Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 49
Found at i:3406738 original size:17 final size:17
Alignment explanation
Indices: 3406713--3406753 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
3406703 TAATACGAAG
*
3406713 AATGTTGTGTTATATGT
1 AATGATGTGTTATATGT
*
3406730 AATGATGTGTTTTATGT
1 AATGATGTGTTATATGT
3406747 AATGATG
1 AATGATG
3406754 ATTGATTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (17 bp):
AATGATGTGTTATATGT
Found at i:3416303 original size:93 final size:93
Alignment explanation
Indices: 3416129--3416307 Score: 209
Period size: 93 Copynumber: 1.9 Consensus size: 93
3416119 TGATTGTTGC
* * * * *
3416129 AACTGTTGATCAAATTGGGGTTGCTGCAATATATAACCAGAATCTTGAACTAGCTGCTTCCGGTG
1 AACTGTTGATCAAATTGGGATTGCTGCAATATAAAAACAGAATCATGAACTAGCTGCTTCCGCTG
* * *
3416194 TTGTTGTTGATGCTGCTGCTGCAACAGA
66 TTGTCGCTGATCCTGCTGCTGCAACAGA
* * * *
3416222 AACTGTTGATCAAATTGGGATTGC-GACAATATAAAAACAGAATCATGAAGTTGTTG-TTGCTGC
1 AACTGTTGATCAAATTGGGATTGCTG-CAATATAAAAACAGAATCATGAACTAGCTGCTT-CCGC
*
3416285 TGTTGTCGCTGCTCCTGCTGCTG
64 TGTTGTCGCTGATCCTGCTGCTG
3416308 TTGTTCAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (93 bp):
AACTGTTGATCAAATTGGGATTGCTGCAATATAAAAACAGAATCATGAACTAGCTGCTTCCGCTG
TTGTCGCTGATCCTGCTGCTGCAACAGA
Found at i:3416475 original size:78 final size:78
Alignment explanation
Indices: 3416196--3416619 Score: 431
Period size: 78 Copynumber: 5.5 Consensus size: 78
3416186 TTCCGGTGTT
* ** * * * *
3416196 GTTGTTGATGCTGCTGCTGCAACAGAAACTGTTGATCAAATTGGGATTGC-GACAATATAAAAAC
1 GTTGTTGTTGCTGCTGCTGCTGCTGCAACTGTTGATCAAATTGGGGTTGCTG-CAATAT-ATAAC
* * *
3416260 -AGAATCATGAAGTT
64 TAGAATCCTGAACTA
* * * ** * **
3416274 GTTGTTGCTGCTGTTGTCGCTGCTCCTGCTGCTGTTGTTCAAATTGGAATTGCTGCAATATATAA
1 GTTGTTGTTGCTG--CT-GCTGCTGCTGCAACTGTTGATCAAATTGGGGTTGCTGCAATATATAA
* *
3416339 CCAGAATCCGGAACTA
63 CTAGAATCCTGAACTA
* *
3416355 ------GTTGCTGCTGCTGCTGCTTCAACTGTTGATCAAATTGGGGTTGCTGAAATATATAA-TC
1 GTTGTTGTTGCTGCTGCTGCTGCTGCAACTGTTGATCAAATTGGGGTTGCTGCAATATATAACT-
* * *
3416413 ACAATCCGGAACAA
65 AGAATCCTGAACTA
*
3416427 GTTGTTGTTGCTGCTGCTGCTGCTGCAACTGTTGATCAAATTGAGGTTGCTGCAATATATAACTA
1 GTTGTTGTTGCTGCTGCTGCTGCTGCAACTGTTGATCAAATTGGGGTTGCTGCAATATATAACTA
3416492 GAATCCTGAACTA
66 GAATCCTGAACTA
* * * *
3416505 GTTGATGTTGTTGTTGTTGCTGCTGCAACTGTTGATCAAATTGGGGTTGCTGCAATATATAACTA
1 GTTGTTGTTGCTGCTGCTGCTGCTGCAACTGTTGATCAAATTGGGGTTGCTGCAATATATAACTA
3416570 GAATCCTGAACTA
66 GAATCCTGAACTA
*
3416583 GTTGTTCTTG-T--TGCTGCTGCTGCAACTGTTGATCAAA
1 GTTGTTGTTGCTGCTGCTGCTGCTGCAACTGTTGATCAAA
3416620 CTGTTGAACG
Statistics
Matches: 291, Mismatches: 42, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
72 51 0.18
73 1 0.00
75 31 0.11
77 1 0.00
78 157 0.54
79 1 0.00
80 5 0.02
81 43 0.15
82 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (78 bp):
GTTGTTGTTGCTGCTGCTGCTGCTGCAACTGTTGATCAAATTGGGGTTGCTGCAATATATAACTA
GAATCCTGAACTA
Found at i:3418719 original size:15 final size:15
Alignment explanation
Indices: 3418699--3418730 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3418689 ATTGTTTTGT
3418699 TGAATCAGTCAGCAC
1 TGAATCAGTCAGCAC
*
3418714 TGAATCATTCAGCAC
1 TGAATCAGTCAGCAC
3418729 TG
1 TG
3418731 TTTTGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (15 bp):
TGAATCAGTCAGCAC
Found at i:3418733 original size:38 final size:38
Alignment explanation
Indices: 3418676--3418763 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
3418666 ACTTATGTGT
* *
3418676 TGAATCATTCAACATTGTTTTGTTGAATCAGTCAGCAC
1 TGAATCATTCAGCACTGTTTTGTTGAATCAGTCAGCAC
* *
3418714 TGAATCATTCAGCACTGTTTTGTTGAATCAGTTAGTAC
1 TGAATCATTCAGCACTGTTTTGTTGAATCAGTCAGCAC
3418752 TGAATCATTCAG
1 TGAATCATTCAG
3418764 AGATGCGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (38 bp):
TGAATCATTCAGCACTGTTTTGTTGAATCAGTCAGCAC
Found at i:3432669 original size:29 final size:28
Alignment explanation
Indices: 3432637--3432732 Score: 68
Period size: 29 Copynumber: 3.2 Consensus size: 28
3432627 GAGATGAAAC
3432637 TAAAATATTAAAAAGTTTAAGGA-CTAATT
1 TAAAATATTAAAAAGTTTAA-GATC-AATT
* * * * *
3432666 TAAAATGATCATCATAGTTTAAGAATGAAAT
1 TAAAAT-ATTA-AAAAGTTTAAG-ATCAATT
* *
3432697 TGAAATATTTAAAAGTTTAAAGATCAATT
1 TAAAATATTAAAAAGTTT-AAGATCAATT
3432726 TAAAATA
1 TAAAATA
3432733 AAAATCATAA
Statistics
Matches: 49, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
29 23 0.47
30 9 0.18
31 17 0.35
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.34
Consensus pattern (28 bp):
TAAAATATTAAAAAGTTTAAGATCAATT
Found at i:3432673 original size:60 final size:60
Alignment explanation
Indices: 3432599--3432750 Score: 148
Period size: 60 Copynumber: 2.5 Consensus size: 60
3432589 ATGTTTGGGT
* * * *
3432599 ATCAATTTAGAATGAAGGAT-ATAGTTT-GGAGATGAAACTAAAATATTAAAAAGTTTAAGG
1 ATCAATTTAAAATG-AGCATCATAGTTTAAGA-ATGAAACTAAAATATTAAAAAGTTTAAAG
* * * *
3432659 A-CTAATTTAAAATGATCATCATAGTTTAAGAATGAAATTGAAATATTTAAAAGTTTAAAG
1 ATC-AATTTAAAATGAGCATCATAGTTTAAGAATGAAACTAAAATATTAAAAAGTTTAAAG
* ** *
3432719 ATCAATTTAAAATAAAAATCATAATTTAAGAA
1 ATCAATTTAAAATGAGCATCATAGTTTAAGAA
3432751 CATACAATGT
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
59 4 0.05
60 69 0.91
61 3 0.04
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (60 bp):
ATCAATTTAAAATGAGCATCATAGTTTAAGAATGAAACTAAAATATTAAAAAGTTTAAAG
Found at i:3435900 original size:19 final size:19
Alignment explanation
Indices: 3435876--3435925 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
3435866 AAAACGTTTT
3435876 TATGAATAGTACTATACGG
1 TATGAATAGTACTATACGG
**
3435895 TATGAATAGTACTATATTG
1 TATGAATAGTACTATACGG
*
3435914 TATGAACAGTAC
1 TATGAATAGTAC
3435926 CGTAAACAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (19 bp):
TATGAATAGTACTATACGG
Found at i:3435981 original size:21 final size:21
Alignment explanation
Indices: 3435957--3435998 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3435947 CCATGAATAG
3435957 TGCTACAGTGTACCGATGCAC
1 TGCTACAGTGTACCGATGCAC
* *
3435978 TGCTATAGTGTATCGATGCAC
1 TGCTACAGTGTACCGATGCAC
3435999 AAAAACATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
TGCTACAGTGTACCGATGCAC
Found at i:3436365 original size:3 final size:3
Alignment explanation
Indices: 3436357--3436391 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
3436347 GGCGTAAAAT
3436357 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3436392 GCATCTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3437806 original size:9 final size:9
Alignment explanation
Indices: 3437792--3437821 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
3437782 GGTTGGAGAA
3437792 GAAGAAGAT
1 GAAGAAGAT
3437801 GAAGAAGAT
1 GAAGAAGAT
3437810 GAAGAAGA-
1 GAAGAAGAT
3437818 GAAG
1 GAAG
3437822 TTTGGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.57, C:0.00, G:0.37, T:0.07
Consensus pattern (9 bp):
GAAGAAGAT
Found at i:3438257 original size:12 final size:12
Alignment explanation
Indices: 3438227--3438259 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
3438217 ACTAGTTTTA
*
3438227 TGTGATCGTAGT
1 TGTGATTGTAGT
3438239 TGTGATTGTAGT
1 TGTGATTGTAGT
3438251 TGTGATTGT
1 TGTGATTGT
3438260 TTCTAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.33, T:0.48
Consensus pattern (12 bp):
TGTGATTGTAGT
Found at i:3443551 original size:23 final size:23
Alignment explanation
Indices: 3443525--3443568 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3443515 CACCACAGCT
*
3443525 CGTATAAATGCACCGAAGTGCAC
1 CGTAGAAATGCACCGAAGTGCAC
* *
3443548 CGTAGAATTGCACCGTAGTGC
1 CGTAGAAATGCACCGAAGTGC
3443569 CATATAATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCAC
Found at i:3443818 original size:149 final size:149
Alignment explanation
Indices: 3443548--3443852 Score: 592
Period size: 149 Copynumber: 2.0 Consensus size: 149
3443538 CGAAGTGCAC
*
3443548 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
3443613 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
3443678 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
*
3443697 CGTAGACTTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTGTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
3443762 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
3443827 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
3443846 CGTAGAC
1 CGTAGAC
3443853 CCTCGACTCT
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGACTTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCTAAGAACCG
Found at i:3444326 original size:2 final size:2
Alignment explanation
Indices: 3444319--3444382 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
3444309 TCTCTTAGAC
3444319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3444361 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
3444383 TCACATGTTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3445424 original size:21 final size:21
Alignment explanation
Indices: 3445400--3445444 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3445390 TCTTGTTCGT
* *
3445400 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
3445421 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
3445442 TTG
1 TTG
3445445 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:3448730 original size:23 final size:23
Alignment explanation
Indices: 3448704--3448747 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3448694 CACCACAGCT
*
3448704 CGTATAAATGCACCGAAGTGCAC
1 CGTAGAAATGCACCGAAGTGCAC
* *
3448727 CGTAGAATTGCACCGTAGTGC
1 CGTAGAAATGCACCGAAGTGC
3448748 CATATAATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCAC
Found at i:3448997 original size:149 final size:149
Alignment explanation
Indices: 3448727--3449031 Score: 592
Period size: 149 Copynumber: 2.0 Consensus size: 149
3448717 CGAAGTGCAC
*
3448727 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
3448792 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
3448857 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
*
3448876 CGTAGACTTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTGTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
3448941 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
3449006 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
3449025 CGTAGAC
1 CGTAGAC
3449032 CCCGACTCTT
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGACTTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCTAAGAACCG
Found at i:3449495 original size:2 final size:2
Alignment explanation
Indices: 3449488--3449546 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
3449478 TCTCTTAGAC
3449488 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3449529 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
3449547 TCACATGTTC
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3450577 original size:21 final size:21
Alignment explanation
Indices: 3450553--3450597 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3450543 TCTTGTTCGT
* *
3450553 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
3450574 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
3450595 TTG
1 TTG
3450598 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:3453838 original size:23 final size:23
Alignment explanation
Indices: 3453812--3453855 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3453802 CACCACAGCT
*
3453812 CGTATAAATGCACCGAAGTGCAC
1 CGTAGAAATGCACCGAAGTGCAC
* *
3453835 CGTAGAATTGCACCGTAGTGC
1 CGTAGAAATGCACCGAAGTGC
3453856 CATATAATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCAC
Found at i:3454115 original size:147 final size:148
Alignment explanation
Indices: 3453835--3454136 Score: 572
Period size: 147 Copynumber: 2.0 Consensus size: 148
3453825 CGAAGTGCAC
*
3453835 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
3453900 CATATACATATGCTAGGGATCAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATAC
66 CATATACATATGCTAGGGATCAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATAC
3453965 ATATGTCCCTAAGAACCG
131 ATATGTCCCTAAGAACCG
3453983 CGTAGACTTGCA-CGTAGTGCCATATAATGATGTCCATAAGGA-CACATAGAATTCTTTAAGAAT
1 CGTAGACTTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
3454046 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATC-AGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
3454111 CATATGTCCCTAAGAACCG
130 CATATGTCCCTAAGAACCG
3454130 CGTAGAC
1 CGTAGAC
3454137 CCTCGACTCT
Statistics
Matches: 152, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
146 42 0.28
147 99 0.65
148 11 0.07
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (148 bp):
CGTAGACTTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATAC
ATATGTCCCTAAGAACCG
Found at i:3454604 original size:2 final size:2
Alignment explanation
Indices: 3454597--3454660 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
3454587 TCTCTTAGAC
3454597 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3454639 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
3454661 TCACATGTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3455693 original size:21 final size:21
Alignment explanation
Indices: 3455669--3455713 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3455659 TCTTGTTCGT
* *
3455669 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
3455690 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
3455711 TTG
1 TTG
3455714 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:3468639 original size:17 final size:18
Alignment explanation
Indices: 3468617--3468652 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3468607 TTTTATATGA
*
3468617 AATTT-AGGGGTTAAAAT
1 AATTTAAGGGATTAAAAT
3468634 AATTTAAGGGATTAAAAT
1 AATTTAAGGGATTAAAAT
3468652 A
1 A
3468653 CAATAACGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.33
Consensus pattern (18 bp):
AATTTAAGGGATTAAAAT
Found at i:3475256 original size:18 final size:18
Alignment explanation
Indices: 3475233--3475285 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
3475223 CGTAGAAATT
3475233 TGTCCCGTAGGACCACTA
1 TGTCCCGTAGGACCACTA
*
3475251 TGTCCCGAAGGACCACTA
1 TGTCCCGTAGGACCACTA
3475269 TGTCCC-TAAGGACCACT
1 TGTCCCGT-AGGACCACT
3475286 GATAATCCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.25, C:0.34, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGTAGGACCACTA
Found at i:3479066 original size:8 final size:8
Alignment explanation
Indices: 3479055--3479085 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
3479045 AATTAGTTAA
*
3479055 TTAGTTTT
1 TTAGTTTG
3479063 TTAGTTTG
1 TTAGTTTG
3479071 TTAGTTTG
1 TTAGTTTG
3479079 TTAGTTT
1 TTAGTTT
3479086 AAGTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.19, T:0.68
Consensus pattern (8 bp):
TTAGTTTG
Found at i:3481534 original size:17 final size:15
Alignment explanation
Indices: 3481512--3481551 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
3481502 GTTGCATATG
3481512 TTAAATATTATTAAAA
1 TTAAATATTA-TAAAA
*
3481528 CTTAAATATTATAATA
1 -TTAAATATTATAAAA
3481544 TTAAATAT
1 TTAAATAT
3481552 GCATGTCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 4 0.18
17 10 0.45
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATATTATAAAA
Found at i:3481619 original size:16 final size:16
Alignment explanation
Indices: 3481598--3481637 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
3481588 ATTTATAAAG
*
3481598 ATAAATTCTACTAGTT
1 ATAAATTCAACTAGTT
*
3481614 ATAAATTCAACTATTT
1 ATAAATTCAACTAGTT
3481630 ATAAATTC
1 ATAAATTC
3481638 GATTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (16 bp):
ATAAATTCAACTAGTT
Found at i:3481680 original size:11 final size:11
Alignment explanation
Indices: 3481666--3481826 Score: 67
Period size: 11 Copynumber: 13.5 Consensus size: 11
3481656 TCTATTTAAA
*
3481666 TATTTAATCAT
1 TATTAAATCAT
*
3481677 TATTAAATAAT
1 TATTAAATCAT
3481688 TATTAGTAATCAT
1 TATTA--AATCAT
*
3481701 TATTAAATCGT
1 TATTAAATCAT
*
3481712 TAGTATCAAATTAT
1 TA-T-T-AAATCAT
*
3481726 TATTATAATTTAAT
1 TATTA-AA--TCAT
3481740 TATTACTAATCAT
1 TATTA--AATCAT
*
3481753 TACTAAATCAT
1 TATTAAATCAT
3481764 TAGTATCAAATCAT
1 TA-T-T-AAATCAT
* *
3481778 TA--AATATTAA
1 TATTAA-ATCAT
*
3481788 TAATAAATCAT
1 TATTAAATCAT
3481799 TATTAATAATCAT
1 TATT-A-AATCAT
*
3481812 TACTAAATCA-
1 TATTAAATCAT
3481822 TATTA
1 TATTA
3481827 TTACTAAAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 35
0.69 0.10 0.21
Matches are distributed among these distances:
9 2 0.02
10 9 0.08
11 41 0.35
12 8 0.07
13 29 0.25
14 24 0.21
15 3 0.03
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (11 bp):
TATTAAATCAT
Found at i:3481856 original size:27 final size:28
Alignment explanation
Indices: 3481785--3481876 Score: 93
Period size: 27 Copynumber: 3.3 Consensus size: 28
3481775 CATTAAATAT
3481785 TAATAATAA-ATCATTATTAATAATCATTA
1 TAAT-ATAATATCATTATTAA-AATCATTA
* * *
3481814 CTAA-ATCATATTATTACTAAAATCATTA
1 -TAATATAATATCATTATTAAAATCATTA
3481842 -AATATAATATCATTATTAAAA-CATTA
1 TAATATAATATCATTATTAAAATCATTA
*
3481868 TTATATAAT
1 TAATATAAT
3481877 TATAAGACTA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
26 7 0.13
27 22 0.42
28 11 0.21
29 9 0.17
30 3 0.06
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (28 bp):
TAATATAATATCATTATTAAAATCATTA
Found at i:3482023 original size:22 final size:22
Alignment explanation
Indices: 3481998--3482039 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3481988 TAAAAAGAAA
*
3481998 AAATTAGACTATTTATAAATAT
1 AAATTAGACTAATTATAAATAT
*
3482020 AAATTCGACTAATTATAAAT
1 AAATTAGACTAATTATAAAT
3482040 TCAACTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (22 bp):
AAATTAGACTAATTATAAATAT
Found at i:3482461 original size:12 final size:12
Alignment explanation
Indices: 3482444--3482491 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
3482434 ACTACGGCAA
3482444 GAAAGCTAAGTT
1 GAAAGCTAAGTT
3482456 GAAAGCTAAGTT
1 GAAAGCTAAGTT
**
3482468 GACCGCTAAGTT
1 GAAAGCTAAGTT
*
3482480 AAAAGCTAAGTT
1 GAAAGCTAAGTT
3482492 CACTGTTAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (12 bp):
GAAAGCTAAGTT
Found at i:3482501 original size:24 final size:24
Alignment explanation
Indices: 3482448--3482503 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
3482438 CGGCAAGAAA
* *
3482448 GCTAAGTTGAAAGCTAAGTTGACC
1 GCTAAGTTAAAAGCTAAGTTCACC
*
3482472 GCTAAGTTAAAAGCTAAGTTCACT
1 GCTAAGTTAAAAGCTAAGTTCACC
*
3482496 GTTAAGTT
1 GCTAAGTT
3482504 GTTTTTGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (24 bp):
GCTAAGTTAAAAGCTAAGTTCACC
Found at i:3485986 original size:17 final size:17
Alignment explanation
Indices: 3485931--3485991 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
3485921 CTAATATAAA
*
3485931 TTAAACAAAATGTTCTTT
1 TTAAACAAAATATT-TTT
*
3485949 TTAAACAACAATAAATATTT
1 TTAAACAA-AAT--ATTTTT
3485969 TTAAACAAAATATTTTT
1 TTAAACAAAATATTTTT
3485986 TTAAAC
1 TTAAAC
3485992 GGGAATAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 11 0.30
18 8 0.22
19 6 0.16
20 11 0.30
21 1 0.03
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (17 bp):
TTAAACAAAATATTTTT
Found at i:3486516 original size:57 final size:54
Alignment explanation
Indices: 3486400--3486508 Score: 157
Period size: 57 Copynumber: 2.0 Consensus size: 54
3486390 ACTGACAAAC
* *
3486400 AACTAATTAAGTAATTTTTTAACATATAATATAACTTAAACTAAGAAACTAACA
1 AACTAATTAACTAATTTTTTAACATATAATATAACTTAAACTAACAAACTAACA
3486454 AACTAATTAACTAATATTTTTATA-ATATAATATATAACTTAAACTAACAAACTAA
1 AACTAATTAACTAAT-TTTTTA-ACATAT-A-ATATAACTTAAACTAACAAACTAA
3486509 TTAACTAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
54 14 0.29
55 10 0.20
56 2 0.04
57 23 0.47
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (54 bp):
AACTAATTAACTAATTTTTTAACATATAATATAACTTAAACTAACAAACTAACA
Found at i:3486661 original size:19 final size:20
Alignment explanation
Indices: 3486612--3486661 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
3486602 AACTTCTCTC
*
3486612 CCTTTC-TTCTTCTTCCTTT
1 CCTTTCTTTCTTCTCCCTTT
*
3486631 CCTTTCTCTCTTCTCCCTTT
1 CCTTTCTTTCTTCTCCCTTT
3486651 -CTTTCTTTCTT
1 CCTTTCTTTCTT
3486662 GTGCTTCATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (20 bp):
CCTTTCTTTCTTCTCCCTTT
Found at i:3487371 original size:2 final size:2
Alignment explanation
Indices: 3487358--3487403 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
3487348 TATATTATTA
*
3487358 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3487400 AT AT
1 AT AT
3487404 GCGCTCGACC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3489721 original size:2 final size:2
Alignment explanation
Indices: 3489714--3489740 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3489704 ATGAAATTAT
3489714 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
3489741 TTAGTTAGGA
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:3496585 original size:13 final size:13
Alignment explanation
Indices: 3496567--3496650 Score: 50
Period size: 13 Copynumber: 6.4 Consensus size: 13
3496557 AAAATTATAT
3496567 TATAATAAATAAA
1 TATAATAAATAAA
*
3496580 TATAATAATATTAA
1 TATAATAA-ATAAA
*
3496594 T-TAATAATATTAA
1 TATAATAA-ATAAA
*
3496607 T-TATTAAATATAA
1 TATAATAAATA-AA
*
3496620 TA-AATAATTAAAA
1 TATAATAAAT-AAA
*
3496633 TGTAAT-AATAACA
1 TATAATAAATAA-A
3496646 TATAA
1 TATAA
3496651 AATAGTAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
12 4 0.07
13 44 0.77
14 9 0.16
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (13 bp):
TATAATAAATAAA
Found at i:3496587 original size:16 final size:16
Alignment explanation
Indices: 3496563--3496643 Score: 54
Period size: 17 Copynumber: 4.8 Consensus size: 16
3496553 ATGAAAAATT
*
3496563 ATATTATAATAAATAA
1 ATATAATAATAAATAA
*
3496579 ATATAATAATATTAATTA
1 ATATAATAATA--AATAA
* * *
3496597 ATAATATTAATTATTAA
1 AT-ATAATAATAAATAA
*
3496614 ATATAATAAATAATTAAA
1 ATATAAT-AATAAAT-AA
*
3496632 ATGTAATAATAA
1 ATATAATAATAA
3496644 CATATAAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
16 14 0.27
17 16 0.31
18 14 0.27
19 7 0.14
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (16 bp):
ATATAATAATAAATAA
Found at i:3496613 original size:152 final size:156
Alignment explanation
Indices: 3496412--3496851 Score: 543
Period size: 170 Copynumber: 2.7 Consensus size: 156
3496402 ATAAATAAAT
* *
3496412 TTATATTATAATAAAT--ATAT-ATAACAATAATTAATAATATTAAACATTAAATATAATAAATA
1 TTATATTATAATAAATAAATATAATAATAATAATTAATAATATTAAATATTAAATATAATAAATA
*
3496474 ATTAAAATATAATAATATAGTAATTAATATAGAAATTTTAT-AAAAAATAATTACAATATATTTT
66 ATTAAAATATAATAATATAGTAATTAAAATAGAAATTTTATAAAAAAATAATTACAATATATTTT
3496538 GTAAATTTTGAAATAATG-AA-AAA-
131 GTAAATTTTGAAATAATGAAAGAAAC
* *
3496561 TTATATTATAATAAATAAATATAATAATATTAATTAATAATATTAATTATTAAATATAATAAATA
1 TTATATTATAATAAATAAATATAATAATAATAATTAATAATATTAAATATTAAATATAATAAATA
* *
3496626 ATTAAAATGTAATAATAACATATAAAATAGTAATTAAAATAGATATTTTATAAAAAAATAATTAT
66 ATTAAAA--T-ATAAT---A-AT---ATAGTAATTAAAATAGAAATTTTATAAAAAAATAATTAC
3496691 AATATATTTTGTAAATTTTGAAATAATGAAATAATGAAAC
121 AATATATTTTGTAAATTTTGAAATAATG--A-AA-GAAAC
* *
3496731 TTATATTATAATAAATAAATATAATAATAATAACTAAAAATATTAAATATTAAATATAATAAATA
1 TTATATTATAATAAATAAATATAATAATAATAATTAATAATATTAAATATTAAATATAATAAATA
* *
3496796 ATTAAAAATAATAATATATAAATATAGTAATTAAAATATACATTTTATAAAAAAAT
66 ATT---AA-AAT-ATA-AT-AATATAGTAATTAAAATAGAAATTTTATAAAAAAAT
3496852 TATAATATAT
Statistics
Matches: 251, Mismatches: 14, Indels: 34
0.84 0.05 0.11
Matches are distributed among these distances:
149 16 0.06
151 4 0.02
152 45 0.18
154 1 0.00
155 5 0.02
158 1 0.00
159 2 0.01
162 23 0.09
163 40 0.16
167 33 0.13
169 3 0.01
170 66 0.26
171 1 0.00
172 5 0.02
173 4 0.02
174 2 0.01
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (156 bp):
TTATATTATAATAAATAAATATAATAATAATAATTAATAATATTAAATATTAAATATAATAAATA
ATTAAAATATAATAATATAGTAATTAAAATAGAAATTTTATAAAAAAATAATTACAATATATTTT
GTAAATTTTGAAATAATGAAAGAAAC
Found at i:3496642 original size:17 final size:18
Alignment explanation
Indices: 3496563--3496643 Score: 57
Period size: 16 Copynumber: 4.7 Consensus size: 18
3496553 ATGAAAAATT
*
3496563 ATATTATAATAA--ATAA
1 ATATAATAATAATTATAA
3496579 ATATAATAAT-A-T-TAA
1 ATATAATAATAATTATAA
* *
3496594 TTAATAATATTAATTATTAA
1 AT-ATAATAATAATTA-TAA
3496614 ATATAATAAATAATTA-AA
1 ATATAAT-AATAATTATAA
*
3496632 ATGTAATAATAA
1 ATATAATAATAA
3496644 CATATAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
15 5 0.10
16 16 0.31
17 6 0.12
18 9 0.17
19 5 0.10
20 11 0.21
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATAATAATTATAA
Found at i:3496757 original size:16 final size:16
Alignment explanation
Indices: 3496733--3496826 Score: 64
Period size: 16 Copynumber: 5.6 Consensus size: 16
3496723 AATGAAACTT
*
3496733 ATATTATAATAAATAA
1 ATATAATAATAAATAA
3496749 ATATAATAATAATAACTAA
1 ATATAATAAT-A-AA-TAA
* * *
3496768 AAATATTAA-ATATTAA
1 ATATAATAATA-AATAA
*
3496784 ATATAATAAATAATTAA
1 ATATAAT-AATAAATAA
* *
3496801 AAATAATAATATATAA
1 ATATAATAATAAATAA
*
3496817 ATATAGTAAT
1 ATATAATAAT
3496827 TAAAATATAC
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
16 32 0.52
17 17 0.27
18 3 0.05
19 10 0.16
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (16 bp):
ATATAATAATAAATAA
Found at i:3496785 original size:39 final size:40
Alignment explanation
Indices: 3496742--3496820 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
3496732 TATATTATAA
*
3496742 TAAATA-AATATAATAA-TAATAACTAAAAATAT-TAAATAT
1 TAAATATAATA-AATAATTAA-AAATAAAAATATATAAATAT
*
3496781 TAAATATAATAAATAATTAAAAATAATAATATATAAATAT
1 TAAATATAATAAATAATTAAAAATAAAAATATATAAATAT
3496821 AGTAATTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 21 0.60
40 14 0.40
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (40 bp):
TAAATATAATAAATAATTAAAAATAAAAATATATAAATAT
Found at i:3502241 original size:261 final size:259
Alignment explanation
Indices: 3501733--3502247 Score: 755
Period size: 260 Copynumber: 2.0 Consensus size: 259
3501723 GTTACAAAAA
* * *
3501733 ATATTTCAAATTAATTGTTCCACTTTTTATTGATAGATTACATACAGTTCGTACGTGAGTTTGAG
1 ATATTTCAAATTAATTGTTCCACTTTTTATTGATAGATTACACACACTCCGTACGTGAGTTTGAG
* * *
3501798 GACCTGATGTAAGAACTTCAACACATGAATTCTGAGGGCTTCAACTACCTTATTAGAATTCCAAA
66 GACCTGATGCAAGAACTTCAACACATGAATTCTGAGGGCTTCAACTACCTTACTAGAATCCCAAA
* * * *
3501863 AGATAAATGGCTTCGATCATTTGATTGGGGTAGACGTTATGGTCACATGACAACGAACTTGGTTG
131 AGAGAAATGGCTTCGACCATTTGATTGGGGTAGACGTTATGATCACATGAAAACGAACTTGGTTG
3501928 AGGCAATAAATTCATCACTAAAGGGAATACGCCATTTGTCTATCACGTCCATTGTCAAAGTGGC
196 AGGCAATAAATTCATCACTAAAGGGAATACGCCATTTGTCTATCACGTCCATTGTCAAAGTGGC
*
3501992 ATATTATCAAATTAATTGTTCCA-TTTATTATTGATAGGTTACACACACTCCGTACGTGAGTTTG
1 ATATT-TCAAATTAATTGTTCCACTTT-TTATTGATAGATTACACACACTCCGTACGTGAGTTTG
* * * * * * *
3502056 AGGACTTGATGCAGGAACTTCGACACATGAATTCTGAGTGTTTCAACTATCTTCCTAGAATCCCA
64 AGGACCTGATGCAAGAACTTCAACACATGAATTCTGAGGGCTTCAACTACCTTACTAGAATCCCA
* *
3502121 AAGGAGAAATGGCTTTTGACCATTTGATTGGGGTAGACAG-TATGATCACATGAAAACGAACTTG
129 AAAGAGAAATGGC-TTCGACCATTTGATTGGGGTAGAC-GTTATGATCACATGAAAACGAACTTG
* ** * *
3502185 GTTGAGGCAATAAATTCATCACTAAAGGGAGTGTGTCATTTGTCTATCATGTCCATTGTCAAA
192 GTTGAGGCAATAAATTCATCACTAAAGGGAATACGCCATTTGTCTATCACGTCCATTGTCAAA
3502248 CTGACAACCC
Statistics
Matches: 227, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
259 8 0.04
260 116 0.51
261 102 0.45
262 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (259 bp):
ATATTTCAAATTAATTGTTCCACTTTTTATTGATAGATTACACACACTCCGTACGTGAGTTTGAG
GACCTGATGCAAGAACTTCAACACATGAATTCTGAGGGCTTCAACTACCTTACTAGAATCCCAAA
AGAGAAATGGCTTCGACCATTTGATTGGGGTAGACGTTATGATCACATGAAAACGAACTTGGTTG
AGGCAATAAATTCATCACTAAAGGGAATACGCCATTTGTCTATCACGTCCATTGTCAAAGTGGC
Found at i:3508329 original size:20 final size:19
Alignment explanation
Indices: 3508306--3508352 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
3508296 CGATATAACA
*
3508306 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
3508326 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
3508346 GGTAAAA
1 GGTAAAA
3508353 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:3512550 original size:19 final size:19
Alignment explanation
Indices: 3512511--3512572 Score: 92
Period size: 19 Copynumber: 3.4 Consensus size: 19
3512501 AATGTCGAGT
*
3512511 TAATTTTGTATAAGA-TTA
1 TAATTTTGTATACGATTTA
3512529 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
*
3512548 TAATTTTGTATGCGATTTA
1 TAATTTTGTATACGATTTA
3512567 T-ATTTT
1 TAATTTT
3512573 TTTATGTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
18 19 0.46
19 22 0.54
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:3513085 original size:199 final size:200
Alignment explanation
Indices: 3512653--3513674 Score: 1801
Period size: 197 Copynumber: 5.1 Consensus size: 200
3512643 TTAAGGGTCA
* * ***
3512653 TGTCGATACTAATATAGTTTGTGTCGATA-TTTTTTTCCATAATGAATT-TTTACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
3512716 AATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
3512781 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
3512846 TAATG
196 TAATG
***
3512851 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
3512915 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
3512978 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
3513043 TAATG
196 TAATG
3513048 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCCAGAATGAATTAAAAACAAGGTGCA
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTT-CCAGAATGAATTAAAAACAAGGTGCA
* *
3513113 CCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
64 TCAATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
3513178 ATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGG-TTTATGAGAGAATAAGTCTA
129 ATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
3513242 AATAATG
194 AATAATG
* *
3513249 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
3513314 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
3513379 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
3513444 TAATG
196 TAATG
*
3513449 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGAATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
3513514 AATAAAGTGTCGATCCATATAT--AAAAGTGTCGATCCCAAAATCATCGAA-CCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
3513576 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
3513641 TAATG
196 TAATG
*
3513646 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
3513675 CTAATTTAAA
Statistics
Matches: 802, Mismatches: 15, Indels: 15
0.96 0.02 0.02
Matches are distributed among these distances:
197 234 0.29
198 79 0.10
199 202 0.25
200 149 0.19
201 72 0.09
202 66 0.08
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (200 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
AATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATG
Found at i:3515158 original size:18 final size:18
Alignment explanation
Indices: 3515135--3515196 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
3515125 ATCGGTCGCA
* * *
3515135 GAAGATGAAGCTGACGAT
1 GAAGATGACGATGATGAT
3515153 GAAGATGACGATGATGAT
1 GAAGATGACGATGATGAT
*
3515171 GATGATGACGATGATGAT
1 GAAGATGACGATGATGAT
3515189 GAAGATGA
1 GAAGATGA
3515197 TGATCCAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (18 bp):
GAAGATGACGATGATGAT
Found at i:3515159 original size:6 final size:6
Alignment explanation
Indices: 3515135--3515196 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
3515125 ATCGGTCGCA
* * * * * *
3515135 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
*
3515183 GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA
3515197 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:3515170 original size:3 final size:3
Alignment explanation
Indices: 3515150--3515200 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
3515140 TGAAGCTGAC
* * * *
3515150 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAT GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
3515198 GAT
1 GAT
3515201 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:3515197 original size:12 final size:12
Alignment explanation
Indices: 3515138--3515200 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
3515128 GGTCGCAGAA
* *
3515138 GATGAAGCTGAC
1 GATGAAGATGAT
*
3515150 GATGAAGATGAC
1 GATGAAGATGAT
*
3515162 GATGATGATGAT
1 GATGAAGATGAT
*
3515174 GATGACGATGAT
1 GATGAAGATGAT
3515186 GATGAAGATGAT
1 GATGAAGATGAT
3515198 GAT
1 GAT
3515201 CCAAACAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:3517097 original size:184 final size:184
Alignment explanation
Indices: 3516559--3517606 Score: 1883
Period size: 191 Copynumber: 5.7 Consensus size: 184
3516549 CTTTCAACAT
**
3516559 ATTATAATAAAATAGATAA-TTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
3516623 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
3516688 AATGTGTCGATACGATTTAAAAAAGTGTCGACA-TTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
3516741 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
3516806 GGTCTACAACCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTG
66 GG--T-----CTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTG
3516871 GAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
124 GAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
3516932 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
3516997 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
3517062 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
3517116 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
3517181 GGTCTACAACCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTG
66 GG--T-----CTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTG
3517246 GAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
124 GAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
3517307 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
3517372 GGTCTACAACC--TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
3517435 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
3517489 ATTATAATGTAATAGATAA-TTTGTAATATAACCGGTAT-AATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
3517552 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
3517607 CCATTTAAAA
Statistics
Matches: 843, Mismatches: 5, Indels: 36
0.95 0.01 0.04
Matches are distributed among these distances:
180 34 0.04
181 19 0.02
182 184 0.22
183 47 0.06
184 191 0.23
185 1 0.00
186 1 0.00
189 2 0.00
190 94 0.11
191 270 0.32
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:3517267 original size:375 final size:375
Alignment explanation
Indices: 3516559--3517606 Score: 1960
Period size: 375 Copynumber: 2.8 Consensus size: 375
3516549 CTTTCAACAT
**
3516559 ATTATAATAAAATAGATAA-TTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
3516623 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
3516688 AATGTGTCGATACGATTTAAAAAAGTGTCGACA-TTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
3516752 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
3516817 TACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATG
261 TACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATG
3516882 TGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
326 TGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
3516932 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
3516997 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
3517062 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
3517127 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
3517192 TACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATG
261 TACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATG
3517257 TGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
326 TGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
3517307 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
3517372 GGTCTACAACC--TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
3517435 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
* *
3517500 ATAGATAA-TTTGTAATATAACCGGTAT-AATATACCGGTTTTATGAGCGAATAGG--T-----C
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
3517556 TACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
261 TACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
3517607 CCATTTAAAA
Statistics
Matches: 668, Mismatches: 5, Indels: 13
0.97 0.01 0.02
Matches are distributed among these distances:
364 52 0.08
369 1 0.00
371 25 0.04
372 19 0.03
373 142 0.21
374 142 0.21
375 287 0.43
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (375 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
TACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATG
TGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:3520186 original size:23 final size:22
Alignment explanation
Indices: 3520155--3520216 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
3520145 ATAGGTAAAC
*
3520155 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTA-CCCTT
* *
3520178 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTACCCTT
3520200 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
3520217 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (22 bp):
ATATAATGTAATAGGTACCCTT
Found at i:3520204 original size:22 final size:22
Alignment explanation
Indices: 3520155--3520226 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
3520145 ATAGGTAAAC
* * *
3520155 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTA-TCGTT
3520178 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTATCGTT
*
3520200 ATATAATGTAATAGGTAATGGTT
1 ATATAATGTAATAGGT-ATCGTT
3520223 ATAT
1 ATAT
3520227 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 19 0.43
23 25 0.57
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (22 bp):
ATATAATGTAATAGGTATCGTT
Found at i:3520610 original size:23 final size:22
Alignment explanation
Indices: 3520579--3520640 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
3520569 ATAGGTAAAC
*
3520579 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTA-CCCTT
* *
3520602 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTACCCTT
3520624 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
3520641 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (22 bp):
ATATAATGTAATAGGTACCCTT
Found at i:3520628 original size:22 final size:22
Alignment explanation
Indices: 3520579--3520650 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
3520569 ATAGGTAAAC
* * *
3520579 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTA-TCGTT
3520602 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTATCGTT
*
3520624 ATATAATGTAATAGGTAATGGTT
1 ATATAATGTAATAGGT-ATCGTT
3520647 ATAT
1 ATAT
3520651 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 19 0.43
23 25 0.57
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (22 bp):
ATATAATGTAATAGGTATCGTT
Found at i:3528871 original size:242 final size:242
Alignment explanation
Indices: 3528438--3528904 Score: 537
Period size: 242 Copynumber: 1.9 Consensus size: 242
3528428 GATCGAACTC
* * ** ** *
3528438 TAATAGGTTTATATAACTTATTAAAATTAAAATTAATAATTAATTATATCTATTCGATTTATCAA
1 TAATAGGTCTATATAACTTATCAAAATTAAAATTAATAATTAACGATATCTATTAAATTGATCAA
* ** * * * *
3528503 CCTCCGAATAATTTTCATAATTTACATTTATCAACATTAAGGGTAATTATAAAATCTCTTAGTCA
66 CCTACGAATAACCTTCATAATCTACATTTATCAACACTAAGAGTAACTATAAAATCTCTTAGTCA
* * * ** * *
3528568 AGATTGAGAGACAAATCTTGAAACACACTTAACATTCCATCCTATTTTCTTCTTGTGAAGATTGT
131 AAATTGAGAAAAAAATCTACAAACACACTTAACATTCCATCCTATCTTCTTCTTATGAAGATTGT
* * * *
3528633 AAACCTTTGTACTGATCAATCATCGTCTAAACACTGATAACGATTTT
196 AAACCTTTATACTAATCAATAATCATCTAAACACTGATAACGATTTT
* * * *
3528680 TAATAGGTCTATATAATTTATCAAAATTAAAATTAATAGTTAACGATATTTATTAAATTGGTCAA
1 TAATAGGTCTATATAACTTATCAAAATTAAAATTAATAATTAACGATATCTATTAAATTGATCAA
* * ** * *
3528745 CCTATGAATAACCTTCATGATCTATGTTTATCAACACTAATAGTAACTATAAAATCT-TATAGTT
66 CCTACGAATAACCTTCATAATCTACATTTATCAACACTAAGAGTAACTATAAAATCTCT-TAGTC
*
3528809 AAAATTGA-AAAAAATATCTACAAACACACTTATCATTCCAT-CT-TCTTCTTTCCTTATGAAGA
130 AAAATTGAGAAAAAA-ATCTACAAACACACTTAACATTCCATCCTATCTTC-TT-CTTATGAAGA
*
3528871 TTGTAAATCTTTATACTAATCAATAATCATCTAA
192 TTGTAAACCTTTATACTAATCAATAATCATCTAA
3528905 GCATCGACTA
Statistics
Matches: 184, Mismatches: 37, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
240 4 0.02
241 9 0.05
242 171 0.93
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (242 bp):
TAATAGGTCTATATAACTTATCAAAATTAAAATTAATAATTAACGATATCTATTAAATTGATCAA
CCTACGAATAACCTTCATAATCTACATTTATCAACACTAAGAGTAACTATAAAATCTCTTAGTCA
AAATTGAGAAAAAAATCTACAAACACACTTAACATTCCATCCTATCTTCTTCTTATGAAGATTGT
AAACCTTTATACTAATCAATAATCATCTAAACACTGATAACGATTTT
Found at i:3564889 original size:185 final size:185
Alignment explanation
Indices: 3564546--3564917 Score: 433
Period size: 185 Copynumber: 2.0 Consensus size: 185
3564536 GGGTGCAATA
* * * *** * * * *
3564546 TATTTTATTAATACAAATATTAACATTATAGATCGCTACTTGTTTCTTAGTGAGCCGTGGCATTA
1 TATTTTATTAATAAAAATATTAAAATTACAGATCAAAACATATTTCTTAGTGAACCGTGACATTA
*** * * *
3564611 TTGGACTCAATTGTATTTCTTAGATATATTCAAAACATTTTCGACTCTAAACTTATTTTTTTATC
66 TTGGAAGAAATCGTATTTCTTAGATATATTCAAAACATTTTAGACTCTAAACTTATTTTCTTATC
* * * *
3564676 GTGAAAAAATCAAGGCTCCATCAACTTAAACTGTGATAATATTTTAGGCGCAACC
131 ATGAAAAAATCAAGGCTACATCAACTTAAACTCTGATAACATTTTAGGCGCAACC
*
3564731 TATTTTATTAATAAAAATATTAAAATTACATATCAAAACATATTTCTTAGTGAACCGTGACATTA
1 TATTTTATTAATAAAAATATTAAAATTACAGATCAAAACATATTTCTTAGTGAACCGTGACATTA
* * * * *
3564796 TTGGAAGAAATCGTATTTCTTATATATATTCATAACATTTTTAG-CTTTTAACTTATTTTCTTGT
66 TTGGAAGAAATCGTATTTCTTAGATATATTCAAAACA-TTTTAGACTCTAAACTTATTTTCTTAT
* * * * *
3564860 CATG-GAAAATCCAATGCTATATTAACTTAAATTCTGATAACATTTTAGGCGCAACC
130 CATGAAAAAAT-CAAGGCTACATCAACTTAAACTCTGATAACATTTTAGGCGCAACC
3564916 TA
1 TA
3564918 AAATATTAAT
Statistics
Matches: 154, Mismatches: 31, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
184 5 0.03
185 144 0.94
186 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (185 bp):
TATTTTATTAATAAAAATATTAAAATTACAGATCAAAACATATTTCTTAGTGAACCGTGACATTA
TTGGAAGAAATCGTATTTCTTAGATATATTCAAAACATTTTAGACTCTAAACTTATTTTCTTATC
ATGAAAAAATCAAGGCTACATCAACTTAAACTCTGATAACATTTTAGGCGCAACC
Found at i:3565273 original size:31 final size:31
Alignment explanation
Indices: 3565235--3565323 Score: 178
Period size: 31 Copynumber: 2.9 Consensus size: 31
3565225 ATGTTACACG
3565235 ACGAACTTAAACTTATAAAATTCTAGGGAAT
1 ACGAACTTAAACTTATAAAATTCTAGGGAAT
3565266 ACGAACTTAAACTTATAAAATTCTAGGGAAT
1 ACGAACTTAAACTTATAAAATTCTAGGGAAT
3565297 ACGAACTTAAACTTATAAAATTCTAGG
1 ACGAACTTAAACTTATAAAATTCTAGG
3565324 TGAGACGAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (31 bp):
ACGAACTTAAACTTATAAAATTCTAGGGAAT
Found at i:3565332 original size:31 final size:31
Alignment explanation
Indices: 3565234--3565332 Score: 164
Period size: 31 Copynumber: 3.2 Consensus size: 31
3565224 TATGTTACAC
3565234 GACGAACTTAAACTTATAAAATTCTAGGGAA
1 GACGAACTTAAACTTATAAAATTCTAGGGAA
*
3565265 TACGAACTTAAACTTATAAAATTCTAGGGAA
1 GACGAACTTAAACTTATAAAATTCTAGGGAA
*
3565296 TACGAACTTAAACTTATAAAATTCTAGGTG-A
1 GACGAACTTAAACTTATAAAATTCTAGG-GAA
3565327 GACGAA
1 GACGAA
3565333 AATAGATTAC
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 64 0.98
32 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (31 bp):
GACGAACTTAAACTTATAAAATTCTAGGGAA
Found at i:3566151 original size:17 final size:15
Alignment explanation
Indices: 3566124--3566164 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
3566114 TAAAAATTCA
*
3566124 AAATATATTTAATTT
1 AAATTTATTTAATTT
3566139 ATAATTCTATTTAATTT
1 A-AATT-TATTTAATTT
3566156 AAATTTATT
1 AAATTTATT
3566165 ACTATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 5 0.22
16 7 0.30
17 11 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
AAATTTATTTAATTT
Found at i:3566554 original size:14 final size:15
Alignment explanation
Indices: 3566524--3566556 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3566514 AATAGAATAA
3566524 ATAAATAAATATTAT
1 ATAAATAAATATTAT
*
3566539 ATAAATATAT-TTAT
1 ATAAATAAATATTAT
3566553 ATAA
1 ATAA
3566557 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATAAATATTAT
Found at i:3566644 original size:15 final size:14
Alignment explanation
Indices: 3566614--3566673 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
3566604 TATCAAACGT
3566614 AATAATAAAA-TAA
1 AATAATAAAATTAA
3566627 AATAATAATAATTAA
1 AATAATAA-AATTAA
3566642 AATGAA-AGAAATTAA
1 AAT-AATA-AAATTAA
*
3566657 AAGTAATAATATTAA
1 AA-TAATAAAATTAA
3566672 AA
1 AA
3566674 ACTAATGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 25 0.62
16 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:3568063 original size:14 final size:13
Alignment explanation
Indices: 3568044--3568111 Score: 79
Period size: 12 Copynumber: 5.4 Consensus size: 13
3568034 TTGGGCTTTG
*
3568044 TAATATTTAATAAA
1 TAATATATAAT-AA
3568058 TAATATATAATAA
1 TAATATATAATAA
3568071 TAAT-TATAATAA
1 TAATATATAATAA
3568083 TAATA-ATAATAA
1 TAATATATAATAA
**
3568095 TTTTA-ATAATAA
1 TAATATATAATAA
3568107 TAATA
1 TAATA
3568112 AATTTAAATG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
12 32 0.67
13 6 0.12
14 10 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATATATAATAA
Found at i:3568070 original size:3 final size:3
Alignment explanation
Indices: 3568051--3568112 Score: 79
Period size: 3 Copynumber: 20.0 Consensus size: 3
3568041 TTGTAATATT
* **
3568051 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TTT
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3568098 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
3568113 ATTTAAATGA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:3568471 original size:76 final size:76
Alignment explanation
Indices: 3568239--3568728 Score: 806
Period size: 75 Copynumber: 6.5 Consensus size: 76
3568229 GATGGAAATG
* * * * *
3568239 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAAGC
3568304 TCCCGAAGGCTT
65 TCCCGAAGGCTT
* *
3568316 TTCGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
3568380 CCCGAAGGCTT
66 CCCGAAGGCTT
3568391 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
3568456 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
3568467 TTTGGAAATATCATGCACTGCAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
3568531 CCCGAAGGCTT
66 CCCGAAGGCTT
3568542 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
3568607 CTCGAAGGCTT
66 CCCGAAGGCTT
* *
3568618 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
3568682 CCCGAAGGCTT
66 CCCGAAGGCTT
* * *
3568693 TTTGAAAAACATCATGCACTGAAGGGCTTACAGATG
1 TTTG-GAAACATCATGCACTGTAGGACTTACAGATG
3568729 TGGGAAATAG
Statistics
Matches: 392, Mismatches: 18, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
75 179 0.46
76 174 0.44
77 39 0.10
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:3568754 original size:151 final size:151
Alignment explanation
Indices: 3568239--3568728 Score: 836
Period size: 151 Copynumber: 3.2 Consensus size: 151
3568229 GATGGAAATG
* * * * *
3568239 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAAGC
* *
3568304 TCCCGAAGGCTTTTCGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTGAAAAC
65 TCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGTTTGAAAAC
3568369 ATCAAAAAGCTCCCGAAGGCTT
130 ATCAAAAAGCTCCCGAAGGCTT
3568391 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
* *
3568456 CCCGAAGGCTTTTTGGAAATATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTGAAAACA
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGTTTGAAAACA
3568521 TCAAAAAGCTCCCGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
3568542 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
* *
3568607 CTCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTGAAAACA
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGTTTGAAAACA
3568672 TCAAAAAGCTCCCGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
* * *
3568693 TTTGAAAAACATCATGCACTGAAGGGCTTACAGATG
1 TTTG-GAAACATCATGCACTGTAGGACTTACAGATG
3568729 TGGGAAATAG
Statistics
Matches: 321, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
151 253 0.79
152 68 0.21
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (151 bp):
TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGTTTGAAAACA
TCAAAAAGCTCCCGAAGGCTT
Found at i:3569434 original size:22 final size:22
Alignment explanation
Indices: 3569409--3569463 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
3569399 CATAAAGCTT
3569409 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
3569431 TCATCTTTAAAAAGAGAATCTT
1 TCATCTTTGAAAAGAGAATCTA
3569453 TCATCTTTGAA
1 TCATCTTTGAA
3569464 GAATGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:3571657 original size:6 final size:6
Alignment explanation
Indices: 3571646--3571671 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3571636 GAAATCCTGA
3571646 ATTCTG ATTCTG ATTCTG ATTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG AT
3571672 GAGGAGAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:3572095 original size:114 final size:114
Alignment explanation
Indices: 3571957--3572402 Score: 759
Period size: 114 Copynumber: 3.9 Consensus size: 114
3571947 GATCATGCAG
* * * *
3571957 TTCATCTTTCAATTCCAATGATTGGTTCTAGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
3572022 ACACTTTCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAACAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAACAAA
*
3572071 TTCATCTTTTAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
3572136 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAACAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAACAAA
* *
3572185 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
3572250 ACACTTCCAGAAGATTCTATTGGGTTTTCTTATTTCTACTATGAACAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAACAAA
* *
3572299 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
3572364 ACACTTCCAGAAGATGCTATTGGG-CTCCTTATTTCTACT
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACT
3572403 GCGAGAACGT
Statistics
Matches: 317, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
113 13 0.04
114 304 0.96
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAACAAA
Found at i:3579478 original size:17 final size:15
Alignment explanation
Indices: 3579451--3579491 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
3579441 TAAAAATTCA
*
3579451 AAATATATTTAATTT
1 AAATTTATTTAATTT
3579466 ATAATTCTATTTAATTT
1 A-AATT-TATTTAATTT
3579483 AAATTTATT
1 AAATTTATT
3579492 ACTATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 5 0.22
16 7 0.30
17 11 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
AAATTTATTTAATTT
Found at i:3579974 original size:15 final size:14
Alignment explanation
Indices: 3579944--3580003 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
3579934 TATCAAACGT
3579944 AATAATAAAA-TAA
1 AATAATAAAATTAA
3579957 AATAATAATAATTAA
1 AATAATAA-AATTAA
3579972 AATGAA-AGAAATTAA
1 AAT-AATA-AAATTAA
*
3579987 AAGTAATAATATTAA
1 AA-TAATAAAATTAA
3580002 AA
1 AA
3580004 ACTAATGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 25 0.62
16 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:3581411 original size:3 final size:3
Alignment explanation
Indices: 3581392--3581456 Score: 85
Period size: 3 Copynumber: 21.0 Consensus size: 3
3581382 TTGTAATATT
*
3581392 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
3581439 TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
3581457 ATTTAAATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
3 48 0.89
4 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:3581413 original size:24 final size:23
Alignment explanation
Indices: 3581385--3581456 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 23
3581375 TTGGGCTTTG
3581385 TAAT-ATTTAATAAATAATATATAA
1 TAATAATTTAAT-AATAATA-ATAA
3581409 TAATAATTATAATAATAATAATAA
1 TAATAATT-TAATAATAATAATAA
3581433 TAATAATTTTAATAATAATAATAA
1 TAATAA-TTTAATAATAATAATAA
3581457 ATTTAAATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
24 29 0.64
25 12 0.27
26 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATAATTTAATAATAATAATAA
Found at i:3583940 original size:2 final size:2
Alignment explanation
Indices: 3583933--3583986 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
3583923 ATTCTAACCC
3583933 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3583975 AT AT AT AT AT AT
1 AT AT AT AT AT AT
3583987 GAGCATAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3585659 original size:3 final size:3
Alignment explanation
Indices: 3585645--3585677 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
3585635 ATCTACAAAC
3585645 TCT TCT TCCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT T-CT TCT TCT TCT TCT TCT TCT TCT TC
3585678 CTCCTCCCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:3587899 original size:12 final size:12
Alignment explanation
Indices: 3587856--3587899 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
3587846 TAACATTCGG
3587856 TACTGTTCACG-
1 TACTGTTCACGA
*
3587867 GACTGTTCACGA
1 TACTGTTCACGA
*
3587879 TACTATTCACGA
1 TACTGTTCACGA
*
3587891 TATTGTTCA
1 TACTGTTCA
3587900 TACGGTGTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (12 bp):
TACTGTTCACGA
Found at i:3592712 original size:39 final size:38
Alignment explanation
Indices: 3592664--3592742 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
3592654 CGTGCATTCC
*
3592664 TGGGATTTTCTCCATTTGTCTGAAGACATCATACAGTCG
1 TGGGATTTTCTCCATTTGT-TGAAGACACCATACAGTCG
* ** *
3592703 TGGGGTTTTCTTTATTTGTTGAAGACACCATGCAGTCG
1 TGGGATTTTCTCCATTTGTTGAAGACACCATACAGTCG
3592741 TG
1 TG
3592743 AAATCTTCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
38 19 0.54
39 16 0.46
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (38 bp):
TGGGATTTTCTCCATTTGTTGAAGACACCATACAGTCG
Found at i:3601980 original size:29 final size:28
Alignment explanation
Indices: 3601919--3601995 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 28
3601909 TTGTATCATA
*
3601919 CATCCTTAAATTATAATTATTTTAAATT
1 CATCCTTAAATTATAAATATTTTAAATT
* * * *
3601947 GATCCTTAAATTTTTAAATGTTTTAATTT
1 CATCCTTAAA-TTATAAATATTTTAAATT
* * *
3601976 CATCCCTAAACTATGAATAT
1 CATCCTTAAATTATAAATAT
3601996 AATTCTAAAT
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
28 15 0.41
29 22 0.59
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (28 bp):
CATCCTTAAATTATAAATATTTTAAATT
Found at i:3606629 original size:9 final size:8
Alignment explanation
Indices: 3606589--3606636 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
3606579 AACTACATTA
*
3606589 TTTTTTCT
1 TTTTTTAT
3606597 TTATTTTAT
1 TT-TTTTAT
*
3606606 TGCTTATTAT
1 T--TTTTTAT
3606616 TTTTTTAT
1 TTTTTTAT
3606624 TTTTTTAT
1 TTTTTTAT
3606632 TTTTT
1 TTTTT
3606637 CTGTAACATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 21 0.62
9 6 0.18
10 6 0.18
11 1 0.03
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTTTAT
Found at i:3608081 original size:18 final size:18
Alignment explanation
Indices: 3608058--3608136 Score: 108
Period size: 18 Copynumber: 4.4 Consensus size: 18
3608048 AGGGATTATC
3608058 AGTGGTCCTTC-GGTACAT
1 AGTGGTCCTTCAGG-ACAT
*
3608076 AGTGGTCCTTC-GGTATAT
1 AGTGGTCCTTCAGG-ACAT
3608094 AGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCAGGACAT
*
3608112 AGTGGTCCTTCAAGACAT
1 AGTGGTCCTTCAGGACAT
3608130 AGTGGTC
1 AGTGGTC
3608137 ATTTGGGACA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
18 55 0.96
19 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (18 bp):
AGTGGTCCTTCAGGACAT
Found at i:3608146 original size:18 final size:18
Alignment explanation
Indices: 3608058--3608146 Score: 106
Period size: 18 Copynumber: 4.9 Consensus size: 18
3608048 AGGGATTATC
*
3608058 AGTGGTCCTTCGGTACAT
1 AGTGGTCCTTCGGGACAT
* *
3608076 AGTGGTCCTTCGGTATAT
1 AGTGGTCCTTCGGGACAT
*
3608094 AGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCGGGACAT
**
3608112 AGTGGTCCTTCAAGACAT
1 AGTGGTCCTTCGGGACAT
* *
3608130 AGTGGTCATTTGGGACA
1 AGTGGTCCTTCGGGACA
3608147 AATTCTACGC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:3612130 original size:2 final size:2
Alignment explanation
Indices: 3612123--3612149 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3612113 TAGATATGCC
3612123 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
3612150 CTAGAAGTTA
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:3612576 original size:18 final size:18
Alignment explanation
Indices: 3612553--3612623 Score: 106
Period size: 18 Copynumber: 3.9 Consensus size: 18
3612543 AGGGATTATC
* *
3612553 AGTGGTCCTTTGTGACAT
1 AGTGGTCCTTCGGGACAT
*
3612571 AGTGGTCATTCGGGACAT
1 AGTGGTCCTTCGGGACAT
3612589 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
3612607 AGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
3612624 AATTCTACGC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:3612606 original size:36 final size:36
Alignment explanation
Indices: 3612553--3612623 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
3612543 AGGGATTATC
* *
3612553 AGTGGTCCTTTGTGACATAGTGGTCATTCGGGACAT
1 AGTGGTCCTTCGGGACATAGTGGTCATTCGGGACAT
3612589 AGTGGTCCTTCGGGACATAGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACATAGTGGTCATTCGGGACA
3612624 AATTCTACGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (36 bp):
AGTGGTCCTTCGGGACATAGTGGTCATTCGGGACAT
Found at i:3618248 original size:8 final size:8
Alignment explanation
Indices: 3618220--3618258 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
3618210 TTGTCATTTT
3618220 ATAACAATA
1 ATAA-AATA
3618229 ATAAATATA
1 ATAAA-ATA
3618238 ATAAAATA
1 ATAAAATA
3618246 ATAAAATA
1 ATAAAATA
*
3618254 TTAAA
1 ATAAA
3618259 TGATTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 16 0.57
9 12 0.43
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (8 bp):
ATAAAATA
Found at i:3618267 original size:26 final size:25
Alignment explanation
Indices: 3618220--3618283 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
3618210 TTGTCATTTT
3618220 ATAACAATAATAAATATAATAAAATA
1 ATAA-AATAATAAATATAATAAAATA
* * *
3618246 ATAAAATATTAAATGATTATAATATA
1 ATAAAATAATAAAT-ATAATAAAATA
*
3618272 ATTAAAAAAATA
1 A-TAAAATAATA
3618284 GCTTATAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 9 0.29
26 14 0.45
27 8 0.26
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
ATAAAATAATAAATATAATAAAATA
Found at i:3620245 original size:32 final size:31
Alignment explanation
Indices: 3620204--3620290 Score: 88
Period size: 32 Copynumber: 2.7 Consensus size: 31
3620194 TTCTGAGATT
*
3620204 AAATTAATATTTTATCTAATA-TTTAAGAGG-TC
1 AAATTAATATTTTATATAA-ACTTT-AG-GGATC
*
3620236 AAATTAATATTTCATATAAACTTTAGGGATC
1 AAATTAATATTTTATATAAACTTTAGGGATC
* *
3620267 GAATTAATATTTTACATATAACTT
1 AAATTAATATTTTATATA-AACTT
3620291 AGATGTTAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
30 2 0.04
31 20 0.43
32 25 0.53
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (31 bp):
AAATTAATATTTTATATAAACTTTAGGGATC
Found at i:3623394 original size:24 final size:23
Alignment explanation
Indices: 3623342--3623401 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
3623332 CTTTTTGATT
*
3623342 TATTGAAATATTATTTGTTAACA
1 TATTAAAATATTATTTGTTAACA
* *
3623365 TTTTAAAATA-TATTTTGTTTAATA
1 TATTAAAATATTA-TTTG-TTAACA
3623389 TATT--AATATTATT
1 TATTAAAATATTATT
3623402 AGGATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
22 8 0.27
23 14 0.47
24 8 0.27
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TATTAAAATATTATTTGTTAACA
Found at i:3623401 original size:23 final size:22
Alignment explanation
Indices: 3623348--3623401 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
3623338 GATTTATTGA
*
3623348 AATATTA-TTTGTTAACATTTT
1 AATATTATTTTGTTAACATATT
* *
3623369 AAAATATATTTTGTTTAATATATT
1 AATAT-TATTTTG-TTAACATATT
3623393 AATATTATT
1 AATATTATT
3623402 AGGATAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.15
22 2 0.08
23 8 0.31
24 12 0.46
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
AATATTATTTTGTTAACATATT
Found at i:3628000 original size:29 final size:29
Alignment explanation
Indices: 3627967--3628050 Score: 71
Period size: 31 Copynumber: 2.8 Consensus size: 29
3627957 AAGTACATCG
* *
3627967 ACTATTAAAAGTTACAAGATGATCCTTCT
1 ACTATTAAAAGTTACAAAATGATCCTTCA
* ** *
3627996 ACTA-TAAAGTGTTACTTTATTGAGTCCTTCA
1 ACTATTAAA-AGTTAC-AAAATGA-TCCTTCA
*
3628027 ACTATTAAAAGTTTCAAAATGATC
1 ACTATTAAAAGTTACAAAATGATC
3628051 ACCCGACTAT
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
28 4 0.10
29 11 0.28
30 7 0.17
31 14 0.35
32 4 0.10
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (29 bp):
ACTATTAAAAGTTACAAAATGATCCTTCA
Found at i:3636799 original size:92 final size:93
Alignment explanation
Indices: 3636636--3636820 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 93
3636626 ATAATAGAAT
3636636 GGCCCTTTACCAAAAGGTTACCATGCATTTTAGTTAGTGCATACTAAACTAACGGCCATGCAAAT
1 GGCCCTTTACCAAAAGGTTACCATGCATTTTAGTTAGTGCATACTAAACTAACGGCCATGCAAAT
3636701 TGCGAACCTTATCACTCAAAAATGAAAA
66 TGCGAACCTTATCACTCAAAAATGAAAA
3636729 GGCCC-TTACCAAAAGGTTACCATGCATTTTAGTTAGTGCATACTAAACTAACGGCCATGCAAAT
1 GGCCCTTTACCAAAAGGTTACCATGCATTTTAGTTAGTGCATACTAAACTAACGGCCATGCAAAT
3636793 TGCGAACCTTATCACTCAAAAATGAAAA
66 TGCGAACCTTATCACTCAAAAATGAAAA
3636821 ATAAAAATTT
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 87 0.95
93 5 0.05
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (93 bp):
GGCCCTTTACCAAAAGGTTACCATGCATTTTAGTTAGTGCATACTAAACTAACGGCCATGCAAAT
TGCGAACCTTATCACTCAAAAATGAAAA
Found at i:3637202 original size:51 final size:53
Alignment explanation
Indices: 3637144--3637243 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
3637134 TAAAACTAAA
*
3637144 ATTA-TTTT-ATACAATATAATTAAATCTCACCTTATATATATATATATATAT
1 ATTATTTTTCATACAATATAATTAAATCCCACCTTATATATATATATATATAT
* **
3637195 ATTATTTTTCATACAATATAATTACATCCCGTCTTATATATATATATAT
1 ATTATTTTTCATACAATATAATTAAATCCCACCTTATATATATATATAT
3637244 TATTTTTCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.09
52 4 0.09
53 35 0.81
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.47
Consensus pattern (53 bp):
ATTATTTTTCATACAATATAATTAAATCCCACCTTATATATATATATATATAT
Found at i:3637456 original size:24 final size:24
Alignment explanation
Indices: 3637429--3637477 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
3637419 TCCAATCAAT
*
3637429 CAATAATAAGATAATCAGATTAGA
1 CAATAAAAAGATAATCAGATTAGA
*
3637453 CAATAAAAAGATAATTAGATTAGA
1 CAATAAAAAGATAATCAGATTAGA
3637477 C
1 C
3637478 GTTGAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.24
Consensus pattern (24 bp):
CAATAAAAAGATAATCAGATTAGA
Found at i:3651950 original size:26 final size:24
Alignment explanation
Indices: 3651879--3651950 Score: 60
Period size: 26 Copynumber: 3.0 Consensus size: 24
3651869 TTATATTTGT
*
3651879 ATTTACTTTATTTTGTTAAATTATA
1 ATTTACTTTATTTTTTTAAATT-TA
* *
3651904 ATTT--TTTATTATTTCT-CATTTA
1 ATTTACTTTATT-TTTTTAAATTTA
3651926 ATACTTACTTTATTTTTTTAAATTT
1 AT--TTACTTTATTTTTTTAAATTT
3651951 GTTGGACTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 11
0.69 0.10 0.21
Matches are distributed among these distances:
22 4 0.11
23 9 0.25
24 5 0.14
25 8 0.22
26 10 0.28
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (24 bp):
ATTTACTTTATTTTTTTAAATTTA
Found at i:3652018 original size:35 final size:33
Alignment explanation
Indices: 3651979--3652063 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
3651969 GTATTTCAGT
3651979 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
3652014 TAATTTGGTTATAATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
3652049 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
3652064 TAAATATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:3658525 original size:39 final size:39
Alignment explanation
Indices: 3658482--3658556 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
3658472 ATAAATAGAT
* * *
3658482 TAAATTTAATTAAAATTTATGAATTC-TAAATAAATAACA
1 TAAATTCAACTAAAATTTAT-AACTCATAAATAAATAACA
3658521 TAAATTCAACTAAAATTTATAACTCATAAATAAATA
1 TAAATTCAACTAAAATTTATAACTCATAAATAAATA
3658557 TTTATTGGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 4 0.12
39 28 0.88
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (39 bp):
TAAATTCAACTAAAATTTATAACTCATAAATAAATAACA
Found at i:3658613 original size:14 final size:14
Alignment explanation
Indices: 3658584--3658635 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
3658574 GAAACAATTT
*
3658584 TTTA-GGTTAAAG-
1 TTTAGGGTTTAAGA
3658596 TTTAGGGTTTAAGA
1 TTTAGGGTTTAAGA
*
3658610 TTTAAGGTTT-AGAA
1 TTTAGGGTTTAAG-A
3658624 TTTAGGGTTTAA
1 TTTAGGGTTTAA
3658636 CAAATTAAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 4 0.12
13 9 0.27
14 19 0.58
15 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTAAGA
Found at i:3676736 original size:13 final size:13
Alignment explanation
Indices: 3676718--3676749 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
3676708 AAAATAATCA
3676718 TTTTTATTTTTAT
1 TTTTTATTTTTAT
3676731 TTTTTATTTTTAT
1 TTTTTATTTTTAT
3676744 TTTTTA
1 TTTTTA
3676750 GAGTATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:3676749 original size:7 final size:6
Alignment explanation
Indices: 3676717--3676747 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
3676707 AAAAATAATC
3676717 ATTTTT ATTTTT ATTTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT A-TTTTT ATTTTT ATTTTT
3676748 TAGAGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
ATTTTT
Found at i:3676879 original size:16 final size:17
Alignment explanation
Indices: 3676841--3676886 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
3676831 TGTTTATGAG
3676841 GGAATTAGAATCTGTGAA
1 GGAATTAGAATCTGT-AA
*
3676859 GGAATTATAATCTGT-A
1 GGAATTAGAATCTGTAA
*
3676875 GGAATTGGAATC
1 GGAATTAGAATC
3676887 CAATTCCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.44
18 14 0.56
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (17 bp):
GGAATTAGAATCTGTAA
Found at i:3677543 original size:37 final size:38
Alignment explanation
Indices: 3677458--3677550 Score: 145
Period size: 38 Copynumber: 2.5 Consensus size: 38
3677448 CCCTAAACCT
*
3677458 AAACCCGACCCGACCTGACCTGAATATCACACTTAAAA
1 AAACCCGACCCGACCTGACCCGAATATCACACTTAAAA
*
3677496 AAATCCGACCCGA-CTCGACCCGAATATCACACTT-AAA
1 AAACCCGACCCGACCT-GACCCGAATATCACACTTAAAA
3677533 AAACCCGACCCGACCTGA
1 AAACCCGACCCGACCTGA
3677551 ACAAAATAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
37 19 0.38
38 31 0.62
ACGTcount: A:0.38, C:0.37, G:0.12, T:0.14
Consensus pattern (38 bp):
AAACCCGACCCGACCTGACCCGAATATCACACTTAAAA
Found at i:3677765 original size:38 final size:37
Alignment explanation
Indices: 3677722--3677807 Score: 136
Period size: 38 Copynumber: 2.3 Consensus size: 37
3677712 AACCCGAACA
*
3677722 CGACCCGATCCGACCCGAATATCACACTTAAAAAAACC
1 CGACCCGA-CCGACCCGAATATAACACTTAAAAAAACC
*
3677760 CGACCCGACTCGACCTGAATATAACACTTAAAAAAACC
1 CGACCCGAC-CGACCCGAATATAACACTTAAAAAAACC
3677798 CGACCCGACC
1 CGACCCGACC
3677808 CGAACAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 2 0.04
38 43 0.96
ACGTcount: A:0.38, C:0.37, G:0.12, T:0.13
Consensus pattern (37 bp):
CGACCCGACCGACCCGAATATAACACTTAAAAAAACC
Found at i:3677930 original size:261 final size:258
Alignment explanation
Indices: 3677412--3677989 Score: 926
Period size: 260 Copynumber: 2.2 Consensus size: 258
3677402 TATAAGGTAA
* **
3677412 AATTATAT-TTTTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCTAAACCCGACCCGACCTGA
1 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCTGA
* * *
3677476 CCTGAATATCACACTTAAAAAAATCCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGA
66 CCCGAATATCACACTTAAAAAAACCCGACCCGACTCGACCCGAATATAACACTTAAAAAACCCGA
* * *
3677541 CCCGACCTGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAGAAATCCGACCG
131 CCCGACCCGAACAAAATAAAGTTTCATCCAACCCAACCCAAATATATGAATTAGAAATCCGACCG
*
3677606 ACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAAAAGTGACTTAATCCGACCCGACCCG
196 ACCCGAAATAATAAAAAAATATTTGTATTTAATAAAAAAAGTGACTTAATCCGACCCGACCCG
* *
3677669 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTTCACCTTAAACCCGAACACGACCCGATCC-
1 AATTATATATATTTTCGGGTCGGTCCGG-TTTTTTTCACCCTAAACCCGAACCCGACCCGA-CCT
*
3677733 GACCCGAATATCACACTTAAAAAAACCCGACCCGACTCGACCTGAATATAACACTTAAAAAAACC
64 GACCCGAATATCACACTTAAAAAAACCCGACCCGACTCGACCCGAATATAACACTT-AAAAAACC
** *
3677798 CGACCCGACCCGAACAAAATAAAGTTTCATCTGACCCAACCCAAATATATGAATTAGAAATTCGA
128 CGACCCGACCCGAACAAAATAAAGTTTCATCCAACCCAACCCAAATATATGAATTAGAAATCCGA
* *
3677863 CCCGACCCGAAATAATAAAAAATTATTTGTATTTAATAAAAACAGTGACTTAATCCGACCCGACC
193 -CCGACCCGAAATAATAAAAAAATATTTGTATTTAATAAAAAAAGTGACTTAATCCGACCCGACC
3677928 CG
257 CG
* *
3677930 AATTATATATATTTTCGGGTCAGTCCGGTTTTTTTCGCCCTAAACCCGAACCCGACCCGA
1 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGA
3677990 ATATCACACT
Statistics
Matches: 294, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
257 8 0.03
258 18 0.06
259 80 0.27
260 98 0.33
261 90 0.31
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (258 bp):
AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCTGA
CCCGAATATCACACTTAAAAAAACCCGACCCGACTCGACCCGAATATAACACTTAAAAAACCCGA
CCCGACCCGAACAAAATAAAGTTTCATCCAACCCAACCCAAATATATGAATTAGAAATCCGACCG
ACCCGAAATAATAAAAAAATATTTGTATTTAATAAAAAAAGTGACTTAATCCGACCCGACCCG
Found at i:3679498 original size:60 final size:60
Alignment explanation
Indices: 3679415--3679581 Score: 180
Period size: 60 Copynumber: 2.8 Consensus size: 60
3679405 TGTCTCGCAC
** * * * * *
3679415 TCATTTTAAATTAATCTTTAAACTTTTAAACA-TTCTAATTACATCCCTAAACTATGA-CT
1 TCATTTTAAATTGGTCCTCAAACTTTTAAACATTTC-AATTTCATCCCCAAACTACGATCT
*
3679474 ATCATTTTAAATTGGTCCTCAAACTTTTGAAA-ATTTCATTTTCATCCCCAAACTACGATCT
1 -TCATTTTAAATTGGTCCTCAAACTTTT-AAACATTTCAATTTCATCCCCAAACTACGATCT
* *
3679535 TTATTTTAAATTGGTCC-CTAAATTTTTAAACATTTCAATTTCATCCC
1 TCATTTTAAATTGGTCCTC-AAACTTTTAAACATTTCAATTTCATCCC
3679582 ACATTATACA
Statistics
Matches: 91, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
59 4 0.04
60 79 0.87
61 8 0.09
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (60 bp):
TCATTTTAAATTGGTCCTCAAACTTTTAAACATTTCAATTTCATCCCCAAACTACGATCT
Found at i:3680308 original size:21 final size:21
Alignment explanation
Indices: 3680282--3680321 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3680272 ATACCCCTAA
*
3680282 CTTAAAACCTAAATTATAAAT
1 CTTAAAACCTAAATCATAAAT
*
3680303 CTTAAACCCTAAATCATAA
1 CTTAAAACCTAAATCATAA
3680322 TCTCATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (21 bp):
CTTAAAACCTAAATCATAAAT
Found at i:3680331 original size:21 final size:21
Alignment explanation
Indices: 3680289--3680337 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
3680279 TAACTTAAAA
* *
3680289 CCTAAATTATAAATCTTAAAC
1 CCTAAATCATAAATCTCAAAC
3680310 CCTAAATCAT-AATCTCATAAC
1 CCTAAATCATAAATCTCA-AAC
3680331 CTCTAAA
1 C-CTAAA
3680338 CCCTAAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 13 0.54
22 5 0.21
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (21 bp):
CCTAAATCATAAATCTCAAAC
Found at i:3681448 original size:21 final size:21
Alignment explanation
Indices: 3681424--3681482 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
3681414 TATCAACTAT
3681424 CGTGAACTGTCATGTCAATAC
1 CGTGAACTGTCATGTCAATAC
* ***
3681445 CGTGGACCACCATGTCAATAC
1 CGTGAACTGTCATGTCAATAC
*
3681466 AGTGAACTGTCATGTCA
1 CGTGAACTGTCATGTCA
3681483 GCACCGTAAC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (21 bp):
CGTGAACTGTCATGTCAATAC
Found at i:3688510 original size:28 final size:28
Alignment explanation
Indices: 3688454--3688510 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
3688444 CAAAAGTTAG
*
3688454 TTTTATAATAAACTAAAATAAAATTATAA
1 TTTTATAATAAAATAAAATAAAA-TATAA
3688483 TTTTA-AATAAAAATAATAATAAAA-ATAA
1 TTTTATAAT-AAAATAA-AATAAAATATAA
3688511 AGTAATCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 7 0.28
29 11 0.44
30 7 0.28
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
TTTTATAATAAAATAAAATAAAATATAA
Found at i:3690547 original size:60 final size:60
Alignment explanation
Indices: 3690449--3690563 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
3690439 AATCCGATCC
* * *
3690449 GATTATAAGATATTATTTTGTTAAGTCATTTAATTATTAAAAATTATAAAATGGTATTCT
1 GATTATAAGATATTATTTTGTTAAGTCATTCAACTATTAAAAATTACAAAATGGTATTCT
* * *
3690509 GATTATAA-ATTATTATTTTGTTAAATTCA-TCAGCTATTAAAAATTACGAAATGGT
1 GATTATAAGA-TATTATTTTGTT-AAGTCATTCAACTATTAAAAATTACAAAATGGT
3690564 TACCCGATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 1 0.02
60 41 0.87
61 5 0.11
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.44
Consensus pattern (60 bp):
GATTATAAGATATTATTTTGTTAAGTCATTCAACTATTAAAAATTACAAAATGGTATTCT
Found at i:3690573 original size:60 final size:60
Alignment explanation
Indices: 3690447--3690574 Score: 136
Period size: 60 Copynumber: 2.1 Consensus size: 60
3690437 GCAATCCGAT
* * * *
3690447 CCGATTATAAGATATTATTTTGTTAAGTCATTTAATTATTAAAAATTATAAAATGGTATT
1 CCGATTATAAGATATTATTTTGTTAAGTCATTCAACTATTAAAAATTACAAAATGGTATC
* * * *
3690507 CTGATTATAA-ATTATTATTTTGTTAAATTCA-TCAGCTATTAAAAATTACGAAATGGT-TAC
1 CCGATTATAAGA-TATTATTTTGTT-AAGTCATTCAACTATTAAAAATTACAAAATGGTAT-C
3690567 CCGATTAT
1 CCGATTAT
3690575 TTATTATGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
59 2 0.04
60 49 0.88
61 5 0.09
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (60 bp):
CCGATTATAAGATATTATTTTGTTAAGTCATTCAACTATTAAAAATTACAAAATGGTATC
Found at i:3692205 original size:2 final size:2
Alignment explanation
Indices: 3692200--3692238 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
3692190 TTCATGTGTG
* * *
3692200 TA TA TA TA TA TA TA CA CA TA AA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3692239 TAATATGAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:3692403 original size:193 final size:193
Alignment explanation
Indices: 3692028--3692405 Score: 444
Period size: 193 Copynumber: 2.0 Consensus size: 193
3692018 ACCCTAATAT
* * * *
3692028 ATATATATATATATTTTATTAATATGAGATAAATAAATGAAAACATTTGTTTAAATATAAATTTT
1 ATATATATATATATTATATTAATATGAGATAAATAAACGAAAACATCTATTTAAATATAAATTTT
* * * * *
3692093 AATATTTTAACGTTGAACACTGACAGTCTGATATTTATGTGCTCGAACTTAAATCTTTAGAAATA
66 AATATTTTAACATTGAACACTCACAGTCTGACATTTATATGCTCGAACTTAAATCTTTAAAAATA
* * * *
3692158 ATAATAATTACTTTACAACAAAAGTCACTTGATTCATGTGTGTATATATATATATACACATAA
131 ATAACAATTACTTTACAACAAAAGTCACTTGATTCATATATATATATATATATATACACATAA
* *
3692221 ATATATATATATA-TATATTAATATGAGATAAATAAACGATAA-ATCTATTTAAATATAATTTTT
1 ATATATATATATATTATATTAATATGAGATAAATAAACGAAAACATCTATTTAAATATAAATTTT
* * *
3692284 AATTTTTTTAACATTGAATACTCATA-TCACTGACATTTATATGCTCGAA-TTAAAATCTTTAAA
66 AA-TATTTTAACATTGAACACTCACAGT--CTGACATTTATATGCTCGAACTT-AAATCTTTAAA
** * * * *
3692347 AATAATAACAATT-CATTTATTATAAACA-TCACTTGGTTTATATATATATGTATATATAT
127 AATAATAACAATTAC-TTTACAACAAA-AGTCACTTGATTCATATATATATATATATATAT
3692406 TGAAGAAGTA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
191 21 0.14
192 47 0.30
193 86 0.55
194 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (193 bp):
ATATATATATATATTATATTAATATGAGATAAATAAACGAAAACATCTATTTAAATATAAATTTT
AATATTTTAACATTGAACACTCACAGTCTGACATTTATATGCTCGAACTTAAATCTTTAAAAATA
ATAACAATTACTTTACAACAAAAGTCACTTGATTCATATATATATATATATATATACACATAA
Found at i:3694600 original size:22 final size:20
Alignment explanation
Indices: 3694554--3694602 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
3694544 CAATTACTTG
*
3694554 ATTTTAATATCTAAAATGAA
1 ATTTTAATATCTAAAATCAA
* *
3694574 TTTTTAATCATTTCAAAATCAA
1 ATTTTAAT-ATCT-AAAATCAA
3694596 ATTTTAA
1 ATTTTAA
3694603 AGCACTCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.30
21 3 0.13
22 13 0.57
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTTAATATCTAAAATCAA
Found at i:3696497 original size:31 final size:33
Alignment explanation
Indices: 3696435--3696498 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
3696425 GATCTAAATA
*
3696435 TTGAAAAGTCAAGCAAAGTTGGTTGCCAAACATG
1 TTGAAAAGTCAACCAAAGTTGG-TGCCAAACATG
*
3696469 TTGAAAAGTCATCCAAAGTT-G-GCCAAACAT
1 TTGAAAAGTCAACCAAAGTTGGTGCCAAACAT
3696499 TTAGGTGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 9 0.32
33 1 0.04
34 18 0.64
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (33 bp):
TTGAAAAGTCAACCAAAGTTGGTGCCAAACATG
Found at i:3700111 original size:64 final size:62
Alignment explanation
Indices: 3700041--3700197 Score: 161
Period size: 64 Copynumber: 2.5 Consensus size: 62
3700031 TTCAGTGTGT
* ** *
3700041 ATCGATGCACAGGAAGTGCATCGATGCACCCATTAAAAATGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCAAAGG-AGTGCATCGATGCACCCATT-AAAATAAAAACATCGAAGGCAATTAGTGC
* * ** * *
3700105 ATCGATGCATAAGGAGTGCATCGATGCACCCCCTTAAAATAAAAATATCGAAGGTGATTTGTGT
1 ATCGATGCA-AAGGAGTGCATCGATGCA-CCCATTAAAATAAAAACATCGAAGGCAATTAGTGC
**
3700169 ATCGATGCATGGGTAGTGCATCGATGCAC
1 ATCGATGCAAAGG-AGTGCATCGATGCAC
3700198 ATGTTAAAGA
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
63 3 0.04
64 67 0.86
65 8 0.10
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (62 bp):
ATCGATGCAAAGGAGTGCATCGATGCACCCATTAAAATAAAAACATCGAAGGCAATTAGTGC
Found at i:3703127 original size:20 final size:19
Alignment explanation
Indices: 3703100--3703139 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
3703090 TGATTTGGGT
*
3703100 ATAAGGAATAAATAAATGA
1 ATAAGGAATAAAGAAATGA
3703119 ATAATGGAATAAAGAAATGA
1 ATAA-GGAATAAAGAAATGA
3703139 A
1 A
3703140 AGGGATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.20
Consensus pattern (19 bp):
ATAAGGAATAAAGAAATGA
Done.