Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008226.1 Hibiscus syriacus cultivar Beakdansim tig00110860_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: 835745
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:606259 original size:152 final size:151
Alignment explanation
Indices: 606091--606382 Score: 466
Period size: 152 Copynumber: 1.9 Consensus size: 151
606081 TTTATATGTA
* *
606091 ATTTATTTAGAAATATCATAAAATGACTTCTAGTTGCTTTAAGACAACCCCTTTCTTAATATTAA
1 ATTTATTTAAAAATATCAGAAAATGACTTCTAGTTGCTTTAAGACAACCCCTTTCTTAATA-TAA
* * *
606156 TAA-ATAAATAATTATTAAT-AAAATATTTCTCTAAAAATAATT-AAAAAAATAAAATTAATATC
65 AAAGATAAATAAATATTAATAAAAACATTTCTCTAAAAATAATTAAAAAAAAT-AAATTAA-AT-
606218 T-ATAATTTATAAAAGTAAGATATTT
127 TAAT-ATTTATAAAAGTAAGATATTT
606243 ATTTATTTAAAAATATCAGAAAATGACTTCTAGTTGCTTTAAGACAACCCCTTTCTTAATATAAA
1 ATTTATTTAAAAATATCAGAAAATGACTTCTAGTTGCTTTAAGACAACCCCTTTCTTAATATAAA
606308 AAGATAAATAAATATTAATAAAAACATTTCTCTAAAAATAATTAAAAAAAATAAATTAAATTAAT
66 AAGATAAATAAATATTAATAAAAACATTTCTCTAAAAATAATTAAAAAAAATAAATTAAATTAAT
606373 ATTTATAAAA
131 ATTTATAAAA
606383 ATATCAGAAA
Statistics
Matches: 131, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
151 16 0.12
152 78 0.60
153 29 0.22
154 8 0.06
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (151 bp):
ATTTATTTAAAAATATCAGAAAATGACTTCTAGTTGCTTTAAGACAACCCCTTTCTTAATATAAA
AAGATAAATAAATATTAATAAAAACATTTCTCTAAAAATAATTAAAAAAAATAAATTAAATTAAT
ATTTATAAAAGTAAGATATTT
Found at i:610628 original size:24 final size:25
Alignment explanation
Indices: 610594--610643 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
610584 AACATATTTA
* *
610594 ACGGCCTCGACCACGTCCACG-CCC
1 ACGGCCACGACCACGACCACGTCCC
*
610618 ACGGCCACGACCCCGACCACGTCCC
1 ACGGCCACGACCACGACCACGTCCC
610643 A
1 A
610644 AAGGCTTGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.20, C:0.54, G:0.20, T:0.06
Consensus pattern (25 bp):
ACGGCCACGACCACGACCACGTCCC
Found at i:614496 original size:106 final size:107
Alignment explanation
Indices: 614229--614659 Score: 785
Period size: 107 Copynumber: 4.0 Consensus size: 107
614219 TTATAACATG
* *
614229 TTAAACTTAAAAAATTGTTTTGTTTAATCTAAAAAGTTATCCTCTTGGTAAGATTTTTTATTTCA
1 TTAAACTTAAAAAATTGTTTTGTTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCA
614294 ACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTA
66 ACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTA
*
614336 TTAAACTTAAAAATTTGTTTTGTTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCA
1 TTAAACTTAAAAAATTGTTTTGTTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCA
*
614401 ACGACCTCTATGGTTTTAATCTTATATTAGTAAATTGTATTA
66 ACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTA
*
614443 TTAAACTT-AAAAATTGATTTGTTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCA
1 TTAAACTTAAAAAATTGTTTTGTTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCA
614507 ACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTA
66 ACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTA
*
614549 TTAAACTTAAAAAATTGTTTTGTTTAATCTAAAATGTTACCCTCTTGGTAAGATTTTTTATTGCA
1 TTAAACTTAAAAAATTGTTTTGTTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCA
*
614614 ACGACCTCTATGGTTTTAATCTTATATTAGTAAATTGTATT-
66 ACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTA
614655 TTAAA
1 TTAAA
614660 ATTTCCTCTT
Statistics
Matches: 313, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
106 108 0.35
107 205 0.65
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (107 bp):
TTAAACTTAAAAAATTGTTTTGTTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCA
ACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTA
Found at i:614521 original size:213 final size:213
Alignment explanation
Indices: 614229--614659 Score: 801
Period size: 213 Copynumber: 2.0 Consensus size: 213
614219 TTATAACATG
* * *
614229 TTAAACTTAAAAAATTGTTTTGTTTAATCTAAAAAGTTATCCTCTTGGTAAGATTTTTTATTTCA
1 TTAAACTTAAAAAATTGATTTGTTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCA
*
614294 ACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTATTAAACTTAAAAATTTGTTTTGT
66 ACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTATTAAACTTAAAAAATTGTTTTGT
614359 TTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCAACGACCTCTATGGTTTTAATCTT
131 TTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCAACGACCTCTATGGTTTTAATCTT
614424 ATATTAGTAAATTGTATT
196 ATATTAGTAAATTGTATT
614442 ATTAAACTT-AAAAATTGATTTGTTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGC
1 -TTAAACTTAAAAAATTGATTTGTTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGC
614506 AACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTATTAAACTTAAAAAATTGTTTTG
65 AACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTATTAAACTTAAAAAATTGTTTTG
*
614571 TTTAATCTAAAATGTTACCCTCTTGGTAAGATTTTTTATTGCAACGACCTCTATGGTTTTAATCT
130 TTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCAACGACCTCTATGGTTTTAATCT
614636 TATATTAGTAAATTGTATT
195 TATATTAGTAAATTGTATT
614655 TTAAA
1 TTAAA
614660 ATTTCCTCTT
Statistics
Matches: 212, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
212 5 0.02
213 199 0.94
214 8 0.04
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (213 bp):
TTAAACTTAAAAAATTGATTTGTTTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCA
ACGACCTCTATGATTTTAATCTTATATTAGTAAATTGTATTATTAAACTTAAAAAATTGTTTTGT
TTAATCTAAAAAGTTACCCTCTTGGTAAGATTTTTTATTGCAACGACCTCTATGGTTTTAATCTT
ATATTAGTAAATTGTATT
Found at i:616412 original size:18 final size:18
Alignment explanation
Indices: 616389--616430 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
616379 GCCTGCGACT
*
616389 GCTGCTACGGCGACTGTG
1 GCTGCTACGACGACTGTG
* *
616407 GCTGCTCCGACTACTGTG
1 GCTGCTACGACGACTGTG
616425 GCTGCT
1 GCTGCT
616431 GCTACTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.31, G:0.33, T:0.26
Consensus pattern (18 bp):
GCTGCTACGACGACTGTG
Found at i:617536 original size:22 final size:22
Alignment explanation
Indices: 617511--617597 Score: 102
Period size: 22 Copynumber: 3.8 Consensus size: 22
617501 TAATAAATTA
*
617511 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
*
617533 TTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCAT---AT
**
617558 TACAATAATAAATCAATCCATAT
1 TTTAA-AATAAATCAATCCATAT
617581 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
617598 AATCCAAACA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
22 31 0.57
23 4 0.07
25 4 0.07
26 15 0.28
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:617601 original size:26 final size:26
Alignment explanation
Indices: 617515--617603 Score: 87
Period size: 26 Copynumber: 3.6 Consensus size: 26
617505 AAATTATTTA
*
617515 AAATAAATCAATTCATATTTTAAAAT
1 AAATAAATCAATCCATATTTTAAAAT
* * * * *
617541 AAATCAATCCATACA-A--CTACAAT
1 AAATAAATCAATCCATATTTTAAAAT
617564 -AATAAATCAATCCATATTTTAAAAT
1 AAATAAATCAATCCATATTTTAAAAT
*
617589 AAATCAATCAATCCA
1 AAATAAATCAATCCA
617604 AACAAATAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
22 11 0.23
23 6 0.12
25 6 0.12
26 25 0.52
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (26 bp):
AAATAAATCAATCCATATTTTAAAAT
Found at i:617616 original size:48 final size:49
Alignment explanation
Indices: 617515--617618 Score: 151
Period size: 48 Copynumber: 2.2 Consensus size: 49
617505 AAATTATTTA
* *
617515 AAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAACTACAAT
1 AAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAACTACAAT
*
617564 -AATAAATCAATCCATATTTTAAAATAAATCAATCAATCCAA--ACAAAT
1 AAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAACTAC-AAT
617611 AAATAAAT
1 AAATAAAT
617619 TATTTAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
46 2 0.04
47 3 0.06
48 45 0.90
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (49 bp):
AAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAACTACAAT
Found at i:617628 original size:18 final size:18
Alignment explanation
Indices: 617607--617696 Score: 56
Period size: 18 Copynumber: 5.4 Consensus size: 18
617597 CAATCCAAAC
617607 AAATAAATAAATTATTTA
1 AAATAAATAAATTATTTA
*
617625 AAATAAATCAATCTA--T-
1 AAATAAATAAAT-TATTTA
*
617641 -ACT-AATAAATTATTTA
1 AAATAAATAAATTATTTA
*
617657 AAATAAATCAATTGA--T-
1 AAATAAATAAATT-ATTTA
*
617673 -ACT-AATAAATTATTTA
1 AAATAAATAAATTATTTA
617689 AAATAAAT
1 AAATAAAT
617697 CAATCCATAC
Statistics
Matches: 52, Mismatches: 8, Indels: 24
0.62 0.10 0.29
Matches are distributed among these distances:
13 3 0.06
14 13 0.25
15 6 0.12
17 6 0.12
18 21 0.40
19 3 0.06
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.37
Consensus pattern (18 bp):
AAATAAATAAATTATTTA
Found at i:617630 original size:14 final size:14
Alignment explanation
Indices: 617611--617696 Score: 64
Period size: 14 Copynumber: 5.6 Consensus size: 14
617601 CCAAACAAAT
617611 AAATAAATTATTTA
1 AAATAAATTATTTA
*
617625 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
617642 CTAATAAATTATTTA
1 -AAATAAATTATTTA
*
617657 AAATAAATCAATTGATA
1 AAATAAAT-TATT--TA
*
617674 CTAATAAATTATTTA
1 -AAATAAATTATTTA
617689 AAATAAAT
1 AAATAAAT
617697 CAATCCATAC
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
14 22 0.39
15 9 0.16
16 2 0.04
17 9 0.16
18 14 0.25
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:617653 original size:32 final size:32
Alignment explanation
Indices: 617612--617942 Score: 256
Period size: 32 Copynumber: 11.0 Consensus size: 32
617602 CAAACAAATA
*
617612 AATAAATTATTTAAAATAAATCAATCTATACT
1 AATAAATTATTTAAAATAAATCAATCCATACT
**
617644 AATAAATTATTTAAAATAAATCAATTGATACT
1 AATAAATTATTTAAAATAAATCAATCCATACT
617676 AATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
1 AATAAATTATTTAAAATAAATCAAT-C---C-A-TAC--T
* *
617716 AATAAATCATTTTTAAAATAAATCAATCCATACA
1 AATAAAT--TATTTAAAATAAATCAATCCATACT
*
617750 AATAAATTATTTAAAATAAATCAATCCATACA
1 AATAAATTATTTAAAATAAATCAATCCATACT
* *
617782 AATAAA--A--T-AAATCAATC-CTCC-TACT
1 AATAAATTATTTAAAATAAATCAATCCATACT
617807 AATAAATTATTT-AAATAAATCAATCCATAC-
1 AATAAATTATTTAAAATAAATCAATCCATACT
*
617837 AACTACA--A--T--AATAAATCAATCCATA-T
1 AA-TAAATTATTTAAAATAAATCAATCCATACT
*
617863 --T---TTA---AAAATAAATCAATCCATACA
1 AATAAATTATTTAAAATAAATCAATCCATACT
617887 AATAAATTATTTAAAATAAATCAATCCAT-C-
1 AATAAATTATTTAAAATAAATCAATCCATACT
617917 -AT--A-T-TTTAAAATAAATCAATCCATAC
1 AATAAATTATTTAAAATAAATCAATCCATAC
617943 AACTACAATA
Statistics
Matches: 253, Mismatches: 14, Indels: 70
0.75 0.04 0.21
Matches are distributed among these distances:
22 1 0.00
23 17 0.07
25 29 0.11
26 22 0.09
27 11 0.04
28 1 0.00
29 15 0.06
30 6 0.02
31 7 0.03
32 102 0.40
34 7 0.03
36 3 0.01
37 2 0.01
38 4 0.02
40 8 0.03
41 1 0.00
42 17 0.07
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.32
Consensus pattern (32 bp):
AATAAATTATTTAAAATAAATCAATCCATACT
Found at i:617740 original size:74 final size:74
Alignment explanation
Indices: 617653--617791 Score: 233
Period size: 74 Copynumber: 1.9 Consensus size: 74
617643 TAATAAATTA
** * * *
617653 TTTAAAATAAATCAATTGATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACAAATAAAATAA
617718 TAAATCATT
66 TAAATCATT
617727 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACAAATAAAATAA
1 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACAAATAAAATAA
617792 ATCAATCCTC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (74 bp):
TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACAAATAAAATAA
TAAATCATT
Found at i:617754 original size:18 final size:18
Alignment explanation
Indices: 617731--617787 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
617721 ATCATTTTTA
617731 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
617749 AAATAAAT-TAT--TTA-
1 AAATAAATCAATCCATAC
617763 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
617781 AAATAAA
1 AAATAAA
617788 ATAAATCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
17 4 0.13
18 15 0.48
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:617754 original size:106 final size:104
Alignment explanation
Indices: 617581--617774 Score: 293
Period size: 106 Copynumber: 1.8 Consensus size: 104
617571 CAATCCATAT
* * *
617581 TTTAAAATAAATCAATCAATCCAAACAAATAAATAAATTATTTAAAATAAATCAATCTATACTAA
1 TTTAAAATAAATCAATCAATACAAACAAATAAATAAATTATTTAAAATAAATCAATCCATACAAA
617646 TAAATTATTTAAAATAAATCAATTGATACTAATAAATTA
66 TAAATTATTTAAAATAAATCAATTGATACTAATAAATTA
* *
617685 TTTAAAATAAATCAATCCATAC-AACTACAAT-AATAAATCATTTTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCAATACAAAC-A-AATAAATAAAT--TATTTAAAATAAATCAATCCATA
617748 CAAATAAATTATTTAAAATAAATCAAT
62 CAAATAAATTATTTAAAATAAATCAAT
617775 CCATACAAAT
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
103 3 0.04
104 28 0.35
105 3 0.04
106 47 0.58
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.33
Consensus pattern (104 bp):
TTTAAAATAAATCAATCAATACAAACAAATAAATAAATTATTTAAAATAAATCAATCCATACAAA
TAAATTATTTAAAATAAATCAATTGATACTAATAAATTA
Found at i:617834 original size:56 final size:57
Alignment explanation
Indices: 617729--617858 Score: 185
Period size: 56 Copynumber: 2.3 Consensus size: 57
617719 AAATCATTTT
617729 TAAAATAAATCAAT-CCATACAAATAAATTATTTAAAATAAATCAATCCATACAA-A
1 TAAAATAAATCAATCCCATACAAATAAATTATTTAAAATAAATCAATCCATACAACA
* *
617784 TAAAATAAATCAATCCTCCTACTAATAAATTATTT-AAATAAATCAATCCATACAACTA
1 TAAAATAAATCAATCC-CATACAAATAAATTATTTAAAATAAATCAATCCATACAAC-A
*
617842 CAATAATAAATCAATCC
1 TAA-AATAAATCAATCC
617859 ATATTTTAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
55 14 0.21
56 21 0.31
57 16 0.24
58 3 0.04
59 13 0.19
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (57 bp):
TAAAATAAATCAATCCCATACAAATAAATTATTTAAAATAAATCAATCCATACAACA
Found at i:617851 original size:26 final size:26
Alignment explanation
Indices: 617820--617964 Score: 120
Period size: 26 Copynumber: 5.5 Consensus size: 26
617810 AAATTATTTA
617820 AATAAATCAATCCATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
***
617846 AATAAATCAATCCATA-TTTTA-AA-
1 AATAAATCAATCCATACAACTACAAT
* *
617869 AATAAATCAATCCATACAAATAAATTATTT
1 AATAAATCAATCCATACAACTACA--A--T
* **
617899 AAAATAAATCAATCCAT-CATATTTTAA-
1 --AATAAATCAATCCATACA-ACTACAAT
617926 AATAAATCAATCCATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
617952 AATAAATCAATCC
1 AATAAATCAATCC
617965 TATTTTAAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
23 16 0.17
24 4 0.04
25 22 0.23
26 31 0.33
27 1 0.01
30 1 0.01
31 2 0.02
32 18 0.19
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (26 bp):
AATAAATCAATCCATACAACTACAAT
Found at i:617927 original size:25 final size:25
Alignment explanation
Indices: 617896--617987 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
617886 AAATAAATTA
617896 TTTAAAATAAATCAATCCATCATAT
1 TTTAAAATAAATCAATCCATCATAT
*
617921 TTTAAAATAAATCAATCCATACA-AC
1 TTTAAAATAAATCAATCCAT-CATAT
**
617946 TACAATAATAAATCAAT-C--C-TAT
1 TTTAA-AATAAATCAATCCATCATAT
617968 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
617988 ATAAAATTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
21 11 0.20
22 6 0.11
25 25 0.45
26 13 0.24
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (25 bp):
TTTAAAATAAATCAATCCATCATAT
Found at i:617940 original size:80 final size:81
Alignment explanation
Indices: 617759--617965 Score: 242
Period size: 80 Copynumber: 2.5 Consensus size: 81
617749 AAATAAATTA
* *
617759 TTTAAAATAAATCAATCCATACAAATAAAATAAATCAATCCTCCTACTAATAAATTATTTAAATA
1 TTTAAAATAAATCAATCCATACAAATAAAATAAATCAATCCTCATACAAATAAATTATTTAAATA
617824 AATCAATCCATACAAC
66 AATCAATCCATACAAC
** ***
617840 TACAATAATAAATCAATCCATA-TTTTAAAAATAAATCAAT-C-CATACAAATAAATTATTTAAA
1 TTTAA-AATAAATCAATCCATACAAAT-AAAATAAATCAATCCTCATACAAATAAATTATTT-AA
*
617902 ATAAATCAATCCAT-CATAT
63 ATAAATCAATCCATACA-AC
*
617921 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCT
1 TTTAAAATAAATCAATCCATACAA--ATAA-AATAAATCAATCCT
617966 ATTTTAAAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
80 34 0.33
81 25 0.25
82 31 0.30
83 11 0.11
84 1 0.01
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (81 bp):
TTTAAAATAAATCAATCCATACAAATAAAATAAATCAATCCTCATACAAATAAATTATTTAAATA
AATCAATCCATACAAC
Found at i:617956 original size:106 final size:108
Alignment explanation
Indices: 617811--618051 Score: 345
Period size: 106 Copynumber: 2.2 Consensus size: 108
617801 CCTACTAATA
617811 AATTATTT-AAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAAATAAA
1 AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC-TATTTT-AAAATAAA
617875 TCAATCCATACAAATAAATTATTTAAAATAA-A-TCAATCCAT-C-AT
64 TCAATCCAT--AAA-AAATTATTTAAAATAACATTCAATCCATACAAT
617919 -A-T-TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCTATTTTAAAATAAATC
1 AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCTATTTTAAAATAAATC
*
617981 AATCCATATAAAATTATTTAAAATAATCATTCAATCCATACTAAT
66 AATCCATAAAAAATTATTTAAAATAA-CATTCAATCCATAC-AAT
618026 AAATTATTTAAAATAAATCAATCCAT
1 -AATTATTTAAAATAAATCAATCCAT
618052 TTTATTTTAA
Statistics
Matches: 121, Mismatches: 1, Indels: 19
0.86 0.01 0.13
Matches are distributed among these distances:
101 16 0.13
102 2 0.02
103 1 0.01
104 26 0.21
105 10 0.08
106 41 0.34
107 3 0.02
109 1 0.01
110 1 0.01
111 20 0.17
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (108 bp):
AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCTATTTTAAAATAAATC
AATCCATAAAAAATTATTTAAAATAACATTCAATCCATACAAT
Found at i:617977 original size:47 final size:48
Alignment explanation
Indices: 617819--617988 Score: 225
Period size: 47 Copynumber: 3.4 Consensus size: 48
617809 TAAATTATTT
617819 AAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAA
1 AAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTT-A
* *
617868 AAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATCATATTTTA
1 AAATAAATCAATCCATACAACTACA--A--T--AATAAATCAAT-C--CATATTTTA
617925 AAATAAATCAATCCATACAACTACAATAATAAATCAATCC-TATTTTA
1 AAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTA
617972 AAATAAATCAATCCATA
1 AAATAAATCAATCCATA
617989 TAAAATTATT
Statistics
Matches: 108, Mismatches: 4, Indels: 20
0.82 0.03 0.15
Matches are distributed among these distances:
47 24 0.22
48 1 0.01
49 23 0.21
50 1 0.01
51 12 0.11
53 2 0.02
55 12 0.11
56 1 0.01
57 24 0.22
58 8 0.07
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (48 bp):
AAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTA
Found at i:618020 original size:32 final size:32
Alignment explanation
Indices: 617968--618051 Score: 120
Period size: 32 Copynumber: 2.6 Consensus size: 32
617958 TCAATCCTAT
617968 TTTAAAATAAATCAATCCATA-T-A-AAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
617997 TTTAAAATAATCATTCAATCCATACTAATAAATTA
1 TTTAAAATAA--A-TCAATCCATACTAATAAATTA
618032 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
618052 TTTATTTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
29 10 0.20
31 1 0.02
32 19 0.39
33 2 0.04
34 1 0.02
35 16 0.33
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:618035 original size:35 final size:29
Alignment explanation
Indices: 617968--618091 Score: 118
Period size: 32 Copynumber: 4.3 Consensus size: 29
617958 TCAATCCTAT
617968 TTTAAAATAAATCAATCCATATAAAATTA
1 TTTAAAATAAATCAATCCATATAAAATTA
617997 TTTAAAATAATCATTCAATCCATACTAATAAATTA
1 TTTAAAATAA--A-TCAATCCATA-T-A-AAATTA
618032 TTTAAAATAAATCAATCCAT-T----TTA
1 TTTAAAATAAATCAATCCATATAAAATTA
* *
618056 TTTTAAAATAAATCAAT-CTTAT-TAATTA
1 -TTTAAAATAAATCAATCCATATAAAATTA
618084 TTTAAAAT
1 TTTAAAAT
618092 TATTTAATAA
Statistics
Matches: 83, Mismatches: 1, Indels: 24
0.77 0.01 0.22
Matches are distributed among these distances:
24 5 0.06
25 17 0.20
27 8 0.10
28 3 0.04
29 10 0.12
30 1 0.01
31 1 0.01
32 19 0.23
33 2 0.02
34 1 0.01
35 16 0.19
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.40
Consensus pattern (29 bp):
TTTAAAATAAATCAATCCATATAAAATTA
Found at i:618045 original size:36 final size:32
Alignment explanation
Indices: 617968--618041 Score: 100
Period size: 35 Copynumber: 2.3 Consensus size: 32
617958 TCAATCCTAT
617968 TTTAAAATAA--A-TCAATCCATATAAAATTA
1 TTTAAAATAATCATTCAATCCATATAAAATTA
617997 TTTAAAATAATCATTCAATCCATACTAATAAATTA
1 TTTAAAATAATCATTCAATCCATA-T-A-AAATTA
618032 TTTAAAATAA
1 TTTAAAATAA
618042 ATCAATCCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
29 10 0.26
31 1 0.03
32 10 0.26
33 1 0.03
34 1 0.03
35 16 0.41
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAATCATTCAATCCATATAAAATTA
Found at i:618812 original size:60 final size:60
Alignment explanation
Indices: 618667--618813 Score: 147
Period size: 60 Copynumber: 2.5 Consensus size: 60
618657 AATAATGGAT
* * * *
618667 AAAG-TACATAAATGGTCCCTCGACTATAGAGTATTATTTTGTTGAATCCTCTTATTATTA
1 AAAGTTACA-AAATAGTCACTCGACTATAGAGTATTATTTTGTTGAATCATCCTATTATTA
* * * * * * *
618727 AAAATTATAAAATGATTCTCT-GACTATATGA-TGTTGTTTTGTTGAGTCATCCTATTATTA
1 AAAGTTACAAAAT-AGTCACTCGACTATA-GAGTATTATTTTGTTGAATCATCCTATTATTA
618787 AAAGTTACAAAATAGTCACTCGACTAT
1 AAAGTTACAAAATAGTCACTCGACTAT
618814 TCATATGTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
59 5 0.07
60 55 0.80
61 9 0.13
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (60 bp):
AAAGTTACAAAATAGTCACTCGACTATAGAGTATTATTTTGTTGAATCATCCTATTATTA
Found at i:622829 original size:20 final size:20
Alignment explanation
Indices: 622792--622829 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
622782 AAATTATTGA
*
622792 ATTCTGAAAATTTTATTAGT
1 ATTCTGAAAATTTAATTAGT
622812 ATTCTG-AAATTTGAATTA
1 ATTCTGAAAATTT-AATTA
622830 AATATTGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (20 bp):
ATTCTGAAAATTTAATTAGT
Found at i:624073 original size:2 final size:2
Alignment explanation
Indices: 624066--624092 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
624056 AAAATAAAAT
624066 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
624093 TGATACTTTA
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:629754 original size:16 final size:16
Alignment explanation
Indices: 629733--629766 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
629723 TTACTATTCA
*
629733 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
629749 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
629765 CG
1 CG
629767 ATCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:645174 original size:9 final size:9
Alignment explanation
Indices: 645160--645193 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
645150 TTCAGTAGTT
645160 ATTTTTTTA
1 ATTTTTTTA
645169 ATTTTTTTA
1 ATTTTTTTA
*
645178 ATTTTATTA
1 ATTTTTTTA
645187 ATTTTTT
1 ATTTTTT
645194 AATATAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:647347 original size:21 final size:20
Alignment explanation
Indices: 647261--647418 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
647251 AAATGACCAA
**
647261 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
647280 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
647300 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
647320 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
647341 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
647362 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
647382 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
647403 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
647419 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:647447 original size:20 final size:20
Alignment explanation
Indices: 647385--647578 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
647375 CGATTTTCCA
* ** *
647385 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
647405 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
647425 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
647445 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
647465 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
647485 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
647505 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
647525 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
647545 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
647566 AAATCGCAACGCG
1 AAATCGCAACGCG
647579 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:647469 original size:60 final size:60
Alignment explanation
Indices: 647385--647578 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
647375 CGATTTTCCA
* ** * *
647385 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
647445 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
647505 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
647566 AAATCGCAACGCG
1 AAATCGCAACGCG
647579 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:647750 original size:21 final size:21
Alignment explanation
Indices: 647724--647766 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
647714 CTCTCTACGG
647724 CGAAGAAATCCGTCCCCATCT
1 CGAAGAAATCCGTCCCCATCT
**
647745 CGAAGATTTCCGTCCCCATCT
1 CGAAGAAATCCGTCCCCATCT
647766 C
1 C
647767 CGGCGAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.40, G:0.14, T:0.23
Consensus pattern (21 bp):
CGAAGAAATCCGTCCCCATCT
Found at i:647993 original size:32 final size:32
Alignment explanation
Indices: 647955--648023 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
647945 ATTTCACTTA
* *
647955 GATTTCATTTCGCGTTACGATTCTGTCGTTGC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTCC
* *
647987 GATTTCATTTCGCGTTGCTATTCTCTCGTTCC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTCC
648019 GATTT
1 GATTT
648024 TCAAGTTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (32 bp):
GATTTCATTTCGCGTTACGATTCTCTCGTTCC
Found at i:648004 original size:18 final size:18
Alignment explanation
Indices: 647955--648004 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
647945 ATTTCACTTA
*
647955 GATTTCATTTCGCGTTAC
1 GATTTCATTTCGCGTTGC
*
647973 GA-TTC-TGT--CGTTGC
1 GATTTCATTTCGCGTTGC
647987 GATTTCATTTCGCGTTGC
1 GATTTCATTTCGCGTTGC
648005 TATTCTCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 3 0.12
16 4 0.16
17 3 0.12
18 8 0.32
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (18 bp):
GATTTCATTTCGCGTTGC
Found at i:648150 original size:20 final size:20
Alignment explanation
Indices: 648106--648215 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
648096 TGCAGAAGAG
*
648106 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
648127 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
648147 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
648168 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
648182 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
648201 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
648216 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:648163 original size:41 final size:38
Alignment explanation
Indices: 648099--648215 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
648089 TTCAATTTGC
* *
648099 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
648137 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
648178 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
648211 AGAAT
1 AGAAT
648216 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:648185 original size:14 final size:14
Alignment explanation
Indices: 648166--648222 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
648156 GAGAAATGAA
648166 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
648180 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
648199 AATCGCAACGAGAG
1 AATCGCAACGAGAG
648213 AATCGCAACG
1 AATCGCAACG
648223 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:648198 original size:33 final size:33
Alignment explanation
Indices: 648158--648238 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
648148 CGCAACGAGA
648158 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
648191 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
648224 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
648239 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:648256 original size:19 final size:19
Alignment explanation
Indices: 648234--648369 Score: 131
Period size: 19 Copynumber: 7.9 Consensus size: 19
648224 GAAACCAAAA
* *
648234 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATC
648253 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
*
648269 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATC
648286 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
648302 T--CGTTGCGATTTTCATC
1 TCGCGTTGCGATTTTCATC
*
648319 TCTCGTTGCGATTTTCATC
1 TCGCGTTGCGATTTTCATC
648338 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
648354 T--CGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
648370 TTCAACCAAA
Statistics
Matches: 99, Mismatches: 5, Indels: 28
0.75 0.04 0.21
Matches are distributed among these distances:
14 24 0.24
16 16 0.16
17 15 0.15
19 44 0.44
ACGTcount: A:0.10, C:0.25, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATC
Found at i:648281 original size:33 final size:33
Alignment explanation
Indices: 648239--648331 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
648229 CAAAATCGCA
648239 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
648272 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
648305 TTGCGATTTTCATCTCTCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
648332 TTCATCTCGC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:648321 original size:52 final size:52
Alignment explanation
Indices: 648265--648369 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
648255 GCGTTGCGAT
*
648265 TCTCTCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TCTCTCGTTGCGATTTTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
648317 TCTCTCGTTGCGATTTTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TCTCTCGTTGCGATTTTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
648369 T
1 T
648370 TTCAACCAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.10, C:0.26, G:0.19, T:0.46
Consensus pattern (52 bp):
TCTCTCGTTGCGATTTTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:650287 original size:17 final size:17
Alignment explanation
Indices: 650265--650297 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
650255 GTTGCTGCCA
650265 ATTCTACTAA-ACTGTGT
1 ATTCTA-TAACACTGTGT
650282 ATTCTATAACACTGTG
1 ATTCTATAACACTGTG
650298 AAATAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (17 bp):
ATTCTATAACACTGTGT
Found at i:650453 original size:93 final size:93
Alignment explanation
Indices: 650055--650434 Score: 726
Period size: 93 Copynumber: 4.1 Consensus size: 93
650045 TAGATTGCTT
*
650055 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
650120 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
650148 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
650213 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
650241 AGTAAATTTGTTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
650306 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
650334 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
650399 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
650426 AGTAAATTT
1 AGTAAATTT
650435 ATCCATTCAA
Statistics
Matches: 282, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
92 36 0.13
93 246 0.87
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:650553 original size:14 final size:14
Alignment explanation
Indices: 650534--650590 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
650524 GCGAAATGAA
*
650534 AATCGCAACGACAG
1 AATCGCAACGAAAG
650548 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
650565 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
650581 AATCGCAACG
1 AATCGCAACG
650591 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:650561 original size:33 final size:33
Alignment explanation
Indices: 650515--650607 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
650505 GCGAAACCAA
*
650515 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
650548 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
650581 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
650608 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:650572 original size:19 final size:19
Alignment explanation
Indices: 650478--650612 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
650468 TAGTTTACTT
* *
650478 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
650498 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
650517 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
650536 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
650550 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
650569 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
650583 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
650602 TCGCAATGCGA
1 TCGCAACGCGA
650613 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:650630 original size:19 final size:19
Alignment explanation
Indices: 650608--650734 Score: 114
Period size: 19 Copynumber: 7.3 Consensus size: 19
650598 AAAATCGCAA
650608 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
650627 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
650641 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
650660 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
650674 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
650693 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
** *
650711 TGCGATTTAAGTTTCGTGT
1 TGCGATTTTGGTTTCGCGT
650730 TGCGA
1 TGCGA
650735 AAGTAAACTA
Statistics
Matches: 87, Mismatches: 10, Indels: 22
0.73 0.08 0.18
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 18 0.21
19 42 0.48
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:650650 original size:33 final size:33
Alignment explanation
Indices: 650608--650699 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
650598 AAAATCGCAA
650608 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
650641 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
650674 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
650700 TGGTTTCGCG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:652666 original size:14 final size:14
Alignment explanation
Indices: 652647--652682 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
652637 ATTGTTTAAT
652647 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
652661 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
652675 TGATTTGT
1 TGATTTGT
652683 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:652813 original size:19 final size:19
Alignment explanation
Indices: 652789--652888 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
652779 AAAATTGACT
652789 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
652808 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
652827 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
652841 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
652860 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
652880 ATCGCAATG
1 ATCGCAATG
652889 GGAGAATCGC
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.53
20 18 0.25
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:652918 original size:53 final size:53
Alignment explanation
Indices: 652789--652905 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
652779 AAAATTGACT
652789 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
652841 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
652894 ATCGCAATGCGA
1 ATCGCAATGCGA
652906 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:652923 original size:19 final size:19
Alignment explanation
Indices: 652895--653061 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
652885 AATGGGAGAA
* *
652895 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
652914 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
652930 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
652947 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
652966 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
652982 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
652998 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
653017 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
653033 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
653050 TCCGCATTGCGA
1 T-CGCATTGCGA
653062 AATGTAATGG
Statistics
Matches: 124, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
14 18 0.15
15 3 0.02
16 22 0.18
17 14 0.11
18 8 0.06
19 53 0.43
20 6 0.05
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:653016 original size:51 final size:52
Alignment explanation
Indices: 652895--653061 Score: 300
Period size: 51 Copynumber: 3.2 Consensus size: 52
652885 AATGGGAGAA
* *
652895 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
652947 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
652998 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
653050 TCCGCATTGCGA
1 T-CGCATTGCGA
653062 AATGTAATGG
Statistics
Matches: 111, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
51 51 0.46
52 50 0.45
53 10 0.09
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:653144 original size:19 final size:19
Alignment explanation
Indices: 653120--653197 Score: 112
Period size: 19 Copynumber: 4.4 Consensus size: 19
653110 AAAATTGACT
653120 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
653139 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
653158 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
653172 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
653191 ATCGCAA
1 ATCGCAA
653198 CGAGAGAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 36 0.69
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:653176 original size:14 final size:14
Alignment explanation
Indices: 653157--653211 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
653147 GCGAAATGAA
653157 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
653171 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
653190 AATCGCAACGAGAG
1 AATCGCAACGAGAG
653204 AATCGCAA
1 AATCGCAA
653212 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:653230 original size:33 final size:33
Alignment explanation
Indices: 653138--653216 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
653128 GCGAAATGAA
653138 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
653171 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
653204 AATCGCAATGCGA
1 AATCGCAATGCGA
653217 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:655531 original size:12 final size:12
Alignment explanation
Indices: 655514--655538 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
655504 TCCCGTGGGA
655514 CTTTTTCTTCTT
1 CTTTTTCTTCTT
655526 CTTTTTCTTCTT
1 CTTTTTCTTCTT
655538 C
1 C
655539 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:655747 original size:24 final size:24
Alignment explanation
Indices: 655713--655759 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
655703 CTGAAACATC
655713 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
655737 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
655760 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:656473 original size:20 final size:20
Alignment explanation
Indices: 656442--656691 Score: 259
Period size: 20 Copynumber: 12.5 Consensus size: 20
656432 AAATTTCAGT
* *
656442 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
* *
656462 GTTGCGAATTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
656482 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
656502 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
656522 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
656542 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
656562 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
656582 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
656602 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
656622 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
656642 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
656662 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
656682 GTTGCGATTT
1 GTTGCGATTT
656692 TCCAAAATCG
Statistics
Matches: 198, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 197 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:660537 original size:31 final size:31
Alignment explanation
Indices: 660502--660578 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 31
660492 AAATTGATAT
*
660502 TTTATATAAAATTTAAG-GATTAAAATAACAA
1 TTTATTTAAAATTTAAGAG-TTAAAATAACAA
* * *
660533 TTTATTTAAAATTT-AGAGTTAAATTAATAT
1 TTTATTTAAAATTTAAGAGTTAAAATAACAA
660563 TTTATTTAAAATTTAA
1 TTTATTTAAAATTTAA
660579 AGATCAAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 25 0.62
31 15 0.38
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (31 bp):
TTTATTTAAAATTTAAGAGTTAAAATAACAA
Found at i:660567 original size:30 final size:31
Alignment explanation
Indices: 660492--660592 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 31
660482 ACATAAGATC
* *
660492 AAATTGATATTTTATATAAAATTTAAGGATT
1 AAATTAATATTTTATTTAAAATTTAAGGATT
* * *
660523 AAAATAACAATTTATTTAAAATTT-A-GAGTT
1 AAATTAATATTTTATTTAAAATTTAAGGA-TT
* *
660553 AAATTAATATTTTATTTAAAATTTAAAGATC
1 AAATTAATATTTTATTTAAAATTTAAGGATT
*
660584 AAATCAATA
1 AAATTAATA
660593 ATTAACCTCT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
29 2 0.04
30 24 0.42
31 29 0.51
32 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.42
Consensus pattern (31 bp):
AAATTAATATTTTATTTAAAATTTAAGGATT
Found at i:671133 original size:18 final size:18
Alignment explanation
Indices: 671109--671158 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
671099 GTACTTTACT
671109 GGGAATAGGATTACCGGC
1 GGGAATAGGATTACCGGC
* *
671127 TGGAATAGGATTACCTGC
1 GGGAATAGGATTACCGGC
*
671145 GGGAATAAGATTAC
1 GGGAATAGGATTAC
671159 TGAGAATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (18 bp):
GGGAATAGGATTACCGGC
Found at i:672850 original size:38 final size:38
Alignment explanation
Indices: 672799--672875 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
672789 GACCTACTAC
672799 GTCGCCAGCTTCCCGGAAGAGATAATGGACGTTTGCAT
1 GTCGCCAGCTTCCCGGAAGAGATAATGGACGTTTGCAT
672837 GTCGCCAGCTTCCCGGAAGAGATAATGGACGTTTGCAT
1 GTCGCCAGCTTCCCGGAAGAGATAATGGACGTTTGCAT
672875 G
1 G
672876 GCACATGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (38 bp):
GTCGCCAGCTTCCCGGAAGAGATAATGGACGTTTGCAT
Found at i:672930 original size:31 final size:30
Alignment explanation
Indices: 672895--672972 Score: 113
Period size: 29 Copynumber: 2.6 Consensus size: 30
672885 TGTCCCCAAT
* *
672895 AGGTCGCCATGCATTCCCCAACACCCCTACA
1 AGGTCGCCATGCACTCCCCAACA-ACCTACA
*
672926 AGGTCGCCAAGCACT-CCCAACAACCTACA
1 AGGTCGCCATGCACTCCCCAACAACCTACA
672955 AGGTCGCCATGCACTCCC
1 AGGTCGCCATGCACTCCC
672973 AGCGACCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 20 0.48
30 9 0.21
31 13 0.31
ACGTcount: A:0.27, C:0.44, G:0.15, T:0.14
Consensus pattern (30 bp):
AGGTCGCCATGCACTCCCCAACAACCTACA
Found at i:672957 original size:29 final size:29
Alignment explanation
Indices: 672895--673001 Score: 106
Period size: 29 Copynumber: 3.6 Consensus size: 29
672885 TGTCCCCAAT
* * *
672895 AGGTCGCCATGCATTCCCCAACACCCCTACA
1 AGGTCGCCAAGCACT-CCCAACA-ACCTACA
672926 AGGTCGCCAAGCACTCCCAACAACCTACA
1 AGGTCGCCAAGCACTCCCAACAACCTACA
* * * ***
672955 AGGTCGCCATGCACTCCCAGCGACCTTGT
1 AGGTCGCCAAGCACTCCCAACAACCTACA
*
672984 AGGTCGCCAAGCAATCCC
1 AGGTCGCCAAGCACTCCC
673002 GGAGACCAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 45 0.69
30 7 0.11
31 13 0.20
ACGTcount: A:0.26, C:0.41, G:0.18, T:0.15
Consensus pattern (29 bp):
AGGTCGCCAAGCACTCCCAACAACCTACA
Found at i:673062 original size:32 final size:32
Alignment explanation
Indices: 673017--673079 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
673007 CCAAGCCTCT
*
673017 GCTCCCTCGTGCATGGGTTGCATCCATAGCTA
1 GCTCCCTCATGCATGGGTTGCATCCATAGCTA
673049 GCTCCCTCATGCATGGGTTGCATCCATAGCT
1 GCTCCCTCATGCATGGGTTGCATCCATAGCT
673080 GGGAGATTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.16, C:0.32, G:0.24, T:0.29
Consensus pattern (32 bp):
GCTCCCTCATGCATGGGTTGCATCCATAGCTA
Found at i:673097 original size:23 final size:23
Alignment explanation
Indices: 673067--673110 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
673057 ATGCATGGGT
673067 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGCTGGGAGATTCC
673090 TGCATCCATAGCTGGGAGATT
1 TGCATCCATAGCTGGGAGATT
673111 GTAGCCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCC
Found at i:673567 original size:28 final size:30
Alignment explanation
Indices: 673527--673588 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
673517 AATTTAGTTA
673527 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
673555 ATTAGTTTGTTAGTTTAAGTTATATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
673585 ATTA
1 ATTA
673589 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (30 bp):
ATTAGTTTGTTAGTTTAAGTTATATATTAT
Found at i:673925 original size:20 final size:21
Alignment explanation
Indices: 673881--673925 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
673871 AAATATTATG
**
673881 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
673902 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
673922 TTTA
1 TTTA
673926 TATTATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:687218 original size:21 final size:19
Alignment explanation
Indices: 687194--687564 Score: 58
Period size: 21 Copynumber: 18.2 Consensus size: 19
687184 AAATTATTAT
687194 TAATATTTAATGATTTGATAG
1 TAATATTTAAT-A-TTGATAG
* *
687215 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAATATTGA-TAG
* * * *
687236 TAATAATGAA-ATTGTTAT
1 TAATATTTAATATTGATAG
*
687254 TAATATTTAATGATTTGATAT
1 TAATATTTAAT-A-TTGATAG
* *
687275 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAATATTGA-TAG
* * *
687296 TAATAATGAA-ATT-ATTAT
1 TAATATTTAATATTGA-TAG
*
687314 TAATTTTTAATGATTTGATAG
1 TAATATTTAAT-A-TTGATAG
* *
687335 TAATGATTAGTAATAATGAAATTATTAT
1 TAAT-ATT--TAAT-AT----TGA-TAG
687363 TAATATTTAATGATTTGATAG
1 TAATATTTAAT-A-TTGATAG
* * *
687384 TAATGATTTAGTAATGATTAT
1 TAAT-ATTTAATATTGA-TAG
* * * *
687405 TAATAATGAA-ATTGTTAT
1 TAATATTTAATATTGATAG
*
687423 TAATATTTAATGATTTAATAG
1 TAATATTTAAT-A-TTGATAG
* *
687444 TAATGA-TTAGTAATGATTAG
1 TAAT-ATTTAATATTGA-TAG
* * * *
687464 TAATAATGAA-ATTGTTAT
1 TAATATTTAATATTGATAG
687482 TAATATTTAATGATTTGATAG
1 TAATATTTAAT-A-TTGATAG
* * * *
687503 TAATGATTTAGTAATAATTAA
1 TAAT-ATTTAATATTGA-TAG
* *
687524 TAATAATTAA-ATT-ATTAT
1 TAATATTTAATATTGA-TAG
687542 TAAT-TTTAATGATTGATAG
1 TAATATTTAAT-ATTGATAG
687561 TAAT
1 TAAT
687565 TATTAGTAAT
Statistics
Matches: 249, Mismatches: 65, Indels: 74
0.64 0.17 0.19
Matches are distributed among these distances:
17 4 0.02
18 50 0.20
19 25 0.10
20 39 0.16
21 78 0.31
22 30 0.12
23 1 0.00
24 5 0.02
25 5 0.02
26 1 0.00
27 5 0.02
28 6 0.02
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (19 bp):
TAATATTTAATATTGATAG
Found at i:687220 original size:49 final size:49
Alignment explanation
Indices: 687163--687917 Score: 512
Period size: 49 Copynumber: 14.3 Consensus size: 49
687153 TTATAAGATT
*
687163 TAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--A--TGAT--T--TGA
*
687221 TTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATATTAATGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--A--TG--ATT--TGA
*
687281 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
687332 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
687381 TAGTAATGATTTAGTAATGATTATTAATAATGAAATTGTTATTAATATTTAATGATTTAATAGTA
1 TAGTAATGA--T--T-A-G-----TAATAATGAAATTATTATTAATATTTAATG-----AT--T-
687446 ATGA
47 -TGA
*
687450 TTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGA
1 -TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* * * * *
687500 TAGTAATGATTTAGTAATAAT-TAATAATAATTAA-A-TT-ATTA-TTAA
1 TAGTAATGA-TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
** * * ** * *
687545 TTTTAATGATT-G--AT-A-GTAATTATTAGTAATAATGAAATTATTATTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAAT-ATTTAATGA-T-TTGA
** * * * * * *
687592 TTTTTAATGATTTGATAGTAATG--ATTAGTAATAATGAATAATAATG-TAATGA
1 -TAGTAATGATTAG-TAATAATGAAATTATTATTAAT--AT-TTAATGAT-TTGA
* * * *
687644 TTAGTAATAATGAATAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 -TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
687694 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
687743 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--A--TG--ATT--TGA
*
687801 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
687852 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
687900 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
687918 GATTTGATAG
Statistics
Matches: 592, Mismatches: 47, Indels: 123
0.78 0.06 0.16
Matches are distributed among these distances:
40 11 0.02
41 2 0.00
42 1 0.00
43 1 0.00
44 6 0.01
45 10 0.02
46 3 0.01
47 6 0.01
48 46 0.08
49 188 0.32
50 23 0.04
51 16 0.03
52 25 0.04
53 21 0.04
54 9 0.02
55 5 0.01
56 3 0.01
57 2 0.00
58 3 0.01
59 32 0.05
60 158 0.27
62 2 0.00
64 1 0.00
65 3 0.01
66 1 0.00
67 1 0.00
68 1 0.00
69 3 0.01
70 9 0.02
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:687230 original size:60 final size:60
Alignment explanation
Indices: 687159--687947 Score: 378
Period size: 60 Copynumber: 13.7 Consensus size: 60
687149 GTATTTATAA
*
687159 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
687219 GATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
687279 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * * * * * *
687339 GA-TTAGTAAT-AAT-GAAATTAT--TATTAATATTTAATGATTTGAT-AGTAATGATTTAGTAA
1 GATTTAGTAATGATTAGTAATAATGAAATTATTA-TTAAT-ATTTAATGA-T-TTGA--TAGTAA
687398 T
60 T
* * * ** * *
687399 GA-TTATTAAT-AAT-G-AA-ATTGTTATTAATATTTAATGATTTAAT-AGTAATGATTAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTA-TTAAT-ATTTAATGA-T-TTGA-TAGTAAT
* * ** * * *
687458 GA-TTAGTAAT-AAT-G-AA-ATTGTTATTAATATT--TA-ATG---ATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * *
687507 GATTTAGTAATAATTAATAATAATTAAATTATTATTAAT-TTTAATGA-TTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * * * * *
687565 TA-TTAGTAAT-AAT-GAAATTAT--TATTAATTTTTAATGA-TT--TG-----ATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATT-ATTATTAAT-ATTTAATGATTTGATAGTAAT
* * * * * * * * * * * *
687614 GA-TTAGTAATAATGAATAATAATGTAATGATTAGTAATAATGAATAATAATGAAATTATTATT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGAT-TTG--A-TAGTAAT
* * * * * * * * * **
687677 AATTT-TTAATGATTTGATAGTAATG--ATTAGTAATAATGAAATT-ATTA-TTAATTTTTAAT
1 GATTTAGTAATGATTAG-TAATAATGAAATTATTATTAAT--ATTTAATGATTTGA-TAGTAAT
*
687736 GATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
1 GA-TT--TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
687799 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
687859 GA-TTAG---T-A--A-TAATAAT----TTATTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * * *
687907 GATTTAGTAATGATTTGATAGTAATG-ATTTATTATAAATAT
1 GATTTAGTAATGATTAG-TAATAATGAAATTATTATTAATAT
687948 GTCGAATTTG
Statistics
Matches: 582, Mismatches: 85, Indels: 124
0.74 0.11 0.16
Matches are distributed among these distances:
48 32 0.05
49 30 0.05
50 12 0.02
51 9 0.02
52 17 0.03
53 11 0.02
54 20 0.03
55 15 0.03
56 12 0.02
57 26 0.04
58 20 0.03
59 59 0.10
60 235 0.40
61 1 0.00
62 23 0.04
63 35 0.06
64 25 0.04
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (60 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
Found at i:687337 original size:109 final size:109
Alignment explanation
Indices: 687223--687651 Score: 603
Period size: 109 Copynumber: 3.9 Consensus size: 109
687213 AGTAATGATT
* *
687223 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
* *
687288 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
66 ATAATTAATAATAATGAAATTATTATTAATTTTTAATGATTTGA
687332 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
* * * *
687397 ATGATTATTAATAATGAAATTGTTATTAATATTTAATGATTTAATAGTAATGA
66 ATAATTAATAATAATGAAATTATTATTAATTTTTAATG-----AT--T--TGA
*
687450 TTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGT
1 -TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGT
*
687515 AATAATTAATAATAATTAAATTATTATTAA-TTTTAATGA-TTGA
65 AATAATTAATAATAATGAAATTATTATTAATTTTTAATGATTTGA
* *
687558 TAGTAATTATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
* * * *
687622 ATAATGAATAATAATGTAATGATTAGTAAT
66 ATAATTAATAATAATGAAATTATTATTAAT
687652 AATGAATAAT
Statistics
Matches: 290, Mismatches: 19, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
106 30 0.10
107 55 0.19
108 3 0.01
109 98 0.34
110 1 0.00
113 1 0.00
114 2 0.01
116 1 0.00
118 10 0.03
119 89 0.31
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (109 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
ATAATTAATAATAATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:687450 original size:169 final size:168
Alignment explanation
Indices: 687163--687921 Score: 798
Period size: 169 Copynumber: 4.4 Consensus size: 168
687153 TTATAAGATT
*
687163 TAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
*
687228 ATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGAT
66 ATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGA-TTAGTAATGAT
*
687293 TAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
130 TAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
687332 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
* *
687397 ATGATTATTAATAATGAAATTGTTATTAATATTTAATGATTTAATAGTAATGATTAGTAATGATT
66 ATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTAGTAATGATT
*
687462 AGTAATAATGAAATTGTTATTAATATTTAATGATTTGA
131 AGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* * * * * **
687500 TAGTAATGATTTAGTAATAAT-TAATAATAATTAA-A-TT-ATTA-TTAATTTTAATGATTGATA
1 TAGTAATGA-TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT--TA
* * * *
687560 GTAATTATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATA
63 GTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTAGTAATG
* * * * * * * * *
687625 ATGAATAATAATGTAATGATTAGTAATAATGAATAATAATGAAA
128 ATTAGTAATAATGAAATTATTATTAATATTTAATGAT-TTG--A
* * * ** * * * * * * * * *
687669 TTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTA-ATAATGAAATT-ATTATTAAT-TT
1 -TAGTAATGATTAGTAAT-A-ATGA-AATTATTATTAATATTTAATG-ATTTGA-TAGTAATGAT
* * * * *
687731 TTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATT
60 TTAGT-A-ATGAT--TAGT-------AATAATGAAATTGTTATTAATATTTAATGATTTGATAGT
*
687796 AATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
114 AATGA-TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
687852 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
687916 ATGATT
66 ATGATT
687922 TGATAGTAAT
Statistics
Matches: 484, Mismatches: 75, Indels: 56
0.79 0.12 0.09
Matches are distributed among these distances:
164 12 0.02
165 3 0.01
166 91 0.19
167 3 0.01
168 67 0.14
169 132 0.27
170 7 0.01
171 1 0.00
173 9 0.02
174 5 0.01
175 4 0.01
176 7 0.01
177 12 0.02
178 24 0.05
179 12 0.02
180 1 0.00
181 1 0.00
182 12 0.02
183 1 0.00
185 44 0.09
186 36 0.07
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (168 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
ATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTAGTAATGATT
AGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:687456 original size:10 final size:10
Alignment explanation
Indices: 687441--687467 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
687431 AATGATTTAA
687441 TAGTAATGAT
1 TAGTAATGAT
687451 TAGTAATGAT
1 TAGTAATGAT
687461 TAGTAAT
1 TAGTAAT
687468 AATGAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:687482 original size:59 final size:59
Alignment explanation
Indices: 687332--687947 Score: 419
Period size: 60 Copynumber: 10.6 Consensus size: 59
687322 AATGATTTGA
687332 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-T
* * *
687392 TAGTAATGATTATTAATAATGAAATTGTTATTAATATTTAATGATTTAATAGTAATGAT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGAT
*
687451 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-T
* * *
687511 TAGTAATAATTAATAATAATTAAATTATTATTAAT-TTTAATGA-TTGATAG---T-A-
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGAT
*
687563 -A-T--T-ATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGAT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGAT
* * * * * * * * * * * * *
687617 TAGTAATAATGAATAATAATGTAATGATTAGTAATAATGAATAATAATGAAATTATTATTAAT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGAT-TTG--A-TAGTAATGAT
** * * * * * * * **
687680 TTTTAATGATTTGATAGTAATG--ATTAGTAATAATGAAATT-ATTA-TTAATTTTTAATGAT
1 TAGTAATGATTAG-TAATAATGAAATTATTATTAAT--ATTTAATGATTTGA-TAGTAATGAT
* * * * * * * * * *
687739 TTGATAGTAATGATTAGTAAT--AATGAAATTATTATTAATATTTAATGATTTGATATTAATGAT
1 TAG-TAATGATTAGTAATAATGAAAT--TATTATTAAT-AT-TTA-ATGATTTGATAGTAATGA-
687802 T
59 T
*
687803 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGAT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGAT
*
687862 TAG---T-A--A-TAATAAT----TTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-T
* * * *
687911 TAGTAATGATTTGATAGTAATG-ATTTATTATAAATAT
1 TAGTAATGATTAG-TAATAATGAAATTATTATTAATAT
687948 GTCGAATTTG
Statistics
Matches: 442, Mismatches: 71, Indels: 86
0.74 0.12 0.14
Matches are distributed among these distances:
47 25 0.06
48 41 0.09
49 11 0.02
50 1 0.00
51 1 0.00
52 9 0.02
53 3 0.01
54 1 0.00
55 3 0.01
56 2 0.00
57 6 0.01
58 8 0.02
59 117 0.26
60 125 0.28
61 11 0.02
62 11 0.02
63 48 0.11
64 16 0.04
65 3 0.01
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (59 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGAT
Found at i:687640 original size:28 final size:28
Alignment explanation
Indices: 687609--687716 Score: 117
Period size: 28 Copynumber: 3.8 Consensus size: 28
687599 TGATTTGATA
687609 GTAATGATTAGTAATAATGAATAATAAT
1 GTAATGATTAGTAATAATGAATAATAAT
687637 GTAATGATTAGTAATAATGAATAATAAT
1 GTAATGATTAGTAATAATGAATAATAAT
* * * ** * * *
687665 GAAATTATTATTAATTTTTAATGATTTGAT
1 GTAATGATTAGTAATAATGAAT-A-ATAAT
687695 AGTAATGATTAGTAATAATGAA
1 -GTAATGATTAGTAATAATGAA
687717 ATTATTATTA
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
28 44 0.70
29 1 0.02
30 3 0.05
31 15 0.24
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (28 bp):
GTAATGATTAGTAATAATGAATAATAAT
Found at i:687661 original size:10 final size:10
Alignment explanation
Indices: 687620--687667 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
687610 TAATGATTAG
687620 TAATAATGAA
1 TAATAATGAA
687630 TAATAATG--
1 TAATAATGAA
* * *
687638 TAATGATTAG
1 TAATAATGAA
687648 TAATAATGAA
1 TAATAATGAA
687658 TAATAATGAA
1 TAATAATGAA
687668 ATTATTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
8 6 0.19
10 25 0.81
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.33
Consensus pattern (10 bp):
TAATAATGAA
Found at i:687662 original size:87 final size:89
Alignment explanation
Indices: 687568--687837 Score: 337
Period size: 87 Copynumber: 2.9 Consensus size: 89
687558 TAGTAATTAT
687568 TAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAATAA
1 TAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAATAA
687633 TAATGTAATGATTAGTAATAATGA
66 TAATGTAATGATTAGTAATAATGA
687657 -A-TAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATT
1 TAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATG-AA-T
* * *
687720 ATTATTAATTTTTAATGATTTGATAGTAATGA
64 A--A-TAA--TGTAATGATTAG-TAATAATGA
* * * * *
687752 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAGT
1 -TAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTAATAATGAAT
* * *
687817 AATAATGAAATTATTATTAAT
64 AATAATGTAATGATTAGTAAT
687838 TTTTAATGAT
Statistics
Matches: 155, Mismatches: 14, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
87 57 0.37
88 3 0.02
89 2 0.01
91 4 0.03
92 10 0.06
94 13 0.08
95 9 0.06
97 3 0.02
98 44 0.28
99 10 0.06
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (89 bp):
TAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAATAA
TAATGTAATGATTAGTAATAATGA
Found at i:687733 original size:136 final size:142
Alignment explanation
Indices: 687502--687917 Score: 535
Period size: 136 Copynumber: 2.9 Consensus size: 142
687492 TGATTTGATA
* *
687502 GTAATGATTTAGTAATAATTAATAATAATTAAATTATTATTAA-TTTTAATGA-TTGATAGTAAT
1 GTAATGA-TTAGTAATAATGAATAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
*
687565 TATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATG-A
65 GATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAA
687629 A-TA-A-T-A-AT
130 ATTATATTAATAT
687637 GTAATGATTAGTAATAATGAATAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATG
1 GTAATGATTAGTAATAATGAATAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATG
687702 ATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAA
66 ATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAA
687767 TTATTATTAATAT
131 TTA-TATTAATAT
* *
687780 TTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAAT
1 GT-A--A--TG--ATT-A-G---TAATAATGA--A-TAATAATGAAATTATTATTAATTTTTAAT
* * *
687845 GATTTGATAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGA
51 GATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
687909 TTTAGTAAT
116 -TTAGTAAT
687918 GATTTGATAG
Statistics
Matches: 248, Mismatches: 8, Indels: 27
0.88 0.03 0.10
Matches are distributed among these distances:
134 33 0.13
135 16 0.06
136 73 0.29
137 2 0.01
138 2 0.01
140 1 0.00
141 1 0.00
142 1 0.00
143 3 0.01
144 1 0.00
146 1 0.00
148 2 0.01
150 3 0.01
151 1 0.00
152 1 0.00
155 8 0.03
157 35 0.14
158 64 0.26
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (142 bp):
GTAATGATTAGTAATAATGAATAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATG
ATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAA
TTATATTAATAT
Found at i:687736 original size:109 final size:109
Alignment explanation
Indices: 687637--687921 Score: 393
Period size: 109 Copynumber: 2.6 Consensus size: 109
687627 GAATAATAAT
* *
687637 GTAATGATTAGTAATAATG-AATAATAATGAA-A-TT-ATTA-TTAATTTTTAATGATTTGATAG
1 GTAATGATTAGTAATAATGAAATAATAATGAATATTTAATGATTTAA-TATTAATGA-TT--TAG
687697 TAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATA
62 TAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATA
* * * *
687745 GTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAAT
1 GTAATGATTAGTAATAATGAAATAATAATGAATATTTAATGATTTAATATTAATGATTTAGTAAT
687810 GATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATA
66 GATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATA
* * * * *
687854 GTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAAT
1 GTAATGATTAGTAATAATGAAATAATAATGAATATTTAATGATTTAATATTAATGATTTAGTAAT
687918 GATT
66 GATT
687922 TGATAGTAAT
Statistics
Matches: 165, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
108 68 0.41
109 78 0.47
110 1 0.01
111 4 0.02
112 11 0.07
113 3 0.02
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (109 bp):
GTAATGATTAGTAATAATGAAATAATAATGAATATTTAATGATTTAATATTAATGATTTAGTAAT
GATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATA
Found at i:687882 original size:48 final size:49
Alignment explanation
Indices: 687803--687917 Score: 187
Period size: 48 Copynumber: 2.3 Consensus size: 49
687793 ATTAATGATT
*
687803 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
687852 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
687900 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
687918 GATTTGATAG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
48 34 0.55
49 28 0.45
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:687905 original size:14 final size:14
Alignment explanation
Indices: 687889--687936 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
687879 TATTAATATT
*
687889 TAATGATTTGATAT
1 TAATGATTTGATAG
687903 TAATGA-TT--TAG
1 TAATGATTTGATAG
687914 TAATGATTTGATAG
1 TAATGATTTGATAG
687928 TAATGATTT
1 TAATGATTT
687937 ATTATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:687933 original size:109 final size:109
Alignment explanation
Indices: 687694--687921 Score: 440
Period size: 109 Copynumber: 2.1 Consensus size: 109
687684 AATGATTTGA
687694 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
687759 TAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
66 TAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
687803 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
*
687868 TAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATT
66 TAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
687911 TAGTAATGATT
1 TAGTAATGATT
687922 TGATAGTAAT
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
108 49 0.42
109 69 0.58
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (109 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
TAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
Found at i:690417 original size:22 final size:21
Alignment explanation
Indices: 690379--690419 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
690369 TTTATGTATA
*
690379 ATATAACTTAAACTAACAATC
1 ATATAACCTAAACTAACAATC
*
690400 ATATAACCCTAAATTAACAA
1 ATATAA-CCTAAACTAACAA
690420 ACTAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.27
Consensus pattern (21 bp):
ATATAACCTAAACTAACAATC
Found at i:690587 original size:33 final size:31
Alignment explanation
Indices: 690548--690624 Score: 101
Period size: 26 Copynumber: 2.6 Consensus size: 31
690538 TTCCTTTCCT
690548 TTCTCCCTTTCTTTCTTTCTCGGCTGCAATCTC
1 TTCTCCCTTTCTTTCTTTCT--GCTGCAATCTC
690581 TTCT-CC---CTTTC-TTCTGCTGCAATCTC
1 TTCTCCCTTTCTTTCTTTCTGCTGCAATCTC
690607 TTCTCCCTTTCTTTCTTT
1 TTCTCCCTTTCTTTCTTT
690625 TATGCTCTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
26 15 0.38
27 2 0.05
28 4 0.10
29 5 0.13
30 5 0.13
31 2 0.05
32 2 0.05
33 4 0.10
ACGTcount: A:0.05, C:0.36, G:0.06, T:0.52
Consensus pattern (31 bp):
TTCTCCCTTTCTTTCTTTCTGCTGCAATCTC
Found at i:693831 original size:20 final size:20
Alignment explanation
Indices: 693808--693845 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
693798 TCTATTTATT
*
693808 ACTTTTTATTTTGATTTTAC
1 ACTTATTATTTTGATTTTAC
*
693828 ACTTATTCTTTTGATTTT
1 ACTTATTATTTTGATTTT
693846 CTTTCAAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (20 bp):
ACTTATTATTTTGATTTTAC
Found at i:704399 original size:16 final size:18
Alignment explanation
Indices: 704378--704418 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
704368 ATTCAAATTT
*
704378 TAATTCC-T-ACATATTC
1 TAATTCCTTCACATACTC
704394 TAATTCCTTCACATACTC
1 TAATTCCTTCACATACTC
704412 TAATTCC
1 TAATTCC
704419 CTCATAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 1 0.05
18 14 0.64
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATTCCTTCACATACTC
Found at i:719932 original size:16 final size:17
Alignment explanation
Indices: 719900--719933 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
719890 ACACATAGAC
*
719900 TGATTTATTTTTTAAAA
1 TGATTTATTTCTTAAAA
719917 TGATTT-TTTCTTAAAA
1 TGATTTATTTCTTAAAA
719933 T
1 T
719934 CTTTTGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TGATTTATTTCTTAAAA
Found at i:728863 original size:14 final size:15
Alignment explanation
Indices: 728838--728866 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
728828 ATATGAAGAA
728838 ATATATGTATATAGT
1 ATATATGTATATAGT
728853 ATATA-GTATATAGT
1 ATATATGTATATAGT
728867 TAAAGAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (15 bp):
ATATATGTATATAGT
Found at i:737084 original size:8 final size:8
Alignment explanation
Indices: 737071--737111 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
737061 CTCATTTTCA
737071 GAGAATTT
1 GAGAATTT
737079 GAGAATTT
1 GAGAATTT
*
737087 -AGAGTTT
1 GAGAATTT
*
737094 GGGAATTT
1 GAGAATTT
737102 GAGAATTT
1 GAGAATTT
737110 GA
1 GA
737112 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:737409 original size:127 final size:128
Alignment explanation
Indices: 737182--737680 Score: 975
Period size: 127 Copynumber: 3.9 Consensus size: 128
737172 TAATCAGAGT
*
737182 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGTGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
737247 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
737310 ACTATTCACATGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
737374 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
737437 ACTATTCACATGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
737501 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
737564 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
737629 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
737681 AATAAGGTAA
Statistics
Matches: 368, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
126 4 0.01
127 243 0.66
128 121 0.33
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:738142 original size:33 final size:34
Alignment explanation
Indices: 738081--738180 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
738071 AAATTTAATG
*
738081 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
738115 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
738148 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
738181 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:738730 original size:21 final size:21
Alignment explanation
Indices: 738706--738787 Score: 121
Period size: 21 Copynumber: 3.9 Consensus size: 21
738696 ATAAAACCCT
*
738706 GCGGGCTAGGCATGTAACCTG
1 GCGGGCTAGGAATGTAACCTG
*
738727 GCGGGCTAGGCATGTAACCTG
1 GCGGGCTAGGAATGTAACCTG
738748 GCGGGCTAGGAATGTAACCAT-
1 GCGGGCTAGGAATGTAACC-TG
*
738769 GCGGGCTCGGAATGTAACC
1 GCGGGCTAGGAATGTAACC
738788 CTGCGGAGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
21 57 0.98
22 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.37, T:0.18
Consensus pattern (21 bp):
GCGGGCTAGGAATGTAACCTG
Found at i:738792 original size:21 final size:21
Alignment explanation
Indices: 738700--738793 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
738690 TATGGTATAA
*
738700 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
738721 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
738742 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
* *
738763 AACCATGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
738784 AACCCTGCGG
1 AACCCTGCGG
738794 AGATGGCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.04
21 62 0.93
22 2 0.03
ACGTcount: A:0.21, C:0.26, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:740575 original size:16 final size:16
Alignment explanation
Indices: 740554--740640 Score: 63
Period size: 15 Copynumber: 5.4 Consensus size: 16
740544 CAAAAAAAAT
*
740554 TAATAATTCTAATAAA
1 TAATAATTATAATAAA
740570 TAATAATTAT-ATAAA
1 TAATAATTATAATAAA
* *
740585 T-ATTATTTTAATAAA
1 TAATAATTATAATAAA
* *
740600 AAATAATATTTACATAAA
1 TAATAAT-TATA-ATAAA
*
740618 TATATTAA-TATAAAAAA
1 TA-A-TAATTATAATAAA
740635 TAATAA
1 TAATAA
740641 CTATTTAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
14 6 0.11
15 14 0.25
16 14 0.25
17 10 0.18
18 9 0.16
19 1 0.02
20 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAATTATAATAAA
Found at i:740604 original size:33 final size:32
Alignment explanation
Indices: 740567--740649 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
740557 TAATTCTAAT
*
740567 AAATAATAATTATATAAATATTATT-TTAATAAA
1 AAATAATAATTATATAAATA-TATTAAT-ATAAA
* *
740600 AAATAATATTTACATAAATATATTAATATAAA
1 AAATAATAATTATATAAATATATTAATATAAA
* *
740632 AAATAATAACTATTTAAA
1 AAATAATAATTATATAAA
740650 AAATACTAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 23 0.55
33 19 0.45
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
AAATAATAATTATATAAATATATTAATATAAA
Found at i:740626 original size:30 final size:34
Alignment explanation
Indices: 740567--740640 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 34
740557 TAATTCTAAT
* *
740567 AAATAATAATTATATAAATATTATTTTA-ATAAA
1 AAATAATAATTACATAAATATTATTTAATATAAA
*
740600 AAATAATATTTACATAAATA-TA-TTAATATAAA
1 AAATAATAATTACATAAATATTATTTAATATAAA
740632 AAATAATAA
1 AAATAATAA
740641 CTATTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 3 0.08
32 15 0.42
33 18 0.50
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
AAATAATAATTACATAAATATTATTTAATATAAA
Found at i:748540 original size:2 final size:2
Alignment explanation
Indices: 748533--748570 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
748523 TAATAGGTTA
748533 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
748571 TTTAAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:750929 original size:23 final size:23
Alignment explanation
Indices: 750903--750960 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
750893 TCGTATAAAT
*
750903 TTGCATCGAAGTACCACGTAGAA
1 TTGCACCGAAGTACCACGTAGAA
* *
750926 TTGCACCGAAGTGCCGCGTAGAA
1 TTGCACCGAAGTACCACGTAGAA
*
750949 TTACACCGAAGT
1 TTGCACCGAAGT
750961 GCCATATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (23 bp):
TTGCACCGAAGTACCACGTAGAA
Found at i:750961 original size:23 final size:23
Alignment explanation
Indices: 750909--750964 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
750899 AAATTTGCAT
* *
750909 CGAAGTACCACGTAGAATTGCAC
1 CGAAGTGCCACGTAGAATTACAC
*
750932 CGAAGTGCCGCGTAGAATTACAC
1 CGAAGTGCCACGTAGAATTACAC
750955 CGAAGTGCCA
1 CGAAGTGCCA
750965 TATAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (23 bp):
CGAAGTGCCACGTAGAATTACAC
Found at i:752622 original size:17 final size:16
Alignment explanation
Indices: 752588--752650 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 16
752578 ACATGTCATT
752588 TTTATCATTAATATTA
1 TTTATCATTAATATTA
752604 TTTATCATTTAA-ATATA
1 TTTATCA-TTAATAT-TA
* *
752621 TTT-TAATTATTATTA
1 TTTATCATTAATATTA
752636 -TTATTCATTAATATT
1 TTTA-TCATTAATATT
752651 TAAGCGATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
14 2 0.05
15 5 0.13
16 22 0.58
17 9 0.24
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATCATTAATATTA
Found at i:755416 original size:14 final size:15
Alignment explanation
Indices: 755375--755420 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
755365 AATTACTGGA
*
755375 ACTGAAAAATGAATT
1 ACTGGAAAATGAATT
**
755390 ACTGGAATTTGAATT
1 ACTGGAAAATGAATT
755405 -CTGGAAAATGAATT
1 ACTGGAAAATGAATT
755419 AC
1 AC
755421 ATTTATGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (15 bp):
ACTGGAAAATGAATT
Found at i:755451 original size:14 final size:14
Alignment explanation
Indices: 755429--755462 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
755419 ACATTTATGA
*
755429 AAAACGTTTTCCGG
1 AAAATGTTTTCCGG
*
755443 AAAATGTTTTCCGT
1 AAAATGTTTTCCGG
755457 AAAATG
1 AAAATG
755463 AATTATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (14 bp):
AAAATGTTTTCCGG
Found at i:755814 original size:10 final size:10
Alignment explanation
Indices: 755772--755875 Score: 51
Period size: 10 Copynumber: 10.3 Consensus size: 10
755762 TTATATTTAA
755772 AAATATTAATT
1 AAATATT-ATT
755783 AATATATT-TT
1 AA-ATATTATT
755793 AAATATCTTTATT
1 AAATA---TTATT
755806 AAATATTATTT
1 AAATATTA-TT
755817 AAATA-TA-T
1 AAATATTATT
*
755825 AAATACTATT
1 AAATATTATT
*
755835 ---CATTATT
1 AAATATTATT
*
755842 AAATA-TATAA
1 AAATATTAT-T
755852 AAATATTTATT
1 AAATA-TTATT
*
755863 ATATATTATT
1 AAATATTATT
755873 AAA
1 AAA
755876 ATAAAAATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 29
0.67 0.06 0.27
Matches are distributed among these distances:
7 5 0.07
8 6 0.08
9 8 0.11
10 23 0.32
11 13 0.18
12 10 0.14
13 7 0.10
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATATTATT
Found at i:755817 original size:24 final size:22
Alignment explanation
Indices: 755763--755824 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
755753 AGTGTTATAT
*
755763 TATATTTAAAAATATTAATTAA
1 TATATTTAAATATATTAATTAA
* *
755785 TATATTTTAAATATCTTTATTAAA
1 TATA-TTTAAATATATTAATT-AA
755809 TATTATTTAAATATAT
1 TA-TATTTAAATATAT
755825 AAATACTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.12
23 13 0.39
24 14 0.42
25 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TATATTTAAATATATTAATTAA
Found at i:755874 original size:31 final size:32
Alignment explanation
Indices: 755836--755909 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 32
755826 AATACTATTC
* *
755836 ATTATTAAATATATAAAAATAT-TTATTATAT
1 ATTATTAAATATATAAAAATATAATATCATAT
755867 ATTATT-AA-A-ATAAAAATATAATATCATAT
1 ATTATTAAATATATAAAAATATAATATCATAT
755896 ATTATTATAATATA
1 ATTATTA-AATATA
755910 ATTGATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
28 10 0.28
29 14 0.39
30 2 0.06
31 8 0.22
32 1 0.03
33 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (32 bp):
ATTATTAAATATATAAAAATATAATATCATAT
Found at i:755936 original size:17 final size:17
Alignment explanation
Indices: 755893--755948 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
755883 TATAATATCA
755893 TATATTATTATAATATAAT
1 TATATTATTATAA-AT-AT
755912 TGATTATT-TTATATAATAT
1 T-A-TATTATTATA-AATAT
755931 TATATTATTATAAATAT
1 TATATTATTATAAATAT
755948 T
1 T
755949 CATAAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 10 0.30
18 6 0.18
19 4 0.12
20 8 0.24
21 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTATTATAAATAT
Found at i:762480 original size:544 final size:544
Alignment explanation
Indices: 761452--762541 Score: 2153
Period size: 544 Copynumber: 2.0 Consensus size: 544
761442 TAATTAGCCA
761452 AAACGAAACCAGTTTTCTGAGAAAATCCCATGTACACACTACTGTTCGGATAAATTTGACTATCT
1 AAACGAAACCAGTTTTCTGAGAAAATCCCATGTACACACTACTGTTCGGATAAATTTGACTATCT
761517 TTACCTCCTCTAAGACCACCATGAATGTATATTCGAACACCAATAGATGCAGCTGCATGGCGACA
66 TTACCTCCTCTAAGACCACCATGAATGTATATTCGAACACCAATAGATGCAGCTGCATGGCGACA
761582 ACGACGCATAAGTTCCAAGGAAGTATCATGTTCAGATTGTTCCTTAGTGTTCCGTGAATTAGTCA
131 ACGACGCATAAGTTCCAAGGAAGTATCATGTTCAGATTGTTCCTTAGTGTTCCGTGAATTAGTCA
761647 CAAGCCCATTCCTGTCCAACCACTCACCAGCAGCAGTATCCAGCACTACAAAGTAGAGTGAATAT
196 CAAGCCCATTCCTGTCCAACCACTCACCAGCAGCAGTATCCAGCACTACAAAGTAGAGTGAATAT
761712 AAATTAAATAGAAATACAACTCAAAATATGGTCAGATACTTCAAGATGACAAGAAAAAGCGTACC
261 AAATTAAATAGAAATACAACTCAAAATATGGTCAGATACTTCAAGATGACAAGAAAAAGCGTACC
761777 TGCAATAGCTGCCTCACCTTCTGTTTCTGTTTATTCGTACCTAATTTTCCAAGTACAATGCACTC
326 TGCAATAGCTGCCTCACCTTCTGTTTCTGTTTATTCGTACCTAATTTTCCAAGTACAATGCACTC
761842 TAGTCTCTTCCACAAAAATGAAATACGCAGCAAGGTAGATGGGATAAAGCTGGAAAATGAAATGT
391 TAGTCTCTTCCACAAAAATGAAATACGCAGCAAGGTAGATGGGATAAAGCTGGAAAATGAAATGT
* *
761907 TCATACCATCATTTCCGCTTACAGTGACAAGATATCTCTGGGAAACCCAGAACATGACCATAGCG
456 TCATACCATCATTTCCACTTACAGTGACAAGATATCTCTGGAAAACCCAGAACATGACCATAGCG
761972 TGGTCCGGGACCCTGCCCTTGCAC
521 TGGTCCGGGACCCTGCCCTTGCAC
*
761996 AAACGAAACCAGTTTTCTGAGAAAATCCCATGTACACACTACTGTTCGGATAAATTTTACTATCT
1 AAACGAAACCAGTTTTCTGAGAAAATCCCATGTACACACTACTGTTCGGATAAATTTGACTATCT
762061 TTACCTCCTCTAAGACCACCATGAATGTATATTCGAACACCAATAGATGCAGCTGCATGGCGACA
66 TTACCTCCTCTAAGACCACCATGAATGTATATTCGAACACCAATAGATGCAGCTGCATGGCGACA
762126 ACGACGCATAAGTTCCAAGGAAGTATCATGTTCAGATTGTTCCTTAGTGTTCCGTGAATTAGTCA
131 ACGACGCATAAGTTCCAAGGAAGTATCATGTTCAGATTGTTCCTTAGTGTTCCGTGAATTAGTCA
762191 CAAGCCCATTCCTGTCCAACCACTCACCAGCAGCAGTATCCAGCACTACAAAGTAGAGTGAATAT
196 CAAGCCCATTCCTGTCCAACCACTCACCAGCAGCAGTATCCAGCACTACAAAGTAGAGTGAATAT
762256 AAATTAAATAGAAATACAACTCAAAATATGGTCAGATACTTCAAGATGACAAGAAAAAGCGTACC
261 AAATTAAATAGAAATACAACTCAAAATATGGTCAGATACTTCAAGATGACAAGAAAAAGCGTACC
762321 TGCAATAGCTGCCTCACCTTCTGTTTCTGTTTATTCGTACCTAATTTTCCAAGTACAATGCACTC
326 TGCAATAGCTGCCTCACCTTCTGTTTCTGTTTATTCGTACCTAATTTTCCAAGTACAATGCACTC
762386 TAGTCTCTTCCACAAAAATGAAATACGCAGCAAGGTAGATGGGATAAAGCTGGAAAATGAAATGT
391 TAGTCTCTTCCACAAAAATGAAATACGCAGCAAGGTAGATGGGATAAAGCTGGAAAATGAAATGT
762451 TCATACCATCATTTCCACTTACAGTGACAAGATATCTCTGGAAAACCCAGAACATGACCATAGCG
456 TCATACCATCATTTCCACTTACAGTGACAAGATATCTCTGGAAAACCCAGAACATGACCATAGCG
762516 TGGTCCGGGACCCTGCCCTTGCAC
521 TGGTCCGGGACCCTGCCCTTGCAC
762540 AA
1 AA
762542 CCACTCTAAA
Statistics
Matches: 543, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
544 543 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (544 bp):
AAACGAAACCAGTTTTCTGAGAAAATCCCATGTACACACTACTGTTCGGATAAATTTGACTATCT
TTACCTCCTCTAAGACCACCATGAATGTATATTCGAACACCAATAGATGCAGCTGCATGGCGACA
ACGACGCATAAGTTCCAAGGAAGTATCATGTTCAGATTGTTCCTTAGTGTTCCGTGAATTAGTCA
CAAGCCCATTCCTGTCCAACCACTCACCAGCAGCAGTATCCAGCACTACAAAGTAGAGTGAATAT
AAATTAAATAGAAATACAACTCAAAATATGGTCAGATACTTCAAGATGACAAGAAAAAGCGTACC
TGCAATAGCTGCCTCACCTTCTGTTTCTGTTTATTCGTACCTAATTTTCCAAGTACAATGCACTC
TAGTCTCTTCCACAAAAATGAAATACGCAGCAAGGTAGATGGGATAAAGCTGGAAAATGAAATGT
TCATACCATCATTTCCACTTACAGTGACAAGATATCTCTGGAAAACCCAGAACATGACCATAGCG
TGGTCCGGGACCCTGCCCTTGCAC
Found at i:772175 original size:24 final size:24
Alignment explanation
Indices: 772148--772245 Score: 162
Period size: 24 Copynumber: 4.1 Consensus size: 24
772138 TCGATTTGAT
772148 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
772172 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
772196 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
*
772220 TTCTGATCTGATACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
772244 TT
1 TT
772246 TTGGCATGAT
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
23 1 0.01
24 68 0.97
25 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.40
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:772255 original size:24 final size:24
Alignment explanation
Indices: 772148--772259 Score: 120
Period size: 24 Copynumber: 4.7 Consensus size: 24
772138 TCGATTTGAT
* *
772148 TTCTGATCTGATACTTGACATGGA
1 TTCTGAGCTGATACTTGACCTGGA
* *
772172 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGAGCTGATACT-TGACCTGGA
* *
772196 TTCTGATCTGATACTTGACTTGGA
1 TTCTGAGCTGATACTTGACCTGGA
*
772220 TTCTGATCTGATACTTGACCTGGA
1 TTCTGAGCTGATACTTGACCTGGA
*
772244 TTTTG-GCATGATACTT
1 TTCTGAGC-TGATACTT
772260 AACATGAATT
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.02
24 78 0.96
25 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (24 bp):
TTCTGAGCTGATACTTGACCTGGA
Found at i:772256 original size:48 final size:48
Alignment explanation
Indices: 772148--772279 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
772138 TCGATTTGAT
*
772148 TTCTGATCTGATACTTGACATGGATTCTGATCTGATATCTGACATGGA
1 TTCTGAGCTGATACTTGACATGGATTCTGATCTGATATCTGACATGGA
* * *
772196 TTCTGATCTGATACTTGACTTGGATTCTGATCTGATA-CTTGACCTGGA
1 TTCTGAGCTGATACTTGACATGGATTCTGATCTGATATC-TGACATGGA
* * * * *
772244 TTTTG-GCATGATACTTAACATGAATTATGATTTGAT
1 TTCTGAGC-TGATACTTGACATGGATTCTGATCTGAT
772280 TTTTGATATA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 2 0.03
48 71 0.97
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (48 bp):
TTCTGAGCTGATACTTGACATGGATTCTGATCTGATATCTGACATGGA
Found at i:772451 original size:2 final size:2
Alignment explanation
Indices: 772444--772471 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
772434 ATGGGGGTAA
772444 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
772472 TGAAAAGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:776923 original size:48 final size:48
Alignment explanation
Indices: 776871--776975 Score: 156
Period size: 48 Copynumber: 2.2 Consensus size: 48
776861 ATTTGATTTC
* * *
776871 TGATCTGATACTTGACATGGATTCTGATCTGATACTTGACTTGGATTA
1 TGATCTGATACTTGACATGGATTCTGATATGATACTTGACGTGAATTA
* *
776919 TGATCTGATACTTGACCTGGATTTTGATATGATACTTGACGTGAATTA
1 TGATCTGATACTTGACATGGATTCTGATATGATACTTGACGTGAATTA
*
776967 TGATTTGAT
1 TGATCTGAT
776976 TTTTGATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (48 bp):
TGATCTGATACTTGACATGGATTCTGATATGATACTTGACGTGAATTA
Found at i:776970 original size:24 final size:24
Alignment explanation
Indices: 776871--776975 Score: 138
Period size: 24 Copynumber: 4.4 Consensus size: 24
776861 ATTTGATTTC
*
776871 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACATGGATTA
*
776895 TGATCTGATACTTGACTTGGATTA
1 TGATCTGATACTTGACATGGATTA
* *
776919 TGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGACATGGATTA
* * *
776943 TGATATGATACTTGACGTGAATTA
1 TGATCTGATACTTGACATGGATTA
*
776967 TGATTTGAT
1 TGATCTGAT
776976 TTTTGATATT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTA
Found at i:779565 original size:21 final size:21
Alignment explanation
Indices: 779541--779629 Score: 110
Period size: 21 Copynumber: 4.3 Consensus size: 21
779531 CAACGCGATT
779541 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
** *
779562 TTGCGATTTTCCAAATT--CG
1 TTGCGATAGTCCAAGTTCGCG
* *
779581 TTGCGATAGTCAAAGTTCACG
1 TTGCGATAGTCCAAGTTCGCG
*
779602 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
779623 TTGCGAT
1 TTGCGAT
779630 TTTCCAAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
19 15 0.26
21 42 0.74
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCGCG
Found at i:779642 original size:21 final size:21
Alignment explanation
Indices: 779541--779642 Score: 66
Period size: 21 Copynumber: 5.0 Consensus size: 21
779531 CAACGCGATT
**
779541 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAAATCGCG
** *
779562 TTGCGATTTTCC-AAAT-TCG
1 TTGCGATAGTCCAAAATCGCG
* *
779581 TTGCGATAGT-CAAAGTTCACG
1 TTGCGATAGTCCAAA-ATCGCG
* **
779602 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAAATCGCG
**
779623 TTGCGATTTTCCAAAATCGC
1 TTGCGATAGTCCAAAATCGC
779643 AACGACTGGT
Statistics
Matches: 60, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
18 1 0.02
19 12 0.20
20 3 0.05
21 42 0.70
22 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (21 bp):
TTGCGATAGTCCAAAATCGCG
Found at i:779996 original size:65 final size:65
Alignment explanation
Indices: 779888--780065 Score: 338
Period size: 65 Copynumber: 2.7 Consensus size: 65
779878 TTGCCAACAA
*
779888 TTGGGAATCTTTTACACTATCGCAACACATTCTTAATTGTTTCAAACTAAGATCTTACAAATGGC
1 TTGGGAATCTTTTACACTATCGCAACACATTCTTTATTGTTTCAAACTAAGATCTTACAAATGGC
*
779953 TTGTGAATCTTTTACACTATCGCAACACATTCTTTATTGTTTCAAACTAAGATCTTACAAATGGC
1 TTGGGAATCTTTTACACTATCGCAACACATTCTTTATTGTTTCAAACTAAGATCTTACAAATGGC
780018 TTGGGAATCTTTTACACTATCGCAACACATTCTTTATTGTTTCAAACT
1 TTGGGAATCTTTTACACTATCGCAACACATTCTTTATTGTTTCAAACT
780066 CCACGTGAAT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 110 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.38
Consensus pattern (65 bp):
TTGGGAATCTTTTACACTATCGCAACACATTCTTTATTGTTTCAAACTAAGATCTTACAAATGGC
Found at i:780132 original size:19 final size:20
Alignment explanation
Indices: 780107--780197 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 20
780097 CTTATTTTGG
780107 ATTTTTCACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
780127 -TTTTTCACTATCGCAACAAC
1 ATTTTTCACTATCGCAAC-AC
*
780147 ACGTTTTTCAAACTCTCGCAACAC
1 A--TTTTTC--ACTATCGCAACAC
*
780171 A-TTTTAACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
780190 ATTTTTCA
1 ATTTTTCA
780198 AAATCGCGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 30 0.50
20 7 0.12
21 4 0.07
23 6 0.10
24 3 0.05
25 10 0.17
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (20 bp):
ATTTTTCACTATCGCAACAC
Found at i:780169 original size:44 final size:41
Alignment explanation
Indices: 780118--780199 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
780108 TTTTTCACTA
* *
780118 TCGCAACACTTTTTCACTATCGCAACAACACGTTTTTCAAACTC
1 TCGCAACACATTTTAACTATCGCAAC-ACA--TTTTTCAAACTC
780162 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
1 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
780200 ATCGCGTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 9 0.25
43 3 0.08
44 24 0.67
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (41 bp):
TCGCAACACATTTTAACTATCGCAACACATTTTTCAAACTC
Done.