Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 82 of 172
Found at i:23378568 original size:12 final size:12
Alignment explanation
Indices: 23378551--23378575 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23378541 GGGTATTGAT
23378551 AAAAATGATTCA
1 AAAAATGATTCA
23378563 AAAAATGATTCA
1 AAAAATGATTCA
23378575 A
1 A
23378576 GGAAATCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAAATGATTCA
Found at i:23379458 original size:12 final size:11
Alignment explanation
Indices: 23379441--23379502 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
23379431 AAAATTATTT
23379441 TATTTAAACTAA
1 TATTTAAA-TAA
23379453 TATTTAAAT-A
1 TATTTAAATAA
**
23379463 TATTTATTAATTC
1 TATTTA--AATAA
23379476 TATTTAAACTAA
1 TATTTAAA-TAA
23379488 TATTTAAAT-A
1 TATTTAAATAA
23379498 TATTT
1 TATTT
23379503 TATTTAAACT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 13 0.30
11 4 0.09
12 20 0.47
13 6 0.14
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (11 bp):
TATTTAAATAA
Found at i:23379483 original size:23 final size:25
Alignment explanation
Indices: 23379453--23379543 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 25
23379443 TTTAAACTAA
23379453 TATTTAAA-T-ATATTTATTAATTC
1 TATTTAAACTAATATTTATTAATTC
* *
23379476 TATTTAAACTAATATTTAAATATATTT
1 TATTTAAACTAATATTT-ATTA-ATTC
23379503 TATTTAAACT--TATTTATTAATTC
1 TATTTAAACTAATATTTATTAATTC
*
23379526 TATTTAAATTAATATTTA
1 TATTTAAACTAATATTTA
23379544 AATATTTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
23 20 0.35
24 4 0.07
25 17 0.30
26 3 0.05
27 13 0.23
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTTAAACTAATATTTATTAATTC
Found at i:23379517 original size:50 final size:50
Alignment explanation
Indices: 23379453--23379658 Score: 297
Period size: 50 Copynumber: 4.0 Consensus size: 50
23379443 TTTAAACTAA
23379453 TATTTAAA-TATATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
1 TATTTAAACT-TATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
*
23379503 TATTTAAACTTATTTATTAATTCTATTTAAATTAATATTTAAATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTA--T---TTAA-A-CT-AATATTTAAATATATTT
23379561 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
* *
23379611 TATTTATACTTATTTATTAATTTTATTTAAACTAATATTTAAATATAT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATAT
23379659 CAAATGGTTT
Statistics
Matches: 143, Mismatches: 4, Indels: 18
0.87 0.02 0.11
Matches are distributed among these distances:
50 86 0.60
51 2 0.01
52 2 0.01
53 4 0.03
55 4 0.03
56 2 0.01
57 1 0.01
58 42 0.29
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (50 bp):
TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
Found at i:23379566 original size:58 final size:58
Alignment explanation
Indices: 23379486--23379656 Score: 250
Period size: 58 Copynumber: 3.1 Consensus size: 58
23379476 TATTTAAACT
23379486 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAATTAATATTTA
1 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAATTAATATTTA
*
23379544 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTA--T---TTAA-A-CT-
1 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAATTAATATTTA
* * *
23379594 AATATTTAAATATATTTTATTTATACTTATTTATTAATTTTATTTAAACTAATATTTA
1 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAATTAATATTTA
23379652 AATAT
1 AATAT
23379657 ATCAAATGGT
Statistics
Matches: 100, Mismatches: 5, Indels: 16
0.83 0.04 0.13
Matches are distributed among these distances:
50 40 0.40
51 1 0.01
52 2 0.02
53 4 0.04
55 3 0.03
56 2 0.02
57 1 0.01
58 47 0.47
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (58 bp):
AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAATTAATATTTA
Found at i:23379568 original size:23 final size:21
Alignment explanation
Indices: 23379538--23379641 Score: 64
Period size: 23 Copynumber: 4.4 Consensus size: 21
23379528 TTTAAATTAA
23379538 TATTTAAATATTTAAATATATTT
1 TATTTAAATATTT-AATA-ATTT
* *
23379561 TATTTAAACTTATTTATTAATTC
1 TATTTAAA--TATTTAATAATTT
23379584 TATTTAAACTAATATTTAAATATATTT
1 TATTT--A--AATATTT-AATA-ATTT
* *
23379611 TATTTATACTTATTTATTAATTT
1 TATTTA-A-ATATTTAATAATTT
23379634 TATTTAAA
1 TATTTAAA
23379642 CTAATATTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
22 1 0.02
23 26 0.40
24 8 0.12
25 17 0.26
26 3 0.05
27 10 0.15
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTAAATATTTAATAATTT
Found at i:23379575 original size:15 final size:15
Alignment explanation
Indices: 23379488--23379568 Score: 55
Period size: 15 Copynumber: 5.5 Consensus size: 15
23379478 TTTAAACTAA
23379488 TATTTAAATATATTT
1 TATTTAAATATATTT
23379503 TATTTAAACT-TA-TT
1 TATTTAAA-TATATTT
* *
23379517 TA-TTAATTCTATTT
1 TATTTAAATATATTT
* * *
23379531 AAATT-AATAT-TTAAA
1 TATTTAAATATATT--T
23379546 TATTTAAATATATTT
1 TATTTAAATATATTT
23379561 TATTTAAA
1 TATTTAAA
23379569 CTTATTTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 16
0.68 0.11 0.22
Matches are distributed among these distances:
12 1 0.02
13 8 0.16
14 10 0.20
15 23 0.46
16 6 0.12
17 2 0.04
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTAAATATATTT
Found at i:23379647 original size:108 final size:108
Alignment explanation
Indices: 23379453--23379656 Score: 365
Period size: 108 Copynumber: 1.9 Consensus size: 108
23379443 TTTAAACTAA
23379453 TATTTAAATATATTTATTAATTCTATTTAAACTAATATTTAAATATATTTTATTTAAACTTATTT
1 TATTTAAATATATTTATTAATTCTATTTAAACTAATATTTAAATATATTTTATTTAAACTTATTT
*
23379518 ATTAATTCTATTTAAATTAATATTTAAATATTTAAATATATTT
66 ATTAATTCTATTTAAACTAATATTTAAATATTTAAATATATTT
*
23379561 TATTTAAACT-TATTTATTAATTCTATTTAAACTAATATTTAAATATATTTTATTTATACTTATT
1 TATTTAAA-TATATTTATTAATTCTATTTAAACTAATATTTAAATATATTTTATTTAAACTTATT
*
23379625 TATTAATTTTATTTAAACTAATATTTAAATAT
65 TATTAATTCTATTTAAACTAATATTTAAATAT
23379657 ATCAAATGGT
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
108 91 0.99
109 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (108 bp):
TATTTAAATATATTTATTAATTCTATTTAAACTAATATTTAAATATATTTTATTTAAACTTATTT
ATTAATTCTATTTAAACTAATATTTAAATATTTAAATATATTT
Found at i:23379985 original size:14 final size:14
Alignment explanation
Indices: 23379915--23380001 Score: 61
Period size: 14 Copynumber: 6.1 Consensus size: 14
23379905 ACCCCTGAAT
*
23379915 CCCTATACCTTAAA
1 CCCTAAACCTTAAA
*
23379929 TCCCT-AACTCTTAAC
1 -CCCTAAAC-CTTAAA
*** *
23379944 CCCTAATGTTTAAC
1 CCCTAAACCTTAAA
23379958 CCCTAAACCCTTAAA
1 CCCTAAA-CCTTAAA
23379973 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
*
23379987 GCCC-AACCCTTAAA
1 -CCCTAAACCTTAAA
23380001 C
1 C
23380002 TATAATTCGT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
13 1 0.02
14 33 0.57
15 24 0.41
ACGTcount: A:0.34, C:0.38, G:0.02, T:0.25
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:23380305 original size:15 final size:15
Alignment explanation
Indices: 23380272--23380318 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
23380262 TCCCAACCCT
23380272 TAAAT-CATAATCCC
1 TAAATCCATAATCCC
23380286 T-AATCCATAATCCC
1 TAAATCCATAATCCC
*
23380300 TAAATCCATACTCCC
1 TAAATCCATAATCCC
23380315 TAAA
1 TAAA
23380319 CCTTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 3 0.10
14 11 0.37
15 16 0.53
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:23380718 original size:41 final size:41
Alignment explanation
Indices: 23380673--23380834 Score: 261
Period size: 41 Copynumber: 3.9 Consensus size: 41
23380663 TAAAATGCTT
23380673 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAAAGCA
* *
23380714 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAAAGCA
* * * *
23380755 TTAGTGGCGCTTTTTCAAAAACGCTGCTAAAGCACAGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAAAGCA
23380796 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCTCCAAA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGC-CCAAA
23380835 AGTTCAGGAA
Statistics
Matches: 108, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 105 0.97
42 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAAAGCA
Found at i:23400483 original size:36 final size:36
Alignment explanation
Indices: 23400436--23400509 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
23400426 ATGCCCAAAA
23400436 TTAAATCAAACTCCCCAAATGGTAACACAATAAGAT
1 TTAAATCAAACTCCCCAAATGGTAACACAATAAGAT
23400472 TTAAATCAAACTCCCCAAATGGTAACACAATAAGAT
1 TTAAATCAAACTCCCCAAATGGTAACACAATAAGAT
23400508 TT
1 TT
23400510 GCAGGAAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (36 bp):
TTAAATCAAACTCCCCAAATGGTAACACAATAAGAT
Found at i:23402055 original size:18 final size:20
Alignment explanation
Indices: 23402032--23402089 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
23402022 AAATATTAAA
23402032 AAATATAATA-ATTAAT-TT
1 AAATATAATATATTAATATT
*
23402050 AAATAT-TTATATTAATATT
1 AAATATAATATATTAATATT
23402069 AAATA-AATATGATT-ATATT
1 AAATATAATAT-ATTAATATT
23402088 AA
1 AA
23402090 TATTAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
17 2 0.06
18 12 0.35
19 17 0.50
20 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATATAATATATTAATATT
Found at i:23402084 original size:25 final size:23
Alignment explanation
Indices: 23402049--23402100 Score: 86
Period size: 25 Copynumber: 2.2 Consensus size: 23
23402039 ATAATTAATT
23402049 TAAATATTTATATTAATATTAAA
1 TAAATATTTATATTAATATTAAA
23402072 TAAATATGATTATATTAATATTAAA
1 TAAATAT--TTATATTAATATTAAA
23402097 TAAA
1 TAAA
23402101 ATAAAAATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 7 0.26
25 20 0.74
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAATATTTATATTAATATTAAA
Found at i:23406088 original size:23 final size:23
Alignment explanation
Indices: 23406058--23406109 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
23406048 AAGCATGGCT
*
23406058 CTGTAATACCCCGAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
23406081 CTGTAATACCCCAAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
*
23406104 CAGTAA
1 CTGTAA
23406110 GAAGGTAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (23 bp):
CTGTAATACCCCAAAAATTACTA
Found at i:23406625 original size:8 final size:8
Alignment explanation
Indices: 23406590--23406617 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
23406580 TTTTAAATGA
23406590 TATTTTAT
1 TATTTTAT
23406598 TATTTTAT
1 TATTTTAT
23406606 TATTTTAT
1 TATTTTAT
23406614 TATT
1 TATT
23406618 ATTCTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTTTAT
Found at i:23409271 original size:49 final size:48
Alignment explanation
Indices: 23409160--23409452 Score: 244
Period size: 49 Copynumber: 6.2 Consensus size: 48
23409150 CGATCCCGTA
* *
23409160 TAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATG
1 TAAGACCATGTCT-GGACATGGCGTTGGCA-C--CGAG---ATGAGAGGT-CCATG
23409216 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCATG
1 TAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATGAGAGGTCCATG
*
23409265 TAAGACCATGTCTGGACATGGCGTTGCCGACC--GAT--GA-G---ATG
1 TAAGACCATGTCTGGACATGGCGTTGGC-ACCGAGATGAGAGGTCCATG
23409306 TAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCATG
1 TAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATGAGAGGTCCATG
* *
23409355 TAAGACCATGTCT-G--AT-GAGTTGGCACAC-TGATGAGAGGT-C---
1 TAAGACCATGTCTGGACATGGCGTTGGCAC-CGAGATGAGAGGTCCATG
* * * **
23409395 -AAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAAATCTCATG
1 TAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATGAGAGGTC-CATG
23409444 TAAGACCAT
1 TAAGACCAT
23409453 ATCTAGGATA
Statistics
Matches: 201, Mismatches: 13, Indels: 52
0.76 0.05 0.20
Matches are distributed among these distances:
39 12 0.06
41 20 0.10
42 14 0.07
43 7 0.03
44 34 0.17
45 7 0.03
46 2 0.01
47 4 0.02
48 14 0.07
49 37 0.18
50 17 0.08
53 3 0.01
55 1 0.00
56 29 0.14
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
TAAGACCATGTCTGGACATGGCGTTGGCACCGAGATGAGAGGTCCATG
Found at i:23409366 original size:90 final size:87
Alignment explanation
Indices: 23409213--23409452 Score: 322
Period size: 90 Copynumber: 2.7 Consensus size: 87
23409203 GAGAGGTCCC
*
23409213 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCATGTAAGACCATGTCT
1 ATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCATGTAAGACCATGTCT
*
23409278 GGACATGGCGTT-GC-CGACCGATGAG
66 -G--AT-GAGTTGGCAC-ACCGATGAG
23409303 ATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCATGTAAGACCATGTCT
1 ATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCATGTAAGACCATGTCT
*
23409368 GATGAGTTGGCACACTGATGAG
66 GATGAGTTGGCACACCGATGAG
* * * * **
23409390 AGGTCAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAAATCTCATGTAAGACCAT
1 ATGT-AAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTC-CATGTAAGACCAT
23409453 ATCTAGGATA
Statistics
Matches: 137, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
86 4 0.03
87 15 0.11
88 40 0.29
89 14 0.10
90 64 0.47
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (87 bp):
ATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCATGTAAGACCATGTCT
GATGAGTTGGCACACCGATGAG
Found at i:23418757 original size:5 final size:5
Alignment explanation
Indices: 23418747--23418796 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
23418737 CCCATGGCAC
23418747 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT
23418797 AAATGTTCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:23425194 original size:19 final size:19
Alignment explanation
Indices: 23425158--23425316 Score: 105
Period size: 19 Copynumber: 8.3 Consensus size: 19
23425148 AAAATTATAA
*
23425158 AAAAATTCATAGAAACTTAT
1 AAAAATT-ATAAAAACTTAT
* *
23425178 TAATATTATAAAAACTTAT
1 AAAAATTATAAAAACTTAT
*
23425197 AAAAATTATAATCAA-TCTA-
1 AAAAATTATAA-AAACT-TAT
* *
23425216 ATAAATTATTAAAAAATTA-
1 AAAAATTA-TAAAAACTTAT
* *
23425235 AAAAATCCATAAAAA-TTGT
1 AAAAAT-TATAAAAACTTAT
* *
23425254 AAATATTATAATAACTTAT
1 AAAAATTATAAAAACTTAT
*
23425273 AAAAGTTATAATAAA-TTATT
1 AAAAATTATAA-AAACTTA-T
23425293 AAAAATATATAAAAA-TTAT
1 AAAAAT-TATAAAAACTTAT
23425312 AAAAA
1 AAAAA
23425317 AAGTCATTTA
Statistics
Matches: 110, Mismatches: 19, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
18 8 0.07
19 69 0.63
20 28 0.25
21 5 0.05
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAATTATAAAAACTTAT
Found at i:23425256 original size:9 final size:9
Alignment explanation
Indices: 23425148--23425316 Score: 108
Period size: 9 Copynumber: 17.4 Consensus size: 9
23425138 AGATTTAGAT
23425148 AAAATTATAAA
1 AAAATTAT--A
23425159 AAAATTCATA
1 AAAATT-ATA
* *
23425169 GAAACTTATT
1 -AAAATTATA
*
23425179 AATATTATA
1 AAAATTATA
23425188 AAAACTTATA
1 AAAA-TTATA
23425198 AAAATTATA
1 AAAATTATA
*
23425207 ATCAATCTA-A
1 A-AAAT-TATA
*
23425217 TAAATTATTAA
1 AAAATTA-T-A
23425228 AAAATTA-A
1 AAAATTATA
*
23425236 AAAATCCATA
1 AAAAT-TATA
*
23425246 AAAATTGTA
1 AAAATTATA
*
23425255 AATATTATA
1 AAAATTATA
*
23425264 ATAACTTATA
1 A-AAATTATA
*
23425274 AAAGTTATA
1 AAAATTATA
23425283 ATAAATTATTA
1 A-AAATTA-TA
23425294 AAAATATATA
1 AAAAT-TATA
23425304 AAAATTATA
1 AAAATTATA
23425313 AAAA
1 AAAA
23425317 AAGTCATTTA
Statistics
Matches: 125, Mismatches: 19, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
8 8 0.06
9 45 0.36
10 45 0.36
11 25 0.20
12 2 0.02
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:23425312 original size:11 final size:11
Alignment explanation
Indices: 23425270--23425317 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
23425260 TATAATAACT
*
23425270 TATAAAAGTTA
1 TATAAAAATTA
*
23425281 TA-ATAAATTA
1 TATAAAAATTA
23425291 T-TAAAAA-TA
1 TATAAAAATTA
23425300 TATAAAAATTA
1 TATAAAAATTA
23425311 TA-AAAAA
1 TATAAAAA
23425318 AGTCATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
9 3 0.10
10 22 0.71
11 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
TATAAAAATTA
Found at i:23442657 original size:36 final size:36
Alignment explanation
Indices: 23442617--23442689 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
23442607 AAGGAATAAT
23442617 CTTAGTATACAAATTAACAAAGAAGAAATAACATTG
1 CTTAGTATACAAATTAACAAAGAAGAAATAACATTG
23442653 CTTAGTATACAAATTAACAAAGAAGAAATAACATTG
1 CTTAGTATACAAATTAACAAAGAAGAAATAACATTG
23442689 C
1 C
23442690 ATGTCCCCCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (36 bp):
CTTAGTATACAAATTAACAAAGAAGAAATAACATTG
Found at i:23444406 original size:13 final size:13
Alignment explanation
Indices: 23444385--23444414 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23444375 TTGTTGCGAC
*
23444385 GGTTTACAGTGGT
1 GGTTCACAGTGGT
23444398 GGTTCACAGTGGT
1 GGTTCACAGTGGT
23444411 GGTT
1 GGTT
23444415 TTTGGTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.40, T:0.37
Consensus pattern (13 bp):
GGTTCACAGTGGT
Found at i:23444854 original size:29 final size:28
Alignment explanation
Indices: 23444822--23444887 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
23444812 ACCAATAAAA
23444822 GCCCTTTTTTTCAA-AAATTACCGAAATGG
1 GCCCTTTTTTT-AATAAATTACCGAAAT-G
* * *
23444851 GCCCATTTTTTAATTATTTACCGAAATG
1 GCCCTTTTTTTAATAAATTACCGAAATG
*
23444879 GTCCTTTTT
1 GCCCTTTTT
23444888 CCGGGAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (28 bp):
GCCCTTTTTTTAATAAATTACCGAAATG
Found at i:23448088 original size:25 final size:25
Alignment explanation
Indices: 23448032--23448099 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
23448022 CTATACATGT
*
23448032 ATGCTCACACAAGCTGTGAATCAGA
1 ATGCTCACACGAGCTGTGAATCAGA
** *
23448057 AACCTCACACGAGTTGTGAATCAGA
1 ATGCTCACACGAGCTGTGAATCAGA
*
23448082 ATGCTCACATGAGCTGTG
1 ATGCTCACACGAGCTGTG
23448100 GACATTCAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCAGA
Found at i:23455320 original size:25 final size:25
Alignment explanation
Indices: 23455292--23455384 Score: 109
Period size: 25 Copynumber: 3.6 Consensus size: 25
23455282 TACATGTATG
23455292 CTCACACGAGCTGTGAATCAGAATC
1 CTCACACGAGCTGTGAATCAGAATC
*
23455317 CTCACACGAGCTGTGAAAAT-AG-GTC
1 CTCACACGAGCTGTG--AATCAGAATC
*
23455342 TGCTCACACGAGTTGTGAATCAGAATC
1 --CTCACACGAGCTGTGAATCAGAATC
*
23455369 CTCACATGAGCTGTGA
1 CTCACACGAGCTGTGA
23455385 CAATGGGTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 34 0.60
26 4 0.07
27 19 0.33
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (25 bp):
CTCACACGAGCTGTGAATCAGAATC
Found at i:23455352 original size:52 final size:52
Alignment explanation
Indices: 23455290--23455409 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 52
23455280 TGTACATGTA
23455290 TGCTCACACGAGCTGTGAATCAGAATCCTCACACGAGCTGTGAAAATAGGTC
1 TGCTCACACGAGCTGTGAATCAGAATCCTCACACGAGCTGTGAAAATAGGTC
* * * *
23455342 TGCTCACACGAGTTGTGAATCAGAATCCTCACATGAGCTGTGACAATGGGTC
1 TGCTCACACGAGCTGTGAATCAGAATCCTCACACGAGCTGTGAAAATAGGTC
*
23455394 TGGTCACACGAGCTGT
1 TGCTCACACGAGCTGT
23455410 TGGTCGAAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (52 bp):
TGCTCACACGAGCTGTGAATCAGAATCCTCACACGAGCTGTGAAAATAGGTC
Found at i:23465331 original size:25 final size:25
Alignment explanation
Indices: 23465303--23465391 Score: 135
Period size: 25 Copynumber: 3.6 Consensus size: 25
23465293 TCATGTACAT
*
23465303 GTATGCTCAT-ACGAGCTGTAAATCA
1 GTATGCTC-TCACGAGCTATAAATCA
*
23465328 GTATACTCTCACGAGCTATAAATCA
1 GTATGCTCTCACGAGCTATAAATCA
*
23465353 GTATGCTCTCATGAGCTATAAATCA
1 GTATGCTCTCACGAGCTATAAATCA
23465378 GTATGCTCTCACGA
1 GTATGCTCTCACGA
23465392 ACTGTGTAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 1 0.02
25 57 0.98
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATCA
Found at i:23472784 original size:25 final size:25
Alignment explanation
Indices: 23472756--23472825 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
23472746 TGCTTATATG
*
23472756 AGCTGTAAATC-ACTATGCTCTCACA
1 AGCTATAAATCGA-TATGCTCTCACA
* *
23472781 AGCTATAAACCGATATGCTCTCACG
1 AGCTATAAATCGATATGCTCTCACA
*
23472806 AGCTATAAATTGATATGCTC
1 AGCTATAAATCGATATGCTC
23472826 CCAAGAGCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (25 bp):
AGCTATAAATCGATATGCTCTCACA
Found at i:23472833 original size:25 final size:25
Alignment explanation
Indices: 23472781--23472836 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
23472771 TGCTCTCACA
* *
23472781 AGCTATAAACCGATATGCTCTCACG
1 AGCTATAAACCGATATGCTCCCAAG
**
23472806 AGCTATAAATTGATATGCTCCCAAG
1 AGCTATAAACCGATATGCTCCCAAG
23472831 AGCTAT
1 AGCTAT
23472837 GGAGTATCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (25 bp):
AGCTATAAACCGATATGCTCCCAAG
Found at i:23486812 original size:27 final size:27
Alignment explanation
Indices: 23486781--23487261 Score: 611
Period size: 27 Copynumber: 17.8 Consensus size: 27
23486771 GTTATGACTA
*
23486781 AAATACCTCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
23486808 AAATACCTCCATAGGGTATAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
23486835 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
23486862 AAATACCCCCATAGGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
** * *
23486889 AAATACCCTTATAGGATAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
23486916 AAATACCCCCATAGGATAAAATAACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
23486943 AAATTCCCCAATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
23486970 AAATACTCCCATAGGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
23486997 AAATAACCCCATTGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
23487024 AAATACCCCTATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
23487051 AAATACCCCCATAGGGTAAAATGATCA
1 AAATACCCCCATAGGGTAAAATGACCG
* *
23487078 AAATACCCCCATAAGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
23487105 AAATACCCCCATAAGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
23487132 AAATACCCCCATAAGGTAGAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
23487159 AAATACCCCTATAGGGTAGAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
23487186 AAATACCCCTATAAGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
23487213 AAATACCCCCATAGGGTAAAATGGCCA
1 AAATACCCCCATAGGGTAAAATGACCG
23487240 AAATACCCCCATAGGGTAAAAT
1 AAATACCCCCATAGGGTAAAAT
23487262 TATTGTTATA
Statistics
Matches: 401, Mismatches: 53, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 401 1.00
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:23501294 original size:17 final size:17
Alignment explanation
Indices: 23501254--23501295 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
23501244 AAATCCTACT
23501254 TAAAAATTACAACAACA
1 TAAAAATTACAACAACA
* *
23501271 TAGAAATTATAACAA-A
1 TAAAAATTACAACAACA
23501287 GTAAAAATT
1 -TAAAAATT
23501296 GTCAATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.24
Consensus pattern (17 bp):
TAAAAATTACAACAACA
Found at i:23517251 original size:14 final size:14
Alignment explanation
Indices: 23517232--23517264 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23517222 CATCATTTGT
23517232 CTATAACCAAAACC
1 CTATAACCAAAACC
*
23517246 CTATAACTAAAACC
1 CTATAACCAAAACC
23517260 C-ATAA
1 CTATAA
23517265 ACCCATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (14 bp):
CTATAACCAAAACC
Found at i:23517689 original size:14 final size:14
Alignment explanation
Indices: 23517664--23517723 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
23517654 TTAAATTAAG
23517664 TACTTCAATTTTCAA
1 TACTT-AATTTTCAA
*
23517679 TAATTAATTTTTCAA
1 TACTTAA-TTTTCAA
* *
23517694 CACTTACTTTTCAA
1 TACTTAATTTTCAA
*
23517708 TACTTACTTTTTCAA
1 TACTTA-ATTTTCAA
23517723 T
1 T
23517724 TTATCAAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
14 14 0.38
15 23 0.62
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (14 bp):
TACTTAATTTTCAA
Found at i:23517692 original size:15 final size:15
Alignment explanation
Indices: 23517672--23517723 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
23517662 AGTACTTCAA
*
23517672 TTTTCAATAATTAAT
1 TTTTCAATACTTAAT
* *
23517687 TTTTCAACACTT-AC
1 TTTTCAATACTTAAT
*
23517701 TTTTCAATACTTACT
1 TTTTCAATACTTAAT
23517716 TTTTCAAT
1 TTTTCAAT
23517724 TTATCAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTCAATACTTAAT
Found at i:23524799 original size:10 final size:10
Alignment explanation
Indices: 23524778--23524806 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
23524768 AAATACATTA
23524778 TTAAAAAT-T
1 TTAAAAATAT
23524787 TTAAAAATAT
1 TTAAAAATAT
23524797 TTAAAAATAT
1 TTAAAAATAT
23524807 AAAATTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TTAAAAATAT
Found at i:23528109 original size:16 final size:16
Alignment explanation
Indices: 23528066--23528100 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23528056 AAACGTTAGA
* *
23528066 TAAATTATTTAAAAAT
1 TAAATTAATTGAAAAT
23528082 TAAATTAATTGAAAAT
1 TAAATTAATTGAAAAT
23528098 TAA
1 TAA
23528101 TATTTTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
TAAATTAATTGAAAAT
Found at i:23543346 original size:106 final size:105
Alignment explanation
Indices: 23543155--23543351 Score: 236
Period size: 106 Copynumber: 1.9 Consensus size: 105
23543145 ATTTACTAAA
* * * * * ** *
23543155 AATAATGATATTTGAAATAATTATTTTATTTTGTACTATTAGAATTTACTTTACCCACAATTCAA
1 AATAATGATATTTAAAATAATTATTTTATTTTATAATATTAGAAATCACAATACCAACAATTCAA
*
23543220 GTGAAAAATAATGATGTTTGAAATGTTTTACATATAAAAAT
66 GTGAAAAATAA-GATATTTGAAATGTTTTACATATAAAAAT
*
23543261 AATAATGATATTTAAAATAGTTATTTTATTTTATAATATTAGAAATCACAATACCAACAATGT-A
1 AATAATGATATTTAAAATAATTATTTTATTTTATAATATTAGAAATCACAATACCAACAAT-TCA
* *
23543325 GGTGGAGAAAATAA-ATATTTGACATGT
65 AGT-GA-AAAATAAGATATTTGAAATGT
23543352 AAAAATTATA
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
106 66 0.87
107 3 0.04
108 7 0.09
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (105 bp):
AATAATGATATTTAAAATAATTATTTTATTTTATAATATTAGAAATCACAATACCAACAATTCAA
GTGAAAAATAAGATATTTGAAATGTTTTACATATAAAAAT
Found at i:23543606 original size:16 final size:16
Alignment explanation
Indices: 23543566--23543606 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
23543556 TTTATTTATA
*
23543566 TAAATAAAAGATGAAT
1 TAAAAAAAAGATGAAT
*
23543582 TAATTAAAAAGATGAAT
1 TAA-AAAAAAGATGAAT
23543599 TAAAAAAA
1 TAAAAAAA
23543607 TTTGAAAGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (16 bp):
TAAAAAAAAGATGAAT
Found at i:23558813 original size:31 final size:31
Alignment explanation
Indices: 23558752--23558813 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
23558742 TTAAAAATAC
* *
23558752 ATAAAATATTATTAATATTTTAATATATTTT
1 ATAAAATATTATTAATATTTAAATAGATTTT
**
23558783 ATAAAATATTATTTTTA-TTAAATTAGATTTT
1 ATAAAATATTATTAATATTTAAA-TAGATTTT
23558814 TAATTGGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (31 bp):
ATAAAATATTATTAATATTTAAATAGATTTT
Found at i:23566803 original size:18 final size:18
Alignment explanation
Indices: 23566776--23566815 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
23566766 AACTTAATAA
*
23566776 AAATTCAGGTATTGTAGG
1 AAATTCAGGTATTGCAGG
*
23566794 AAATTGAGGTATTGCAGG
1 AAATTCAGGTATTGCAGG
23566812 AAAT
1 AAAT
23566816 AAAAGTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.30
Consensus pattern (18 bp):
AAATTCAGGTATTGCAGG
Found at i:23566948 original size:51 final size:52
Alignment explanation
Indices: 23566844--23566950 Score: 121
Period size: 51 Copynumber: 2.1 Consensus size: 52
23566834 TGAAAGGAAA
* **
23566844 AAAAGTTTTGAGGGGTTTAAGGGAAGTAAAACTTTGGGAGGAAAGTAAAAGG
1 AAAAGTTTTGAGAGGTTTAAGGGAAGTAAAACTTTGGGAGGAAAACAAAAGG
* * *
23566896 AAAAGTTTTGA-AGGTTT-GGGGAAGTAAAAGTTTTAGGG-GGAAAACAATAGG
1 AAAAGTTTTGAGAGGTTTAAGGGAAGTAAAA-CTTT-GGGAGGAAAACAAAAGG
23566947 AAAA
1 AAAA
23566951 AAAAAGTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
50 11 0.23
51 22 0.47
52 14 0.30
ACGTcount: A:0.42, C:0.02, G:0.33, T:0.23
Consensus pattern (52 bp):
AAAAGTTTTGAGAGGTTTAAGGGAAGTAAAACTTTGGGAGGAAAACAAAAGG
Found at i:23572653 original size:28 final size:28
Alignment explanation
Indices: 23572613--23572670 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
23572603 ATTGAACTGA
*
23572613 ACTGGATCTGAGGCATATATTATTTTTT
1 ACTGGATCTGAGGCATATATTACTTTTT
23572641 ACTGGATCTGAGGCATATATTACTTTTT
1 ACTGGATCTGAGGCATATATTACTTTTT
23572669 AC
1 AC
23572671 GCGTATGCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (28 bp):
ACTGGATCTGAGGCATATATTACTTTTT
Found at i:23585074 original size:115 final size:115
Alignment explanation
Indices: 23584879--23585122 Score: 292
Period size: 115 Copynumber: 2.1 Consensus size: 115
23584869 GTGCCCCGCG
* ** * * * *
23584879 CTAGTCGGATAAACCGACATATATAATGATGTGCCCAGCATTAGTCAGATACACTAACAAAAGTT
1 CTAGTCAGATAAACCGGTAGATATAATGATGTGCCCAACACTAGTCAGATAAACTAACAAAAGTT
** * ** * *
23584944 GTGCCCAATGGTAGTCAGAA-AAATTGATAGATATAATGATGTGCGCAACA
66 GCACCCAATGCTAGTC-GAATAAACCGACAGATATAATGATGTGCCCAACA
* * * **
23584994 CTAGTTAGATAAACCGGTAGATATAATGATGTGCGCAACACTAGTCAGATAAACTGATTAAAGTT
1 CTAGTCAGATAAACCGGTAGATATAATGATGTGCCCAACACTAGTCAGATAAACTAACAAAAGTT
*
23585059 GCACCCAGTGCTAGTCGAATAAACCGACAGATATAATGATGTGCCCAACA
66 GCACCCAATGCTAGTCGAATAAACCGACAGATATAATGATGTGCCCAACA
23585109 CTAGTCAGATAAAC
1 CTAGTCAGATAAAC
23585123 TGACGAAAGT
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
114 3 0.03
115 104 0.97
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (115 bp):
CTAGTCAGATAAACCGGTAGATATAATGATGTGCCCAACACTAGTCAGATAAACTAACAAAAGTT
GCACCCAATGCTAGTCGAATAAACCGACAGATATAATGATGTGCCCAACA
Found at i:23585084 original size:75 final size:75
Alignment explanation
Indices: 23585002--23585201 Score: 310
Period size: 75 Copynumber: 2.7 Consensus size: 75
23584992 CACTAGTTAG
* * **
23585002 ATAAACCGGTAGATATAATGATGTGCGCAACACTAGTCAGATAAACTGATTAAAGTTGCACCCAG
1 ATAAACCGATAGATATAATGATGTGCCCAACACTAGTCAGATAAACTGACGAAAGTTGCACCCAG
23585067 TGCTAGTCGA
66 TGCTAGTCGA
* *
23585077 ATAAACCGACAGATATAATGATGTGCCCAACACTAGTCAGATAAACTGACGAAAGTTGCGCCCAG
1 ATAAACCGATAGATATAATGATGTGCCCAACACTAGTCAGATAAACTGACGAAAGTTGCACCCAG
*
23585142 TGCTAGTCGG
66 TGCTAGTCGA
* * *
23585152 ATAAACCGATAGATATAATGATGTGCCCAGCACTAGTAAGATAAATTGAC
1 ATAAACCGATAGATATAATGATGTGCCCAACACTAGTCAGATAAACTGAC
23585202 AATAATCGTT
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 114 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (75 bp):
ATAAACCGATAGATATAATGATGTGCCCAACACTAGTCAGATAAACTGACGAAAGTTGCACCCAG
TGCTAGTCGA
Found at i:23585148 original size:35 final size:35
Alignment explanation
Indices: 23585034--23585157 Score: 97
Period size: 35 Copynumber: 3.4 Consensus size: 35
23585024 GTGCGCAACA
** *
23585034 CTAGTCAGATAAACTGATTAAAGTTGCACCCAGTG
1 CTAGTCAGATAAACTGACGAAAGTTGCGCCCAGTG
* * * ***
23585069 CTAGTC-GAATAAACCGACAGATATAATGATGTGCCCAACA
1 CTAGTCAG-ATAAACTGAC-G--A-AA-GTTGCGCCCAGTG
23585109 CTAGTCAGATAAACTGACGAAAGTTGCGCCCAGTG
1 CTAGTCAGATAAACTGACGAAAGTTGCGCCCAGTG
*
23585144 CTAGTCGGATAAAC
1 CTAGTCAGATAAAC
23585158 CGATAGATAT
Statistics
Matches: 66, Mismatches: 16, Indels: 14
0.69 0.17 0.15
Matches are distributed among these distances:
34 1 0.02
35 35 0.53
36 2 0.03
37 1 0.02
38 1 0.02
39 3 0.05
40 22 0.33
41 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (35 bp):
CTAGTCAGATAAACTGACGAAAGTTGCGCCCAGTG
Found at i:23585195 original size:40 final size:40
Alignment explanation
Indices: 23584955--23585196 Score: 173
Period size: 40 Copynumber: 6.3 Consensus size: 40
23584945 TGCCCAATGG
* ** *
23584955 TAGTCAGAAAAATTGATAGATATAATGATGTGCGCAACAC
1 TAGTCAGATAAACCGATAGATATAATGATGTGCCCAACAC
* * *
23584995 TAGTTAGATAAACCGGTAGATATAATGATGTGCGCAACAC
1 TAGTCAGATAAACCGATAGATATAATGATGTGCCCAACAC
* * ** ***
23585035 TAGTCAGATAAA-C--T-GAT-TAAAGTTGCACCCAGTGC
1 TAGTCAGATAAACCGATAGATATAATGATGTGCCCAACAC
*
23585070 TAGTC-GAATAAACCGACAGATATAATGATGTGCCCAACAC
1 TAGTCAG-ATAAACCGATAGATATAATGATGTGCCCAACAC
* * * * ***
23585110 TAGTCAGATAAACTGA-CG--A-AA-GTTGCGCCCAGTGC
1 TAGTCAGATAAACCGATAGATATAATGATGTGCCCAACAC
* *
23585145 TAGTCGGATAAACCGATAGATATAATGATGTGCCCAGCAC
1 TAGTCAGATAAACCGATAGATATAATGATGTGCCCAACAC
*
23585185 TAGTAAGATAAA
1 TAGTCAGATAAA
23585197 TTGACAATAA
Statistics
Matches: 152, Mismatches: 38, Indels: 24
0.71 0.18 0.11
Matches are distributed among these distances:
34 1 0.01
35 43 0.28
36 7 0.05
37 2 0.01
38 1 0.01
39 7 0.05
40 90 0.59
41 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (40 bp):
TAGTCAGATAAACCGATAGATATAATGATGTGCCCAACAC
Found at i:23588164 original size:88 final size:88
Alignment explanation
Indices: 23588008--23588182 Score: 271
Period size: 88 Copynumber: 2.0 Consensus size: 88
23587998 TATTGGAAGC
* * * *
23588008 GATCATTTCCACTTTCTCTACTAAATTTCAGCTTTTTGGAATATGAAAGATATTTTTTGGGACGT
1 GATCATTTCCAATTTCTCTACTAAATTTCAACCTTTTGGAATATGAAAGATATTTTTTGGGACAT
*
23588073 TTTGTTTTCGATAGTTCAAAATT
66 TTTGTTTTCGATAATTCAAAATT
*
23588096 GATCATTTCCAATTTCTCTACTAATTTTCAACCTTTTGGAATATGAAAGATATTTTTTGGGGA-A
1 GATCATTTCCAATTTCTCTACTAAATTTCAACCTTTTGGAATATGAAAGATATTTTTT-GGGACA
*
23588160 TTTTGTTTTCGATAATTTAAAAT
65 TTTTGTTTTCGATAATTCAAAAT
23588183 CGGTTTTTGT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
88 75 0.95
89 4 0.05
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.46
Consensus pattern (88 bp):
GATCATTTCCAATTTCTCTACTAAATTTCAACCTTTTGGAATATGAAAGATATTTTTTGGGACAT
TTTGTTTTCGATAATTCAAAATT
Found at i:23588811 original size:17 final size:17
Alignment explanation
Indices: 23588784--23588834 Score: 58
Period size: 13 Copynumber: 3.2 Consensus size: 17
23588774 AAATAAAGAA
23588784 AAAGAGAAAGAAAGGTAG
1 AAAG-GAAAGAAAGGTAG
23588802 AAAGGAAAGAAA--TA-
1 AAAGGAAAGAAAGGTAG
23588816 AAA-GAAAGAAAGG-AG
1 AAAGGAAAGAAAGGTAG
23588831 AAAG
1 AAAG
23588835 ACAAGGCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 8 0.28
14 4 0.14
15 5 0.17
17 8 0.28
18 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (17 bp):
AAAGGAAAGAAAGGTAG
Found at i:23588824 original size:30 final size:28
Alignment explanation
Indices: 23588778--23588834 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
23588768 ATAAATAAAT
*
23588778 AAAGAAAAAGAGAAAGAAAGGTAGAAAGG
1 AAAGAAAAAAAGAAAGAAAGG-AGAAAGG
23588807 AAAGAAATAAAAGAAAGAAAGGAGAAAG
1 AAAGAAA-AAAAGAAAGAAAGGAGAAAG
23588835 ACAAGGCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (28 bp):
AAAGAAAAAAAGAAAGAAAGGAGAAAGG
Found at i:23589139 original size:18 final size:19
Alignment explanation
Indices: 23589107--23589142 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
23589097 GTAAAAATTT
*
23589107 TGAAATTTAGTGATTTAAG
1 TGAAATTTAGGGATTTAAG
23589126 TGAAA-TTAGGGATTTAA
1 TGAAATTTAGGGATTTAA
23589143 ATTTAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (19 bp):
TGAAATTTAGGGATTTAAG
Found at i:23595506 original size:102 final size:102
Alignment explanation
Indices: 23595348--23595694 Score: 405
Period size: 102 Copynumber: 3.4 Consensus size: 102
23595338 TGAAAGTGTT
* * *
23595348 GGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATAGTCACATGTGTAG
1 GGTCACGTGTGTAGTACTGTGTGAAGACTACTACGTGAATCGATAAATAATGGTCACATGTATAG
*
23595413 TACTAAGTGAAGGCTACAATATGTACCGAGAAGCTTC
66 TACTAAGTGAAGGCTACAATATGTACCGAAAAGCTTC
* * *
23595450 GGTCACGTGTGTAGTACTGTGTGAAGACTACTACTTGAATTGATAAATGATGGTCACATGTATAG
1 GGTCACGTGTGTAGTACTGTGTGAAGACTACTACGTGAATCGATAAATAATGGTCACATGTATAG
* * *
23595515 TACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTT
66 TACTAAGTGAAGGCTACAATATGTACCGAAAAGCTTC
* * * * * *
23595552 AGTCACGTATGTAGTACTATGTGAAGACTACTACGTGAATCG-TAAA-ACTTGATCACGTGTATA
1 GGTCACGTGTGTAGTACTGTGTGAAGACTACTACGTGAATCGATAAATA-ATGGTCACATGTATA
* ** ** * *
23595615 GTACTATGTGAAGGCTATTACGTGAACCGTAAAA-ATT-
65 GTACTAAGTGAAGGCTACAATATGTACCG-AAAAGCTTC
* * * *
23595652 GATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 GGTCACGTGTGTAGTACTGTGTGAAGACTACTACGTGAATCGA
23595695 ATGATAATAG
Statistics
Matches: 213, Mismatches: 29, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
100 37 0.17
101 43 0.20
102 133 0.62
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (102 bp):
GGTCACGTGTGTAGTACTGTGTGAAGACTACTACGTGAATCGATAAATAATGGTCACATGTATAG
TACTAAGTGAAGGCTACAATATGTACCGAAAAGCTTC
Found at i:23595621 original size:50 final size:50
Alignment explanation
Indices: 23595350--23595693 Score: 298
Period size: 51 Copynumber: 6.8 Consensus size: 50
23595340 AAAGTGTTGG
* * *
23595350 TCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATAG-
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGA
* * * ** * * * *
23595401 TCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCG-AGAAGCTTCGG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTA-AAACTT-GA
* * * * *** *
23595452 TCACGTGTGTAGTACTGTGTGAAGACTACTACTTGAATTGATAAATGATGG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAAACTTGA
* * * * * * *
23595503 TCACATGTATAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAA-CTTGA
* *
23595553 GTCACGTATGTAGTACTATGTGAAGACTACTACGTGAATCGTAAAACTTGA
1 -TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGA
* * * *
23595604 TCACGTGTATAGTACTATGTGAAGGCTATTACGTGAACCGTAAAAATTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGA
*
23595654 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG
23595694 AATGATAATA
Statistics
Matches: 227, Mismatches: 58, Indels: 17
0.75 0.19 0.06
Matches are distributed among these distances:
49 5 0.02
50 84 0.37
51 130 0.57
52 7 0.03
53 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGA
Found at i:23598082 original size:18 final size:16
Alignment explanation
Indices: 23598059--23598094 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
23598049 AAATGGCTTT
23598059 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
23598077 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
23598093 TA
1 TA
23598095 TATTATATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:23603854 original size:10 final size:10
Alignment explanation
Indices: 23603839--23603863 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23603829 CAAATCTAAC
23603839 ATTATGTAAA
1 ATTATGTAAA
23603849 ATTATGTAAA
1 ATTATGTAAA
23603859 ATTAT
1 ATTAT
23603864 TAAGTCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:23603906 original size:55 final size:55
Alignment explanation
Indices: 23603847--23604010 Score: 185
Period size: 56 Copynumber: 3.0 Consensus size: 55
23603837 ACATTATGTA
23603847 AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAACGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAACGGTTAGTAAAATTATC
* *
23603902 AAATTATGTAAAATTATTAAG-CCAAAAAAATTTTAATTAAAC---TAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC--CAAAATTTT-GTT-AACGGTTA-GTAAAATTATC
* * * *
23603958 AAATTATGTTAAATTATTAAGT-CCAACAATTGTGTTAATGGTTGGTAAAATTA
1 AAATTATGTAAAATTATTAAGTCCCAA-AATTTTGTTAACGGTTAGTAAAATTA
23604011 AGTTAGGGTT
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
53 2 0.02
54 6 0.07
55 37 0.41
56 41 0.45
57 2 0.02
58 3 0.03
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAACGGTTAGTAAAATTATC
Found at i:23604029 original size:18 final size:18
Alignment explanation
Indices: 23604006--23604376 Score: 464
Period size: 18 Copynumber: 21.1 Consensus size: 18
23603996 TGGTTGGTAA
23604006 AATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
23604024 AATTAAGTTAGGTTAGGATTTTT
1 AATTAAGTTA-G---GG-TTTTT
*
23604047 GATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
*
23604065 AATTAAATTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
23604083 AATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
23604101 AATTAAGTTA-GG----T
1 AATTAAGTTAGGGTTTTT
** *
23604114 --TTGGGTTTGGTGTTTTT
1 AATTAAGTTAGG-GTTTTT
23604131 AATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
*
23604149 AATTAAATTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
23604167 AATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
23604185 AATTAAGTTA-GG---TT
1 AATTAAGTTAGGGTTTTT
**
23604199 -A--GGGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
23604214 AATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
* *
23604232 AATTAAATTAAGGTTTTT
1 AATTAAGTTAGGGTTTTT
23604250 AATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
*
23604268 AATTAAATTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
*
23604286 AATTAAATTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
*
23604304 AATTAAATTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
23604322 AATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
*
23604340 AATTAAATTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
23604358 AATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
23604376 A
1 A
23604377 TTACATCAAA
Statistics
Matches: 309, Mismatches: 24, Indels: 40
0.83 0.06 0.11
Matches are distributed among these distances:
11 9 0.03
12 3 0.01
13 3 0.01
14 2 0.01
15 2 0.01
16 1 0.00
17 5 0.02
18 257 0.83
19 10 0.03
22 3 0.01
23 14 0.05
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.50
Consensus pattern (18 bp):
AATTAAGTTAGGGTTTTT
Found at i:23604424 original size:25 final size:26
Alignment explanation
Indices: 23604372--23604435 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
23604362 AAGTTAGGGT
23604372 TTTTATTACATCAAATAGAACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
* *
23604398 TTTTATTATATTAAATA-AACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
23604423 TTTTATTACATCA
1 TTTTATTACATCA
23604436 GATAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTATTACATCAAATAGAACTTCTA
Found at i:23606649 original size:10 final size:10
Alignment explanation
Indices: 23606630--23606681 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
23606620 GCCATTGATG
*
23606630 AAAATATAAA
1 AAAATTTAAA
23606640 AAAATTTAAA
1 AAAATTTAAA
** *
23606650 ATTATTTTAA
1 AAAATTTAAA
*
23606660 AAAATATAAAA
1 AAAAT-TTAAA
23606671 AAAATTTAAA
1 AAAATTTAAA
23606681 A
1 A
23606682 TTATTTTCAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
10 24 0.75
11 8 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:23606675 original size:31 final size:30
Alignment explanation
Indices: 23606630--23606695 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 30
23606620 GCCATTGATG
23606630 AAAATATAAAAAAATTTAAAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
*
23606660 AAAATATAAAAAAAATTTAAAATTATTTTCA
1 AAAATAT-AAAAAAATTTAAAATTATTTTAA
23606691 AAAAT
1 AAAAT
23606696 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 7 0.21
31 27 0.79
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:23606751 original size:29 final size:29
Alignment explanation
Indices: 23606719--23606802 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
23606709 AATTGAAATT
23606719 AAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
* * **
23606748 AAAT-T-GA---GAG-GAA-ATTGAAATT
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
23606770 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
23606799 AAAT
1 AAAT
23606803 TGAGAGAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
22 9 0.23
23 4 0.10
24 4 0.10
27 5 0.13
28 4 0.10
29 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.30
Consensus pattern (29 bp):
AAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:23606751 original size:51 final size:51
Alignment explanation
Indices: 23606696--23606808 Score: 208
Period size: 51 Copynumber: 2.2 Consensus size: 51
23606686 TTTCAAAAAT
*
23606696 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
23606747 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
23606798 GAAATTGAGAG
1 GAAATTGAGAG
23606809 AATTTTGGAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:23606805 original size:22 final size:22
Alignment explanation
Indices: 23606780--23606830 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
23606770 AAATATGGGT
23606780 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
23606802 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
23606824 TTGAGAG
1 TTGAGAG
23606831 GATTAGAGAG
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:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:23609649 original size:23 final size:22
Alignment explanation
Indices: 23609577--23609646 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 22
23609567 GCAATAAATC
23609577 ATTTATATACTTAAACATATATT
1 ATTTATATACTTAAACATA-ATT
*
23609600 ATTTATTAATAGATT-AACAT-A--
1 ATTTA-T-ATA-CTTAAACATAATT
23609621 ATTTATATACTTAAACATAATT
1 ATTTATATACTTAAACATAATT
23609643 ATTT
1 ATTT
23609647 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 15
0.69 0.04 0.27
Matches are distributed among these distances:
18 2 0.05
19 8 0.21
20 2 0.05
21 5 0.13
22 4 0.11
23 6 0.16
24 1 0.03
25 8 0.21
26 2 0.05
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.47
Consensus pattern (22 bp):
ATTTATATACTTAAACATAATT
Found at i:23611362 original size:14 final size:16
Alignment explanation
Indices: 23611345--23611382 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
23611335 AAAAAAAGCA
23611345 TAAAAAAA-TTCG-AT
1 TAAAAAAATTTCGTAT
*
23611359 TAAAAAAATTTTGTAT
1 TAAAAAAATTTCGTAT
23611375 TAAAAAAA
1 TAAAAAAA
23611383 AGTGTTGTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 3 0.14
16 10 0.48
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (16 bp):
TAAAAAAATTTCGTAT
Found at i:23612881 original size:27 final size:27
Alignment explanation
Indices: 23612851--23612910 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
23612841 AAAGTGAATT
23612851 AAAA-AAATGAGAAAAAAATAGA-AAAGA
1 AAAAGAAAT-AGAAAAAAA-AGAGAAAGA
* *
23612878 AAAAGAAATTGAAAGAAAAGAGAAAGA
1 AAAAGAAATAGAAAAAAAAGAGAAAGA
23612905 AAAAGA
1 AAAAGA
23612911 GTGCGAGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 3 0.10
27 22 0.76
28 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (27 bp):
AAAAGAAATAGAAAAAAAAGAGAAAGA
Found at i:23612884 original size:21 final size:20
Alignment explanation
Indices: 23612860--23612908 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
23612850 TAAAAAAATG
23612860 AGAAAAAAATAGAAAAGAAAA
1 AGAAAAAAA-AGAAAAGAAAA
** *
23612881 AGAAATTGAAAGAAAAGAGAA
1 AGAAA-AAAAAGAAAAGAAAA
23612902 AGAAAAA
1 AGAAAAA
23612909 GAGTGCGAGC
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (20 bp):
AGAAAAAAAAGAAAAGAAAA
Found at i:23628414 original size:60 final size:60
Alignment explanation
Indices: 23628293--23628419 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 60
23628283 CTAAATATAA
* *** * * *
23628293 AAAAATTCAATAAATTTAACCTTCATTGTTTACAAAATTTGTCATTTTAGTTCAAATTCT
1 AAAAATTCAATAAAATTAACCTTCAACATTTACAAAATTCGTCAATTTAATTCAAATTCT
*
23628353 AACAAATTCAATAAAATTAACC-TCAACATTTACAAAATTCGTCAATTTAATTCTAATTCT
1 AA-AAATTCAATAAAATTAACCTTCAACATTTACAAAATTCGTCAATTTAATTCAAATTCT
23628413 AAAAATT
1 AAAAATT
23628420 AAAGAAAAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 5 0.09
60 35 0.60
61 18 0.31
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (60 bp):
AAAAATTCAATAAAATTAACCTTCAACATTTACAAAATTCGTCAATTTAATTCAAATTCT
Found at i:23628668 original size:55 final size:55
Alignment explanation
Indices: 23628582--23628723 Score: 214
Period size: 55 Copynumber: 2.6 Consensus size: 55
23628572 CATGCTCTGT
*
23628582 AACAATTGATTCAAAAGAAGCAGTATTCCAACATAACAATCAATTTAAACATATA
1 AACAATTGATTCAAAAGAAGCAGTATTCCAACATAACAATCAATTTAAACAAATA
* * * * *
23628637 AGCAATTGATTCAAAAGAAGTAGTTTTCCAACATAACAATCTATTTCAACAAATA
1 AACAATTGATTCAAAAGAAGCAGTATTCCAACATAACAATCAATTTAAACAAATA
*
23628692 AAAAATTGATTCAAAAG-AGCAGTATTCCAACA
1 AACAATTGATTCAAAAGAAGCAGTATTCCAACA
23628724 ATTAAGAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 13 0.17
55 64 0.83
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (55 bp):
AACAATTGATTCAAAAGAAGCAGTATTCCAACATAACAATCAATTTAAACAAATA
Found at i:23631293 original size:22 final size:22
Alignment explanation
Indices: 23631268--23631312 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23631258 CATAATATAA
23631268 AATTTTTTATTTTTAATCAAAC
1 AATTTTTTATTTTTAATCAAAC
23631290 AATTTTTTATTTTTAATCAAAC
1 AATTTTTTATTTTTAATCAAAC
23631312 A
1 A
23631313 TACTCATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTTTTTATTTTTAATCAAAC
Found at i:23633252 original size:14 final size:15
Alignment explanation
Indices: 23633220--23633253 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
23633210 ATCTCATCGC
23633220 TACTACTGTTTTTAG
1 TACTACTGTTTTTAG
23633235 TACTACTGTTTTTA-
1 TACTACTGTTTTTAG
23633249 TACTA
1 TACTA
23633254 ACCGCAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.53
Consensus pattern (15 bp):
TACTACTGTTTTTAG
Found at i:23633686 original size:9 final size:9
Alignment explanation
Indices: 23633579--23633717 Score: 56
Period size: 9 Copynumber: 14.6 Consensus size: 9
23633569 TTTATAATAC
23633579 AATTATATAA
1 AATTATA-AA
23633589 AATTAATAAAA
1 AATT-AT-AAA
*
23633600 AATTGTAAAAA
1 AA-T-TATAAA
23633611 AATTATATAA
1 AATTATA-AA
*
23633621 GATT-T-AA
1 AATTATAAA
*
23633628 AATTAGAAA
1 AATTATAAA
23633637 AATATATAAAA
1 AAT-TAT-AAA
23633648 AATTTCATAAA
1 AA-TT-ATAAA
23633659 CAA--ATAAA
1 -AATTATAAA
23633667 ATATATATAAA
1 A-AT-TATAAA
23633678 AATTATAAA
1 AATTATAAA
**
23633687 AATGTAT-TG
1 AAT-TATAAA
23633696 AATTA-AAA
1 AATTATAAA
*
23633704 AAATATAAA
1 AATTATAAA
23633713 AATTA
1 AATTA
23633718 ATAATATATC
Statistics
Matches: 98, Mismatches: 12, Indels: 39
0.66 0.08 0.26
Matches are distributed among these distances:
7 6 0.06
8 12 0.12
9 28 0.29
10 17 0.17
11 26 0.27
12 8 0.08
13 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:23640081 original size:23 final size:26
Alignment explanation
Indices: 23640035--23640126 Score: 75
Period size: 25 Copynumber: 3.6 Consensus size: 26
23640025 GCATTGTTTT
*
23640035 TTTTTATATAATATATATATGCAT-G
1 TTTTTATATAATATATATACGCATGG
*
23640060 TTTTTATATAATATA-CT-CGCATGG
1 TTTTTATATAATATATATACGCATGG
* * *
23640084 TTTTTTTTTATAATATATATATGCAT-C
1 --TTTTTATATAATATATATACGCATGG
* *
23640111 TTTTTATGTAGTATAT
1 TTTTTATATAATATAT
23640127 GTATACCTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
23 4 0.08
24 2 0.04
25 28 0.53
26 14 0.26
27 1 0.02
28 4 0.08
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (26 bp):
TTTTTATATAATATATATACGCATGG
Found at i:23642571 original size:18 final size:19
Alignment explanation
Indices: 23642545--23642591 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
23642535 TTTTATTACT
*
23642545 ATATTATATATT-TTTAAA
1 ATATTATATATTCTTCAAA
*
23642563 ATTTTATATATTCTTCAAA
1 ATATTATATATTCTTCAAA
23642582 ATATTATATA
1 ATATTATATA
23642592 CATTTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTATATATTCTTCAAA
Found at i:23642605 original size:9 final size:9
Alignment explanation
Indices: 23642544--23642632 Score: 53
Period size: 9 Copynumber: 10.0 Consensus size: 9
23642534 TTTTTATTAC
*
23642544 TATATTATA
1 TATATTTTA
23642553 TAT-TTTTA
1 TATATTTTA
*
23642561 -AAATTTTA
1 TATATTTTA
23642569 TATATTCTTCAA
1 TATATT-TT--A
* *
23642581 AATATTATA
1 TATATTTTA
*
23642590 TACATTTTA
1 TATATTTTA
23642599 TATA-TTT-
1 TATATTTTA
*
23642606 TA-ATTGTA
1 TATATTTTA
23642614 TATATTTTTA
1 TATA-TTTTA
23642624 TATATTTTA
1 TATATTTTA
23642633 AAATAATAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 18
0.67 0.12 0.20
Matches are distributed among these distances:
6 1 0.02
7 5 0.08
8 14 0.23
9 23 0.38
10 10 0.17
11 1 0.02
12 6 0.10
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (9 bp):
TATATTTTA
Found at i:23644961 original size:20 final size:22
Alignment explanation
Indices: 23644919--23644961 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
23644909 GTCCTTCGTC
23644919 TATTATAGAGTCGAGGTCAACT
1 TATTATAGAGTCGAGGTCAACT
*
23644941 TATT-TAGAGTGGAGG-CAACT
1 TATTATAGAGTCGAGGTCAACT
23644961 T
1 T
23644962 GGTAATAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.33
Consensus pattern (22 bp):
TATTATAGAGTCGAGGTCAACT
Found at i:23648056 original size:9 final size:9
Alignment explanation
Indices: 23648011--23648120 Score: 68
Period size: 9 Copynumber: 12.2 Consensus size: 9
23648001 TTTTTAGTAG
23648011 TTTTATATA
1 TTTTATATA
23648020 -TTTATAT-
1 TTTTATATA
*
23648027 TTATTATAAA
1 TT-TTATATA
23648037 TTTTA-ATTA
1 TTTTATA-TA
23648046 TTTTATATA
1 TTTTATATA
*
23648055 TTTTTATAAA
1 -TTTTATATA
*
23648065 TTTAATA-A
1 TTTTATATA
* * *
23648073 ATTTAAACA
1 TTTTATATA
23648082 TTTTATTACTA
1 TTTTA-TA-TA
*
23648093 TGTTATATA
1 TTTTATATA
*
23648102 TTTTAAAT-
1 TTTTATATA
23648110 TTTTATATA
1 TTTTATATA
23648119 TT
1 TT
23648121 CTTCAAAACA
Statistics
Matches: 77, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
8 21 0.27
9 37 0.48
10 14 0.18
11 5 0.06
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTTATATA
Found at i:23648077 original size:27 final size:29
Alignment explanation
Indices: 23648022--23648077 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
23648012 TTTATATATT
* *
23648022 TATATTTATTATAAATTTTAATTATTTTA
1 TATATTTATTATAAATTTTAATAAATTTA
23648051 TATATTT-TTATAAA-TTTAATAAATTTA
1 TATATTTATTATAAATTTTAATAAATTTA
23648078 AACATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.44
28 7 0.28
29 7 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TATATTTATTATAAATTTTAATAAATTTA
Found at i:23651953 original size:9 final size:9
Alignment explanation
Indices: 23651939--23651965 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
23651929 TCCATTTCTA
23651939 TTCATTTTG
1 TTCATTTTG
23651948 TTCATTTTG
1 TTCATTTTG
23651957 TTCATTTTG
1 TTCATTTTG
23651966 ATCCAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (9 bp):
TTCATTTTG
Found at i:23658494 original size:20 final size:19
Alignment explanation
Indices: 23658471--23658578 Score: 56
Period size: 20 Copynumber: 5.3 Consensus size: 19
23658461 AAAGTACATC
23658471 CAGGGGTATCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
* * **
23658491 CAGGGGCACATATATGTA-ATT
1 CAGGGGTAC-GA-A-GTACAAA
23658512 CAGGGGTACCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
* * * *
23658532 CAGGGGCACATAAGTGCAATT
1 CAGGGGTAC-GAAGTACAA-A
23658553 CAGGGGTATCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
*
23658573 TAGGGG
1 CAGGGG
23658579 CACGTAAGTG
Statistics
Matches: 63, Mismatches: 17, Indels: 16
0.66 0.18 0.17
Matches are distributed among these distances:
19 5 0.08
20 29 0.46
21 24 0.38
22 5 0.08
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.18
Consensus pattern (19 bp):
CAGGGGTACGAAGTACAAA
Found at i:23658525 original size:41 final size:41
Alignment explanation
Indices: 23658471--23658676 Score: 279
Period size: 41 Copynumber: 5.0 Consensus size: 41
23658461 AAAGTACATC
* *
23658471 CAGGGGTATCGAAGTACAAACAGGGGCACATATA-TGTAATT
1 CAGGGGTACCGAAGTACAAACAGGGGCACATA-AGTGCAATT
23658512 CAGGGGTACCGAAGTACAAACAGGGGCACATAAGTGCAATT
1 CAGGGGTACCGAAGTACAAACAGGGGCACATAAGTGCAATT
* * * *
23658553 CAGGGGTATCGAAGTACAAATAGGGGCACGTAAGTGTAATT
1 CAGGGGTACCGAAGTACAAACAGGGGCACATAAGTGCAATT
* * * *
23658594 TAGGGGTACCAAAGTACAAATAGGGGCACACAAGTGCAATT
1 CAGGGGTACCGAAGTACAAACAGGGGCACATAAGTGCAATT
* * *
23658635 CAAGTGTACCGAAGTACAAACAGGGGCACGTAAGTGCAATT
1 CAGGGGTACCGAAGTACAAACAGGGGCACATAAGTGCAATT
23658676 C
1 C
23658677 CTCATTATTC
Statistics
Matches: 145, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
40 1 0.01
41 144 0.99
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.18
Consensus pattern (41 bp):
CAGGGGTACCGAAGTACAAACAGGGGCACATAAGTGCAATT
Found at i:23658587 original size:20 final size:20
Alignment explanation
Indices: 23658523--23658622 Score: 67
Period size: 21 Copynumber: 4.9 Consensus size: 20
23658513 AGGGGTACCG
* *
23658523 AAGTACAAACAGGGGCACAT
1 AAGTACAAATAGGGGCACGT
* * *
23658543 AAGTGCAATTCAGGGGTATCG-
1 AAGTACAAAT-AGGGGCA-CGT
23658564 AAGTACAAATAGGGGCACGT
1 AAGTACAAATAGGGGCACGT
** * * **
23658584 AAGTGTAATTTAGGGGTACCA
1 AAGTACAA-ATAGGGGCACGT
23658605 AAGTACAAATAGGGGCAC
1 AAGTACAAATAGGGGCAC
23658623 ACAAGTGCAA
Statistics
Matches: 58, Mismatches: 18, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
19 2 0.03
20 27 0.47
21 28 0.48
22 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.18
Consensus pattern (20 bp):
AAGTACAAATAGGGGCACGT
Found at i:23658628 original size:20 final size:19
Alignment explanation
Indices: 23658513--23658628 Score: 52
Period size: 20 Copynumber: 5.7 Consensus size: 19
23658503 TATGTAATTC
* *
23658513 AGGGGTACCGAAGTACAAAC
1 AGGGGCACC-AAGTACAAAT
* * *
23658533 AGGGGCACATAAGTGCAATT
1 AGGGGCAC-CAAGTACAAAT
* *
23658553 CAGGGGTATCGAAGTACAAAT
1 -AGGGGCA-CCAAGTACAAAT
* ** *
23658574 AGGGGCACGTAAGTGTAATTT
1 AGGGGCAC-CAAGTACAA-AT
*
23658595 AGGGGTACCAAAGTACAAAT
1 AGGGGCACC-AAGTACAAAT
23658615 AGGGGCACACAAGT
1 AGGGGCAC-CAAGT
23658629 GCAATTCAAG
Statistics
Matches: 69, Mismatches: 20, Indels: 14
0.67 0.19 0.14
Matches are distributed among these distances:
19 1 0.01
20 38 0.55
21 29 0.42
22 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.30, T:0.17
Consensus pattern (19 bp):
AGGGGCACCAAGTACAAAT
Found at i:23664797 original size:19 final size:19
Alignment explanation
Indices: 23664773--23664809 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23664763 GGTGAGATAA
23664773 AATTTTAACTACTCAAAGG
1 AATTTTAACTACTCAAAGG
*
23664792 AATTTTAACTATTCAAAG
1 AATTTTAACTACTCAAAG
23664810 TATGTGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (19 bp):
AATTTTAACTACTCAAAGG
Found at i:23670006 original size:12 final size:12
Alignment explanation
Indices: 23669987--23670017 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
23669977 CAACTATAAC
23669987 TATCATCATAGT
1 TATCATCATAGT
*
23669999 TCTCATCATAGT
1 TATCATCATAGT
23670011 TATCATC
1 TATCATC
23670018 TCTATCATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (12 bp):
TATCATCATAGT
Found at i:23677094 original size:21 final size:21
Alignment explanation
Indices: 23677070--23677113 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
23677060 ACACCAAAAC
*
23677070 AGGCTTTTAGCAGCGCTTTTT
1 AGGCCTTTAGCAGCGCTTTTT
*
23677091 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCAGCGCTTTTT
23677112 AG
1 AG
23677114 TGCCGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (21 bp):
AGGCCTTTAGCAGCGCTTTTT
Found at i:23677442 original size:43 final size:43
Alignment explanation
Indices: 23677210--23677425 Score: 283
Period size: 43 Copynumber: 5.0 Consensus size: 43
23677200 TCTAAAAACG
* * *
23677210 GACCAAGACCTTTAGCGGCGCTTTTCCCACAAATGCTGCTAAA
1 GACCAAGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAA
* **
23677253 GACCAGGACCTTTAGCGGCGCCTTTTCC-ACAAACGCTACTAAA
1 GACCAAGACCTTTAGCGGCG-CTTTTCCAACAAACGCCGCTAAA
* *
23677296 GACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
1 GACCAAGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAA
*
23677339 GACCAAGGCCTTTAGCGGCGCTTTTCTCAA-AAACGCCGCTAAA
1 GACCAAGACCTTTAGCGGCGCTTTTC-CAACAAACGCCGCTAAA
* * * *
23677382 AAACAAGACCTTTAGCGACACTTTTCCAACAAACGCCGCTAAA
1 GACCAAGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAA
23677425 G
1 G
23677426 CTCATGACTT
Statistics
Matches: 155, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
42 10 0.06
43 136 0.88
44 9 0.06
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (43 bp):
GACCAAGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAA
Found at i:23677449 original size:43 final size:42
Alignment explanation
Indices: 23677210--23677466 Score: 282
Period size: 43 Copynumber: 6.0 Consensus size: 42
23677200 TCTAAAAACG
* *
23677210 GACCAAGACCTTTAGCGGCGCTTTTCCCACAAATGCTGCTAAA
1 GACCAAGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAA
* **
23677253 GACCAGGACCTTTAGCGGCGCCTTTTCCACAAACGCTACTAAA
1 GACCAAGACCTTTAGCGGCG-CTTTTCCACAAACGCCGCTAAA
*
23677296 GACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
1 GACCAAGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAA
* *
23677339 GACCAAGGCCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAA
1 GACCAAGACCTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAA
* * * *
23677382 AAACAAGACCTTTAGCGACACTTTTCCAACAAACGCCGCTAAA
1 GACCAAGACCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAA
* * ** * * *
23677425 G-CTCATGACTTTTAGCGATGCTTTTTCACAAACACCACTAAA
1 GAC-CAAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAA
23677467 AGCATAACTT
Statistics
Matches: 186, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
42 20 0.11
43 161 0.87
44 5 0.03
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (42 bp):
GACCAAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAA
Found at i:23683349 original size:40 final size:37
Alignment explanation
Indices: 23683300--23683436 Score: 112
Period size: 40 Copynumber: 3.5 Consensus size: 37
23683290 GGGCTTGGGT
* *
23683300 TTTTTGCGGCGTTTTTTAGAAAAACGCCGCTAATGCTCA
1 TTTTAGCGGCGTTTTTT-G-AAAGCGCCGCTAATGCTCA
* * ** * *
23683339 TTTCTCGCGGCGCATTCCTGGAAGCGCCGCTAATGCTTGA
1 TTT-TAGCGGCG-TTTTTTGAAAGCGCCGCTAATGC-TCA
*
23683379 TCTTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCAA
1 T-TTTAGCGGCGTTTTTTG-AAAGCGCCGCTAATGCTC-A
23683419 TTTTTAGCGGCGTTTTTT
1 -TTTTAGCGGCGTTTTTT
23683437 ATCCAAATGC
Statistics
Matches: 77, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
39 22 0.29
40 49 0.64
41 6 0.08
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (37 bp):
TTTTAGCGGCGTTTTTTGAAAGCGCCGCTAATGCTCA
Found at i:23685112 original size:22 final size:22
Alignment explanation
Indices: 23685051--23685109 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 22
23685041 TAATCTTTAG
23685051 TGATATGCAATCTT---AGATA
1 TGATATGCAATCTTAGAAGATA
23685070 TGATATGCAATCTTAGAAGATA
1 TGATATGCAATCTTAGAAGATA
* *
23685092 TGATTTTGTAATCTTAGA
1 TGA-TATGCAATCTTAGA
23685110 GATTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.41
22 8 0.24
23 12 0.35
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (22 bp):
TGATATGCAATCTTAGAAGATA
Found at i:23685426 original size:23 final size:25
Alignment explanation
Indices: 23685394--23685445 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
23685384 CCTTTTAATG
* *
23685394 TTTTTGTAA-TTA-AGTTTTCTTTA
1 TTTTTGTAATTTACACTTTTATTTA
*
23685417 TTTTTTTAATTTACACTTTTATTTA
1 TTTTTGTAATTTACACTTTTATTTA
23685442 TTTT
1 TTTT
23685446 AAATTCCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.33
24 3 0.12
25 13 0.54
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTTGTAATTTACACTTTTATTTA
Found at i:23685736 original size:25 final size:26
Alignment explanation
Indices: 23685703--23685752 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
23685693 TACACATATA
23685703 TATATTTTTTTAAACGAATATTTTCC
1 TATATTTTTTTAAACGAATATTTTCC
*
23685729 TATATTTTTTT-AATGAATATTTTC
1 TATATTTTTTTAAACGAATATTTTC
23685753 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (26 bp):
TATATTTTTTTAAACGAATATTTTCC
Found at i:23686536 original size:98 final size:98
Alignment explanation
Indices: 23686416--23686610 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
23686406 TTAAAAATAA
* *
23686416 TAAAGGAAATATTCCGAATTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
23686481 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
23686514 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
23686579 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
23686611 ATTTTATTGT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:23692366 original size:44 final size:45
Alignment explanation
Indices: 23692054--23692656 Score: 165
Period size: 44 Copynumber: 13.7 Consensus size: 45
23692044 TAATTCTACT
*
23692054 TCCCTGG-GCAACAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 TCCCTGGAGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
* ** * * * * * *
23692098 TCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGT-GGATTTTACC
1 TCCCTGGAGCAACAGTGGAGTAGATTGAAGAT-TTCAGATCTTATC
** * * *
23692142 TCCCTGTG-GTTATAGTGGAGTACATTGAAG---CCAGTAAT-TCTA-C
1 TCCCTG-GAGCAACAGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC
*
23692185 TTCCCTGGA-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 -TCCCTGGAGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
* ** * * * ** * * *
23692230 TCCCT-AAGCAGTAGTGGAGCATATCGAAGATGGCGGATTTTACC
1 TCCCTGGAGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
** * * *
23692274 TCCCTGTG-GTTACAGTGAAGTACATTGAAG---CCAGTAAT-TCTA-C
1 TCCCTG-GAGCAACAGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC
* *
23692317 TTCCCTGGA-CAATAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 -TCCCTGGAGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
* ** * * ** * *
23692362 TCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACC
1 TCCCTGGAGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
* ** * *
23692406 TCCCTGTAGTTACAGTGGAGTACATTGAAG---CCAGTAAT-TCTA-C
1 TCCCTGGAGCAACAGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC
* *
23692449 TTCCTTGGA-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 -TCCCTGGAGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
* ** * * ** * * *
23692494 TCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
1 TCCCTGGAGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
* ** * *
23692538 TCCCTGTAGTTACAGTGGAGTACATTGAAG---CCAGTAAT-TCTA-C
1 TCCCTGGAGCAACAGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC
*
23692581 TTCCCTGGA-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 -TCCCTGGAGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
* ** * *
23692626 TCCCT-AAGCAGTAGTGGAGCAGATCGAAGAT
1 TCCCTGGAGCAACAGTGGAGTAGATTGAAGAT
23692657 AGCGGATTTT
Statistics
Matches: 394, Mismatches: 114, Indels: 102
0.65 0.19 0.17
Matches are distributed among these distances:
42 8 0.02
43 79 0.20
44 224 0.57
45 71 0.18
46 12 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (45 bp):
TCCCTGGAGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
Found at i:23692760 original size:132 final size:132
Alignment explanation
Indices: 23691978--23692707 Score: 1325
Period size: 132 Copynumber: 5.5 Consensus size: 132
23691968 CTGCATTGAC
* * *
23691978 AGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCGGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
23692043 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
23692108 GT
131 GT
* *
23692110 AGTGGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
23692175 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
23692240 GT
131 GT
* *
23692242 AGTGGAGCATATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGAAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
23692307 GTAATTCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
23692372 GT
131 GT
* *
23692374 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
23692439 GTAATTCTACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
23692504 GT
131 GT
*
23692506 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
23692571 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
23692636 GT
131 GT
* *
23692638 AGTGGAGCAGATCGAAGATAGCGGATTTTACGTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
23692703 GTAAT
66 GTAAT
23692708 CATATCTCCC
Statistics
Matches: 578, Mismatches: 20, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 578 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GT
Found at i:23693097 original size:19 final size:19
Alignment explanation
Indices: 23693073--23693183 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
23693063 AATCTTCAGG
23693073 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23693092 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
23693111 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23693130 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
23693149 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23693168 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
23693184 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:23693123 original size:38 final size:38
Alignment explanation
Indices: 23693080--23693183 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
23693070 AGGGATATGC
23693080 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
23693118 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
23693156 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
23693184 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:23693209 original size:22 final size:21
Alignment explanation
Indices: 23693073--23693209 Score: 114
Period size: 19 Copynumber: 6.9 Consensus size: 21
23693063 AATCTTCAGG
*
23693073 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
23693092 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
23693111 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
23693130 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
23693149 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
23693168 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
23693190 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
23693210 TTAATTTGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
19 79 0.77
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:23693841 original size:25 final size:26
Alignment explanation
Indices: 23693798--23693847 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
23693788 TGTACACATA
23693798 TATATTTTTTTAAACGAATATTTTCC
1 TATATTTTTTTAAACGAATATTTTCC
*
23693824 TATATTTTTTT-AATGAATATTTTC
1 TATATTTTTTTAAACGAATATTTTC
23693848 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (26 bp):
TATATTTTTTTAAACGAATATTTTCC
Found at i:23694630 original size:98 final size:98
Alignment explanation
Indices: 23694510--23694704 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
23694500 TTAAAAATAA
* *
23694510 TAAAGGAAATATTCCGAATTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
23694575 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * *
23694608 TAAAGGAAATATTCTGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
23694673 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
23694705 ATTTTATTGT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:23695516 original size:104 final size:104
Alignment explanation
Indices: 23695336--23695523 Score: 250
Period size: 104 Copynumber: 1.8 Consensus size: 104
23695326 ACATGCCAAA
** * ** * * *
23695336 TTGAGTAACTAAGATGCGGTGCTTGGGTTGTCATCTTATTTCGTGTTAAAATATTTGGTTATGTC
1 TTGAGTAACTAAGATGAAGTGCTTGGGTTGTCATCTCATTTCACGTCAAAAGATTTGGCTATGTC
* * * *
23695401 TCGAATTTGTTTTAAAAAAGGAAAAAAAAACAAGTCAAG
66 ACAAATATGTTTGAAAAAAGGAAAAAAAAACAAGTCAAG
* *
23695440 TTGAGTAACTAGGGTGAAGTGCTTGGGTTGTCATCTCATTTCACGTCAAAAGATTTGGCTATGTC
1 TTGAGTAACTAAGATGAAGTGCTTGGGTTGTCATCTCATTTCACGTCAAAAGATTTGGCTATGTC
23695505 ACAAATATGTTTGAAAAAA
66 ACAAATATGTTTGAAAAAA
23695524 AATAAAAAGT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
104 70 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (104 bp):
TTGAGTAACTAAGATGAAGTGCTTGGGTTGTCATCTCATTTCACGTCAAAAGATTTGGCTATGTC
ACAAATATGTTTGAAAAAAGGAAAAAAAAACAAGTCAAG
Found at i:23697480 original size:73 final size:74
Alignment explanation
Indices: 23697379--23697528 Score: 214
Period size: 73 Copynumber: 2.0 Consensus size: 74
23697369 CTATATGCAC
**
23697379 TATATATATATATTACAAGTTTTTAATAAATAATAAATTA-TTTTTGAGTTTTTACGCATTTAAA
1 TATATATATATATTACAAGTTTTTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTAAA
23697443 ATTTATATA
66 ATTTATATA
* * * *
23697452 TATATATATATATTA-GATTTTATTAATAAATAATAAATTATTTTTTGATTTTTTAAACATTTGA
1 TATATATATATATTACAAGTTT-TTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTAA
*
23697516 AATTTGTATA
65 AATTTATATA
23697526 TAT
1 TAT
23697529 TTTAAAAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 4 0.06
73 33 0.49
74 31 0.46
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (74 bp):
TATATATATATATTACAAGTTTTTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTAAA
ATTTATATA
Found at i:23697566 original size:10 final size:9
Alignment explanation
Indices: 23697548--23697585 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
23697538 TTATTAAAAA
23697548 TTTTAAATT
1 TTTTAAATT
23697557 TTTTATAATT
1 TTTTA-AATT
*
23697567 TTTTAAGTT
1 TTTTAAATT
23697576 TTTT-AATT
1 TTTTAAATT
23697584 TT
1 TT
23697586 GCACTCATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 5 0.19
9 12 0.46
10 9 0.35
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (9 bp):
TTTTAAATT
Found at i:23704950 original size:10 final size:10
Alignment explanation
Indices: 23704931--23704984 Score: 65
Period size: 10 Copynumber: 5.3 Consensus size: 10
23704921 ACTTATTTTA
*
23704931 TTTATGTATT
1 TTTATTTATT
23704941 TTTATTTATT
1 TTTATTTATT
23704951 TTTATTTTATT
1 TTTA-TTTATT
23704962 TATTA-TTATT
1 T-TTATTTATT
*
23704972 TTTATTTCTT
1 TTTATTTATT
23704982 TTT
1 TTT
23704985 TATTGTGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
9 3 0.08
10 26 0.67
11 7 0.18
12 3 0.08
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTATTTATT
Found at i:23704965 original size:25 final size:24
Alignment explanation
Indices: 23704926--23704978 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 24
23704916 CCTTCACTTA
*
23704926 TTTTATTTATGTATTTTTATTTAT
1 TTTTATTTATGTATTATTATTTAT
*
23704950 TTTTATTT-TAT-TTATTA-TTAT
1 TTTTATTTATGTATTATTATTTAT
23704971 TTTTATTT
1 TTTTATTT
23704979 CTTTTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 5 0.19
23 2 0.07
24 8 0.30
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTATTTATGTATTATTATTTAT
Found at i:23704970 original size:21 final size:21
Alignment explanation
Indices: 23704937--23704988 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
23704927 TTTATTTATG
23704937 TATTTTTATTTATTTTTATTT
1 TATTTTTATTTATTTTTATTT
23704958 TATTTATTA-TTATTTTTATTT
1 TATTT-TTATTTATTTTTATTT
23704979 CT-TTTTTATT
1 -TATTTTTATT
23704989 GTGATTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 3 0.11
21 21 0.75
22 4 0.14
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (21 bp):
TATTTTTATTTATTTTTATTT
Found at i:23705047 original size:9 final size:9
Alignment explanation
Indices: 23705035--23705096 Score: 52
Period size: 9 Copynumber: 6.3 Consensus size: 9
23705025 TTCTTTTTCA
23705035 TATTATTTT
1 TATTATTTT
23705044 TATTATTTT
1 TATTATTTT
*
23705053 CATTCATCATTT
1 TATT-AT--TTT
*
23705065 TAATTATTAT
1 T-ATTATTTT
*
23705075 TATTGAGTTT
1 TATT-ATTTT
23705085 TATTATTTT
1 TATTATTTT
23705094 TAT
1 TAT
23705097 ACTTTTAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
9 22 0.52
10 12 0.29
12 5 0.12
13 3 0.07
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (9 bp):
TATTATTTT
Found at i:23705173 original size:3 final size:3
Alignment explanation
Indices: 23705165--23705195 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
23705155 TTGTGTTTTC
23705165 TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
23705196 ATTCTTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23707247 original size:20 final size:20
Alignment explanation
Indices: 23707222--23707270 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
23707212 ACCATAATTT
23707222 TTTGTTATTCTAGAACTTGA
1 TTTGTTATTCTAGAACTTGA
*
23707242 TTTGTTATTCTAGAACTTGC
1 TTTGTTATTCTAGAACTTGA
23707262 TTTGATTAT
1 TTTG-TTAT
23707271 GCACGTCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.22, C:0.10, G:0.14, T:0.53
Consensus pattern (20 bp):
TTTGTTATTCTAGAACTTGA
Found at i:23714708 original size:30 final size:29
Alignment explanation
Indices: 23714672--23714735 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
23714662 CTAGAGAAAT
* *
23714672 AAATATTATG-AAATTAGAAATAATTATTTA
1 AAATATTA-GAAAATTACAAATAATT-TTAA
*
23714702 AAATATTAGAAAATTACAGATAATTTTAA
1 AAATATTAGAAAATTACAAATAATTTTAA
23714731 AAATA
1 AAATA
23714736 AAATTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (29 bp):
AAATATTAGAAAATTACAAATAATTTTAA
Found at i:23714781 original size:17 final size:16
Alignment explanation
Indices: 23714743--23714782 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
23714733 ATAAAATTTA
23714743 AAAAATTTAAAACTAT
1 AAAAATTTAAAACTAT
* *
23714759 ATAAATTTCAAAACTCT
1 AAAAATTT-AAAACTAT
23714776 AAAAATT
1 AAAAATT
23714783 CTGGAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAATTTAAAACTAT
Found at i:23721045 original size:25 final size:25
Alignment explanation
Indices: 23721006--23721081 Score: 109
Period size: 25 Copynumber: 3.0 Consensus size: 25
23720996 GAAACTCTTT
23721006 TTCGAGCCATATAACGGGAAGCTCA
1 TTCGAGCCATATAACGGGAAGCTCA
* *
23721031 TGT-GAGCCATGTAACAGGAAGCTCA
1 T-TCGAGCCATATAACGGGAAGCTCA
*
23721056 TTCGAGCTATATAACGGGAAGCTCA
1 TTCGAGCCATATAACGGGAAGCTCA
23721081 T
1 T
23721082 AAGAGCCGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (25 bp):
TTCGAGCCATATAACGGGAAGCTCA
Found at i:23721087 original size:25 final size:25
Alignment explanation
Indices: 23721009--23721302 Score: 102
Period size: 25 Copynumber: 11.8 Consensus size: 25
23720999 ACTCTTTTTC
**
23721009 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATAA
* * **
23721034 GAGCCATGTAACAGGAAGCTCATTC
1 GAGCCATATAACGGGAAGCTCATAA
*
23721059 GAGCTATATAACGGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATAA
* ** * *
23721084 GAGCCGTA-ATTGGGAAGTTCA-ACC
1 GAGCCATATAACGGGAAGCTCATA-A
* * **
23721108 GAACCA-ATATCGGGAAGCTCCGAA
1 GAGCCATATAACGGGAAGCTCATAA
* *
23721132 GAGCTAT-TAATCAGGAAGCTCATGAAA
1 GAGCCATATAA-CGGGAAGCTCAT--AA
* * * ** *
23721159 GAGCC-TTTAGTCGGAAAGCTCCGAT
1 GAGCCATATA-ACGGGAAGCTCATAA
*
23721184 GAGCCA-ATTATCGGGAAGCTCCA-AA
1 GAGCCATA-TAACGGGAAGCT-CATAA
* **
23721209 GAGCCATA-AACGGAAAGCTCGCAA
1 GAGCCATATAACGGGAAGCTCATAA
*** * *
23721233 GAATTATATAACGGGAAGCTCGTGA
1 GAGCCATATAACGGGAAGCTCATAA
* * * **
23721258 GAGCCAAATATCGGGATGCTCATGG
1 GAGCCATATAACGGGAAGCTCATAA
* *
23721283 GAGCTA-ATAACGGGATGCTC
1 GAGCCATATAACGGGAAGCTC
23721303 TTTCGAGTTG
Statistics
Matches: 197, Mismatches: 57, Indels: 31
0.69 0.20 0.11
Matches are distributed among these distances:
23 3 0.02
24 59 0.30
25 114 0.58
26 5 0.03
27 16 0.08
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAA
Found at i:23721651 original size:5 final size:5
Alignment explanation
Indices: 23721632--23721665 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
23721622 GAATTTAACA
23721632 TCAAT TCATAT TCAAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCA-AT TCAAT TCAAT TCAAT TCAAT TCA
23721666 CACTTTTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:23728920 original size:25 final size:25
Alignment explanation
Indices: 23728890--23728982 Score: 82
Period size: 25 Copynumber: 3.6 Consensus size: 25
23728880 GCCAATATTG
*
23728890 GGAAGCTCCGGAGAGCCATTAATCA
1 GGAAGCTCCGAAGAGCCATTAATCA
* *
23728915 GGAAGCTCATGAAAGAGCC-TCTACTCA
1 GGAAGCTC-CG-AAGAGCCAT-TAATCA
* * *
23728942 GGAAGCTCTGATGAGCCAATT-ATCG
1 GGAAGCTCCGAAGAGCC-ATTAATCA
23728967 GGAAGCTCCGAAGAGC
1 GGAAGCTCCGAAGAGC
23728983 TATAAACGGG
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
25 30 0.55
26 5 0.09
27 20 0.36
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (25 bp):
GGAAGCTCCGAAGAGCCATTAATCA
Found at i:23729069 original size:24 final size:25
Alignment explanation
Indices: 23729010--23729072 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
23729000 CAAGAATCAT
* **
23729010 ATAACGGGAAGCTTGTGAGAGCCAA
1 ATAACGGGATGCTCATGAGAGCCAA
* * *
23729035 ATATCGAGATGCTCATGAGAG-CTA
1 ATAACGGGATGCTCATGAGAGCCAA
23729059 ATAACGGGATGCTC
1 ATAACGGGATGCTC
23729073 TTTCGAGCTG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
24 14 0.47
25 16 0.53
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (25 bp):
ATAACGGGATGCTCATGAGAGCCAA
Found at i:23734719 original size:20 final size:20
Alignment explanation
Indices: 23734694--23734733 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23734684 CTTGTACAAG
23734694 ATTTGCACTTCGGTGCCTCT
1 ATTTGCACTTCGGTGCCTCT
23734714 ATTTGCACTTCGGTGCCTCT
1 ATTTGCACTTCGGTGCCTCT
23734734 GTTAGCATTT
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:0.10, C:0.30, G:0.20, T:0.40
Consensus pattern (20 bp):
ATTTGCACTTCGGTGCCTCT
Found at i:23736422 original size:19 final size:19
Alignment explanation
Indices: 23736365--23736490 Score: 101
Period size: 19 Copynumber: 6.6 Consensus size: 19
23736355 ACTGGCACTT
* *
23736365 AAAGTGCATACTAGCGCAC
1 AAAGTGCATCCTAGCACAC
* * * **
23736384 AGAGCGCATCCTGGGGCAC
1 AAAGTGCATCCTAGCACAC
*
23736403 AAAATGCATCCTAGCACAC
1 AAAGTGCATCCTAGCACAC
* *
23736422 AAAGTGCATACT-GACCCAC
1 AAAGTGCATCCTAG-CACAC
* *
23736441 AAAGCGCATCCTGGCACAC
1 AAAGTGCATCCTAGCACAC
* * *
23736460 GAAGTGAATCCTATCACAC
1 AAAGTGCATCCTAGCACAC
23736479 AAAGTGCATCCT
1 AAAGTGCATCCT
23736491 GGCGCATAAG
Statistics
Matches: 81, Mismatches: 24, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
18 1 0.01
19 79 0.98
20 1 0.01
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.16
Consensus pattern (19 bp):
AAAGTGCATCCTAGCACAC
Found at i:23736453 original size:57 final size:57
Alignment explanation
Indices: 23736365--23736487 Score: 158
Period size: 57 Copynumber: 2.2 Consensus size: 57
23736355 ACTGGCACTT
* * ** *
23736365 AAAGTGCATACTAGCGCACAGAGCGCATCCTGGGGCACAAAATGCATCCTAGCACAC
1 AAAGTGCATACTAGCCCACAAAGCGCATCCTGGCACACAAAATGAATCCTAGCACAC
* * *
23736422 AAAGTGCATACT-GACCCACAAAGCGCATCCTGGCACACGAAGTGAATCCTATCACAC
1 AAAGTGCATACTAG-CCCACAAAGCGCATCCTGGCACACAAAATGAATCCTAGCACAC
23736479 AAAGTGCAT
1 AAAGTGCAT
23736488 CCTGGCGCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 1 0.02
57 56 0.98
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.15
Consensus pattern (57 bp):
AAAGTGCATACTAGCCCACAAAGCGCATCCTGGCACACAAAATGAATCCTAGCACAC
Done.