Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_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: 3548142
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 17
Found at i:2549989 original size:34 final size:34
Alignment explanation
Indices: 2549939--2550027 Score: 124
Period size: 34 Copynumber: 2.6 Consensus size: 34
2549929 AAGTGTGCGC
* * *
2549939 AATAAGCACTCCAGGTGCTATCATCAGAAATAGA
1 AATATGCACTCCAGGTGCAATCATCAGAAACAGA
* * *
2549973 AATATGCACTCAAGGTGCAATCATCAGATACATA
1 AATATGCACTCCAGGTGCAATCATCAGAAACAGA
2550007 AATATGCACTCCAGGTGCAAT
1 AATATGCACTCCAGGTGCAAT
2550028 TAGATAATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.22
Consensus pattern (34 bp):
AATATGCACTCCAGGTGCAATCATCAGAAACAGA
Found at i:2551137 original size:26 final size:26
Alignment explanation
Indices: 2551107--2551186 Score: 124
Period size: 26 Copynumber: 3.1 Consensus size: 26
2551097 ACCGAAGTGC
* *
2551107 TAATACATATAAGATCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
*
2551133 TAATACACATAAGGCCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
*
2551159 TAATACACATAAGGTCGTGCCTACCA
1 TAATACACATAAGGTCGTGCCCACCA
2551185 TA
1 TA
2551187 TGCACTTAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (26 bp):
TAATACACATAAGGTCGTGCCCACCA
Found at i:2558721 original size:26 final size:26
Alignment explanation
Indices: 2558685--2558738 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
2558675 ACTGAAGTGT
* * *
2558685 TAATACGCATAAGGTCGTGTCCACCA
1 TAATACACATAAGGTCATGCCCACCA
2558711 TAATACACATAAGGTCATGCCCACCA
1 TAATACACATAAGGTCATGCCCACCA
2558737 TA
1 TA
2558739 TGCACTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (26 bp):
TAATACACATAAGGTCATGCCCACCA
Found at i:2565834 original size:17 final size:18
Alignment explanation
Indices: 2565812--2565845 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2565802 TGGTTGTAGT
*
2565812 ATTAAATTAC-GTTTGAA
1 ATTAAACTACTGTTTGAA
2565829 ATTAAACTACTGTTTGA
1 ATTAAACTACTGTTTGA
2565846 TGGATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTAAACTACTGTTTGAA
Found at i:2573050 original size:511 final size:511
Alignment explanation
Indices: 2572089--2573111 Score: 1947
Period size: 511 Copynumber: 2.0 Consensus size: 511
2572079 ATCTCTAATC
2572089 AACTTTTTACTAATATAAGAGTGCATAGAACCAGAGTCAACAAAAAAATACATGTTCATCAAAAA
1 AACTTTTTACTAATATAAGAGTGCATAGAACCAGAGTCAACAAAAAAATACATGTTCATCAAAAA
*
2572154 GATGGAATGTATATGTTAAAATCTCTTGGTCATCCTGATCCTCATTAGTCCTAATATTATACATT
66 GATGGAACGTATATGTTAAAATCTCTTGGTCATCCTGATCCTCATTAGTCCTAATATTATACATT
*
2572219 CTGCCTACTCCCCGCGTCTCTGGTTGCTGGATTAACTCATATTGTCCTTAGGATCTACCACTTTT
131 CTGCCTACTCCCCGCGTCTCTGGTTGCTGGATTAACTCATATTGTCCTTAGGATCTACCACTTTC
* *
2572284 TTTGCCTCTATGAGATGTTATTGCTGATCTCTCAGTTTGCACTGATTTATACCTGGATCTATTAG
196 TTTGCCTCTATGAGATGTTATTACTGATCTCTCAGTTTGCACTGATTTATACCCGGATCTATTAG
* *
2572349 GGCAATTTCAAGTATAGTGACCAGTCTCACCACATTGGAAACAAGCGCCACTGAGCAATATACAT
261 GGAAATTTCAAGTATAGTGACCAATCTCACCACATTGGAAACAAGCGCCACTGAGCAATATACAT
2572414 ATTCCACAGTGAAAATTTCCACACGTATAACAAGCTCTTTCGATGACCTTAGCTTGGTTTATGAC
326 ATTCCACAGTGAAAATTTCCACACGTATAACAAGCTCTTTCGATGACCTTAGCTTGGTTTATGAC
2572479 TTCTTGTAGGGTAGGTAAGTTTAAAGCCAATATAATCTCTTTCAACTTAGGCCTCAACCCCTCGA
391 TTCTTGTAGGGTAGGTAAGTTTAAAGCCAATATAATCTCTTTCAACTTAGGCCTCAACCCCTCGA
*
2572544 TGAACCAATCGCGTCGAGCCTTATCATTGGCAACTACTTCAGTAACAAAATGACTT
456 TGAACCAATCACGTCGAGCCTTATCATTGGCAACTACTTCAGTAACAAAATGACTT
2572600 AACTTTTTACTAATATAAGAGTGCATAGAACCAGAGTCAACAAAAAAATACATGTTCATCAAAAA
1 AACTTTTTACTAATATAAGAGTGCATAGAACCAGAGTCAACAAAAAAATACATGTTCATCAAAAA
2572665 GATGGAACGTATATGTTAAAATCTCTTGGTCATCCTGATCCTCATTAGTCCTAATATTATACATT
66 GATGGAACGTATATGTTAAAATCTCTTGGTCATCCTGATCCTCATTAGTCCTAATATTATACATT
* *
2572730 CTGCCTACTCCCCGCGTCTCTGGTTGCTGGATTAACTCATATTGTCCTTCGGATCTACCTCTTTC
131 CTGCCTACTCCCCGCGTCTCTGGTTGCTGGATTAACTCATATTGTCCTTAGGATCTACCACTTTC
2572795 TTTGCCTCTATGAGATGTTATTACTGATCTCTCAGTTTGCACTGATTTATACCCGGATCTATTAG
196 TTTGCCTCTATGAGATGTTATTACTGATCTCTCAGTTTGCACTGATTTATACCCGGATCTATTAG
*
2572860 GGAAATTTCAAGTATAGTGACCAATCTCACCACATTGGAAACAAGTGCCACTGAGCAATATACAT
261 GGAAATTTCAAGTATAGTGACCAATCTCACCACATTGGAAACAAGCGCCACTGAGCAATATACAT
2572925 ATTCCACAGTGAAAATTTCCACACGTATAACAAGCTCTTTCGATGACCTTAGCTTGGTTTATGAC
326 ATTCCACAGTGAAAATTTCCACACGTATAACAAGCTCTTTCGATGACCTTAGCTTGGTTTATGAC
2572990 TTCTTGTAGGGTAGGTAAGTTTAAAGCCAATATAATCTCTTTCAACTTAGGCCTCAACCCCTCGA
391 TTCTTGTAGGGTAGGTAAGTTTAAAGCCAATATAATCTCTTTCAACTTAGGCCTCAACCCCTCGA
*
2573055 TGAACCAATCACGTCGAGCCTTATCATTGGCAACTACTTCAGTATCAAAATGACTT
456 TGAACCAATCACGTCGAGCCTTATCATTGGCAACTACTTCAGTAACAAAATGACTT
2573111 A
1 A
2573112 GCTTGTTATA
Statistics
Matches: 501, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
511 501 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (511 bp):
AACTTTTTACTAATATAAGAGTGCATAGAACCAGAGTCAACAAAAAAATACATGTTCATCAAAAA
GATGGAACGTATATGTTAAAATCTCTTGGTCATCCTGATCCTCATTAGTCCTAATATTATACATT
CTGCCTACTCCCCGCGTCTCTGGTTGCTGGATTAACTCATATTGTCCTTAGGATCTACCACTTTC
TTTGCCTCTATGAGATGTTATTACTGATCTCTCAGTTTGCACTGATTTATACCCGGATCTATTAG
GGAAATTTCAAGTATAGTGACCAATCTCACCACATTGGAAACAAGCGCCACTGAGCAATATACAT
ATTCCACAGTGAAAATTTCCACACGTATAACAAGCTCTTTCGATGACCTTAGCTTGGTTTATGAC
TTCTTGTAGGGTAGGTAAGTTTAAAGCCAATATAATCTCTTTCAACTTAGGCCTCAACCCCTCGA
TGAACCAATCACGTCGAGCCTTATCATTGGCAACTACTTCAGTAACAAAATGACTT
Found at i:2574135 original size:60 final size:60
Alignment explanation
Indices: 2574042--2574414 Score: 392
Period size: 60 Copynumber: 6.4 Consensus size: 60
2574032 CTCTAAAATG
* * * *
2574042 AAAGTTAAATGCCTAACGGTGCATTTTCGCAGAAAGGTGACACTAATGCAAGTTGGATGA
1 AAAGTTAAATGCCTAATGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
** * * * *
2574102 AAAGTTAAATGCCTAATGGTGCATTTTAACAGAAAAGTGCAACAAATGCAAGTTATATGA
1 AAAGTTAAATGCCTAATGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
** * * * * *
2574162 AAAGTTAAATGTTTAACGGTGTATTTTGGCATAAAGGTGTCACTAATGCAAATTAGATGA
1 AAAGTTAAATGCCTAATGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
* * *
2574222 AAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAAGTGCCACTAATGCAAG-T---T-A
1 AAAGTTAAATGCCTAATGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
* * *
2574277 AATG-T---T---TAATGGTGTATTTTGGCAGAAAGGTGCCACTAATGCATGTTAGATGA
1 AAAGTTAAATGCCTAATGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
* * * * *
2574330 AAATTTAAATGCCTAATGGTGCATTTTGGAATAATGGTTCCACTAATGCAAGTTAGATGA
1 AAAGTTAAATGCCTAATGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
* *
2574390 AAAGTTAAATGCATAATGGTACATT
1 AAAGTTAAATGCCTAATGGTGCATT
2574415 ATCGATTTGA
Statistics
Matches: 254, Mismatches: 47, Indels: 24
0.78 0.14 0.07
Matches are distributed among these distances:
48 34 0.13
49 1 0.00
51 1 0.00
52 1 0.00
53 3 0.01
54 2 0.01
55 4 0.02
56 1 0.00
57 1 0.00
59 1 0.00
60 205 0.81
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.30
Consensus pattern (60 bp):
AAAGTTAAATGCCTAATGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
Found at i:2574296 original size:48 final size:48
Alignment explanation
Indices: 2574223--2574324 Score: 141
Period size: 48 Copynumber: 2.1 Consensus size: 48
2574213 ATTAGATGAA
*
2574223 AAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAAGTGCCACTAATGC
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAAGTGCCACTAATGC
** * * *
2574271 AAGTTAAATGTTTAATGGTGTATTTTGGCAGAAAGGTGCCACTAATGC
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAAGTGCCACTAATGC
*
2574319 ATGTTA
1 AAGTTA
2574325 GATGAAAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (48 bp):
AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAAGTGCCACTAATGC
Found at i:2574352 original size:108 final size:108
Alignment explanation
Indices: 2574163--2574384 Score: 336
Period size: 108 Copynumber: 2.1 Consensus size: 108
2574153 GTTATATGAA
* *
2574163 AAGTTAAATGTTTAACGGTGTATTTTGGCATAAAGGTGTCACTAATGCAAATTAGATGAAAAGTT
1 AAGTTAAATGTTTAACGGTGTATTTTGGCAGAAAGGTGCCACTAATGCAAATTAGATGAAAAGTT
*
2574228 AAATGCCTAACGGTGCATTTTGGTAGAAAAGTGCCACTAATGC
66 AAATGCCTAACGGTGCATTTTGGAAGAAAAGTGCCACTAATGC
* ** *
2574271 AAGTTAAATGTTTAATGGTGTATTTTGGCAGAAAGGTGCCACTAATGCATGTTAGATGAAAATTT
1 AAGTTAAATGTTTAACGGTGTATTTTGGCAGAAAGGTGCCACTAATGCAAATTAGATGAAAAGTT
* * ** *
2574336 AAATGCCTAATGGTGCATTTTGGAATAATGGTTCCACTAATGC
66 AAATGCCTAACGGTGCATTTTGGAAGAAAAGTGCCACTAATGC
2574379 AAGTTA
1 AAGTTA
2574385 GATGAAAAGT
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.32
Consensus pattern (108 bp):
AAGTTAAATGTTTAACGGTGTATTTTGGCAGAAAGGTGCCACTAATGCAAATTAGATGAAAAGTT
AAATGCCTAACGGTGCATTTTGGAAGAAAAGTGCCACTAATGC
Found at i:2574524 original size:46 final size:46
Alignment explanation
Indices: 2574422--2574547 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
2574412 ATTATCGATT
* * * * *
2574422 TGAAATGATGCCATAAATAAAAATTCATAA-GGTGCATTATCGGCA
1 TGAAAGGATGCCATAAATGAAAATACATAACGATGCATAATCGGCA
* * *
2574467 TGAAAGAATGCCATAAATGAAAATGCATAACGATGCATAATTGGCA
1 TGAAAGGATGCCATAAATGAAAATACATAACGATGCATAATCGGCA
*
2574513 TGAAAGGATGCCACAAATGAAAAATACATAACGAT
1 TGAAAGGATGCCATAAATG-AAAATACATAACGAT
2574548 ATATTAATGG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
45 26 0.38
46 29 0.42
47 14 0.20
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.22
Consensus pattern (46 bp):
TGAAAGGATGCCATAAATGAAAATACATAACGATGCATAATCGGCA
Found at i:2574565 original size:46 final size:46
Alignment explanation
Indices: 2574422--2574572 Score: 137
Period size: 46 Copynumber: 3.3 Consensus size: 46
2574412 ATTATCGATT
* * * * * * * *
2574422 TGAAATGATGCCATAAATAAAAATTCATAA-GGTGCATTATCGGCA
1 TGAAAGGATGCCACAAATGAAAATACATAACGATACATAATTGGCA
* * * *
2574467 TGAAAGAATGCCATAAATGAAAATGCATAACGATGCATAATTGGCA
1 TGAAAGGATGCCACAAATGAAAATACATAACGATACATAATTGGCA
*
2574513 TGAAAGGATGCCACAAATGAAAAATACATAACGATATATTAA-TGGCA
1 TGAAAGGATGCCACAAATG-AAAATACATAACGATACA-TAATTGGCA
*
2574560 T-AAAGGGTGCCAC
1 TGAAAGGATGCCAC
2574573 TCATGGTATT
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
45 26 0.29
46 40 0.44
47 21 0.23
48 3 0.03
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (46 bp):
TGAAAGGATGCCACAAATGAAAATACATAACGATACATAATTGGCA
Found at i:2575817 original size:142 final size:146
Alignment explanation
Indices: 2575542--2575832 Score: 518
Period size: 142 Copynumber: 2.0 Consensus size: 146
2575532 TTTAAACCCT
*
2575542 TTTAAAAGTAAAAACATCCGATTTCGACCGAGAATCGGCTAAACCTGTAGCTCTGATACTAATAA
1 TTTAAAAGTAAAAACATACGATTTCGACCGAGAATCGGCTAAACCTGTAGCTCTGATACTAATAA
2575607 ATTTAACACAAATTCCCCGTATACGTTCCCGTACACAAGTCACAGATGTCAAATAACTTTTAAAA
66 ATTTAACACAAATT---CGTATACGTTCCCGTACACAAGTCACAGATGTCAAATAACTTTTAAAA
2575672 CATTTACATATTTGAGAAC
128 CATTTACATATTTGAGAAC
2575691 TTTAAAAGTAAAAA-A-ACGA-TTCGACCGAGAATCGGCTAAACCTGTAGCTCTGATACTAATAA
1 TTTAAAAGTAAAAACATACGATTTCGACCGAGAATCGGCTAAACCTGTAGCTCTGATACTAATAA
2575753 ATTTAACACAAATT-GTATACGTTCCCGTACACAAGTCACAGATGTCAAATAACTTTTAAAACAT
66 ATTTAACACAAATTCGTATACGTTCCCGTACACAAGTCACAGATGTCAAATAACTTTTAAAACAT
2575817 TTACATATTTGAGAAC
131 TTACATATTTGAGAAC
2575833 CAGTAAAATT
Statistics
Matches: 141, Mismatches: 1, Indels: 7
0.95 0.01 0.05
Matches are distributed among these distances:
142 66 0.47
146 57 0.40
147 3 0.02
148 1 0.01
149 14 0.10
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (146 bp):
TTTAAAAGTAAAAACATACGATTTCGACCGAGAATCGGCTAAACCTGTAGCTCTGATACTAATAA
ATTTAACACAAATTCGTATACGTTCCCGTACACAAGTCACAGATGTCAAATAACTTTTAAAACAT
TTACATATTTGAGAAC
Found at i:2576149 original size:21 final size:22
Alignment explanation
Indices: 2576110--2576157 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
2576100 AATATTTAAA
2576110 ATATATTAATATTTCTAATAAT
1 ATATATTAATATTTCTAATAAT
*
2576132 ATATATTACAT-TTT-TAATATT
1 ATATATTA-ATATTTCTAATAAT
2576153 ATATA
1 ATATA
2576158 AATAATCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 11 0.46
22 11 0.46
23 2 0.08
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATATTAATATTTCTAATAAT
Found at i:2576303 original size:14 final size:14
Alignment explanation
Indices: 2576286--2576354 Score: 53
Period size: 13 Copynumber: 5.3 Consensus size: 14
2576276 GAATAATATT
2576286 ATATATATAATTTA
1 ATATATATAATTTA
*
2576300 ATATA-ATAATCTA
1 ATATATATAATTTA
2576313 ATA-ATAT--TTTA
1 ATATATATAATTTA
2576324 ATA-ATGAT-ATTTA
1 ATATAT-ATAATTTA
*
2576337 AAATATACTAA-TTA
1 ATATATA-TAATTTA
2576351 ATAT
1 ATAT
2576355 TTTTCAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
11 8 0.18
12 3 0.07
13 19 0.42
14 14 0.31
15 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (14 bp):
ATATATATAATTTA
Found at i:2576386 original size:36 final size:36
Alignment explanation
Indices: 2576342--2576417 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
2576332 ATTTAAAATA
2576342 TACTAATTAATA-TTTTTCAAAATAATATAACACTAT
1 TACTAATTAATATTTTTTCAAAATAATATAAC-CTAT
2576378 TACTAATTAATATTTTTTCAAAATAATATAACCTAT
1 TACTAATTAATATTTTTTCAAAATAATATAACCTAT
2576414 TACT
1 TACT
2576418 TTAATAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 20 0.51
37 19 0.49
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (36 bp):
TACTAATTAATATTTTTTCAAAATAATATAACCTAT
Found at i:2576685 original size:14 final size:14
Alignment explanation
Indices: 2576666--2576700 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2576656 CAAACATCGT
2576666 AAAATGTTTTCCAG
1 AAAATGTTTTCCAG
*
2576680 AAAATGTTTTTCAG
1 AAAATGTTTTCCAG
2576694 AAAATGT
1 AAAATGT
2576701 AATTCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (14 bp):
AAAATGTTTTCCAG
Found at i:2578294 original size:21 final size:20
Alignment explanation
Indices: 2578252--2578301 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
2578242 CTTCCTCTTG
2578252 GTATCAATACCTCCACATCA
1 GTATCAATACCTCCACATCA
*
2578272 GTATCAATACTACTTCA-ATCA
1 GTATCAATAC--CTCCACATCA
2578293 GTATCAATA
1 GTATCAATA
2578302 TTGTTCATCG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.37
21 13 0.48
22 4 0.15
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (20 bp):
GTATCAATACCTCCACATCA
Found at i:2582946 original size:21 final size:21
Alignment explanation
Indices: 2582916--2582961 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
2582906 TTTTCGTGAC
*
2582916 ACTTACCAAGGTACTTCATCT
1 ACTTACCAAGGTACCTCATCT
*
2582937 ACTTATCAAGGTACCTCATCT
1 ACTTACCAAGGTACCTCATCT
2582958 ACTT
1 ACTT
2582962 CAACTTTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (21 bp):
ACTTACCAAGGTACCTCATCT
Found at i:2588821 original size:23 final size:23
Alignment explanation
Indices: 2588805--2588849 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2588795 TAATTCTAAC
2588805 AAATTAAAAATCATAATTAATAA
1 AAATTAAAAATCATAATTAATAA
* * *
2588828 ATATTAAAAATCCTAAATAATA
1 AAATTAAAAATCATAATTAATA
2588850 GTAAACTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATTAAAAATCATAATTAATAA
Found at i:2601604 original size:14 final size:14
Alignment explanation
Indices: 2601585--2601611 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2601575 TTCTTAATAT
2601585 TAATAAAATAGTAA
1 TAATAAAATAGTAA
2601599 TAATAAAATAGTA
1 TAATAAAATAGTA
2601612 TGATGTTTGC
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:0.07, T:0.30
Consensus pattern (14 bp):
TAATAAAATAGTAA
Found at i:2602214 original size:19 final size:19
Alignment explanation
Indices: 2602186--2602229 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2602176 AAATTTTTTA
*
2602186 AAATTTTAACTC-CATCCCT
1 AAATTATAACTCTCAT-CCT
*
2602205 AAATTATAACTCTCATTCT
1 AAATTATAACTCTCATCCT
2602224 AAATTA
1 AAATTA
2602230 GTCCCTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTATAACTCTCATCCT
Found at i:2602260 original size:60 final size:60
Alignment explanation
Indices: 2602145--2602262 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 60
2602135 ATATGTCCTC
* * * *
2602145 AAATTACTACTCTCATTCTAAATTAGTTCTCAAATTTTTTAAAATTTTAACTCCATCCCT
1 AAATTACTACTCTCATTCTAAATTAGTCCTCAAATATTTTAAAATTCTAAATCCATCCCT
2602205 AAATTA-TAACTCTCATTCTAAATTAGTCC-CTAAA-ATTTTAAACATTCTAAATCCATCC
1 AAATTACT-ACTCTCATTCTAAATTAGTCCTC-AAATATTTTAAA-ATTCTAAATCCATCC
2602263 TCAAACTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
59 9 0.18
60 42 0.82
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (60 bp):
AAATTACTACTCTCATTCTAAATTAGTCCTCAAATATTTTAAAATTCTAAATCCATCCCT
Found at i:2602281 original size:60 final size:60
Alignment explanation
Indices: 2602153--2602284 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 60
2602143 TCAAATTACT
* * * * *
2602153 ACTCTCATTCTAAATTAGTTCTCAAATTTTTTAAAATTTTAACTCCATCCCTAAATTATA
1 ACTCTCATTCTAAATTAGTCCTCAAATATTTTAAAATTCTAAATCCATCCCTAAACTATA
*
2602213 ACTCTCATTCTAAATTAGTCC-CTAAA-ATTTTAAACATTCTAAATCCAT-CCTCAAACTATG
1 ACTCTCATTCTAAATTAGTCCTC-AAATATTTTAAA-ATTCTAAATCCATCCCT-AAACTATA
2602273 AC-CTTCATTCTA
1 ACTC-TCATTCTA
2602285 TATTGATCCC
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
59 12 0.19
60 50 0.81
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.39
Consensus pattern (60 bp):
ACTCTCATTCTAAATTAGTCCTCAAATATTTTAAAATTCTAAATCCATCCCTAAACTATA
Found at i:2612082 original size:19 final size:19
Alignment explanation
Indices: 2612038--2612082 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
2612028 CCCCTTAAGC
*
2612038 TAGTCAAACAAATTATTGA
1 TAGTCAAACAAATTACTGA
** *
2612057 TCCTCAAACAAATTACTGG
1 TAGTCAAACAAATTACTGA
2612076 TAGTCAA
1 TAGTCAA
2612083 TACAGAGCCT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (19 bp):
TAGTCAAACAAATTACTGA
Found at i:2617297 original size:20 final size:20
Alignment explanation
Indices: 2617272--2617338 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
2617262 ATTGAAAAGG
*
2617272 AAAAATAAGTGGTCAATTTA
1 AAAAATAAATGGTCAATTTA
*
2617292 AAAAATTAAAAGGTCAATTTA
1 AAAAA-TAAATGGTCAATTTA
** *
2617313 AAAAATAAATGACCAATTTG
1 AAAAATAAATGGTCAATTTA
2617333 AAAAAT
1 AAAAAT
2617339 TAGTGAGCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
20 22 0.55
21 18 0.45
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (20 bp):
AAAAATAAATGGTCAATTTA
Found at i:2617306 original size:21 final size:21
Alignment explanation
Indices: 2617282--2617340 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
2617272 AAAAATAAGT
2617282 GGTCAATTTAAAAAATTAAAA
1 GGTCAATTTAAAAAATTAAAA
*
2617303 GGTCAATTTAAAAAA-TAAAT
1 GGTCAATTTAAAAAATTAAAA
** *
2617323 GACCAATTTGAAAAATTA
1 GGTCAATTTAAAAAATTA
2617341 GTGAGCATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.29
Consensus pattern (21 bp):
GGTCAATTTAAAAAATTAAAA
Found at i:2623207 original size:23 final size:23
Alignment explanation
Indices: 2623142--2623208 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
2623132 CACCACAACT
2623142 CACATA-AA-TGCACCGAAGTGC
1 CACATAGAATTGCACCGAAGTGC
* *
2623163 CACGTAGAATTGCACCAAAGTGC
1 CACATAGAATTGCACCGAAGTGC
* *
2623186 CACATAGAATTGCATCGTAGTGC
1 CACATAGAATTGCACCGAAGTGC
2623209 TATATAAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.13
22 2 0.05
23 31 0.82
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.19
Consensus pattern (23 bp):
CACATAGAATTGCACCGAAGTGC
Found at i:2623986 original size:64 final size:64
Alignment explanation
Indices: 2623893--2624014 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
2623883 ACATAAATCC
* * *
2623893 CATTCGATGTTTGTATTTTAAGGGGGTGCATCGATGCACTACTTGAGCATCGATACACTGATGG
1 CATTCGATGTTTGTATTTTAAGGGAGTGCATCGATACACTACATGAGCATCGATACACTGATGG
* * * * *
2623957 CATTCGATGTTTTTATTTTATA-GTAGTGCATCGATACACTTCATGTGTATCGATACAC
1 CATTCGATGTTTGTATTTTA-AGGGAGTGCATCGATACACTACATGAGCATCGATACAC
2624015 CTTGAACAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 48 0.98
65 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (64 bp):
CATTCGATGTTTGTATTTTAAGGGAGTGCATCGATACACTACATGAGCATCGATACACTGATGG
Found at i:2630175 original size:23 final size:23
Alignment explanation
Indices: 2630118--2630176 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
2630108 CTCATATAAA
*
2630118 TGCACCGAAATGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
2630141 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
2630164 TGCATCGTAGTGC
1 TGCACCGAAGTGC
2630177 TATATAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:2630807 original size:20 final size:20
Alignment explanation
Indices: 2630782--2630830 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
2630772 GAATGTATGC
2630782 ATCGATGCACTACACCATGT
1 ATCGATGCACTACACCATGT
2630802 ATCGATGCACTACACCATGT
1 ATCGATGCACTACACCATGT
2630822 ATCGATGCA
1 ATCGATGCA
2630831 TCCCTTGACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (20 bp):
ATCGATGCACTACACCATGT
Found at i:2630949 original size:64 final size:64
Alignment explanation
Indices: 2630881--2631002 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
2630871 ACATAAATAT
* * * * *
2630881 CATTCGATGTTTGTATTTGAAGGGGGTGCATCGACGCACTACTTGTTCATCGATACACTGATGG
1 CATTCGATGTTTGTATTTGAAAGGAGTGCATCGACACACTACATGTGCATCGATACACTGATGG
* * * *
2630945 CATTCGATGTTTTTATTTTAAAGGAGTGCATCGATACACTTCATGTGCATCGATACAC
1 CATTCGATGTTTGTATTTGAAAGGAGTGCATCGACACACTACATGTGCATCGATACAC
2631003 CTTGAACAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (64 bp):
CATTCGATGTTTGTATTTGAAAGGAGTGCATCGACACACTACATGTGCATCGATACACTGATGG
Found at i:2636390 original size:18 final size:19
Alignment explanation
Indices: 2636357--2636392 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2636347 TGAAGTTGTC
2636357 AATTGTCTTCTCATCATCG
1 AATTGTCTTCTCATCATCG
*
2636376 AATTGT-TTGTCATCATC
1 AATTGTCTTCTCATCATC
2636393 AGTAGGTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (19 bp):
AATTGTCTTCTCATCATCG
Found at i:2642997 original size:19 final size:21
Alignment explanation
Indices: 2642948--2642998 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2642938 CACGGAATGT
2642948 AAGATTACCAGTGAGAAATAA
1 AAGATTACCAGTGAGAAATAA
*
2642969 AAGATTACCAGTG-GGAATAA
1 AAGATTACCAGTGAGAAATAA
*
2642989 AA-TTTACCAG
1 AAGATTACCAG
2642999 GGAATAGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 7 0.25
20 8 0.29
21 13 0.46
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.22
Consensus pattern (21 bp):
AAGATTACCAGTGAGAAATAA
Found at i:2648459 original size:204 final size:203
Alignment explanation
Indices: 2648109--2648517 Score: 793
Period size: 204 Copynumber: 2.0 Consensus size: 203
2648099 GATTGCTACA
2648109 ACGATATTCATTCCTAACTGAAAGTGGGAACGAGTTACTATGGATTTGTTACAGGGCTACCTTTA
1 ACGATATTCATTCCTAACTGAAAGTGGGAACGAGTTACTATGGATTTGTTACAGGGCTACCTTTA
2648174 ACACCCAGAAAAAAGACTCAATATGGGTAATTGTGGACAGATTGACCAAGGTAGCTTATTTTATT
66 ACACCCAGAAAAAAGACTCAATATGGGTAATTGTGGACAGATTGACCAAGGTAGCTTATTTTATT
2648239 CTAGTTCAGATAGATTGCTCAAAGGATAAATATGCAAAGTTGTATATAAAAGAAATAGCTTGGTT
131 CTAGTTCAGATAGATTGCTCAAAGGATAAATATGCAAAGTTGTATAT-AAAGAAATAGCTTGGTT
2648304 GCATGGAGC
195 GCATGGAGC
2648313 ACGATATTCATTCCTAACTGAAAGTGGGAACGAGTTACTATGGATTTGTTACAGGGCTACCTTTA
1 ACGATATTCATTCCTAACTGAAAGTGGGAACGAGTTACTATGGATTTGTTACAGGGCTACCTTTA
2648378 ACACCCAGAAAAAAGGACTCAATATGGGTAATTGTGGACAGATTGACCAAGGTAGCTTA-TTTAT
66 ACACCCAGAAAAAA-GACTCAATATGGGTAATTGTGGACAGATTGACCAAGGTAGCTTATTTTAT
2648442 TCTAGTTCAGATAGATTGCTCAAAGGATAAATATGCAAAGTTGTATATAAAGAAATAGCTTGGTT
130 TCTAGTTCAGATAGATTGCTCAAAGGATAAATATGCAAAGTTGTATATAAAGAAATAGCTTGGTT
2648507 GCATGGAGC
195 GCATGGAGC
2648516 AC
1 AC
2648518 CTATATCGAC
Statistics
Matches: 204, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
203 28 0.14
204 132 0.65
205 44 0.22
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (203 bp):
ACGATATTCATTCCTAACTGAAAGTGGGAACGAGTTACTATGGATTTGTTACAGGGCTACCTTTA
ACACCCAGAAAAAAGACTCAATATGGGTAATTGTGGACAGATTGACCAAGGTAGCTTATTTTATT
CTAGTTCAGATAGATTGCTCAAAGGATAAATATGCAAAGTTGTATATAAAGAAATAGCTTGGTTG
CATGGAGC
Found at i:2651050 original size:11 final size:11
Alignment explanation
Indices: 2651034--2651066 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
2651024 AAATTAGGAT
2651034 GAATTTGAAAA
1 GAATTTGAAAA
2651045 GAATTTGAAAA
1 GAATTTGAAAA
*
2651056 GAATTCGAAAA
1 GAATTTGAAAA
2651067 TAATAGTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (11 bp):
GAATTTGAAAA
Found at i:2651685 original size:53 final size:52
Alignment explanation
Indices: 2651623--2651725 Score: 179
Period size: 53 Copynumber: 2.0 Consensus size: 52
2651613 TACTTTCGAA
* *
2651623 ACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCATTTTGGC
1 ACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTAAATT-CCATTTTGGC
2651676 ACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTAAATTCCATTTTG
1 ACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTAAATTCCATTTTG
2651726 TTACCTTAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 8 0.17
53 40 0.83
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (52 bp):
ACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTAAATTCCATTTTGGC
Found at i:2654638 original size:46 final size:46
Alignment explanation
Indices: 2654585--2655019 Score: 537
Period size: 46 Copynumber: 9.6 Consensus size: 46
2654575 ACTATGTTAT
** * * *
2654585 CATTAAGGCATGAAATAATGCTATAACCAAAATGCATGAATGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2654631 CATTAAGGCATGAAAGGATCCCATAACCAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
*
2654677 CATTAAGGCATGAAAGGATGCCATAACTAGAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2654723 CATTAAGGCATGAAAGGATACCATAACTAAACTGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
*
2654769 CATTAAGGCATGAAAGGATGCCATAACTAGAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* ** * * *
2654815 CATTAAGGCATGAAAGAAAACCATAATTAGAATGTATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2654861 CATTAAGGCATGAACGGATGACATAACTAAAATGCATGAA---ATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
*
2654904 -A-T---GCATTGAAAGGATGCCATAACCAAAATGCATGAACGGATG
1 CATTAAGGCA-TGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * ** *
2654946 CATTAAGGCATGAAAGGATGCCACAACTAAAATGTACAAACGGGTG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2654992 TATTAAGG-ATTGAAAAGAGGCCATAACT
1 CATTAAGGCA-TGAAAGGATGCCATAACT
2655020 GAAACTAATG
Statistics
Matches: 339, Mismatches: 40, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
38 3 0.01
39 27 0.08
41 1 0.00
42 4 0.01
43 4 0.01
44 1 0.00
45 1 0.00
46 295 0.87
47 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
Found at i:2654721 original size:26 final size:25
Alignment explanation
Indices: 2654638--2654815 Score: 125
Period size: 26 Copynumber: 7.6 Consensus size: 25
2654628 ATGCATTAAG
* *
2654638 GCATGAAAGGATCCCATAACCAAAAT
1 GCATGAAAGGATGCCATAA-CTAAAT
* *
2654664 GCATGAACGGATG-CAT---T-AAG
1 GCATGAAAGGATGCCATAACTAAAT
2654684 GCATGAAAGGATGCCATAACTAGAAT
1 GCATGAAAGGATGCCATAACTA-AAT
* *
2654710 GCATGAACGGATG-CAT---T-AAG
1 GCATGAAAGGATGCCATAACTAAAT
*
2654730 GCATGAAAGGATACCATAACTAAACT
1 GCATGAAAGGATGCCATAACTAAA-T
* *
2654756 GCATGAACGGATG-CAT---T-AAG
1 GCATGAAAGGATGCCATAACTAAAT
2654776 GCATGAAAGGATGCCATAACTAGAAT
1 GCATGAAAGGATGCCATAACTA-AAT
*
2654802 GCATGAACGGATGC
1 GCATGAAAGGATGC
2654816 ATTAAGGCAT
Statistics
Matches: 117, Mismatches: 17, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
20 39 0.33
21 11 0.09
22 2 0.02
24 3 0.03
25 11 0.09
26 51 0.44
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (25 bp):
GCATGAAAGGATGCCATAACTAAAT
Found at i:2654932 original size:39 final size:39
Alignment explanation
Indices: 2654871--2654949 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
2654861 CATTAAGGCA
* * *
2654871 TGAACGGATGACATAACTAAAATGCATGAAATGATGCAT
1 TGAAAGGATGACATAACCAAAATGCATGAAAGGATGCAT
* *
2654910 TGAAAGGATGCCATAACCAAAATGCATGAACGGATGCAT
1 TGAAAGGATGACATAACCAAAATGCATGAAAGGATGCAT
2654949 T
1 T
2654950 AAGGCATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (39 bp):
TGAAAGGATGACATAACCAAAATGCATGAAAGGATGCAT
Found at i:2662129 original size:46 final size:46
Alignment explanation
Indices: 2661677--2662122 Score: 610
Period size: 46 Copynumber: 9.7 Consensus size: 46
2661667 ACTATGTTAT
* * * *
2661677 CATTAAGGAATGAAAGGATGACATAACCAAAATGTATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * ** *
2661723 CATTAAGGCATGAAAGGATGCCATAACAAAAATACATGAATAGATT
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * *
2661769 CATTAAGGCATAAAAGGATGCCCA-AACTAGAATGCATGAATGGATA
1 CATTAAGGCATGAAAGGATG-CCATAACTAAAATGCATGAACGGATG
*
2661815 CATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2661861 TATTAAGTCATGAAAGGATGCCATAACTAGAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* **
2661907 CATTAAGGCATGAAAGGATGCCATAACTAGAATGCATGAATAGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2661953 C-TTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAACGTATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2661998 CATTAAGGCATGAAAGGATGCCATAACCAAAATGCATGAATGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
2662044 CATTAAGGCATGAAAGGATGCCATAACTAAAAT-CTATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGC-ATGAACGGATG
* * *
2662090 CATTAAGGCATGAAAAGATGTCATAACTGAAAT
1 CATTAAGGCATGAAAGGATGCCATAACTAAAAT
2662123 TAATGAATAA
Statistics
Matches: 355, Mismatches: 41, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
45 44 0.12
46 308 0.87
47 3 0.01
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (46 bp):
CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
Found at i:2665093 original size:63 final size:63
Alignment explanation
Indices: 2664946--2665108 Score: 161
Period size: 63 Copynumber: 2.5 Consensus size: 63
2664936 ACTCCAACTA
* *
2664946 AATATCTTTTAATATTCAAATTTAAACAGATAATATTATCTTTTAATTTGAAATATCCAAAAGAT
1 AATATCTTTTAATATTCAAATTTAAATAG---ATATTA-CTTTTAATTTGAAATATCCAAAAGAC
*
2665011 TT
62 AT
* * *
2665013 AA-ACTCCTTTTATTATTCAAATTTAAATAGATATTA-TTTTAATTTGAAGTATTC-AAAGTACA
1 AATA-T-CTTTTAATATTCAAATTTAAATAGATATTACTTTTAATTTGAAATATCCAAAAG-ACA
2665075 T
63 T
**
2665076 AATTATCTTTTAATATTCAAAGATAAATAGATA
1 AA-TATCTTTTAATATTCAAATTTAAATAGATA
2665109 ATAAATACCT
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
62 4 0.05
63 44 0.54
64 1 0.01
65 7 0.09
66 1 0.01
67 3 0.04
68 22 0.27
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (63 bp):
AATATCTTTTAATATTCAAATTTAAATAGATATTACTTTTAATTTGAAATATCCAAAAGACAT
Found at i:2667149 original size:18 final size:18
Alignment explanation
Indices: 2667117--2667151 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2667107 TTTTACTAGT
* *
2667117 AGAGGAAATATTACAAAG
1 AGAGGAAAGAGTACAAAG
2667135 AGAGGAAAGAGTACAAA
1 AGAGGAAAGAGTACAAA
2667152 TAGCCTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.26, T:0.11
Consensus pattern (18 bp):
AGAGGAAAGAGTACAAAG
Found at i:2677451 original size:35 final size:35
Alignment explanation
Indices: 2677412--2677486 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
2677402 TTCATGTTCA
*
2677412 AAATTCCAAAACACTTCAATTACATTCTAAACCCT
1 AAATTCCAAAACACTTCAATTACATTCTAAACCAT
*
2677447 AAATTCCAAAATACTTCAATTACATTCTAAACCAT
1 AAATTCCAAAACACTTCAATTACATTCTAAACCAT
2677482 AAATT
1 AAATT
2677487 AAAGTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTCTAAACCAT
Found at i:2684418 original size:20 final size:20
Alignment explanation
Indices: 2684380--2684417 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2684370 GTTTCGCAGT
2684380 GAAGCAATCGATCCTTTTTG
1 GAAGCAATCGATCCTTTTTG
*
2684400 GAAGGAATCGAT-CTTTTT
1 GAAGCAATCGATCCTTTTT
2684418 TCACGGGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (20 bp):
GAAGCAATCGATCCTTTTTG
Found at i:2692278 original size:21 final size:21
Alignment explanation
Indices: 2692254--2692298 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
2692244 AGCTTTTTCT
2692254 ATATTTTTTT-TTTTATTTTTG
1 ATATTTTTTTCTTTT-TTTTTG
2692275 ATATTTTTTTCTTTTTTTTTG
1 ATATTTTTTTCTTTTTTTTTG
2692296 ATA
1 ATA
2692299 ATAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (21 bp):
ATATTTTTTTCTTTTTTTTTG
Found at i:2692302 original size:3 final size:3
Alignment explanation
Indices: 2692296--2692338 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
2692286 TTTTTTTTTG
* *
2692296 ATA ATAA ATA ATA ATA ATA ATT ATG ATA ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2692339 TTTTTAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:2698343 original size:27 final size:29
Alignment explanation
Indices: 2698290--2698347 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 29
2698280 AATTGTCTCA
*
2698290 TATGTACTAACTAATTTTTTTTCTTTTCTT
1 TATGTAC-AACTAATTTTATTTCTTTTCTT
2698320 TATGTAC-ACTAA-TTTATTTCTTTTCTT
1 TATGTACAACTAATTTTATTTCTTTTCTT
2698347 T
1 T
2698348 TTTTTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 15 0.56
28 5 0.19
30 7 0.26
ACGTcount: A:0.21, C:0.14, G:0.03, T:0.62
Consensus pattern (29 bp):
TATGTACAACTAATTTTATTTCTTTTCTT
Found at i:2702011 original size:16 final size:16
Alignment explanation
Indices: 2701990--2702031 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
2701980 CAGATCGAGA
*
2701990 AAACATACATCAATAC
1 AAACATACATCAACAC
2702006 AAACATACATCAACAC
1 AAACATACATCAACAC
*
2702022 ATACATACAT
1 AAACATACAT
2702032 GATACATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (16 bp):
AAACATACATCAACAC
Found at i:2702693 original size:65 final size:64
Alignment explanation
Indices: 2702584--2702764 Score: 193
Period size: 65 Copynumber: 2.8 Consensus size: 64
2702574 ATCCTTAAGT
* * * *
2702584 TTGTTTCTCTTGAAACAAATCTTAT-TTTCCTTGAGACTGTTTCTCATGAAACACCCACCTTTGA
1 TTGTTTCCCTTGAAAC-AAT-TT-TGTCTCCTTGAGACAGTTTCTCTTGAAACACCCACCTTTGA
2702648 GA
63 GA
* *
2702650 TTGTTTCCCTTGAAACAAGTTTTGTCTCCTTGAGACAGTTTCTCTTGAAATACCCATCTTTGAGA
1 TTGTTTCCCTTGAAACAA-TTTTGTCTCCTTGAGACAGTTTCTCTTGAAACACCCACCTTTGAGA
** * * * *
2702715 TCATTTTCCTTGAAATGAATTTTGTCTCTCTTGAGATAGCTTCTCTTGAA
1 TTGTTTCCCTTGAAA-CAATTTTGTCTC-CTTGAGACAGTTTCTCTTGAA
2702765 GTATCATCTG
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
64 1 0.01
65 61 0.62
66 37 0.37
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (64 bp):
TTGTTTCCCTTGAAACAATTTTGTCTCCTTGAGACAGTTTCTCTTGAAACACCCACCTTTGAGA
Found at i:2703035 original size:131 final size:131
Alignment explanation
Indices: 2702800--2703153 Score: 349
Period size: 131 Copynumber: 2.7 Consensus size: 131
2702790 TGAAACCAAA
* * **
2702800 ATCCCTAAAGATGACTTATCATCCTCATCACGTAGGAACCATGCCATTCTCTGACCAGACCTCCT
1 ATCCCTAAAGATGACTTATCATCCTCATCACGTAGGAACCATGCCATCCACCAACCAGACCTCCT
* *
2702865 CATCACGTAGGAGCCGTGTCAACCTTAGATAACATGCCGTCCTCGTCACATAGGAACCGTGTTAT
66 CATCACGTAGGAGCCGTGTCAACCCTAGATAACATGCCGTCCTCATCACATAGGAACCGTGTTAT
2702930 C
131 C
* * * * * * * *
2702931 ATCCCTAAAGATGGCTTGA-CGTCCTCGTCATGTAGGAACCGTGTCATCCACCAACCAGGCCTTC
1 ATCCCTAAAGATGACTT-ATCATCCTCATCACGTAGGAACCATGCCATCCACCAACCAGACCTCC
* * *
2702995 TCATCACGTAGGAGCCGTGTCACCCCTAGATAACCA-GCCGTCCTCATCGCGTAGGAACCGTGTT
65 TCATCACGTAGGAGCCGTGTCAACCCTAGATAA-CATGCCGTCCTCATCACATAGGAACCGTGTT
2703059 ATC
129 ATC
* * * ** * * * * * **
2703062 ACCCTTCTTAAATATGGCCAACCATCCTCATCACATAGGAATCGTGTCAT-CA-CAGACCAGATA
1 ATCC--C-TAAAGATGACTTATCATCCTCATCACGTAGGAACCATGCCATCCACCA-ACCAGACC
*
2703125 TCCTCATCACGTAGGAGTCGTGTC-ACCCT
62 TCCTCATCACGTAGGAGCCGTGTCAACCCT
2703154 TAGACGACCA
Statistics
Matches: 184, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
131 112 0.61
132 9 0.05
133 31 0.17
134 32 0.17
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (131 bp):
ATCCCTAAAGATGACTTATCATCCTCATCACGTAGGAACCATGCCATCCACCAACCAGACCTCCT
CATCACGTAGGAGCCGTGTCAACCCTAGATAACATGCCGTCCTCATCACATAGGAACCGTGTTAT
C
Found at i:2707967 original size:12 final size:12
Alignment explanation
Indices: 2707938--2708022 Score: 59
Period size: 12 Copynumber: 7.0 Consensus size: 12
2707928 AATTATTAAA
2707938 ATATTTAA-AAT
1 ATATTTAATAAT
*
2707949 ATATTTATTAAT
1 ATATTTAATAAT
*
2707961 ATTTTTAATAAT
1 ATATTTAATAAT
*
2707973 ATAATATAATAAT
1 AT-ATTTAATAAT
*
2707986 ATTATTACAATAAT
1 A-TATT-TAATAAT
* *
2708000 AAACTTAAT--T
1 ATATTTAATAAT
2708010 ATATTATAATAAT
1 ATATT-TAATAAT
2708023 GTATGATACT
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
10 4 0.07
11 11 0.20
12 18 0.33
13 14 0.25
14 8 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:2708400 original size:22 final size:22
Alignment explanation
Indices: 2708357--2708416 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
2708347 AAATAGTATT
* * *
2708357 AAATAAATTATTTTAATATTTTA
1 AAATAAATAATATTAA-GTTTTA
2708380 AAA-ATAATAATATTAAGTTTTA
1 AAATA-AATAATATTAAGTTTTA
*
2708402 TAATAAATAATATTA
1 AAATAAATAATATTA
2708417 TTTATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
AAATAAATAATATTAAGTTTTA
Found at i:2711697 original size:17 final size:17
Alignment explanation
Indices: 2711675--2711709 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2711665 GATACTTAAG
2711675 TGTACCGCTACCATAAT
1 TGTACCGCTACCATAAT
2711692 TGTACCGCTACCATAAT
1 TGTACCGCTACCATAAT
2711709 T
1 T
2711710 ATACTCTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (17 bp):
TGTACCGCTACCATAAT
Found at i:2714352 original size:27 final size:21
Alignment explanation
Indices: 2714300--2714353 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
2714290 TTTGGAAGGT
2714300 GAATCACAATCTAAGGAAGAC
1 GAATCACAATCTAAGGAAGAC
2714321 GAATCACAATCTAAGGAAGAC
1 GAATCACAATCTAAGGAAGAC
* *
2714342 GATTTACAATCT
1 GAATCACAATCT
2714354 CTATCTATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (21 bp):
GAATCACAATCTAAGGAAGAC
Found at i:2717677 original size:19 final size:20
Alignment explanation
Indices: 2717655--2717692 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2717645 TTTTAAATAT
2717655 TTTAA-TTAGGATTTATTTC
1 TTTAATTTAGGATTTATTTC
*
2717674 TTTAATTTAGTATTTATTT
1 TTTAATTTAGGATTTATTT
2717693 TTACCTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (20 bp):
TTTAATTTAGGATTTATTTC
Found at i:2718480 original size:21 final size:21
Alignment explanation
Indices: 2718423--2718483 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
2718413 CCATAAGTTT
* *
2718423 TCTTTATCTCAATTTATTTTA
1 TCTTTATCTCATTTTATTTAA
2718444 TCTATTTAT-T--TGTTTATTTAA
1 TC--TTTATCTCAT-TTTATTTAA
2718465 TCTTTATCTCATTTTATTT
1 TCTTTATCTCATTTTATTT
2718484 CTTTAAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
19 5 0.16
20 1 0.03
21 19 0.59
22 2 0.06
23 5 0.16
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.66
Consensus pattern (21 bp):
TCTTTATCTCATTTTATTTAA
Found at i:2718541 original size:4 final size:4
Alignment explanation
Indices: 2718532--2718561 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
2718522 CTTATAATTA
2718532 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
2718562 TATCCTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:2724916 original size:54 final size:54
Alignment explanation
Indices: 2724848--2725346 Score: 702
Period size: 54 Copynumber: 9.3 Consensus size: 54
2724838 TTACTAAATA
* * * * *
2724848 GGCAATAAGTGTGC-AATTCACGGAATTCATCATATGTTGATAAATAATTGTGTC
1 GGCACTAAGTGTGCAAAGT-ACGGAATTCATCATATGTTGATGAATAATCGTTTC
**
2724902 GGCACTAAGTGTGCAAAGTACAAAATTCATCATATGTTGATGAATAATCGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAATCGTTTC
* *
2724956 GGCACTAAGTGTGCAAAGTACGGAAATCATCATATGTTGATGAATAATCATTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAATCGTTTC
* *
2725010 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTT
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAATCGTTTC
* * *
2725064 AGCACTAAGTGTGCAAAGTACGGAATTCACCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAATCGTTTC
*
2725118 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAATCGTTTC
** * * * *
2725172 AACACTAAGTGTACAAAGTACAGAATTCATCATACGTTGATGAATAATCATTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAATCGTTTC
* * * *
2725226 GGCACTAAGTGTGC-AATTCACGAAATTCATCATATG-T--TGAATAACCGTTTT
1 GGCACTAAGTGTGCAAAGT-ACGGAATTCATCATATGTTGATGAATAATCGTTTC
*
2725277 GGCACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAATCGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAATCGTTTC
*
2725331 GGCACTATGTGTGCAA
1 GGCACTAAGTGTGCAA
2725347 CCTACAAAAT
Statistics
Matches: 398, Mismatches: 41, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
51 42 0.11
52 4 0.01
53 4 0.01
54 345 0.87
55 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (54 bp):
GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAATCGTTTC
Found at i:2731792 original size:54 final size:54
Alignment explanation
Indices: 2731733--2732232 Score: 544
Period size: 54 Copynumber: 9.3 Consensus size: 54
2731723 TTACTAAATA
* * * * *
2731733 GGCACTAAGAGTGCAAAGTACGAAATTCATCATATGTTGGTGAATAATCTTTTT
1 GGCACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTC
* *
2731787 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATATTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
2731841 AGCACTAAGTTTACAAACTACTG-AATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTAC-GAAATTCATCATATGTTGATGAATAACCGTTTC
*
2731895 GGAACTAAGTGTGCAAAGTAC-AGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTACGA-AATTCATCATATGTTGATGAATAACCGTTTC
* * * *
2731949 GACACTAAGTGTGCAAAGTACGAAATTCATCATATGTTAATTAATAACCATTTC
1 GGCACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * * * * * *
2732003 GACACTAAGTATGTAAAGTACAAAATTCATTATATGTTTATGAATAACCATTTT
1 GGCACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
2732057 AG-ACTAAGTGTGC-AATTCACGGAATTCATCATATGTTGATGAATAATCGTTTC
1 GGCACTAAGTGTGCAAAGT-ACGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * * *
2732110 GGCACTAAGCGTTC-AATTCACGGAATTCATCATATGTTGATGAATAACCGTTTT
1 GGCACTAAGTGTGCAAAGT-ACGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * * * * *
2732164 GGTACTAAGTGTGAAAAGTATGGAATTCATC-TATGTTCATGAATAACCATTTT
1 GGCACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTC
* *
2732217 GGAACTATGTGTGCAA
1 GGCACTAAGTGTGCAA
2732233 CCCACGAAAA
Statistics
Matches: 382, Mismatches: 57, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
52 3 0.01
53 71 0.19
54 303 0.79
55 5 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:2732277 original size:161 final size:159
Alignment explanation
Indices: 2731736--2732277 Score: 543
Period size: 161 Copynumber: 3.4 Consensus size: 159
2731726 CTAAATAGGC
* ** * * * * *
2731736 ACTAAGAGTGCAAAGTACGAAATTCATCATATGTTGGTGAATAATCTTTTTGGCACTAAGTGTGC
1 ACTAAGTGTGCAAACCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGCGTGC
* * * *
2731801 AAAGTACGGAATTCATCATATATTGATGAATAACCGTTTCAGCACTAAGTTTACAAACTACTGAA
66 AAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTTGA-AAAGTA-TGAA
* * *
2731866 TTCATCATATGTTGATGAATAACCGTTTCGGA
129 TTCATC-TATGTTCATGAATAACCATTTTGGA
** * *
2731898 ACTAAGTGTGCAAAGTAC-AGAATTCATCATATGTTGATGAATAACCGTTTCGACACTAAGTGTG
1 ACTAAGTGTGCAAACCACGA-AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGCGTG
* * * * * * **
2731962 CAAAGTACGAAATTCATCATATGTTAATTAATAACCATTTCGACACTAAGTATGTAAAGTACAAA
65 CAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGT-TGAAAAGTA-TGA
* * *
2732027 ATTCATTATATGTTTATGAATAACCATTTTAG-
128 ATTCA-TCTATGTTCATGAATAACCATTTTGGA
** * * *
2732059 ACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAATCGTTTCGGCACTAAGCGTTC
1 ACTAAGTGTGCAAACCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGCGTGC
* * *
2732124 -AATTCACGGAATTCATCATATGTTGATGAATAACCGTTTTGGTACTAAGTGTGAAAAGTATGGA
66 AAAGT-ACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGT-TGAAAAGTAT-GA
2732188 ATTCATCTATGTTCATGAATAACCATTTTGGA
128 ATTCATCTATGTTCATGAATAACCATTTTGGA
* * * * * * * *
2732220 ACTATGTGTGCAACCCACGAAAATCATAATGA-GTTTATGAATGACCGTATAGGCACTA
1 ACTAAGTGTGCAAACCACGAAATTCATCAT-ATGTTGATGAATAACCGTTTCGGCACTA
2732278 CGTATGCATT
Statistics
Matches: 315, Mismatches: 57, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
160 26 0.08
161 154 0.49
162 133 0.42
163 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (159 bp):
ACTAAGTGTGCAAACCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGCGTGC
AAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTTGAAAAGTATGAATT
CATCTATGTTCATGAATAACCATTTTGGA
Found at i:2732931 original size:24 final size:25
Alignment explanation
Indices: 2732899--2732949 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
2732889 TTTAAATATC
*
2732899 TCTCTCAGTTTTCTGG-GCTTATTT
1 TCTCTCAGTTTTCTGGCCCTTATTT
2732923 TCTCTCAGTTTTCTGGCCCTTATTT
1 TCTCTCAGTTTTCTGGCCCTTATTT
2732948 TC
1 TC
2732950 AAATCAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.08, C:0.25, G:0.14, T:0.53
Consensus pattern (25 bp):
TCTCTCAGTTTTCTGGCCCTTATTT
Found at i:2733405 original size:20 final size:19
Alignment explanation
Indices: 2733383--2733422 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
2733373 CAAACTCCAA
*
2733383 TTATTA-TTTTATTCTA-T
1 TTATTATTTTTTTTCTACT
2733400 TTATTATTTTTTTTCTACT
1 TTATTATTTTTTTTCTACT
2733419 TTAT
1 TTAT
2733423 CTTTATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 9 0.45
19 5 0.25
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (19 bp):
TTATTATTTTTTTTCTACT
Found at i:2735763 original size:12 final size:12
Alignment explanation
Indices: 2735725--2735786 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
2735715 ATATCAGATA
2735725 TCAGAACAGAAT
1 TCAGAACAGAAT
*
2735737 CCA-AATCAGAA-
1 TCAGAA-CAGAAT
2735748 TCAGAACAGAAT
1 TCAGAACAGAAT
*
2735760 TCAGGTAAC-GTA-
1 TCA-G-AACAGAAT
2735772 TCAGAACAGAAT
1 TCAGAACAGAAT
2735784 TCA
1 TCA
2735787 ATTCGGAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
10 3 0.08
11 12 0.31
12 18 0.46
13 3 0.08
14 3 0.08
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (12 bp):
TCAGAACAGAAT
Found at i:2735798 original size:24 final size:25
Alignment explanation
Indices: 2735691--2735800 Score: 97
Period size: 24 Copynumber: 4.6 Consensus size: 25
2735681 GTAAACGGAG
* *
2735691 ATATCAGAAATCAAAATAGAATTC-
1 ATATCAGAAATCAGAACAGAATTCA
* *
2735715 ATATCAGATATCAGAACAGAATCCA
1 ATATCAGAAATCAGAACAGAATTCA
2735740 A-ATCAG-AATCAGAACAGAATTCA
1 ATATCAGAAATCAGAACAGAATTCA
* * *
2735763 GGTAAC-G-TATCAGAACAGAATTCA
1 -ATATCAGAAATCAGAACAGAATTCA
*
2735787 AT-TCGGAAATCAGA
1 ATATCAGAAATCAGA
2735801 TAAAATATTT
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
22 1 0.01
23 17 0.25
24 48 0.70
25 3 0.04
ACGTcount: A:0.48, C:0.16, G:0.15, T:0.21
Consensus pattern (25 bp):
ATATCAGAAATCAGAACAGAATTCA
Found at i:2737415 original size:24 final size:24
Alignment explanation
Indices: 2737374--2737432 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
2737364 GTAAACGGAG
2737374 ATATCAGAAATCAAAATAGAATTC
1 ATATCAGAAATCAAAATAGAATTC
* *
2737398 ATATCAGATAT-AAGAATAGAATCC
1 ATATCAGAAATCAA-AATAGAATTC
*
2737422 AAATCA-AAATC
1 ATATCAGAAATC
2737433 GGAACAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (24 bp):
ATATCAGAAATCAAAATAGAATTC
Found at i:2739928 original size:15 final size:16
Alignment explanation
Indices: 2739898--2739931 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
2739888 GGTCAACAGT
2739898 GGTCAACGTCGGTCAAC
1 GGTCAACG-CGGTCAAC
2739915 GGTCAACG-GGTCAAC
1 GGTCAACGCGGTCAAC
2739930 GG
1 GG
2739932 GTCGGGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.24, C:0.26, G:0.35, T:0.15
Consensus pattern (16 bp):
GGTCAACGCGGTCAAC
Found at i:2739939 original size:13 final size:13
Alignment explanation
Indices: 2739921--2739950 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2739911 CAACGGTCAA
*
2739921 CGGGTCAACGGGT
1 CGGGTCAACAGGT
2739934 CGGGTCAACAGGT
1 CGGGTCAACAGGT
2739947 CGGG
1 CGGG
2739951 CCAGGTAAAC
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:0.17, C:0.23, G:0.47, T:0.13
Consensus pattern (13 bp):
CGGGTCAACAGGT
Found at i:2739947 original size:8 final size:8
Alignment explanation
Indices: 2739888--2739934 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
2739878 TCAAAGTTTT
2739888 GGTCAACAG
1 GGTCAAC-G
2739897 TGGTCAACG
1 -GGTCAACG
2739906 TCGGTCAAC-
1 --GGTCAACG
2739915 GGTCAACG
1 GGTCAACG
2739923 GGTCAACG
1 GGTCAACG
2739931 GGTC
1 GGTC
2739935 GGGTCAACAG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 12 0.35
9 1 0.03
10 14 0.41
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:2742072 original size:24 final size:23
Alignment explanation
Indices: 2742036--2742107 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
2742026 GTAAACGGAG
2742036 ATATCAGAAATCAAAATAGAATTC
1 ATATCAG-AATCAAAATAGAATTC
* *
2742060 ATATCAGATATCATAATAGAATCC
1 ATATCAGA-ATCAAAATAGAATTC
* * *
2742084 AAATCAGAATCAGAACAGAATTC
1 ATATCAGAATCAAAATAGAATTC
2742107 A
1 A
2742108 GGTAACGTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 14 0.34
24 27 0.66
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (23 bp):
ATATCAGAATCAAAATAGAATTC
Found at i:2746696 original size:24 final size:24
Alignment explanation
Indices: 2746669--2746740 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
2746659 GTAAACGGAG
2746669 ATATCAAAAATCAAAACAGAATTC
1 ATATCAAAAATCAAAACAGAATTC
* * *
2746693 ATATCAGATATCAAAACAGAATCC
1 ATATCAAAAATCAAAACAGAATTC
* * *
2746717 AAAT-TAAAATCAGAACAGAATTC
1 ATATCAAAAATCAAAACAGAATTC
2746740 A
1 A
2746741 GGTAACGTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 15 0.38
24 24 0.62
ACGTcount: A:0.56, C:0.17, G:0.07, T:0.21
Consensus pattern (24 bp):
ATATCAAAAATCAAAACAGAATTC
Found at i:2749221 original size:13 final size:13
Alignment explanation
Indices: 2749203--2749232 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2749193 GTCGGTCAAC
*
2749203 GGTCAACGGGTCG
1 GGTCAACAGGTCG
2749216 GGTCAACAGGTCG
1 GGTCAACAGGTCG
2749229 GGTC
1 GGTC
2749233 GGGTCGGGTT
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:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:2751691 original size:16 final size:16
Alignment explanation
Indices: 2751659--2751710 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
2751649 TCGACATATG
2751659 GATCGAGTCAATATTA
1 GATCGAGTCAATATTA
*
2751675 GATCG-GTCAATTTTTA
1 GATCGAGTCAA-TATTA
* *
2751691 GTTCGAATCAATATTA
1 GATCGAGTCAATATTA
2751707 GATC
1 GATC
2751711 ATTTAGTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 5 0.17
16 20 0.69
17 4 0.14
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (16 bp):
GATCGAGTCAATATTA
Found at i:2751721 original size:32 final size:32
Alignment explanation
Indices: 2751661--2751725 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
2751651 GACATATGGA
* *
2751661 TCGAGTCAATATTAGATCGGTCAATTTTTAGT
1 TCGAATCAATATTAGATCAGTCAATTTTTAGT
* * *
2751693 TCGAATCAATATTAGATCATTTAGTTTTTAGT
1 TCGAATCAATATTAGATCAGTCAATTTTTAGT
2751725 T
1 T
2751726 TGGGTTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (32 bp):
TCGAATCAATATTAGATCAGTCAATTTTTAGT
Found at i:2758033 original size:27 final size:27
Alignment explanation
Indices: 2757995--2758054 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
2757985 AGAGTCAGTA
2757995 AGTGTCTATGTTAGTACATGCCCCTAG
1 AGTGTCTATGTTAGTACATGCCCCTAG
2758022 AGTGTCTATGTTAGTACATGCCCCTAG
1 AGTGTCTATGTTAGTACATGCCCCTAG
2758049 AGTGTC
1 AGTGTC
2758055 AAGAATACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (27 bp):
AGTGTCTATGTTAGTACATGCCCCTAG
Found at i:2769362 original size:30 final size:30
Alignment explanation
Indices: 2769328--2769386 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
2769318 GATTTATTTA
* * *
2769328 GTGACTAGATTATAAA-TTTGGTAAAGTTTT
1 GTGACTAAAGTATAAACTTT-GAAAAGTTTT
2769358 GTGACTAAAGTATAAACTTTGAAAAGTTT
1 GTGACTAAAGTATAAACTTTGAAAAGTTT
2769387 AGGGACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (30 bp):
GTGACTAAAGTATAAACTTTGAAAAGTTTT
Found at i:2772496 original size:25 final size:24
Alignment explanation
Indices: 2772454--2772500 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
2772444 GTTTATATGG
*
2772454 ATTGTACATTAGAGAGATTAGTGTA
1 ATTGTACATTACAGAGA-TAGTGTA
2772479 ATTGTACATTCACA-AGATAGTG
1 ATTGTACATT-ACAGAGATAGTG
2772501 AGGTTGCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 13 0.65
26 2 0.10
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (24 bp):
ATTGTACATTACAGAGATAGTGTA
Found at i:2774556 original size:20 final size:21
Alignment explanation
Indices: 2774519--2774570 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
2774509 TACTCAGAGT
*
2774519 AGTATCGATACCCTCCCATAGG
1 AGTATCGATA-CCTCCCATAAG
2774541 AGTATCGATA-CTCCCATAAG
1 AGTATCGATACCTCCCATAAG
*
2774561 AGTATGGATA
1 AGTATCGATA
2774571 ATGTAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 18 0.64
22 10 0.36
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (21 bp):
AGTATCGATACCTCCCATAAG
Found at i:2776031 original size:3 final size:3
Alignment explanation
Indices: 2776025--2776087 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
2776015 AAACAACAAC
2776025 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2776073 AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT A
2776088 TTGATATTTG
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2776360 original size:5 final size:5
Alignment explanation
Indices: 2776352--2776381 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
2776342 AAGCCTAGAC
*
2776352 TAGGG TAGGG TAGGG TAGGG CAGGG TAGGG
1 TAGGG TAGGG TAGGG TAGGG TAGGG TAGGG
2776382 ATTTTGATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.03, G:0.60, T:0.17
Consensus pattern (5 bp):
TAGGG
Found at i:2784985 original size:2 final size:2
Alignment explanation
Indices: 2784980--2785006 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2784970 TTAATTGAGT
2784980 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 T
2785007 TATTAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2786705 original size:14 final size:14
Alignment explanation
Indices: 2786675--2786721 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
2786665 ATAGATTAAG
*
2786675 AAATAAAT-ATAAAT
1 AAATAAATGA-AATT
*
2786689 AAATAAATGAATTT
1 AAATAAATGAAATT
*
2786703 AAATAAATTAAATT
1 AAATAAATGAAATT
2786717 AAATA
1 AAATA
2786722 GTATATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
AAATAAATGAAATT
Found at i:2786747 original size:5 final size:5
Alignment explanation
Indices: 2786739--2786787 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
2786729 ATTATATTAT
*
2786739 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATT ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATAT
2786788 ACATTTTTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATC
Found at i:2788512 original size:18 final size:18
Alignment explanation
Indices: 2788489--2788566 Score: 102
Period size: 18 Copynumber: 4.2 Consensus size: 18
2788479 AACTTTAACT
2788489 TTTCTTCTCTTCTTCTTC
1 TTTCTTCTCTTCTTCTTC
2788507 TTTCTTCTCTTCTTCTTC
1 TTTCTTCTCTTCTTCTTC
*
2788525 TTTCTTCCTCTTTTCTCTTC
1 TTTCTT-CTCTTCT-TCTTC
* *
2788545 TTTGTTCTCCTCTTCTTTC
1 TTTCTTCTCTTCTTC-TTC
2788564 TTT
1 TTT
2788567 TACTCCCAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
18 26 0.49
19 17 0.32
20 10 0.19
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTCTTCTCTTCTTCTTC
Found at i:2788517 original size:15 final size:15
Alignment explanation
Indices: 2788499--2788566 Score: 65
Period size: 13 Copynumber: 4.7 Consensus size: 15
2788489 TTTCTTCTCT
2788499 TCTTCTTCTTTCTTC
1 TCTTCTTCTTTCTTC
2788514 TCTTCTTC-TTCTT-
1 TCTTCTTCTTTCTTC
*
2788527 TCTTCCTC-TT-TTC
1 TCTTCTTCTTTCTTC
*
2788540 TCTTCTT-TGTTCTCC
1 TCTTCTTCT-TTCTTC
2788555 TCTTCTTTCTTT
1 TCTTC-TTCTTT
2788567 TACTCCCAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
12 2 0.05
13 15 0.34
14 7 0.16
15 15 0.34
16 4 0.09
17 1 0.02
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.66
Consensus pattern (15 bp):
TCTTCTTCTTTCTTC
Found at i:2788561 original size:3 final size:3
Alignment explanation
Indices: 2788490--2788546 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
2788480 ACTTTAACTT
*
2788490 TTC TTC -TC TTC TTC TTC TTTC TTC -TC TTC TTC TTC TTTC TTC CTC
1 TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC -TTC TTC TTC
2788535 TT- TTC -TC TTC TT
1 TTC TTC TTC TTC TT
2788547 TGTTCTCCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 8 0.17
3 32 0.70
4 6 0.13
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:2789205 original size:146 final size:144
Alignment explanation
Indices: 2788891--2789220 Score: 506
Period size: 146 Copynumber: 2.3 Consensus size: 144
2788881 GTTTTTCGTT
* *
2788891 GGGTGGGAAGAGCCAATCACGTTGCATGCAGAGAAAGGGTGATAATATGGAATGCCATGCGTCTT
1 GGGTGGGAAGAGCCAATCACGTTGCATGCAGAGAGAGGGTGAAAATATGGAATGCCATGCGTCTT
2788956 CGAGAGGGTTTTCCTTGGGTGTCGGTGCATGCATACAGAGAGGAATGAGAGGGGTTTTCATTGTG
66 CGAGAGGGTTTTCCTTGGGTGTCGGTGCATGCATACAGAGAGGAATGAGAGGGGTTTTCATTGTG
*
2789021 TGTTTATGCAAATG
131 TGTTCATGCAAATG
* * * *
2789035 GGGTGGGAAGAGCCAATCATGTTGCATGTAGAGAGGGGGTGAGAAGATGTTTGGAATGCCATGCG
1 GGGTGGGAAGAGCCAATCACGTTGCATGCAGAGAGAGGGTGA-AA-A--TATGGAATGCCATGCG
2789100 TCTTCG-G-GGAGTTTTCCTTGGGTGTCGGTGCATGCATACAGAGAGGAATGAGA-GGGTTTTCA
62 TCTTCGAGAGG-GTTTTCCTTGGGTGTCGGTGCATGCATACAGAGAGGAATGAGAGGGGTTTTCA
2789162 TTCG-GTGTTCATGCAAATG
126 TT-GTGTGTTCATGCAAATG
*
2789181 GGGTGGGAAGAACCAATCACGTTGCATGCAGAGAGAGGGT
1 GGGTGGGAAGAGCCAATCACGTTGCATGCAGAGAGAGGGT
2789221 AGGGGTTTTC
Statistics
Matches: 169, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
144 38 0.22
145 1 0.01
146 64 0.38
147 45 0.27
148 21 0.12
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.26
Consensus pattern (144 bp):
GGGTGGGAAGAGCCAATCACGTTGCATGCAGAGAGAGGGTGAAAATATGGAATGCCATGCGTCTT
CGAGAGGGTTTTCCTTGGGTGTCGGTGCATGCATACAGAGAGGAATGAGAGGGGTTTTCATTGTG
TGTTCATGCAAATG
Found at i:2789624 original size:24 final size:24
Alignment explanation
Indices: 2789597--2789645 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
2789587 GATGCAATGG
2789597 TGCATTTAAGCATTTTAATATTTA
1 TGCATTTAAGCATTTTAATATTTA
*
2789621 TGCATTTAAGCCTTTTAATATTTA
1 TGCATTTAAGCATTTTAATATTTA
2789645 T
1 T
2789646 CTCTACATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (24 bp):
TGCATTTAAGCATTTTAATATTTA
Found at i:2791511 original size:24 final size:24
Alignment explanation
Indices: 2791484--2791536 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
2791474 ACTAACCATT
*
2791484 CTTCCGGGTGACCCTAAGGGTCCG
1 CTTCCGGGTGACCCTAAGGGTCCA
*
2791508 CTTCCGGGTGACCCTAAGTGTCCA
1 CTTCCGGGTGACCCTAAGGGTCCA
2791532 CTTCC
1 CTTCC
2791537 AGGAACCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.13, C:0.36, G:0.26, T:0.25
Consensus pattern (24 bp):
CTTCCGGGTGACCCTAAGGGTCCA
Found at i:2794001 original size:20 final size:20
Alignment explanation
Indices: 2793976--2794015 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2793966 AATAACGATG
2793976 AGCATCACTAACGACGAGTA
1 AGCATCACTAACGACGAGTA
*
2793996 AGCATCATTAACGACGAGTA
1 AGCATCACTAACGACGAGTA
2794016 CTATTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
AGCATCACTAACGACGAGTA
Found at i:2806036 original size:21 final size:18
Alignment explanation
Indices: 2805986--2806029 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
2805976 CAACGTTAGG
*
2805986 CTCAAGCTTCTTCAAAGC
1 CTCAAGATTCTTCAAAGC
2806004 CTCAAGATTCTTCAAAGC
1 CTCAAGATTCTTCAAAGC
2806022 CTCAAGAT
1 CTCAAGAT
2806030 GACTCTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (18 bp):
CTCAAGATTCTTCAAAGC
Found at i:2810655 original size:15 final size:15
Alignment explanation
Indices: 2810635--2810671 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
2810625 AATAAGTTTG
*
2810635 AAAGTACTCACTTGA
1 AAAGTACTCACATGA
2810650 AAAGTACTCACATGA
1 AAAGTACTCACATGA
2810665 AAAGTAC
1 AAAGTAC
2810672 ATATAATGAT
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:0.46, C:0.19, G:0.14, T:0.22
Consensus pattern (15 bp):
AAAGTACTCACATGA
Found at i:2824731 original size:24 final size:24
Alignment explanation
Indices: 2824700--2824771 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
2824690 GATACATGAC
*
2824700 CTGAATTCTGTTCTGATTTATTAT
1 CTGAATTCTGTTATGATTTATTAT
* * * *
2824724 CTGGATTCTGTTATGATATCTGAT
1 CTGAATTCTGTTATGATTTATTAT
*
2824748 CTGAATTCTGTTTTGATTTATTAT
1 CTGAATTCTGTTATGATTTATTAT
2824772 ATCTCTGTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.21, C:0.11, G:0.15, T:0.53
Consensus pattern (24 bp):
CTGAATTCTGTTATGATTTATTAT
Found at i:2829483 original size:24 final size:24
Alignment explanation
Indices: 2829456--2829519 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
2829446 ATTTTCGACT
2829456 TGAATTCTGTTTTGATA-CATGACC
1 TGAATTCTGTTTTGATATC-TGACC
* *
2829480 TGAATTCTGTTATGATATCTGATC
1 TGAATTCTGTTTTGATATCTGACC
2829504 TGAATTCTGTTTTGAT
1 TGAATTCTGTTTTGAT
2829520 TTATTATATC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 35 0.97
25 1 0.03
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.47
Consensus pattern (24 bp):
TGAATTCTGTTTTGATATCTGACC
Found at i:2831659 original size:182 final size:177
Alignment explanation
Indices: 2831151--2831677 Score: 461
Period size: 182 Copynumber: 2.9 Consensus size: 177
2831141 TTACTAATTT
* * * * * * *
2831151 TTGTCACAAATATTTCCCTCCAATTTTTTGACGCCAAATTGAAGGCATATAATGACAACTTTTGT
1 TTGTCACAAAGATTTTCCTCCAATTTTTTTACGCCAAA-TAAAGTCATATAGTGACAAATTTTGT
* * * * * * *
2831216 AACTAAAAGTTTTAGTAACTATGACAAAAAAATGTCACAACAAATAATGAGATTTAGATTTGTTG
65 AACTATAAG-TTTAATAATTATTACAAAAAATTTTCACAACAAATAATGAGATTCAG-TTT-TTG
* * * * *
2831281 TGACAAATTTTGTTTGTAATTATATATTTTAA-TTATAGTGACAAAATGTA
127 TGACAAATTATATTTGTAGTTATATATTTTAACTTATACTGACAAAATATA
* * * ** * * * *
2831331 TAGTCACAAATGATTAT-CTCCAATTTTTGGTAC-AAAAACAAATTCATATAGTGCCATATTTTG
1 TTGTCACAAA-GATTTTCCTCCAATTTTT-TTACGCCAAATAAAGTCATATAGTGACAAATTTTG
* * * * * *
2831394 TAACTATAAGCTATAATTATTGTTACAAAAGAATTGTT-TCAACAAATAAAGAGAATCAAGTTTT
64 TAACTATAAG-TTTAATAATTATTACAAAA-AATT-TTCACAACAAATAATGAGATTC-AGTTTT
* * * * *
2831458 TAGTAAAAAAATAATATTTGTCGTTATATGTTTTAACTTATACTGACAAAATATA
125 T-GT-GACAAATTATATTTGTAGTTATATATTTTAACTTATACTGACAAAATATA
*
2831513 TTGTCACAAAGATTTTCCTCCAGATTTGTTTTACGCCAAA-AAAGTAATATAGTGACAAATTTTG
1 TTGTCACAAAGATTTTCCTCCA-ATTT-TTTTACGCCAAATAAAGTCATATAGTGACAAATTTTG
* * *
2831577 TAACTATAAGTGTTAATAATTATTATAAAAAACTTTATCACAAAAAATAATGATATTCACGTTTT
64 TAACTATAAGT-TTAATAATTATTACAAAAAA-TTT-TCACAACAAATAATGAGATTCA-GTTTT
*
2831642 TGTGACAAATTATATTTGTAGTTATAAATTTTAACT
125 TGTGACAAATTATATTTGTAGTTATATATTTTAACT
2831678 ATAGTGATAG
Statistics
Matches: 266, Mismatches: 64, Indels: 32
0.73 0.18 0.09
Matches are distributed among these distances:
179 41 0.15
180 46 0.17
181 36 0.14
182 61 0.23
183 57 0.21
184 25 0.09
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (177 bp):
TTGTCACAAAGATTTTCCTCCAATTTTTTTACGCCAAATAAAGTCATATAGTGACAAATTTTGTA
ACTATAAGTTTAATAATTATTACAAAAAATTTTCACAACAAATAATGAGATTCAGTTTTTGTGAC
AAATTATATTTGTAGTTATATATTTTAACTTATACTGACAAAATATA
Found at i:2832248 original size:412 final size:418
Alignment explanation
Indices: 2831503--2832283 Score: 1076
Period size: 412 Copynumber: 1.9 Consensus size: 418
2831493 ACTTATACTG
* * *
2831503 ACAAAATATATTGTCACAAAGATTTTCCTCCAGATTTGTTTTACGCCAAAAAAGTAATATAGTGA
1 ACAAAATATATTGTCACAAAGATTTTCCTCCAGATTTATTTTACACCAAAAAAGTAATATAGTAA
* * *
2831568 CAAATTTTGTAACTATAAGTGTTAATAATTATTATAAAAAACTTTATCACAAAAAATAATGATAT
66 CAAATTTTGTAACTATAAGTGTTAACAATTATTACAAAAAACATTATCACAAAAAATAATGATA-
* * * *
2831633 TCACGTTTTTGTGACAAATTATATTTGTAGTTATAAATTTTAACTATAGTGATAGCATATATTAA
130 TCAC-TTTTTGTAACAAATCATACTTGTAGTTATAAATTTTAACTATAGTGATA-CACATATTAA
* *** ** *
2831698 TTGTCATAACTATTTTTCTCCACTTTTTTGTTTCAAAAGTTATATTGACAATTTTTATAATTATA
193 TTGTCATAAATATTTTTCTCCACTTTTTTGCCCCAAAAACTATATTGACAAGTTTTATAATTATA
2831763 ATTTATAACTAGTGTTATAGAAAAAATTATCACATCAAATAAGAAAATTCAAGTTTTTTGTAATA
258 ATTTATAACTAGTGTTATAGAAAAAATTATCACATCAAATAAGAAAATTCAAGTTTTTTGTAATA
*
2831828 AATTATTTTTTTACTTATATATTTTAATCATTATGAAAAATTATACTATCAGAACCATTTCTCCC
323 AATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAGAACCATTTCTCCC
2831893 TATTTTTTAATGTAAAAAATGTTATATAGTA
388 TATTTTTTAATGTAAAAAATGTTATATAGTA
* * * * *
2831924 ACAAAATATATTGTCATAAAGATTTTTCTCCATATTTATTTTGCACCAAAAAA-TCATATAGTAA
1 ACAAAATATATTGTCACAAAGATTTTCCTCCAGATTTATTTTACACCAAAAAAGTAATATAGTAA
* * * *
2831988 CTATTTTTGTAACTATAAGTGTTTACAATTATTACAAAAAACATTGTCACAAAAAATAATGGA-A
66 CAAATTTTGTAACTATAAGTGTTAACAATTATTACAAAAAACATTATCACAAAAAATAAT-GATA
* * *
2832052 -CA-TTTTTGTAAGAAATCATACTTGTAGTTATAAATTTTCATTATAGTGATA-ACATA-T-ATT
130 TCACTTTTTGTAACAAATCATACTTGTAGTTATAAATTTTAACTATAGTGATACACATATTAATT
* * *
2832112 GTGATAAATATTTTTCTCCACTTTTTT-CCCCAAAAAACTATATTGATAAGTTTTGTAATTATAA
195 GTCATAAATATTTTTCTCCACTTTTTTGCCCC-AAAAACTATATTGACAAGTTTTATAATTATAA
** * * * *
2832176 TTTATAGTTATTGTTATA-AAAAAATTATCACATCAGATAATAAAATTCAAGTTTTTTTGTAATC
259 TTTATAACTAGTGTTATAGAAAAAATTATCACATCAAATAAGAAAATTCAAG-TTTTTTGTAATA
* *
2832240 ATTTATTTTTGTAGTTATATATTTTAATCATTATGAAAAATTAT
323 AATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTAT
2832284 TCACTTTAAC
Statistics
Matches: 316, Mismatches: 41, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
411 32 0.10
412 122 0.39
413 1 0.00
414 4 0.01
416 43 0.14
418 2 0.01
420 63 0.20
421 49 0.16
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.42
Consensus pattern (418 bp):
ACAAAATATATTGTCACAAAGATTTTCCTCCAGATTTATTTTACACCAAAAAAGTAATATAGTAA
CAAATTTTGTAACTATAAGTGTTAACAATTATTACAAAAAACATTATCACAAAAAATAATGATAT
CACTTTTTGTAACAAATCATACTTGTAGTTATAAATTTTAACTATAGTGATACACATATTAATTG
TCATAAATATTTTTCTCCACTTTTTTGCCCCAAAAACTATATTGACAAGTTTTATAATTATAATT
TATAACTAGTGTTATAGAAAAAATTATCACATCAAATAAGAAAATTCAAGTTTTTTGTAATAAAT
TATTTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAGAACCATTTCTCCCTAT
TTTTTAATGTAAAAAATGTTATATAGTA
Found at i:2835376 original size:32 final size:32
Alignment explanation
Indices: 2835333--2835471 Score: 93
Period size: 33 Copynumber: 4.3 Consensus size: 32
2835323 ATCACAATAT
*
2835333 TTTATCGAAATAAAAAATTGTAACAAAT-TTA
1 TTTATCAAAATAAAAAATTGTAACAAATATTA
* * *
2835364 TTTAATCAAAATAATAATTTATAACAAATATTAA
1 TTT-ATCAAAATAAAAAATTGTAACAAATATT-A
* ** * * *
2835398 TTTCTCATTATAAAAAATTGTGACAAGTAATA
1 TTTATCAAAATAAAAAATTGTAACAAATATTA
* * * * *
2835430 TTGTTTCACAATAACAAATTGTAA-AAAAATGA
1 TT-TATCAAAATAAAAAATTGTAACAAATATTA
2835462 TTTAGTCAAA
1 TTTA-TCAAA
2835472 TAACACGTTA
Statistics
Matches: 79, Mismatches: 24, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
31 4 0.05
32 34 0.43
33 37 0.47
34 4 0.05
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (32 bp):
TTTATCAAAATAAAAAATTGTAACAAATATTA
Found at i:2835563 original size:197 final size:197
Alignment explanation
Indices: 2835222--2835665 Score: 620
Period size: 197 Copynumber: 2.2 Consensus size: 197
2835212 TTATTTAGTT
* * * * * * *
2835222 ACAAATAATATTCTTTCACAATAATAAAGTGTAACAAATTTATTTAGTTACAATAACATAG-TAA
1 ACAAATAATATTCTTTCACAATAACAAATTGTAAAAAAATGATTTAGTCA-AATAACA-CGTTAA
* ** * * ** * * *
2835286 ATTTAGTCAAAATAAAATTTTATGTCAAATTTATTTTATCACAATATTTTATCGAAATAAAAAAT
64 GTTTTCTCATAGTAAAAAGTTACGTCAAATTTATTTCATCACAATATTTTATCAAAATAAAAAAT
*
2835351 TGTAACAAATTTATTTAATCAAAATAATAATTTATAACAAATATTAATTTCTCATTATAAAAAAT
129 TGTAACAAATTTATTTAATCAAAATAATAAATTATAACAAATATTAATTTCTCATTATAAAAAAT
2835416 TGTG
194 TGTG
* *
2835420 ACAAGTAATATTGTTTCACAATAACAAATTGTAAAAAAATGATTTAGTCAAATAACACGTTAAGT
1 ACAAATAATATTCTTTCACAATAACAAATTGTAAAAAAATGATTTAGTCAAATAACACGTTAAGT
* * *
2835485 TTTCTCATAGTAAAAAGTTACGTCAAATTTATTTCGTCCCAATATTTTATCAAAATGAAAAATTG
66 TTTCTCATAGTAAAAAGTTACGTCAAATTTATTTCATCACAATATTTTATCAAAATAAAAAATTG
*
2835550 TGACAAATTTATTTAATCAAAATAATAAATTATAACAAATATTAATTTCTCATTATAAAAAATTG
131 TAACAAATTTATTTAATCAAAATAATAAATTATAACAAATATTAATTTCTCATTATAAAAAATTG
2835615 TG
196 TG
* * *
2835617 ACAAATAATATTCTTTCACAATAACTAATTGTAACAAAATTATTTAGTC
1 ACAAATAATATTCTTTCACAATAACAAATTGTAAAAAAATGATTTAGTC
2835666 GCAGTAAAAA
Statistics
Matches: 216, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
196 1 0.00
197 173 0.80
198 42 0.19
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.37
Consensus pattern (197 bp):
ACAAATAATATTCTTTCACAATAACAAATTGTAAAAAAATGATTTAGTCAAATAACACGTTAAGT
TTTCTCATAGTAAAAAGTTACGTCAAATTTATTTCATCACAATATTTTATCAAAATAAAAAATTG
TAACAAATTTATTTAATCAAAATAATAAATTATAACAAATATTAATTTCTCATTATAAAAAATTG
TG
Found at i:2835621 original size:33 final size:33
Alignment explanation
Indices: 2835527--2835662 Score: 100
Period size: 33 Copynumber: 4.2 Consensus size: 33
2835517 TTCGTCCCAA
* *
2835527 TATTTTATCAAAATGAAAAATTGTGACAAAT-T
1 TATTTAATCAAAATAAAAAATTGTGACAAATAT
* * *
2835559 TATTTAATCAAAATAATAAATTATAACAAATAT
1 TATTTAATCAAAATAAAAAATTGTGACAAATAT
* ** *
2835592 TAATTT-CTCATTATAAAAAATTGTGACAAATAA
1 T-ATTTAATCAAAATAAAAAATTGTGACAAATAT
* * ** *
2835625 TATTCT-TTCACAATAACTAATTGTAACAAA-AT
1 TATT-TAATCAAAATAAAAAATTGTGACAAATAT
2835657 TATTTA
1 TATTTA
2835663 GTCGCAGTAA
Statistics
Matches: 81, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
31 1 0.01
32 34 0.42
33 42 0.52
34 4 0.05
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (33 bp):
TATTTAATCAAAATAAAAAATTGTGACAAATAT
Found at i:2835654 original size:98 final size:97
Alignment explanation
Indices: 2835328--2835662 Score: 247
Period size: 98 Copynumber: 3.4 Consensus size: 97
2835318 ATTTTATCAC
* * *
2835328 AATATTTTATCGA-AATAAAAAATTGTAACAAATTTATTTAATCAAAATAATAATTTATAACAAA
1 AATATTTT-TC-ACAATAACAAATTGTAACAAAATTATTTAATCAAAATAATAAATTATAACAAA
*
2835392 TATTAATTTCTCATTATAAAAAATTGTGACAAGT
64 TATTAATTTCTCATTATAAAAAATTGTGACAAAT
* * * * * **
2835426 AATATTGTTTCACAATAACAAATTGTAAAAAAATGATTTAGTC-AAATAACACGTTAAGTTTTCT
1 AATATT-TTTCACAATAACAAATTGTAACAAAATTATTTAATCAAAAT-A-A---TAAATTATAA
* ** * *** * * *
2835490 CATAGTAAAAAGTTACGTCA--A-ATTTATTTCGT-CCCAAT
60 CA-AATATTAA-TTTC-TCATTATAAAAAATT-GTGACAAAT
* * * *
2835528 -AT-TTTATCAAAATGAA-AAATTGTGACAAATTTATTTAATCAAAATAATAAATTATAACAAAT
1 AATATTTTTCACAAT-AACAAATTGTAACAAAATTATTTAATCAAAATAATAAATTATAACAAAT
2835590 ATTAATTTCTCATTATAAAAAATTGTGACAAAT
65 ATTAATTTCTCATTATAAAAAATTGTGACAAAT
*
2835623 AATATTCTTTCACAATAACTAATTGTAACAAAATTATTTA
1 AATATT-TTTCACAATAACAAATTGTAACAAAATTATTTA
2835663 GTCGCAGTAA
Statistics
Matches: 170, Mismatches: 46, Indels: 42
0.66 0.18 0.16
Matches are distributed among these distances:
92 3 0.02
93 3 0.02
94 8 0.05
95 16 0.09
96 2 0.01
97 9 0.05
98 60 0.35
99 30 0.18
100 8 0.05
101 2 0.01
102 15 0.09
103 8 0.05
104 3 0.02
105 3 0.02
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (97 bp):
AATATTTTTCACAATAACAAATTGTAACAAAATTATTTAATCAAAATAATAAATTATAACAAATA
TTAATTTCTCATTATAAAAAATTGTGACAAAT
Found at i:2837071 original size:9 final size:9
Alignment explanation
Indices: 2837052--2837108 Score: 60
Period size: 9 Copynumber: 6.3 Consensus size: 9
2837042 CAAAATAGTG
*
2837052 ATAATATTA
1 ATAATAATA
*
2837061 ATATTAATA
1 ATAATAATA
*
2837070 ATAATGATA
1 ATAATAATA
*
2837079 ATAATAGTA
1 ATAATAATA
2837088 ATAATAATA
1 ATAATAATA
**
2837097 ATTGTAATA
1 ATAATAATA
2837106 ATA
1 ATA
2837109 TTTAAAAGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (9 bp):
ATAATAATA
Found at i:2837079 original size:6 final size:6
Alignment explanation
Indices: 2837052--2837108 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
2837042 CAAAATAGTG
* * * * *
2837052 ATAATA TTAATA TTAATA ATAATG ATAATA ATAGTA ATAATA ATAATT
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
*
2837100 GTAATA ATA
1 ATAATA ATA
2837109 TTTAAAAGAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (6 bp):
ATAATA
Found at i:2841077 original size:23 final size:21
Alignment explanation
Indices: 2841050--2841112 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 21
2841040 TGAAAGAGAC
2841050 AATATTTTCAAAACTTTTGATT
1 AATATTTTCAAAACTTTT-ATT
*
2841072 AAATATTTTTCGAAACTCTTTATT
1 -AATA-TTTTCAAAACT-TTTATT
* *
2841096 GATATTTTCAGAACTTT
1 AATATTTTCAAAACTTT
2841113 GAAAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.06
22 9 0.26
23 7 0.21
24 13 0.38
25 3 0.09
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.49
Consensus pattern (21 bp):
AATATTTTCAAAACTTTTATT
Found at i:2841906 original size:106 final size:106
Alignment explanation
Indices: 2841777--2842344 Score: 947
Period size: 106 Copynumber: 5.4 Consensus size: 106
2841767 ATATCGTGCC
* * * * *
2841777 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2841842 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * *
2841883 ACTCCAGACAACATAAGTTCAACTACACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2841948 AATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2841989 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2842054 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2842095 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2842160 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2842201 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2842266 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
2842307 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
2842345 TCAGAGCCAA
Statistics
Matches: 432, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 432 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:2842342 original size:43 final size:42
Alignment explanation
Indices: 2842281--2842417 Score: 125
Period size: 43 Copynumber: 3.5 Consensus size: 42
2842271 CAGAGCCAAT
*
2842281 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATA-TGGACTCCAGACAACGCAAG
* *
2842324 TTCAACTTCACGACGAA-G----GGA-T-CAG--AGC-CAAT
1 TTCAACTTCACGACGAAGGATATGGACTCCAGACAACGCAAG
* *
2842356 TTCAACTTCAC-AGCGAAGGATAGTAGACTCAAGACAACGCAAG
1 TTCAACTTCACGA-CGAAGGATA-TGGACTCCAGACAACGCAAG
2842399 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
2842418 GACCGCTGGT
Statistics
Matches: 74, Mismatches: 7, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
31 1 0.01
32 18 0.24
33 3 0.04
35 3 0.04
36 1 0.01
37 3 0.04
38 2 0.03
39 1 0.01
40 2 0.03
42 3 0.04
43 36 0.49
44 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.18
Consensus pattern (42 bp):
TTCAACTTCACGACGAAGGATATGGACTCCAGACAACGCAAG
Found at i:2842393 original size:75 final size:75
Alignment explanation
Indices: 2842270--2842419 Score: 264
Period size: 75 Copynumber: 2.0 Consensus size: 75
2842260 CTTCTCAATT
* * *
2842270 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
2842335 GACGAAGGGA
66 GACGAAGGGA
*
2842345 TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
2842410 GACGAAGGGA
66 GACGAAGGGA
2842420 CCGCTGGTTG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (75 bp):
TCAGAGCCAATTTCAACTTCACAACGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
GACGAAGGGA
Found at i:2842406 original size:287 final size:287
Alignment explanation
Indices: 2842058--2842631 Score: 977
Period size: 287 Copynumber: 2.0 Consensus size: 287
2842048 TTTCCCAATT
* * *
2842058 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCAT
1 TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
* * *
2842123 GACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
66 GACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
* *
2842188 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
131 CGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAA
*
2842253 CAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
196 CAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
2842318 CGCAAGTTCAACTTCACGACGAAGGGA
261 CGCAAGTTCAACTTCACGACGAAGGGA
2842345 TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
* *
2842410 GACGAAGGGACCGCTGGTTGTCAACAAAAAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAA
66 GACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
*
2842475 CGAAAGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAA
131 CGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAA
* * * * * *
2842540 CAAATAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCCAGGCAA
196 CAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
*
2842605 CGCAAGTTCAACTTCACGATGAAGGGA
261 CGCAAGTTCAACTTCACGACGAAGGGA
2842632 CCGCTGGTTG
Statistics
Matches: 268, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
287 268 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (287 bp):
TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
CGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAA
CAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
CGCAAGTTCAACTTCACGACGAAGGGA
Found at i:2842468 original size:181 final size:181
Alignment explanation
Indices: 2842164--2842525 Score: 643
Period size: 181 Copynumber: 2.0 Consensus size: 181
2842154 CTTCCCAATT
* * *
2842164 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
* *
2842229 GACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAA
66 GACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
*
2842294 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
131 CGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
2842345 TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
* *
2842410 GACGAAGGGACCGCTGGTTGTCAACAAAAAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAA
66 GACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
*
2842475 CGAAAGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
131 CGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
2842526 CCGCTAGTTG
Statistics
Matches: 172, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
181 172 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (181 bp):
TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
CGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
Found at i:2842536 original size:106 final size:107
Alignment explanation
Indices: 2842345--2843019 Score: 997
Period size: 106 Copynumber: 6.4 Consensus size: 107
2842335 GACGAAGGGA
* * * *
2842345 TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGAC-TCAAGACAACGCAAGTTCAACTTCA
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGAGACAACGCAAGTTCAACTTCA
*
2842409 CGACGAAGGGACCGCTGGTTGTCAACAAAAAATTTCCCAATT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
* *
2842451 TCGGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTTC-AGACAACGCAAGTTCAACTTCA
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGAGACAACGCAAGTTCAACTTCA
* *
2842515 CGACGAAGGGACCGCTAGTTGTCAACAAATAATTTCCCAATT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
* * * * *
2842557 TCGGAGCCAATTTCAACTTCACAGCGAATGATATTGGAC-TCCAGGCAACGCAAGTTCAACTTCA
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGAGACAACGCAAGTTCAACTTCA
* *
2842621 CGATGAAGGGACCGCTGGTTGTCAACAAACAACTTT-TCAATT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCCCAATT
* * *
2842663 TCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGAC-TCCAGATAACGCAAGTTCAACTTCA
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGAGACAACGCAAGTTCAACTTCA
*
2842727 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
* ** *
2842769 TCATAGTTAATTTCAACTTCACAGCGAAGGATATTGGAC-TCGAGACAACGCAAGTTCAACTTCA
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGAGACAACGCAAGTTCAACTTCA
2842833 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
* * *
2842875 TCGGAGCCAATTTCAACTTCACAACAAAGGATATTGGA-TTCGAGACAACACAAGTTCAACTTCA
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGAGACAACGCAAGTTCAACTTCA
* *
2842939 CAACGAAGGGA-CGCTGGTTGTCAACAAACAATTTCCCGATT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
* * *
2842980 CCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACT
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
2843020 CGGAACAATG
Statistics
Matches: 520, Mismatches: 43, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
105 66 0.13
106 449 0.86
107 5 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (107 bp):
TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
Found at i:2842784 original size:499 final size:499
Alignment explanation
Indices: 2841846--2842843 Score: 1672
Period size: 499 Copynumber: 2.0 Consensus size: 499
2841836 CTTCCCAAAT
* * * *
2841846 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACATAAGTTCAACTACAC
1 TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACACAAGTTCAACTACAC
* * * *
2841911 GATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCATAGCCAATTTCAACTTCACAA
66 GACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
* *
2841976 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAA
131 CGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGCTGTCAA
*
2842041 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAA
196 CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAA
* *
2842106 CGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGC
261 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
*
2842171 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
326 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
2842236 GGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
391 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
2842301 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
456 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* *
2842345 TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACACAAGTTCAACTACAC
* *
2842410 GACGAAGGGACCGCTGGTTGTCAACAAAAAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAA
66 GACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
* *
2842475 CGAAAGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAA
131 CGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGCTGTCAA
* * * * *
2842540 CAAATAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCCAGGCAA
196 CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAA
* ** *
2842605 CGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTTTCAATTTCAGAGT
261 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
*
2842670 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACGAAG
326 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* ** *
2842735 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCATAGTTAATTTCAACTTCACAGCGAAGGA
391 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
*
2842800 TATTGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGA
456 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
2842844 CCGCTGGTTG
Statistics
Matches: 463, Mismatches: 36, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
499 463 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (499 bp):
TCAGAGCCAATTTCAACTTCACAGCGAAGGATAGTAGACTCAAGACAACACAAGTTCAACTACAC
GACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
CGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGCTGTCAA
CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAA
CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
Found at i:2842931 original size:605 final size:605
Alignment explanation
Indices: 2841777--2842949 Score: 1925
Period size: 605 Copynumber: 1.9 Consensus size: 605
2841767 ATATCGTGCC
* *
2841777 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAACTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCC
* * *
2841842 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACATAAGTTCAACT
66 AAATTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACACAAGTTCAACT
* * * *
2841907 ACACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCATAGCCAATTTCAACTTC
131 ACACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
2841972 ACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTG
196 ACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTG
* *
2842037 TCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAG
261 TCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAG
* *
2842102 ACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCA
326 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA
2842167 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
391 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
* *
2842232 GAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
456 GAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACAA
* *
2842297 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATCAGAGCCAATTTCAAC
521 AGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGATCAGAGCCAATTTCAAC
2842362 TTCACAGCGAAGGATAGTAG
586 TTCACAGCGAAGGATAGTAG
* * *
2842382 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAATTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCC
* * * *
2842447 AATTTCGGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTTCAGACAACGCAAGTTCAACT
66 AAATTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACACAAGTTCAACT
* * * *
2842512 TCACGACGAAGGGACCGCTAGTTGTCAACAAATAATTTCCCAATTTCGGAGCCAATTTCAACTTC
131 ACACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* * * * *
2842577 ACAGCGAATGATATTGGACTCCAGGCAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTG
196 ACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTG
* * *
2842642 TCAACAAACAACTTT-TCAATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
261 TCAACAAACAA-TTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAA
*
2842706 GATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
325 GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* ** *
2842771 ATAGTTAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGA
390 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2842836 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAACA
455 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACA
* *
2842901 AAGGATATTGGATTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA
520 AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGA
2842950 CGCTGGTTGT
Statistics
Matches: 522, Mismatches: 45, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
605 519 0.99
606 3 0.01
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (605 bp):
ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCC
AAATTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACACAAGTTCAACT
ACACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
ACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTG
TCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAG
ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA
GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
GAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACAA
AGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGATCAGAGCCAATTTCAAC
TTCACAGCGAAGGATAGTAG
Found at i:2843858 original size:37 final size:37
Alignment explanation
Indices: 2843768--2843864 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
2843758 CCTTTTCGTC
2843768 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* * *
2843805 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
** *
2843842 CTACTATTATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
2843865 GATAGGATCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.33
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
Found at i:2846198 original size:18 final size:16
Alignment explanation
Indices: 2846162--2846212 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
2846152 TTCAATTTAT
2846162 TATATATTTTTATATA
1 TATATATTTTTATATA
*
2846178 TATATCATTTTTATCTCA
1 TATAT-ATTTTTATAT-A
* *
2846196 TATATATATATATATA
1 TATATATTTTTATATA
2846212 T
1 T
2846213 TTACTTGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 7 0.24
17 16 0.55
18 6 0.21
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATATTTTTATATA
Found at i:2846247 original size:5 final size:5
Alignment explanation
Indices: 2846237--2846337 Score: 73
Period size: 5 Copynumber: 18.8 Consensus size: 5
2846227 ATATATTCTC
*
2846237 TTTTA TTTTA TTTTTA TCTTTA CTTTTTA TTATTA TTATA TTTTA TTTTA
1 TTTTA TTTTA -TTTTA T-TTTA --TTTTA TT-TTA TTTTA TTTTA TTTTA
*
2846287 TTTTA TCTTTTA TTCTTA TTTTTA ATTTA --TTA TTTTA TTTTGA -TTTA
1 TTTTA --TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA
2846334 TTTT
1 TTTT
2846338 TCTCCTTCTT
Statistics
Matches: 80, Mismatches: 3, Indels: 26
0.73 0.03 0.24
Matches are distributed among these distances:
3 3 0.04
4 1 0.01
5 43 0.54
6 21 0.26
7 11 0.14
8 1 0.01
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:2846253 original size:6 final size:6
Alignment explanation
Indices: 2846237--2846332 Score: 69
Period size: 6 Copynumber: 16.3 Consensus size: 6
2846227 ATATATTCTC
* * *
2846237 TTTTA- TTTTAT TTTTAT CTTTACT TTTTAT TATTA- TTATA- TTTTA-
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT
* *
2846282 TTTTA- TTTTAT CTTTTAT TCTTAT TTTTAAT TTATTA- TTTTAT TTTGAT
1 TTTTAT TTTTAT -TTTTAT TTTTAT TTTT-AT TT-TTAT TTTTAT TTTTAT
2846331 TT
1 TT
2846333 ATTTTTCTCC
Statistics
Matches: 75, Mismatches: 9, Indels: 13
0.77 0.09 0.13
Matches are distributed among these distances:
5 25 0.33
6 32 0.43
7 16 0.21
8 2 0.03
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:2846265 original size:13 final size:11
Alignment explanation
Indices: 2846237--2846338 Score: 90
Period size: 10 Copynumber: 9.4 Consensus size: 11
2846227 ATATATTCTC
2846237 TTTTATTTTAT
1 TTTTATTTTAT
2846248 TTTTATCTTTACT
1 TTTTAT-TTTA-T
2846261 TTTTATTATTA-
1 TTTTATT-TTAT
*
2846272 TTATATTTTA-
1 TTTTATTTTAT
2846282 TTTTATTTTAT
1 TTTTATTTTAT
2846293 CTTTTATTCTTAT
1 -TTTTATT-TTAT
*
2846306 TTTTAATTTA-
1 TTTTATTTTAT
2846316 --TTATTTTAT
1 TTTTATTTTAT
*
2846325 TTTGA-TTTAT
1 TTTTATTTTAT
2846335 TTTT
1 TTTT
2846339 CTCCTTCTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
8 7 0.09
10 20 0.26
11 17 0.22
12 18 0.24
13 14 0.18
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.75
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:2846306 original size:33 final size:35
Alignment explanation
Indices: 2846240--2846306 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 35
2846230 TATTCTCTTT
2846240 TATTTTATTTTTATCTTTACTTTTTATTATTATTA
1 TATTTTATTTTTATCTTTACTTTTTATTATTATTA
*
2846275 TATTTTA-TTTTAT-TTTA-TCTTTTATTCTTATT
1 TATTTTATTTTTATCTTTACT-TTTTATTATTATT
2846307 TTTAATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 1 0.03
33 16 0.53
34 6 0.20
35 7 0.23
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (35 bp):
TATTTTATTTTTATCTTTACTTTTTATTATTATTA
Found at i:2846319 original size:47 final size:45
Alignment explanation
Indices: 2846212--2846337 Score: 129
Period size: 45 Copynumber: 2.8 Consensus size: 45
2846202 TATATATATA
* *
2846212 TTTACTTGTTT-TT-TTA-TATATTCTCTTTTATTTTATTTTTATC
1 TTTACTT-TTTATTATTATTATATTTTATTTTATTTTATTTTTATC
2846255 TTTACTTTTTATTATTATTATATTTTATTTTATTTTATCTTTTAT-
1 TTTACTTTTTATTATTATTATATTTTATTTTATTTTAT-TTTTATC
*
2846300 TCTTA-TTTTTAATTTATTATTTTATTTTGA-TTTATTTT
1 T-TTACTTTTT-A-TTATTATTATATTTT-ATTTTATTTT
2846338 TCTCCTTCTT
Statistics
Matches: 72, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
42 3 0.04
43 9 0.12
44 3 0.04
45 24 0.33
46 10 0.14
47 22 0.31
48 1 0.01
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (45 bp):
TTTACTTTTTATTATTATTATATTTTATTTTATTTTATTTTTATC
Found at i:2847780 original size:2 final size:2
Alignment explanation
Indices: 2847767--2847808 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
2847757 GCCCACCATT
* * *
2847767 TC TC TA TC TC TC TC TC TC TC TC CC TC TC TC TC TC CC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2847809 CCCAAGACTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.02, C:0.52, G:0.00, T:0.45
Consensus pattern (2 bp):
TC
Found at i:2847788 original size:12 final size:12
Alignment explanation
Indices: 2847767--2847808 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
2847757 GCCCACCATT
* *
2847767 TCTCTATCTCTC
1 TCTCTCTCTCCC
2847779 TCTCTCTCTCCC
1 TCTCTCTCTCCC
2847791 TCTCTCTCTCCC
1 TCTCTCTCTCCC
2847803 TCTCTC
1 TCTCTC
2847809 CCCAAGACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.02, C:0.52, G:0.00, T:0.45
Consensus pattern (12 bp):
TCTCTCTCTCCC
Found at i:2855378 original size:16 final size:16
Alignment explanation
Indices: 2855357--2855390 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2855347 TTTTAATTAT
2855357 TTGTTTTACATATGTC
1 TTGTTTTACATATGTC
2855373 TTGTTTTACATATGTC
1 TTGTTTTACATATGTC
2855389 TT
1 TT
2855391 TTTCAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (16 bp):
TTGTTTTACATATGTC
Found at i:2859300 original size:18 final size:18
Alignment explanation
Indices: 2859277--2859311 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2859267 CTTCAGCTGC
2859277 ACCACCTCCCCTACCAGA
1 ACCACCTCCCCTACCAGA
2859295 ACCACCTCCCCTACCAG
1 ACCACCTCCCCTACCAG
2859312 TACCCCCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.57, G:0.06, T:0.11
Consensus pattern (18 bp):
ACCACCTCCCCTACCAGA
Done.