, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
83 23 0.22
84 1 0.01
87 2 0.02
88 4 0.04
89 7 0.07
91 3 0.03
92 1 0.01
93 1 0.01
94 2 0.02
95 59 0.57
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (89 bp):
ACCAATTGCTCTAGAGGGACAACTCAATATGTATAGATAATCACATTTATCAGGCTAGATGAATA
TTATCCATAAAGCCGGGGAATTTA
Found at i:4929393 original size:21 final size:19
Alignment explanation
Indices: 4929350--4929393 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
4929340 AGCAAAAATA
*
4929350 AAAATAAAAATGATAAAAT
1 AAAATAAAAATGATAAAAG
*
4929369 AAAATAAATAAATGATGAAAG
1 AAAAT-AA-AAATGATAAAAG
4929390 AAAA
1 AAAA
4929394 AACGAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 2 0.10
21 14 0.67
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (19 bp):
AAAATAAAAATGATAAAAG
Found at i:4930656 original size:2 final size:2
Alignment explanation
Indices: 4930649--4930679 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4930639 TAGTAAATAA
4930649 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4930680 AAGAAAGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4936025 original size:28 final size:28
Alignment explanation
Indices: 4935972--4936042 Score: 135
Period size: 28 Copynumber: 2.6 Consensus size: 28
4935962 TCAGGAATCC
4935972 ATGATGTGAACTA-TTTTTTTTATAGGA
1 ATGATGTGAACTATTTTTTTTTATAGGA
4935999 ATGATGTGAACTATTTTTTTTTATAGGA
1 ATGATGTGAACTATTTTTTTTTATAGGA
4936027 ATGATGTGAACTATTT
1 ATGATGTGAACTATTT
4936043 GTTTGGAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 13 0.30
28 30 0.70
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.48
Consensus pattern (28 bp):
ATGATGTGAACTATTTTTTTTTATAGGA
Found at i:4940437 original size:83 final size:83
Alignment explanation
Indices: 4940329--4940494 Score: 269
Period size: 83 Copynumber: 2.0 Consensus size: 83
4940319 AGACCTTATG
**
4940329 CCCGTATCTTCCATTATGGCCTGCATCTCACTCTCACCAATCCCAGTGAAATAAATTTCACTCTC
1 CCCGTATCTTCCACAATGGCCTGCATCTCACTCTCACCAATCCCAGTGAAATAAATTTCACTCTC
*
4940394 ACAAATGGCTCTGATATC
66 ACAAATGGCTCTAATATC
* * * *
4940412 CCCGTATCTTCCACAATGGTCTGCATCTCGCTCTGACCAATCCCAGTGGAATAAATTTCACTCTC
1 CCCGTATCTTCCACAATGGCCTGCATCTCACTCTCACCAATCCCAGTGAAATAAATTTCACTCTC
4940477 ACAAATGGCTCTAATATC
66 ACAAATGGCTCTAATATC
4940495 GTGTTTGAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.30
Consensus pattern (83 bp):
CCCGTATCTTCCACAATGGCCTGCATCTCACTCTCACCAATCCCAGTGAAATAAATTTCACTCTC
ACAAATGGCTCTAATATC
Found at i:4940889 original size:2 final size:2
Alignment explanation
Indices: 4940882--4940917 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4940872 TCTATAATTA
4940882 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
4940918 CAATATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4941539 original size:2 final size:2
Alignment explanation
Indices: 4941532--4941557 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4941522 CTATACATAC
4941532 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
4941558 TACTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4942672 original size:4 final size:4
Alignment explanation
Indices: 4942636--4942688 Score: 58
Period size: 4 Copynumber: 13.8 Consensus size: 4
4942626 TTTAGTCTCT
* *
4942636 TTTA TTTAA TTTA TGT- TTTA ATTA -TTA -TTA TTTA TTTA TTTA TTTA
1 TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
4942682 TTTA TTT
1 TTTA TTT
4942689 TAACAATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
3 8 0.19
4 31 0.72
5 4 0.09
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:4942703 original size:2 final size:2
Alignment explanation
Indices: 4942696--4942734 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4942686 TTTTAACAAT
4942696 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4942735 TTGTTTCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4942900 original size:12 final size:12
Alignment explanation
Indices: 4942854--4942904 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
4942844 TATTTATATC
*
4942854 TTTTTTATTACT
1 TTTTTTATTTCT
*
4942866 TTTTGTT-TTCCT
1 TTTT-TTATTTCT
* *
4942878 TCTTTTGTTTCT
1 TTTTTTATTTCT
4942890 TTTTTTATTTCT
1 TTTTTTATTTCT
4942902 TTT
1 TTT
4942905 ATTTTCTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 2 0.06
12 28 0.88
13 2 0.06
ACGTcount: A:0.06, C:0.12, G:0.04, T:0.78
Consensus pattern (12 bp):
TTTTTTATTTCT
Found at i:4942950 original size:15 final size:14
Alignment explanation
Indices: 4942916--4942975 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
4942906 TTTTCTTTTA
*
4942916 ATTTTTATTTAATT
1 ATTTTTTTTTAATT
*
4942930 -TGTTTTTTTAATCT
1 ATTTTTTTTTAAT-T
*
4942944 ATTTTTTATTTAGTT
1 ATTTTTT-TTTAATT
4942959 ATTTTATTTTT-ATT
1 ATTTT-TTTTTAATT
4942973 ATT
1 ATT
4942976 ATTATTTTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
13 10 0.27
14 6 0.16
15 14 0.38
16 7 0.19
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (14 bp):
ATTTTTTTTTAATT
Found at i:4942954 original size:24 final size:25
Alignment explanation
Indices: 4942911--4942972 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
4942901 TTTTATTTTC
*
4942911 TTTTAATTTTTATTTAATTT-GTTT
1 TTTTAATTTTTATTTAATTTAGTTA
4942935 TTTTAATCTATTT-TTT-ATTTAGTTA
1 TTTTAAT-T-TTTATTTAATTTAGTTA
4942960 TTTT-ATTTTTATT
1 TTTTAATTTTTATT
4942973 ATTATTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
22 3 0.09
23 3 0.09
24 13 0.39
25 11 0.33
26 3 0.09
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (25 bp):
TTTTAATTTTTATTTAATTTAGTTA
Found at i:4942975 original size:29 final size:28
Alignment explanation
Indices: 4942901--4942975 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
4942891 TTTTTATTTC
* *
4942901 TTTTATTTTCTTTTAATTTTTATTTAATT
1 TTTTATTTT-TATTATTTTTTATTTAATT
* *
4942930 TGTTT-TTTTAATCTATTTTTTATTTAGTT
1 T-TTTATTTTTAT-TATTTTTTATTTAATT
4942959 ATTTTATTTTTATTATT
1 -TTTTATTTTTATTATT
4942976 ATTATTTTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
28 1 0.03
29 26 0.70
30 10 0.27
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (28 bp):
TTTTATTTTTATTATTTTTTATTTAATT
Found at i:4943053 original size:22 final size:21
Alignment explanation
Indices: 4942998--4943069 Score: 53
Period size: 22 Copynumber: 3.5 Consensus size: 21
4942988 TCTTTTTGGG
* *
4942998 TTTTCTATTTTATTATGTTTC
1 TTTTGTATTTTAATATGTTTC
* *
4943019 -ATTGTCATGTTAATATCGTTTC
1 TTTTGT-ATTTTAATAT-GTTTC
*
4943041 TTTTGTATTTTAAT-T-TATC
1 TTTTGTATTTTAATATGTTTC
4943060 TTTT-TATTTT
1 TTTTGTATTTT
4943070 GTCCCCTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 6 0.15
19 7 0.17
20 3 0.07
21 9 0.22
22 12 0.29
23 4 0.10
ACGTcount: A:0.18, C:0.08, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTGTATTTTAATATGTTTC
Found at i:4945170 original size:29 final size:29
Alignment explanation
Indices: 4945107--4945170 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
4945097 GTATACATAT
*** *
4945107 ATAATATTCGTTATATAAAATGAATTCTG
1 ATAATATTCGTTATATAAAATGAAAAATC
4945136 ATAATATTCGTTATATAAAATGAAGAAATC
1 ATAATATTCGTTATATAAAATGAA-AAATC
4945166 A-AATA
1 ATAATA
4945171 ACATAAACTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (29 bp):
ATAATATTCGTTATATAAAATGAAAAATC
Found at i:4953695 original size:44 final size:44
Alignment explanation
Indices: 4953645--4953762 Score: 155
Period size: 44 Copynumber: 2.7 Consensus size: 44
4953635 CACCGTCCTT
* *
4953645 GCTCTAATACTTGTTTCCGCTCTAATACCTATTATACATTAAAA
1 GCTCTAATACATGTCTCCGCTCTAATACCTATTATACATTAAAA
* * * * *
4953689 GCTCTAATACCTATCTCCGCTTTAATACCTATTATACGTTAAAG
1 GCTCTAATACATGTCTCCGCTCTAATACCTATTATACATTAAAA
* *
4953733 GCTCTAATACATGCCTCTGCTCTAATACCT
1 GCTCTAATACATGTCTCCGCTCTAATACCT
4953763 GTCTCCGCTC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.36
Consensus pattern (44 bp):
GCTCTAATACATGTCTCCGCTCTAATACCTATTATACATTAAAA
Found at i:4953779 original size:18 final size:18
Alignment explanation
Indices: 4953733--4953780 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
4953723 TACGTTAAAG
* *
4953733 GCTCTAATACATGCCTCT
1 GCTCTAATACCTGCCTCC
*
4953751 GCTCTAATACCTGTCTCC
1 GCTCTAATACCTGCCTCC
4953769 GCTCTAATACCT
1 GCTCTAATACCT
4953781 ATTATACGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.21, C:0.35, G:0.10, T:0.33
Consensus pattern (18 bp):
GCTCTAATACCTGCCTCC
Found at i:4956853 original size:14 final size:14
Alignment explanation
Indices: 4956836--4956862 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4956826 GTTATTAAAA
4956836 AATAATAATTAATG
1 AATAATAATTAATG
4956850 AATAATAATTAAT
1 AATAATAATTAAT
4956863 TTGATCTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
AATAATAATTAATG
Found at i:4957252 original size:19 final size:18
Alignment explanation
Indices: 4957225--4957267 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4957215 AATAAGGTTT
*
4957225 AAAGATTTTAATGCATAAA
1 AAAGATTTT-ATACATAAA
* *
4957244 AAAGTTTTTTTACATAAA
1 AAAGATTTTATACATAAA
4957262 AAAGAT
1 AAAGAT
4957268 CAATAAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (18 bp):
AAAGATTTTATACATAAA
Found at i:4959344 original size:8 final size:8
Alignment explanation
Indices: 4959321--4959355 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
4959311 CAAGATAATA
4959321 TTTATTTAT
1 TTTATTT-T
4959330 ATTTATTTT
1 -TTTATTTT
4959339 TTTATTTT
1 TTTATTTT
4959347 TTTATTTT
1 TTTATTTT
4959355 T
1 T
4959356 AGTTTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 17 0.68
9 1 0.04
10 7 0.28
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTATTTT
Found at i:4959350 original size:22 final size:22
Alignment explanation
Indices: 4959319--4959369 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4959309 TACAAGATAA
* * *
4959319 TATTTATTTATATTTATTTTTT
1 TATTTTTTTATATTTAGTTTAT
*
4959341 TATTTTTTTATTTTTAGTTTAT
1 TATTTTTTTATATTTAGTTTAT
4959363 TATTTTT
1 TATTTTT
4959370 AATGTAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (22 bp):
TATTTTTTTATATTTAGTTTAT
Found at i:4959431 original size:22 final size:23
Alignment explanation
Indices: 4959386--4959431 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
4959376 ATAAATTTAC
4959386 CTTTATGACGCATTTTATCTTTTT
1 CTTTATGAC-CATTTTATCTTTTT
4959410 CTTTATGA-CATGTTT-TCTTTTT
1 CTTTATGACCAT-TTTATCTTTTT
4959432 TTCATTGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 10 0.48
23 3 0.14
24 8 0.38
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (23 bp):
CTTTATGACCATTTTATCTTTTT
Found at i:4959900 original size:24 final size:25
Alignment explanation
Indices: 4959847--4959900 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 25
4959837 CTCTATTTAC
4959847 ATCAAAAAATTAATTTAATAAATAAGT
1 ATCAAAAAATTAATTTAATAAAT-A-T
4959874 ATCAAAATAATT-ATTTAATAAAT-T
1 ATCAAAA-AATTAATTTAATAAATAT
4959898 ATC
1 ATC
4959901 TATGATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.15
27 18 0.69
28 4 0.15
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (25 bp):
ATCAAAAAATTAATTTAATAAATAT
Found at i:4968698 original size:71 final size:71
Alignment explanation
Indices: 4968582--4968725 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
4968572 GACTGTTACT
4968582 AGAATCCTAGTGAATCGACTGTCTGTTGTCTTCCCTAGCATGATTTCAATGAATCAATTGACCTT
1 AGAATCCTAGTGAATCGACTGTCTGTTGTCTTCCCTAGCATGATTTCAATGAATCAATTGACCTT
4968647 TGTGAA
66 TGTGAA
4968653 AGAATCCTAGTGAATCGACTGTCTGTTGTCTTCCCTAGCATGATTTCAATGAATCAATTGACCTT
1 AGAATCCTAGTGAATCGACTGTCTGTTGTCTTCCCTAGCATGATTTCAATGAATCAATTGACCTT
4968718 TGTGAA
66 TGTGAA
4968724 AG
1 AG
4968726 GGAGAAGCAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (71 bp):
AGAATCCTAGTGAATCGACTGTCTGTTGTCTTCCCTAGCATGATTTCAATGAATCAATTGACCTT
TGTGAA
Found at i:4972028 original size:24 final size:23
Alignment explanation
Indices: 4971992--4972041 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
4971982 CGAAAAAATA
* *
4971992 ATAAAGATCAAAGTGATCATTTTG
1 ATAAACATCAAAG-GATAATTTTG
* *
4972016 ATAAACATTAAAGGCTAATTTTG
1 ATAAACATCAAAGGATAATTTTG
4972039 ATA
1 ATA
4972042 TTAAATTCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (23 bp):
ATAAACATCAAAGGATAATTTTG
Found at i:4973422 original size:28 final size:28
Alignment explanation
Indices: 4973373--4973427 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
4973363 TTTCGTTTAC
*
4973373 ATTATGTAATTAAACTAATACTTAAAAT
1 ATTATGTAATTAAACTAATACTGAAAAT
* * * *
4973401 ATTATGTAGTTGAATTAGTACTGAAAA
1 ATTATGTAATTAAACTAATACTGAAAA
4973428 GTAATGATGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.38
Consensus pattern (28 bp):
ATTATGTAATTAAACTAATACTGAAAAT
Found at i:4973637 original size:16 final size:18
Alignment explanation
Indices: 4973606--4973643 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
4973596 TAATCCAATT
4973606 ATAATTTTATAAATTTTA
1 ATAATTTTATAAATTTTA
4973624 ATAA-TTTA-AAATTTTA
1 ATAATTTTATAAATTTTA
4973640 ATAA
1 ATAA
4973644 AATAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.60
17 4 0.20
18 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAATTTTATAAATTTTA
Found at i:4973670 original size:60 final size:59
Alignment explanation
Indices: 4973550--4973677 Score: 184
Period size: 60 Copynumber: 2.2 Consensus size: 59
4973540 TTGAACAATT
* **
4973550 ATTTTATAACTTTTAATAATCAAAAATTTAATAAAATAATATTTTATAATCCAATTATA
1 ATTTTATAAATTTTAATAATCAAAAATTTAATAAAATAATATTTTATAATCCAAGAATA
* * *
4973609 ATTTTATAAATTTTAATAATTTAAAATTTTAATAAAATAATATTTTATAATCGAAGAATA
1 ATTTTATAAATTTTAATAA-TCAAAAATTTAATAAAATAATATTTTATAATCCAAGAATA
*
4973669 ATTGTATAA
1 ATTTTATAA
4973678 TGTACCCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
59 18 0.30
60 43 0.70
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (59 bp):
ATTTTATAAATTTTAATAATCAAAAATTTAATAAAATAATATTTTATAATCCAAGAATA
Found at i:4976828 original size:20 final size:20
Alignment explanation
Indices: 4976803--4976882 Score: 90
Period size: 20 Copynumber: 3.9 Consensus size: 20
4976793 TAGTTGAAAA
*
4976803 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
4976823 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
* * *
4976843 TCGCGTTGTGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
4976865 T-GTCGTTGCGATTTTCCA
1 TCG-CGTTGCGATTTTCCA
4976883 AATTCGTTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 34 0.68
21 1 0.02
22 15 0.30
ACGTcount: A:0.12, C:0.23, G:0.24, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAGT
Found at i:4977000 original size:6 final size:6
Alignment explanation
Indices: 4976989--4977014 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4976979 GACACGTATT
4976989 ACCACG ACCACG ACCACG ACCACG AC
1 ACCACG ACCACG ACCACG ACCACG AC
4977015 GGTGGCGCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.50, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4977682 original size:91 final size:92
Alignment explanation
Indices: 4977527--4977713 Score: 358
Period size: 91 Copynumber: 2.0 Consensus size: 92
4977517 GTCTCTTCGA
4977527 GAAATGTCTTCGACACGTCCGCGCGGATACTATCTTTTTAGAGAAAATTCTTAAGAAACAAAATC
1 GAAATGTCTTCGACACGTCCGCGCGGATACTATCTTTTTAGAGAAAATTCTTAAGAAACAAAATC
4977592 -TTTTTTTAACTATCGCAACGAATTTG
66 TTTTTTTTAACTATCGCAACGAATTTG
*
4977618 GAAATGTCTTCGACACGTCCGTGCGGATACTATCTTTTTAGAGAAAATTCTTAAGAAACAAAATC
1 GAAATGTCTTCGACACGTCCGCGCGGATACTATCTTTTTAGAGAAAATTCTTAAGAAACAAAATC
4977683 TTTTTTTTAACTATCGCAACGAATTTG
66 TTTTTTTTAACTATCGCAACGAATTTG
4977710 GAAA
1 GAAA
4977714 ATCGCAACGA
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
91 64 0.68
92 30 0.32
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (92 bp):
GAAATGTCTTCGACACGTCCGCGCGGATACTATCTTTTTAGAGAAAATTCTTAAGAAACAAAATC
TTTTTTTTAACTATCGCAACGAATTTG
Found at i:4977743 original size:22 final size:22
Alignment explanation
Indices: 4977714--4977767 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
4977704 AATTTGGAAA
4977714 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
4977736 TTCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
4977758 ATCGCAACGA
1 ATCGCAACGA
4977768 ATTTGGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:4978069 original size:41 final size:41
Alignment explanation
Indices: 4977790--4978052 Score: 481
Period size: 41 Copynumber: 6.4 Consensus size: 41
4977780 GCAACGACAT
4977790 TATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAAC
1 TATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAAC
*
4977831 TATCGCAAGGCGAAATGGAAAATCGCAACGCGATTTTCAAC
1 TATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAAC
* *
4977872 TATAGCAAGGCGAAATGGAAAATCGCAACGCGATTTTCAAC
1 TATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAAC
*
4977913 TATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAAC
1 TATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAAC
*
4977954 TATCGCAACGCGAAATGGAAAACCGCAACGCGATTTTCAAC
1 TATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAAC
4977995 TATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAAC
1 TATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAAC
4978036 TATCGCAACGCGAAATG
1 TATCGCAACGCGAAATG
4978053 CAACGCGAAT
Statistics
Matches: 216, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 216 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (41 bp):
TATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAAC
Found at i:4985242 original size:15 final size:15
Alignment explanation
Indices: 4985194--4985245 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
4985184 TGTAAAAAGT
*
4985194 AATAAAAAATTATTA
1 AATAATAAATTATTA
* *
4985209 CAATAA-AATTTAATAA
1 -AATAATAAATT-ATTA
4985225 AATAATAAATTATTA
1 AATAATAAATTATTA
4985240 AATAAT
1 AATAAT
4985246 TATAATATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATAAATTATTA
Found at i:4985250 original size:26 final size:30
Alignment explanation
Indices: 4985194--4985252 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
4985184 TGTAAAAAGT
*
4985194 AATAAAAAATTATTACAATAAAATTTAATAA
1 AATAATAAATTATTACAAT-AAATTTAATAA
4985225 AATAATAAATTATTA-AAT-AATTATAATA
1 AATAATAAATTATTACAATAAATT-TAATA
4985253 TGATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 4 0.15
29 5 0.19
30 3 0.12
31 14 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (30 bp):
AATAATAAATTATTACAATAAATTTAATAA
Found at i:4986982 original size:34 final size:34
Alignment explanation
Indices: 4986944--4987013 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
4986934 AAAATAAAAT
*
4986944 TCTAAACCCTAAACTT-TAACTCTTAACTCTTAAA
1 TCTAAACCCTAAACTTATAACTCTGAACT-TTAAA
* *
4986978 TCTAAACCGTAAACTTATAATTCTGAACTTTAAA
1 TCTAAACCCTAAACTTATAACTCTGAACTTTAAA
4987012 TC
1 TC
4987014 AGACATATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 22 0.69
35 10 0.31
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.36
Consensus pattern (34 bp):
TCTAAACCCTAAACTTATAACTCTGAACTTTAAA
Found at i:4989793 original size:29 final size:29
Alignment explanation
Indices: 4989761--4989820 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
4989751 CCGTCTAGTG
4989761 AGTGCGTGGGGAGCTAGAGAGACTCAACC
1 AGTGCGTGGGGAGCTAGAGAGACTCAACC
*
4989790 AGTGCGTGGGGAGCTGGAGAGACTCAACC
1 AGTGCGTGGGGAGCTAGAGAGACTCAACC
4989819 AG
1 AG
4989821 CACGTCGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.40, T:0.13
Consensus pattern (29 bp):
AGTGCGTGGGGAGCTAGAGAGACTCAACC
Found at i:4990522 original size:14 final size:15
Alignment explanation
Indices: 4990486--4990524 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
4990476 AAAATGTAAA
*
4990486 TTAATATATTTTTTAT
1 TTAATA-ATTTTATAT
4990502 TTAATAATTTTATAT
1 TTAATAATTTTATAT
4990517 TT-ATAATT
1 TTAATAATT
4990525 ATACGTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 10 0.45
16 6 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTAATAATTTTATAT
Found at i:4996574 original size:14 final size:14
Alignment explanation
Indices: 4996538--4996566 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4996528 TTGTAGTCAA
4996538 GGGGAGACTGTGGT
1 GGGGAGACTGTGGT
4996552 GGGGAGACTGTGGT
1 GGGGAGACTGTGGT
4996566 G
1 G
4996567 TGTAGACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.59, T:0.21
Consensus pattern (14 bp):
GGGGAGACTGTGGT
Found at i:5004678 original size:16 final size:17
Alignment explanation
Indices: 5004651--5004683 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
5004641 TTTTTAGTCA
5004651 CTTTGTAAAAGTAAATG
1 CTTTGTAAAAGTAAATG
*
5004668 CTTTG-AAAAGTCAATG
1 CTTTGTAAAAGTAAATG
5004684 TGACACCTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (17 bp):
CTTTGTAAAAGTAAATG
Found at i:5005259 original size:21 final size:21
Alignment explanation
Indices: 5005233--5005291 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
5005223 TGATTTATTA
5005233 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
5005254 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
*
5005275 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
5005292 ATTGGATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:5015833 original size:20 final size:20
Alignment explanation
Indices: 5015796--5015833 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5015786 CTATATATAT
*
5015796 ATTTGGTTTTGATTGTTTGA
1 ATTTGGTTTTAATTGTTTGA
5015816 ATTTGG-TTTAATTAGTTT
1 ATTTGGTTTTAATT-GTTT
5015834 ATATTGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (20 bp):
ATTTGGTTTTAATTGTTTGA
Found at i:5021674 original size:21 final size:22
Alignment explanation
Indices: 5021647--5021711 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 22
5021637 CTTTTTTTAC
5021647 TATTTAATATATAATAAAAAAA
1 TATTTAATATATAATAAAAAAA
5021669 -ATTTAATAT-TCAATCCATAAAAAA
1 TATTTAATATAT-AAT--A-AAAAAA
*
5021693 TATTTAATATATATTAAAA
1 TATTTAATATATAATAAAA
5021712 GACATTTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
20 1 0.03
21 12 0.33
22 3 0.08
23 2 0.06
24 6 0.17
25 11 0.31
26 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTTAATATATAATAAAAAAA
Found at i:5024542 original size:16 final size:17
Alignment explanation
Indices: 5024506--5024542 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
5024496 ATAAAAAAAA
*
5024506 TAAACAAATTATTTGTT
1 TAAACAAATTATTTATT
5024523 TAAACAAATTA-TTATT
1 TAAACAAATTATTTATT
5024539 TAAA
1 TAAA
5024543 TTAATTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (17 bp):
TAAACAAATTATTTATT
Found at i:5024857 original size:29 final size:29
Alignment explanation
Indices: 5024820--5024910 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
5024810 AAATTTGATT
* * *
5024820 AATTTGGTTCGGTTAATAATTTTCAAATT
1 AATTCGGTTCAGTTAATAATTTTCAAATA
** *
5024849 AATTCGGTTTTGTAAATAATTTTCAAATA
1 AATTCGGTTCAGTTAATAATTTTCAAATA
5024878 AATTCGGTTCAGTTAATAATTTTCAAATA
1 AATTCGGTTCAGTTAATAATTTTCAAATA
5024907 AATT
1 AATT
5024911 TTGATTCGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (29 bp):
AATTCGGTTCAGTTAATAATTTTCAAATA
Found at i:5025024 original size:29 final size:29
Alignment explanation
Indices: 5024991--5025065 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
5024981 AAAATTGTTT
*
5024991 AATTTGGTTCGATTAATAATTTTCAAATG
1 AATTTGGTTCGATTAATAATTTTCAAATA
* *
5025020 AATTTGGTTCGGTAAATAATTTTCAAATA
1 AATTTGGTTCGATTAATAATTTTCAAATA
*
5025049 AATTTTAGTTCGATTAA
1 AA-TTTGGTTCGATTAA
5025066 CCGAATTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 28 0.72
30 11 0.28
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (29 bp):
AATTTGGTTCGATTAATAATTTTCAAATA
Found at i:5025103 original size:142 final size:139
Alignment explanation
Indices: 5024863--5025170 Score: 440
Period size: 142 Copynumber: 2.2 Consensus size: 139
5024853 CGGTTTTGTA
* *
5024863 AATAATTTTCAAATAAATTCGGTTCAGTTAATAATTTTCAAATAAATTTTGATTCGATTAACCGA
1 AATAATTTTCAAATAAATTTGGTTCAGTAAATAATTTTCAAATAAATTTTGATTCGATTAACCGA
*
5024928 ACTGAATTAACCAAATTTTGGCTTCAATTAATTCGGTTAATAATTTTTAAAAAAAA-ATTGTTTA
66 ACTGAATTAACCAAATTTTGGCTTCAATTAATTCGGTTAATAA--TTTAAAAAAAATA-AG-TTA
*
5024992 ATTTGGTTCGATT
127 ATTCGGTTCGATT
* *
5025005 AATAATTTTCAAATGAATTTGGTTCGGTAAATAATTTTCAAATAAATTTT-AGTTCGATTAACCG
1 AATAATTTTCAAATAAATTTGGTTCAGTAAATAATTTTCAAATAAATTTTGA-TTCGATTAACCG
* * ** *
5025069 AATTGAATTAACCGAATTTTTTCTTCGATTAATTCGGTTAATAATTTAAAAAAAATAAGTTAATT
65 AACTGAATTAACCAAATTTTGGCTTCAATTAATTCGGTTAATAATTTAAAAAAAATAAGTTAATT
*
5025134 CGGTTCGGTT
130 CGGTTCGATT
5025144 AATAATTTTCAAATAAATTTTGGTTCA
1 AATAATTTTCAAATAAA-TTTGGTTCA
5025171 ATTAACCGAA
Statistics
Matches: 149, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
139 30 0.20
140 20 0.13
141 2 0.01
142 97 0.65
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (139 bp):
AATAATTTTCAAATAAATTTGGTTCAGTAAATAATTTTCAAATAAATTTTGATTCGATTAACCGA
ACTGAATTAACCAAATTTTGGCTTCAATTAATTCGGTTAATAATTTAAAAAAAATAAGTTAATTC
GGTTCGATT
Found at i:5025452 original size:16 final size:17
Alignment explanation
Indices: 5025433--5025470 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
5025423 TTACAATTAA
5025433 TTTAA-AAAATAATTTG
1 TTTAAGAAAATAATTTG
*
5025449 TTTAAGCAAATAATTTG
1 TTTAAGAAAATAATTTG
5025466 TTTAA
1 TTTAA
5025471 TTTTTTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (17 bp):
TTTAAGAAAATAATTTG
Found at i:5026178 original size:24 final size:24
Alignment explanation
Indices: 5026150--5026202 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
5026140 GGAATCGGAC
* *
5026150 CGGTTAGTGAATCGGTCATGTTAT
1 CGGTTAGCGAATCGATCATGTTAT
* *
5026174 TGGTTAGCGAATCGATTATGTTAT
1 CGGTTAGCGAATCGATCATGTTAT
5026198 CGGTT
1 CGGTT
5026203 CACTGGTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.11, G:0.28, T:0.40
Consensus pattern (24 bp):
CGGTTAGCGAATCGATCATGTTAT
Found at i:5026295 original size:14 final size:14
Alignment explanation
Indices: 5026276--5026302 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5026266 AAATAAAAAT
5026276 ATAAAAAATATTTA
1 ATAAAAAATATTTA
5026290 ATAAAAAATATTT
1 ATAAAAAATATTT
5026303 TTTATATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAAAAAATATTTA
Found at i:5026964 original size:104 final size:104
Alignment explanation
Indices: 5026823--5027028 Score: 385
Period size: 104 Copynumber: 2.0 Consensus size: 104
5026813 TTGATAATTT
* *
5026823 TTAGCCCGTGAGTTTGAGTCGAGTTGAGCTTACTTTTAAAGTTTTCAAGTTCGTGTTGAGCTCAG
1 TTAGCCCGTGAGTTTGAGTCGAGTTGAGCTTACTTTTAAAGTTTTCAAGTTCGAGTCGAGCTCAG
5026888 CAATACTCGAGTTCGACTTGGCTCGTTTAACAAACGACG
66 CAATACTCGAGTTCGACTTGGCTCGTTTAACAAACGACG
*
5026927 TTAGCTCGTGAGTTTGAGTCGAGTTGAGCTTACTTTTAAAGTTTTCAAGTTCGAGTCGAGCTCAG
1 TTAGCCCGTGAGTTTGAGTCGAGTTGAGCTTACTTTTAAAGTTTTCAAGTTCGAGTCGAGCTCAG
5026992 CAATACTCGAGTTCGACTTGGCTCGTTTAACAAACGA
66 CAATACTCGAGTTCGACTTGGCTCGTTTAACAAACGA
5027029 TGTCATTTGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 99 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (104 bp):
TTAGCCCGTGAGTTTGAGTCGAGTTGAGCTTACTTTTAAAGTTTTCAAGTTCGAGTCGAGCTCAG
CAATACTCGAGTTCGACTTGGCTCGTTTAACAAACGACG
Found at i:5027935 original size:15 final size:15
Alignment explanation
Indices: 5027915--5027951 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
5027905 AAGAGTTGTC
5027915 TTAATATAACTAGAA
1 TTAATATAACTAGAA
5027930 TTAATATAACTAGAA
1 TTAATATAACTAGAA
*
5027945 TTCATAT
1 TTAATAT
5027952 TCTGATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (15 bp):
TTAATATAACTAGAA
Found at i:5029783 original size:15 final size:15
Alignment explanation
Indices: 5029763--5029793 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5029753 TAGAGTTAGG
*
5029763 ATTTTAGGGTTTAAA
1 ATTTTAGAGTTTAAA
5029778 ATTTTAGAGTTTAAA
1 ATTTTAGAGTTTAAA
5029793 A
1 A
5029794 CACGTTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (15 bp):
ATTTTAGAGTTTAAA
Found at i:5044140 original size:15 final size:15
Alignment explanation
Indices: 5044120--5044148 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5044110 TGATGTAATA
5044120 ATTTTTTTATTTTTC
1 ATTTTTTTATTTTTC
5044135 ATTTTTTTATTTTT
1 ATTTTTTTATTTTT
5044149 TAGTGATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTTTATTTTTC
Found at i:5044924 original size:14 final size:14
Alignment explanation
Indices: 5044901--5044948 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
5044891 CATTCAGTAA
5044901 TATGTTCGTTCATT
1 TATGTTCGTTCATT
*
5044915 TATATTCG----TT
1 TATGTTCGTTCATT
5044925 TATGTTCGTTCATT
1 TATGTTCGTTCATT
5044939 TATGTTCGTT
1 TATGTTCGTT
5044949 TATGTGCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 9 0.32
14 19 0.68
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:5044928 original size:24 final size:24
Alignment explanation
Indices: 5044901--5044953 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
5044891 CATTCAGTAA
5044901 TATGTTCGTTCATTTATATTCGTT
1 TATGTTCGTTCATTTATATTCGTT
*
5044925 TATGTTCGTTCATTTATGTTCGTT
1 TATGTTCGTTCATTTATATTCGTT
5044949 TATGT
1 TATGT
5044954 GCATTGCTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.58
Consensus pattern (24 bp):
TATGTTCGTTCATTTATATTCGTT
Found at i:5045204 original size:24 final size:24
Alignment explanation
Indices: 5045131--5045209 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
5045121 ATTCGTTTAC
*
5045131 GTTCGTTTATGCTCATTTA-TTGT
1 GTTCGTTTATGTTCATTTATTTGT
* * * * *
5045154 GTTTGTTTATATTCGTTTGTTTCT
1 GTTCGTTTATGTTCATTTATTTGT
*
5045178 GTTCGTTTATGTTCATTCATTTGT
1 GTTCGTTTATGTTCATTTATTTGT
5045202 GTTCGTTT
1 GTTCGTTT
5045210 GTCATTTAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 14 0.33
24 29 0.67
ACGTcount: A:0.10, C:0.11, G:0.18, T:0.61
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTTATTTGT
Found at i:5045593 original size:2 final size:2
Alignment explanation
Indices: 5045586--5045622 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
5045576 TTAAACTTCA
5045586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5045623 AGGGTTAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5046451 original size:25 final size:26
Alignment explanation
Indices: 5046416--5046465 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
5046406 CTTGTAGCAC
5046416 TTTCATCTGTTCTTATGACACATTTT
1 TTTCATCTGTTCTTATGACACATTTT
*
5046442 TTTC-TCTGTTCTTTTGACACATTT
1 TTTCATCTGTTCTTATGACACATTT
5046466 CTATTTACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.16, C:0.20, G:0.08, T:0.56
Consensus pattern (26 bp):
TTTCATCTGTTCTTATGACACATTTT
Found at i:5047048 original size:28 final size:30
Alignment explanation
Indices: 5047007--5047064 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
5046997 TACGATTTTG
5047007 AAAAATAATAATAGT-TGGGTGACCAAAAC
1 AAAAATAATAATAGTGTGGGTGACCAAAAC
*
5047036 AAAAATGA-AATAGTAGGTGGGTGACCAAA
1 AAAAATAATAATAGT--GTGGGTGACCAAA
5047065 TAGGTAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 6 0.24
29 7 0.28
31 12 0.48
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (30 bp):
AAAAATAATAATAGTGTGGGTGACCAAAAC
Found at i:5047825 original size:19 final size:19
Alignment explanation
Indices: 5047801--5047838 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5047791 GTGATCATGG
5047801 TCGATTAATAATATCGTTA
1 TCGATTAATAATATCGTTA
5047820 TCGATTAATAATATCGTTA
1 TCGATTAATAATATCGTTA
5047839 AGTTAAACGA
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:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (19 bp):
TCGATTAATAATATCGTTA
Found at i:5048569 original size:58 final size:58
Alignment explanation
Indices: 5048477--5048590 Score: 192
Period size: 58 Copynumber: 2.0 Consensus size: 58
5048467 GGAAATATAG
** *
5048477 TGAACAGAAGTAATTCGATACTAGTGAACGTGTATGGACTCGGAGGTTAATAATGACC
1 TGAACAGAAGTAACACGATACTAGTGAACATGTATGGACTCGGAGGTTAATAATGACC
*
5048535 TGAACAGAATTAACACGATACTAGTGAACATGTATGGACTCGGAGGTTAATAATGA
1 TGAACAGAAGTAACACGATACTAGTGAACATGTATGGACTCGGAGGTTAATAATGA
5048591 AATAATACAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (58 bp):
TGAACAGAAGTAACACGATACTAGTGAACATGTATGGACTCGGAGGTTAATAATGACC
Found at i:5050898 original size:24 final size:24
Alignment explanation
Indices: 5050870--5050917 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
5050860 CTTCTCCACC
5050870 GAACAATCCACGTTTCTACCAGCT
1 GAACAATCCACGTTTCTACCAGCT
*
5050894 GAACAGTCCACGTTTCTACCAGCT
1 GAACAATCCACGTTTCTACCAGCT
5050918 CCCTCAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (24 bp):
GAACAATCCACGTTTCTACCAGCT
Found at i:5059011 original size:1 final size:1
Alignment explanation
Indices: 5059005--5059112 Score: 54
Period size: 1 Copynumber: 108.0 Consensus size: 1
5058995 CTCATCTCTA
* * * * * * * * * * *
5059005 TTTTTTTTCTTTTTTTTGTTTTTTTTTTCTTCTTCTTCTTCTTCTCTTTTTTTTCTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
5059070 TCTTTTTTTCTGTTTTTTCTTTTTTTTTCTTCTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5059113 AGCTCTTATG
Statistics
Matches: 71, Mismatches: 36, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (1 bp):
T
Found at i:5059019 original size:9 final size:9
Alignment explanation
Indices: 5059005--5059112 Score: 101
Period size: 9 Copynumber: 11.4 Consensus size: 9
5058995 CTCATCTCTA
5059005 TTTTTTTTC
1 TTTTTTTTC
*
5059014 TTTTTTTTG
1 TTTTTTTTC
5059023 TTTTTTTT-
1 TTTTTTTTC
* *
5059031 TTCTTCTTC
1 TTTTTTTTC
*
5059040 TTCTTCTTCTC
1 TT-TT-TTTTC
5059051 TTTTTTTTC
1 TTTTTTTTC
*
5059060 TTTTTCTTTT
1 TTTTT-TTTC
5059070 TCTTTTTTTC
1 T-TTTTTTTC
*
5059080 TGTTTTTTC
1 TTTTTTTTC
5059089 TTTTTTTTTC
1 -TTTTTTTTC
5059099 TTCTTTTTTC
1 TT-TTTTTTC
5059109 TTTT
1 TTTT
5059113 AGCTCTTATG
Statistics
Matches: 81, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
8 6 0.07
9 38 0.47
10 28 0.35
11 9 0.11
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:5059030 original size:20 final size:19
Alignment explanation
Indices: 5059005--5059112 Score: 90
Period size: 21 Copynumber: 5.0 Consensus size: 19
5058995 CTCATCTCTA
5059005 TTTTTTTTCTTTTTTTTGTT
1 TTTTTTTTCTTTTTTTT-TT
5059025 TTTTTTTTCTTCTTCTTCTTCTTCT
1 TTTTTTTTC-T-TT-TT-TT-TT-T
5059050 CTTTTTTTTCTTTTTCTTTTT
1 -TTTTTTTTCTTTTT-TTTTT
*
5059071 CTTTTTTTCTGTTTTTTCTTT
1 TTTTTTTTCT-TTTTTT-TTT
5059092 TTTTTTCTTCTTTTTTCTTTT
1 TTTTTT-TTCTTTTTT-TTTT
5059113 AGCTCTTATG
Statistics
Matches: 75, Mismatches: 2, Indels: 21
0.77 0.02 0.21
Matches are distributed among these distances:
20 20 0.27
21 22 0.29
22 9 0.12
23 7 0.09
24 5 0.07
25 3 0.04
26 9 0.12
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTTTTCTTTTTTTTTT
Found at i:5059108 original size:29 final size:28
Alignment explanation
Indices: 5059005--5059109 Score: 113
Period size: 29 Copynumber: 3.6 Consensus size: 28
5058995 CTCATCTCTA
*
5059005 TTTTTTTTCTTTTTTTTGTTTTTT-TTT
1 TTTTTTTTCTTTTTTCTGTTTTTTCTTT
* * *
5059032 TCTTCTTCTTCTTCTTCTCTTTTTTTTCTTT
1 T-TT-TTTTTCTT-TTTTCTGTTTTTTCTTT
*
5059063 TTCTTTTTCTTTTTTTCTGTTTTTTCTTT
1 TTTTTTTTC-TTTTTTCTGTTTTTTCTTT
5059092 TTTTTTCTTCTTTTTTCT
1 TTTTTT-TTCTTTTTTCT
5059110 TTTAGCTCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
27 1 0.02
28 2 0.03
29 40 0.63
30 16 0.25
31 4 0.06
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (28 bp):
TTTTTTTTCTTTTTTCTGTTTTTTCTTT
Found at i:5061667 original size:64 final size:63
Alignment explanation
Indices: 5061573--5061697 Score: 146
Period size: 64 Copynumber: 2.0 Consensus size: 63
5061563 TACACTGGGG
*
5061573 TGTGCATCGGAGCACAAATCTGCTTCGATGTTTCAAAATAGCTAAG-GTGCATCGATGCATGTCT
1 TGTGCATCGGAGCACAAA-CTGCTTCGATG-TTCAAAATAACTAAGAGTGCATCGATGCATGTCT
* * ** *
5061637 TGTGCATCGGTGCACTAAA-TGCATTTGATGTTCAATTTAATTAAGAGTGCATCGATGCATG
1 TGTGCATCGGAGCAC-AAACTGC-TTCGATGTTCAAAATAACTAAGAGTGCATCGATGCATG
5061698 AACTAGTGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
63 14 0.27
64 35 0.67
65 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (63 bp):
TGTGCATCGGAGCACAAACTGCTTCGATGTTCAAAATAACTAAGAGTGCATCGATGCATGTCT
Found at i:5067389 original size:22 final size:21
Alignment explanation
Indices: 5067347--5067386 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5067337 AAGACTGTTT
5067347 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
5067368 TCATTTTT-ATATTTTGAAA
1 TCATTTTTCA-ATTTTGAAA
5067387 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:5070626 original size:40 final size:40
Alignment explanation
Indices: 5070577--5070726 Score: 246
Period size: 40 Copynumber: 3.8 Consensus size: 40
5070567 ACCGTAGTGC
5070577 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
* * *
5070617 TACACATAAGGTCGTGCCTACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
5070657 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
* * *
5070697 TGCACATAAGATCGTGTCCACCATATACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
5070727 TTAGTATCCT
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
Done.