Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold438
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: 1141244
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
File 5 of 7
Found at i:740019 original size:28 final size:28
Alignment explanation
Indices: 739962--740030 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
739952 CATTTCTAGA
* * * *
739962 GATACTCCAACCCTATCGTTTATGAGGG
1 GATACTCCAACCCCATCATTTACGAAGG
739990 GATACTCCAACCCCATCAATTT-CGAAGG
1 GATACTCCAACCCCATC-ATTTACGAAGG
*
740018 GATTCTCCAACCC
1 GATACTCCAACCC
740031 AGTTTTTACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 32 0.91
29 3 0.09
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.25
Consensus pattern (28 bp):
GATACTCCAACCCCATCATTTACGAAGG
Found at i:740113 original size:108 final size:108
Alignment explanation
Indices: 739907--740113 Score: 265
Period size: 108 Copynumber: 1.9 Consensus size: 108
739897 TTCATCTTAG
* **
739907 GGGATACTCCAACCCCATTTTTGCTTTTAAAACATTGAATTTCATCATTTCTAGAGATACTCCAA
1 GGGATACTCCAACCCCATTTTTACTCCTAAAACATTGAATTTCATCA-TTCTAGAGATACTCCAA
* *
739972 CCCTATCGTTTATGAGGGGATACTCCAACCCCATCAATTTCGAA
65 CCCCATCGTTTATGAGGCGATACTCCAACCCCATCAATTTCGAA
* * * *
740016 GGGATTCTCCAA-CCCAGTTTTTACTCCTAAAACATTGAATTTCTTCA-TCATTGGGATACTCCA
1 GGGATACTCCAACCCCA-TTTTTACTCCTAAAACATTGAATTTCATCATTC-TAGAGATACTCCA
* * *
740079 ACCCCATCGTTTCTGAGGCGATACTCTAATCCCAT
64 ACCCCATCGTTTATGAGGCGATACTCCAACCCCAT
740114 TTTTATTTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
107 2 0.02
108 45 0.54
109 37 0.44
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (108 bp):
GGGATACTCCAACCCCATTTTTACTCCTAAAACATTGAATTTCATCATTCTAGAGATACTCCAAC
CCCATCGTTTATGAGGCGATACTCCAACCCCATCAATTTCGAA
Found at i:742412 original size:167 final size:165
Alignment explanation
Indices: 741893--742440 Score: 640
Period size: 166 Copynumber: 3.3 Consensus size: 165
741883 AAATCCATGT
* * * *
741893 AATAAATTGAATTTTTTAAAACTAATTTA--ATGGAGTTT-AATGATAATATTATATGAAT-TAT
1 AATAAA-TGAATATTTCAAAACTGATTTACTAT-GA-TTTAAATGATAATATTAGATGAATAT-T
* * * * * * **
741954 AAAAATTTTAAATTAAGAAAAATCCCC-CAAAAACCTTTATGGAATCGAAAA-TTGGATTTTTCA
62 AAAAATTTTAAACTGAGAAAAACCCCCTCGAAAACATTTATGGAATAGAAAACTAAG-TTTTTCA
* *
742017 AAAATAGGAGAATTTCAAGGAAAAAATGAAAAACTCATGAA
126 AAAA-AGGAAAATTTCAAGGAAAAAATGAAAAACTAATGAA
* * * * * * * * *
742058 AATAAATGAATTTTTCAAAACGGGTTTATTATGAATTAAATGATAATATTTGATAAATAGTAAAT
1 AATAAATGAATATTTCAAAACTGATTTACTATGATTTAAATGATAATATTAGATGAATATTAAAA
* * * * *
742123 CTTTTTAACTGAGAAAAACCCCATCCGAAAACATTTATGGAATAAAAAACTCAGTTTTTCAAAAA
66 ATTTTAAACTGAGAAAAACCCCCT-CGAAAACATTTATGGAATAGAAAACTAAGTTTTTCAAAAA
* *
742188 AGGGAAATTTCAAGGAAAAAATAAAAAACTAATGAA
130 AGGAAAATTTCAAGGAAAAAATGAAAAACTAATGAA
*
742224 AATAAATGAATATTTCAAAACTGATTTACTATGATTTAAATGATGATATTAGATGAATATTAAAA
1 AATAAATGAATATTTCAAAACTGATTTACTATGATTTAAATGATAATATTAGATGAATATTAAAA
*
742289 ATTTTGAACTGAGAAAAACCCCCTCTGAAAACATTTATGGAATAGAAAACTAAGTTTTTCGAAAA
66 ATTTTAAACTGAGAAAAACCCCCTC-GAAAACATTTATGGAATAGAAAACTAAGTTTTTC-AAAA
*
742354 CAGGAAAATTTCAAGGAAAAAATGAAAAACTAATGAA
129 AAGGAAAATTTCAAGGAAAAAATGAAAAACTAATGAA
* * * *
742391 AAAAAATGAAAATTTCAAAACTAATTTACTATGATTTAAATGATGATATT
1 AATAAATGAATATTTCAAAACTGATTTACTATGATTTAAATGATAATATT
742441 TGAAGAATTT
Statistics
Matches: 327, Mismatches: 47, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
164 20 0.06
165 47 0.14
166 142 0.43
167 116 0.35
168 2 0.01
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.31
Consensus pattern (165 bp):
AATAAATGAATATTTCAAAACTGATTTACTATGATTTAAATGATAATATTAGATGAATATTAAAA
ATTTTAAACTGAGAAAAACCCCCTCGAAAACATTTATGGAATAGAAAACTAAGTTTTTCAAAAAA
GGAAAATTTCAAGGAAAAAATGAAAAACTAATGAA
Found at i:743811 original size:24 final size:26
Alignment explanation
Indices: 743782--743845 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
743772 TTCTAGTAAG
* *
743782 AAAAAGC-TAGAGAGTAAAAAAA-AA
1 AAAAAGCAAAGAGAGAAAAAAAATAA
743806 AAAAAGCAAAAGAGAGAAAAAAAATTAA
1 AAAAAGC-AAAGAGAGAAAAAAAA-TAA
743834 AAAAAG-AAAGAG
1 AAAAAGCAAAGAG
743846 TGATAGCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 7 0.21
26 19 0.56
28 8 0.24
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.06
Consensus pattern (26 bp):
AAAAAGCAAAGAGAGAAAAAAAATAA
Found at i:743903 original size:20 final size:20
Alignment explanation
Indices: 743875--743912 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
743865 CCTAAGGTTG
* *
743875 TTTTTTTTTTCATCTTCTAC
1 TTTTATTTTGCATCTTCTAC
743895 TTTTATTTTGCATCTTCT
1 TTTTATTTTGCATCTTCT
743913 TTTCTTTTTT
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:0.11, C:0.18, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTATTTTGCATCTTCTAC
Found at i:749583 original size:20 final size:20
Alignment explanation
Indices: 749543--749592 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
749533 GTTTCTTCAT
749543 GAAAAGAAAAAAGGAAAAAA
1 GAAAAGAAAAAAGGAAAAAA
* *
749563 GAAAATGAAAAGAGGAAAAAGG
1 GAAAA-GAAAAAAGGAAAAA-A
749585 GAAAAGAA
1 GAAAAGAA
749593 TGAAGGGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 16 0.62
22 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (20 bp):
GAAAAGAAAAAAGGAAAAAA
Found at i:749965 original size:18 final size:17
Alignment explanation
Indices: 749915--749967 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
749905 AAAAATACAA
749915 AAAAAAAGAAAGAAGAAC
1 AAAAAAAGAAAGAA-AAC
*
749933 AAAAACTAA-AAAGAAAGC
1 AAAAA--AAGAAAGAAAAC
749951 AAAAAAAGAAGAGAAAA
1 AAAAAAAGAA-AGAAAA
749968 AAAGGAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 17 0.59
19 6 0.21
20 2 0.07
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAGAAAAC
Found at i:753960 original size:20 final size:20
Alignment explanation
Indices: 753935--754010 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 20
753925 CCGTTGGACT
753935 CAATGTATCGATACTATTCA
1 CAATGTATCGATACTATTCA
**
753955 CAATGTATCGATAC-ATGAA
1 CAATGTATCGATACTATTCA
*
753974 CAATGATGTACCGATACTATTCA
1 C-A--ATGTATCGATACTATTCA
*
753997 GAATGTATCGATAC
1 CAATGTATCGATAC
754011 ATGAACAGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
19 4 0.09
20 26 0.58
22 12 0.27
23 3 0.07
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (20 bp):
CAATGTATCGATACTATTCA
Found at i:753991 original size:42 final size:42
Alignment explanation
Indices: 753937--754023 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
753927 GTTGGACTCA
*
753937 ATGTATCGATACTATTCACAATGTATCGATACATGAACAATG
1 ATGTACCGATACTATTCACAATGTATCGATACATGAACAATG
* *
753979 ATGTACCGATACTATTCAGAATGTATCGATACATGAACAGTG
1 ATGTACCGATACTATTCACAATGTATCGATACATGAACAATG
754021 ATG
1 ATG
754024 AATAGTGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGTACCGATACTATTCACAATGTATCGATACATGAACAATG
Found at i:757445 original size:22 final size:21
Alignment explanation
Indices: 757417--757458 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
757407 AGTTAACTAT
757417 AAATG-TTTCAAAGTAATAAATC
1 AAATGTTTTC-AAGTAA-AAATC
757439 AAATGTTTTCAAGTAAAAAT
1 AAATGTTTTCAAGTAAAAAT
757459 AATCCAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
AAATGTTTTCAAGTAAAAATC
Found at i:757597 original size:19 final size:20
Alignment explanation
Indices: 757573--757623 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
757563 CGATACATTA
* *
757573 TATCGATACATGTT-CATAG
1 TATCGATACATGTTGAAAAG
*
757592 TATCGATACATTTTGAAAAG
1 TATCGATACATGTTGAAAAG
757612 TATCGATACATG
1 TATCGATACATG
757624 AAACTAGCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (20 bp):
TATCGATACATGTTGAAAAG
Found at i:757598 original size:32 final size:33
Alignment explanation
Indices: 757540--757603 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
757530 CACCCAGATG
*
757540 TATCGATACATATTGCTTAGTATCGATACATTA
1 TATCGATACATATTGCATAGTATCGATACATTA
*
757573 TATCGATACATGTT-CATAGTATCGATACATT
1 TATCGATACATATTGCATAGTATCGATACATT
757604 TTGAAAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (33 bp):
TATCGATACATATTGCATAGTATCGATACATTA
Found at i:765292 original size:12 final size:12
Alignment explanation
Indices: 765275--765309 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
765265 CCCGCATGAT
765275 GATTAGTCGTAG
1 GATTAGTCGTAG
*
765287 GATTAGTCATAG
1 GATTAGTCGTAG
*
765299 GAGTAGTCGTA
1 GATTAGTCGTA
765310 TGCTAGTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (12 bp):
GATTAGTCGTAG
Found at i:765573 original size:17 final size:18
Alignment explanation
Indices: 765551--765584 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
765541 GGGGAAAACA
765551 AAAAAG-GGGACAAGTAC
1 AAAAAGAGGGACAAGTAC
*
765568 AAAAAGAGGGAGAAGTA
1 AAAAAGAGGGACAAGTA
765585 ATTTGCAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.06, G:0.32, T:0.06
Consensus pattern (18 bp):
AAAAAGAGGGACAAGTAC
Found at i:766245 original size:22 final size:22
Alignment explanation
Indices: 766211--766253 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
766201 AGTTAAGTAT
766211 AAATGTTTTTCAAGTAATAAATC
1 AAATGTTTTTCAAGTAA-AAATC
766234 AAATG-TTTTCAAGTAAAAAT
1 AAATGTTTTTCAAGTAAAAAT
766254 AATCGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 11 0.55
23 5 0.25
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (22 bp):
AAATGTTTTTCAAGTAAAAATC
Found at i:769306 original size:20 final size:20
Alignment explanation
Indices: 769253--769306 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
769243 TGGTATAATT
* * *
769253 TGTATTAATACAATAAGTTAT
1 TGTATCAATAC-ATAAGTGAA
*
769274 TGTATCAACACATAAGTGAA
1 TGTATCAATACATAAGTGAA
*
769294 TGTATCGATACAT
1 TGTATCAATACAT
769307 GCTTGCAATG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (20 bp):
TGTATCAATACATAAGTGAA
Found at i:770190 original size:20 final size:20
Alignment explanation
Indices: 770157--770205 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
770147 ACAACGAGTT
* *
770157 AATGTATTGATACATAAATG
1 AATGTATCGGTACATAAATG
* *
770177 ACTGTATCGGTACATAAGTG
1 AATGTATCGGTACATAAATG
770197 AATGTATCG
1 AATGTATCG
770206 ATATTGGACC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (20 bp):
AATGTATCGGTACATAAATG
Found at i:776883 original size:24 final size:24
Alignment explanation
Indices: 776830--776875 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
776820 GCAATAAAGA
* *
776830 AGCAAATTAAAAAGTAATAGCTAC
1 AGCAAATTAAAAAGTAACAACTAC
*
776854 AGCAAATTAAGAAGTAACAACT
1 AGCAAATTAAAAAGTAACAACT
776876 GTAGCAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.20
Consensus pattern (24 bp):
AGCAAATTAAAAAGTAACAACTAC
Found at i:777002 original size:22 final size:22
Alignment explanation
Indices: 776970--777011 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
776960 AAAGAACCAA
776970 AACAAAAACAACGAA-AATAAAC
1 AACAAAAACAAC-AACAATAAAC
*
776992 AACAAACACAACAACAATAA
1 AACAAAAACAACAACAATAA
777012 CCGAAGCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.71, C:0.21, G:0.02, T:0.05
Consensus pattern (22 bp):
AACAAAAACAACAACAATAAAC
Found at i:779799 original size:22 final size:22
Alignment explanation
Indices: 779773--779821 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
779763 GAAAATAAAT
779773 TTTTATCAAGGGGGAGAAAACC
1 TTTTATCAAGGGGGAGAAAACC
*
779795 TTTTATCAAGGGGGAGAAAATC
1 TTTTATCAAGGGGGAGAAAACC
779817 TTTTA
1 TTTTA
779822 AATGATAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (22 bp):
TTTTATCAAGGGGGAGAAAACC
Found at i:779865 original size:21 final size:22
Alignment explanation
Indices: 779829--779869 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
779819 TTAAATGATA
*
779829 ATCAAAGGGGAGAAATTTTTTT
1 ATCAAAGGGGAAAAATTTTTTT
779851 ATCAAA-GGGAAAAATTTTT
1 ATCAAAGGGGAAAAATTTTT
779870 AACGAGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (22 bp):
ATCAAAGGGGAAAAATTTTTTT
Found at i:780485 original size:20 final size:19
Alignment explanation
Indices: 780440--780489 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
780430 ACATTATGCT
**
780440 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGCACA
*
780459 CTGTATCGATACATGCACAA
1 TTGTATCGATACATGCAC-A
780479 TTGTATCGATA
1 TTGTATCGATA
780490 AATGAAACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATGCACA
Found at i:780561 original size:13 final size:13
Alignment explanation
Indices: 780543--780567 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
780533 CATGGCACAT
780543 TGTATCGATACAA
1 TGTATCGATACAA
780556 TGTATCGATACA
1 TGTATCGATACA
780568 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:780578 original size:33 final size:33
Alignment explanation
Indices: 780523--780587 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
780513 TACCATTGTT
*
780523 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATTGTATCAATACAA
780556 TGTATCGATACATGATG-A-ATTGTATCAATACA
1 TGTATCGATACATG--GCACATTGTATCAATACA
780588 TTGCTTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTATCAATACAA
Found at i:782239 original size:35 final size:36
Alignment explanation
Indices: 782198--782268 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
782188 AGATAGAAAC
**
782198 CTCCCTATCTTTT-CACGGGCTAAGATAAAACCTCT
1 CTCCCTATCTTTTGCAAAGGCTAAGATAAAACCTCT
*
782233 CTCCCTATCTTTTGCAAAGGCTAAGATAGAACCTCT
1 CTCCCTATCTTTTGCAAAGGCTAAGATAAAACCTCT
782269 TAATCACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 13 0.41
36 19 0.59
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (36 bp):
CTCCCTATCTTTTGCAAAGGCTAAGATAAAACCTCT
Found at i:782731 original size:33 final size:33
Alignment explanation
Indices: 782694--782767 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
782684 GCTCAATGTC
782694 TCGATACATTTCACCATATATCGATACAATGCA
1 TCGATACATTTCACCATATATCGATACAATGCA
* * *
782727 TCGATACATTTCACCATGTATCGATATAATGTA
1 TCGATACATTTCACCATATATCGATACAATGCA
782760 TCGATACA
1 TCGATACA
782768 CTATATCGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (33 bp):
TCGATACATTTCACCATATATCGATACAATGCA
Found at i:782864 original size:13 final size:13
Alignment explanation
Indices: 782846--782872 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
782836 TACCAAGAAC
782846 ATGTATCGATACA
1 ATGTATCGATACA
782859 ATGTATCGATACA
1 ATGTATCGATACA
782872 A
1 A
782873 AGCAATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:782870 original size:32 final size:33
Alignment explanation
Indices: 782828--782891 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
782818 CAATTCAGTG
* * *
782828 TGTATTGATACCAAG-AACATGTATCGATACAA
1 TGTATCGATACAAAGCAACATGTATCAATACAA
*
782860 TGTATCGATACAAAGCAATATGTATCAATACA
1 TGTATCGATACAAAGCAACATGTATCAATACA
782892 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACAAAGCAACATGTATCAATACAA
Found at i:783006 original size:22 final size:22
Alignment explanation
Indices: 782981--783022 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
782971 TACTTTGAAT
*
782981 TTTTTGTACTTGAAAAACATTA
1 TTTTTATACTTGAAAAACATTA
*
783003 TTTTTATGCTTGAAAAACAT
1 TTTTTATACTTGAAAAACAT
783023 CTATACTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (22 bp):
TTTTTATACTTGAAAAACATTA
Found at i:784982 original size:19 final size:20
Alignment explanation
Indices: 784958--785008 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
784948 ATAATTCAAT
784958 ATGTATCGATACCAAG-AAC
1 ATGTATCGATACCAAGCAAC
** *
784977 ATGTATCGATAATAAGCAAT
1 ATGTATCGATACCAAGCAAC
784997 ATGTATCGATAC
1 ATGTATCGATAC
785009 ATTCTAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACCAAGCAAC
Found at i:788304 original size:19 final size:19
Alignment explanation
Indices: 788254--788308 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
788244 CTGCCAGTTT
*
788254 CATGTATTGATACAATTGAG
1 CATGTATTGATACAA-TGAA
** *
788274 TGTGTATCGATACAATGAA
1 CATGTATTGATACAATGAA
788293 CATGTATTGATACAAT
1 CATGTATTGATACAAT
788309 ATATACAAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (19 bp):
CATGTATTGATACAATGAA
Found at i:794420 original size:39 final size:39
Alignment explanation
Indices: 794366--794443 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
794356 CACAAGAATC
794366 AAGTCTTGGTTTTAGATACCCAAATTTTCTTAGGTCCTT
1 AAGTCTTGGTTTTAGATACCCAAATTTTCTTAGGTCCTT
794405 AAGTCTTGGTTTTAGATACCCAAATTTTCTTAGGTCCTT
1 AAGTCTTGGTTTTAGATACCCAAATTTTCTTAGGTCCTT
794444 TTCGTTAGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (39 bp):
AAGTCTTGGTTTTAGATACCCAAATTTTCTTAGGTCCTT
Found at i:800503 original size:33 final size:33
Alignment explanation
Indices: 800461--800523 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
800451 TGAAGCAATT
* *
800461 TATTGATACAATTTATCATGCATCGATACATTG
1 TATTGATACAATGTACCATGCATCGATACATTG
* *
800494 TATTGATACAATGTGCCATGTATCGATACA
1 TATTGATACAATGTACCATGCATCGATACA
800524 AACAGTGGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (33 bp):
TATTGATACAATGTACCATGCATCGATACATTG
Found at i:801199 original size:36 final size:35
Alignment explanation
Indices: 801146--801213 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
801136 AGAAAGCTCT
** *
801146 CTATCTTTTCACTAGCTAAAATAGAATCTCTCTCC
1 CTATCTTTTCAAAAGCTAAAATAGAACCTCTCTCC
*
801181 CTATCTTTTTCAAAAGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAAGCTAAAATAGAACCTCTC
801214 AATCACTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 5 0.18
36 23 0.82
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.35
Consensus pattern (35 bp):
CTATCTTTTCAAAAGCTAAAATAGAACCTCTCTCC
Found at i:801704 original size:32 final size:32
Alignment explanation
Indices: 801668--801733 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
801658 ATATGTATTG
* *
801668 ATACATGAACAGTGATGAACAATGATGTATCA
1 ATACATGAACAGTGATAAACAATAATGTATCA
**
801700 ATACATGAACAGTGATAAACCGTAATGTATCA
1 ATACATGAACAGTGATAAACAATAATGTATCA
801732 AT
1 AT
801734 TTAAAAGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.26
Consensus pattern (32 bp):
ATACATGAACAGTGATAAACAATAATGTATCA
Found at i:805435 original size:10 final size:10
Alignment explanation
Indices: 805412--805450 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
805402 TTGCTTGGCT
* *
805412 TTCTTGGTGT
1 TTCTTGTTGG
805422 TTCTTGTTGG
1 TTCTTGTTGG
*
805432 TTCTTATTGG
1 TTCTTGTTGG
805442 TTCTTGTTG
1 TTCTTGTTG
805451 ATCTTCAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.03, C:0.10, G:0.26, T:0.62
Consensus pattern (10 bp):
TTCTTGTTGG
Found at i:805684 original size:21 final size:20
Alignment explanation
Indices: 805639--805693 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
805629 GTTGAGCTCA
805639 ATGTATCGATACAATGTACT
1 ATGTATCGATACAATGTACT
*
805659 ATGTATCGATACAAT-TCAAGT
1 ATGTATCGATACAATGT--ACT
805680 ATGTATCGATACAA
1 ATGTATCGATACAA
805694 AGTGAGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 1 0.03
20 15 0.47
21 16 0.50
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACT
Found at i:805764 original size:19 final size:20
Alignment explanation
Indices: 805740--805790 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
805730 ATAATTCAAT
*
805740 ATGTATTGATACCATG-AAC
1 ATGTATTGATACCAAGCAAC
*
805759 ATGTATTGATACTAAGCAAC
1 ATGTATTGATACCAAGCAAC
*
805779 ATGTATCGATAC
1 ATGTATTGATAC
805791 ATCTAGGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (20 bp):
ATGTATTGATACCAAGCAAC
Found at i:810384 original size:17 final size:17
Alignment explanation
Indices: 810358--810390 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
810348 AGAGGCTTAC
810358 AAAATAAAAAACCAAAAA
1 AAAATAAAAAA-CAAAAA
810376 AAAAT-AAAAACAAAA
1 AAAATAAAAAACAAAA
810391 TACTTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (17 bp):
AAAATAAAAAACAAAAA
Found at i:811631 original size:48 final size:48
Alignment explanation
Indices: 811597--811822 Score: 274
Period size: 48 Copynumber: 4.7 Consensus size: 48
811587 TTTTTTCTTT
* * *
811597 GTTTAATTGTATTGGTGTTAAAGCCTAGTCAAACTCTTTTTATCCCTC
1 GTTTAACTGTATTGGTGTTAGAGCCTAGTCAAACTCTTTTCATCCCTC
* * * *
811645 GTTTAATTGTATTAGTGTTATAGCCTGGTCAAA-TGCTTTTCATCCCTC
1 GTTTAACTGTATTGGTGTTAGAGCCTAGTCAAACT-CTTTTCATCCCTC
* * *
811693 GTTTGACTGTATTGGTGTTAGGGCCTGGTCAAACTCTTTTCATCCCTC
1 GTTTAACTGTATTGGTGTTAGAGCCTAGTCAAACTCTTTTCATCCCTC
* * * *
811741 GTTTGACTGTGTTGGTGTTAGAGCCTAGTCAAACTGTTTTCATCCATC
1 GTTTAACTGTATTGGTGTTAGAGCCTAGTCAAACTCTTTTCATCCCTC
* * * *
811789 GTTTGACTATATTAGTGTTCGAGCCTAGTCAAAC
1 GTTTAACTGTATTGGTGTTAGAGCCTAGTCAAAC
811823 ATTTTGAAAG
Statistics
Matches: 158, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 156 0.99
49 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.41
Consensus pattern (48 bp):
GTTTAACTGTATTGGTGTTAGAGCCTAGTCAAACTCTTTTCATCCCTC
Found at i:812594 original size:33 final size:33
Alignment explanation
Indices: 812556--812621 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
812546 GTTACAAGCT
812556 ATGTATCGATACATT-T-CTTCATGTATTGATACA
1 ATGTATCGATACATTATAC--CATGTATTGATACA
812589 ATGTATCGATACATTATACCATGTATTGATACA
1 ATGTATCGATACATTATACCATGTATTGATACA
812622 TTATACCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (33 bp):
ATGTATCGATACATTATACCATGTATTGATACA
Found at i:812607 original size:20 final size:20
Alignment explanation
Indices: 812584--812641 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
812574 TCATGTATTG
*
812584 ATACAATGTATCGATACATT
1 ATACCATGTATCGATACATT
*
812604 ATACCATGTATTGATACATT
1 ATACCATGTATCGATACATT
812624 ATACCATGTATCGATACA
1 ATACCATGTATCGATACA
812642 AATAGTGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (20 bp):
ATACCATGTATCGATACATT
Found at i:812739 original size:20 final size:19
Alignment explanation
Indices: 812671--812743 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
812661 CTGCCAGTTT
* **
812671 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-GGAA
*
812691 CATGTATCGATACAATGAA
1 CATGTATCGATACAAGGAA
*
812710 CATG-ATTCGATACAAGGCAG
1 CATGTA-TCGATACAAGG-AA
812730 CATGTATCGATACA
1 CATGTATCGATACA
812744 TCTGGGTGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.02
19 16 0.35
20 28 0.61
21 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAAGGAA
Found at i:813265 original size:22 final size:22
Alignment explanation
Indices: 813237--813297 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
813227 ACATTAGAAA
*
813237 GTTCAAATATTAAAGTTTTCGT
1 GTTCAAATATCAAAGTTTTCGT
813259 GTTCAAATATCAAAGTTTTCGT
1 GTTCAAATATCAAAGTTTTCGT
*
813281 TTTCAAATATCAAAGTT
1 GTTCAAATATCAAAGTT
813298 ATTGTTTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
GTTCAAATATCAAAGTTTTCGT
Found at i:813304 original size:22 final size:22
Alignment explanation
Indices: 813238--813305 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
813228 CATTAGAAAG
* *
813238 TTCAAATATTAAAGTTTTCGTG
1 TTCAAATATCAAAGTTTTCGTT
813260 TTCAAATATCAAAGTTTTCGTT
1 TTCAAATATCAAAGTTTTCGTT
813282 TTCAAATATCAAAGTTATT-GTT
1 TTCAAATATCAAAGTT-TTCGTT
813304 TT
1 TT
813306 TCTCCCCTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 41 0.95
23 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.47
Consensus pattern (22 bp):
TTCAAATATCAAAGTTTTCGTT
Found at i:815285 original size:13 final size:13
Alignment explanation
Indices: 815267--815291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
815257 TAGTACCCAA
815267 TGTATCGATACAT
1 TGTATCGATACAT
815280 TGTATCGATACA
1 TGTATCGATACA
815292 AGGAATGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:819424 original size:52 final size:52
Alignment explanation
Indices: 819342--819461 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
819332 AAAAGTTACT
* *
819342 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATCTATCGATACATCTGGGCAAATTTGCC
* *
819394 TGCATGTATCGATACATTTTATAATCTATCGATACATCTGGGCAAATTTGCT
1 TGCATGTATCGATACATTTAATAATCTATCGATACATCTGGGCAAATTTGCC
819446 TGCATGTATCGATACA
1 TGCATGTATCGATACA
819462 AAGATCGGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATCTATCGATACATCTGGGCAAATTTGCC
Found at i:819488 original size:13 final size:13
Alignment explanation
Indices: 819470--819494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
819460 CAAAGATCGG
819470 TGTATCGATACAA
1 TGTATCGATACAA
819483 TGTATCGATACA
1 TGTATCGATACA
819495 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:819575 original size:13 final size:13
Alignment explanation
Indices: 819557--819581 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
819547 CAAAAAAATA
819557 TGTATCGATACAT
1 TGTATCGATACAT
819570 TGTATCGATACA
1 TGTATCGATACA
819582 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:819592 original size:33 final size:33
Alignment explanation
Indices: 819535--819601 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
819525 AGTAGCTTAA
*
819535 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCAATAC
* ***
819568 ATTGTATCGATACAACATTTTATGTATCAATAC
1 ATTGTATCGATACAAAAAAATATGTATCAATAC
819601 A
1 A
819602 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCAATAC
Found at i:825198 original size:19 final size:19
Alignment explanation
Indices: 825154--825209 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
825144 CTGCCAGTTT
**
825154 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
825174 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
825193 CATGTATCGATATAATG
1 CATGTATCGATACAATG
825210 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:825605 original size:47 final size:48
Alignment explanation
Indices: 825510--825707 Score: 213
Period size: 48 Copynumber: 4.1 Consensus size: 48
825500 CCTGACACAT
* *
825510 TTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTC
1 TTTTCATCCCTCGTTTGACTGTATTAGTGTTAGGGCTTAGTCAAACTC
* * * * *
825558 TTTTCATCCCTCATTTGACTAT-TTTGTGTTATGGCTTAGTCGAACTC
1 TTTTCATCCCTCGTTTGACTGTATTAGTGTTAGGGCTTAGTCAAACTC
* *
825605 TTTTCATCCCTTGTTTGACTGTACTAGTGTTAGGGCTT-GCTCAAACTC
1 TTTTCATCCCTCGTTTGACTGTATTAGTGTTAGGGCTTAG-TCAAACTC
* * * * * * *
825653 TTTTCATCCTTCGTTTTACTATATTGGTATTAGGACCTAGTCAAACT-
1 TTTTCATCCCTCGTTTGACTGTATTAGTGTTAGGGCTTAGTCAAACTC
825700 TTTCTCAT
1 TTT-TCAT
825708 TTTGATCTAA
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
47 44 0.35
48 79 0.64
49 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (48 bp):
TTTTCATCCCTCGTTTGACTGTATTAGTGTTAGGGCTTAGTCAAACTC
Found at i:826071 original size:42 final size:42
Alignment explanation
Indices: 825768--826204 Score: 169
Period size: 42 Copynumber: 10.4 Consensus size: 42
825758 TGACATATGG
* * * *
825768 TTACCTTTAGTCTACCTATCCGCTTTGACCTTGGAGACCTT-T
1 TTACCTTTAGTCTACCTGTCAGCTTTGACCCTGAAGA-CTTCT
* * * * * * *
825810 TTA-CTTGTAATTTTCCTATCAACTTTAACTCT-AGAGACTTCT
1 TTACCTT-TAGTCTACCTGTCAGCTTTGACCCTGA-AGACTTCT
* * * ** * * *
825852 TAACCTTTTGTCTGCCCATCGGCTTTGA-CTTGGGAGACTTCT
1 TTACCTTTAGTCTACCTGTCAGCTTTGACCCT-GAAGACTTCT
* * * ** * *
825894 TTACCTTCAGTCTACCCGTTAGCTTCAACCTTGTAGACTTCT
1 TTACCTTTAGTCTACCTGTCAGCTTTGACCCTGAAGACTTCT
* * * * *
825936 TTA-CTTTCAGCCTACTTGT-TGATTTTGACCCT-AGAGACATCT
1 TTACCTTT-AGTCTACCTGTCAG-CTTTGACCCTGA-AGACTTCT
* ** * * * * * *
825978 TTACTTTTAGTCGGCCTG-CGGTTTTCACCATGGAGACTTAT
1 TTACCTTTAGTCTACCTGTCAGCTTTGACCCTGAAGACTTCT
* *
826019 TTCCCTTTAGTCTGCCTGTCAGCTTTGACCCTGAAGACTTCT
1 TTACCTTTAGTCTACCTGTCAGCTTTGACCCTGAAGACTTCT
* ** * * *
826061 TTACCATTAGTCTACCCATTAGCTTTGA-CCTGGGAGACTTTT
1 TTACCTTTAGTCTACCTGTCAGCTTTGACCCT-GAAGACTTCT
* * *
826103 TTACCTTTTGTCTACCGGTCGGCTTTGACCCT-ATAGACTTCT
1 TTACCTTTAGTCTACCTGTCAGCTTTGACCCTGA-AGACTTCT
* ** * *
826145 TTATCCTTT-GTTTACCCATCAGCTTAGA-CCTGGAAGACTTTT
1 TTA-CCTTTAGTCTACCTGTCAGCTTTGACCCT-GAAGACTTCT
*
826187 TTACCTTTTTGTCTACCT
1 TTACC-TTTAGTCTACCT
826205 ATTGGCTTTA
Statistics
Matches: 287, Mismatches: 86, Indels: 43
0.69 0.21 0.10
Matches are distributed among these distances:
41 48 0.17
42 215 0.75
43 24 0.08
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (42 bp):
TTACCTTTAGTCTACCTGTCAGCTTTGACCCTGAAGACTTCT
Found at i:826132 original size:84 final size:84
Alignment explanation
Indices: 826009--826203 Score: 250
Period size: 84 Copynumber: 2.3 Consensus size: 84
825999 TTTTCACCAT
* * * * *
826009 GGAGACTTATTTCCCTTTAGTCTGCCTGTCAGCTTTGACCCTGA-AGACTTCTTTA-CCATTAGT
1 GGAGACTTTTTTACCTTTTGTCTACCGGTCAGCTTTGACCCT-ATAGACTTCTTTATCC-TTAGT
* *
826072 CTACCCATTAGCTTTGACCTG
64 CTACCCATCAGCTTAGACCTG
* * *
826093 GGAGACTTTTTTACCTTTTGTCTACCGGTCGGCTTTGACCCTATAGACTTCTTTATCCTTTGTTT
1 GGAGACTTTTTTACCTTTTGTCTACCGGTCAGCTTTGACCCTATAGACTTCTTTATCCTTAGTCT
826158 ACCCATCAGCTTAGACCTG
66 ACCCATCAGCTTAGACCTG
*
826177 GAAGACTTTTTTACCTTTTTGTCTACC
1 GGAGACTTTTTTACC-TTTTGTCTACC
826204 TATTGGCTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
83 1 0.01
84 83 0.86
85 13 0.13
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (84 bp):
GGAGACTTTTTTACCTTTTGTCTACCGGTCAGCTTTGACCCTATAGACTTCTTTATCCTTAGTCT
ACCCATCAGCTTAGACCTG
Found at i:827191 original size:26 final size:28
Alignment explanation
Indices: 827126--827191 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 28
827116 GCTTGAAATT
*
827126 AAAAATGATCAACTGCTGCAAACAAATGA
1 AAAAATGA-CAACAGCTGCAAACAAATGA
*
827155 AAAGA-GA-AACAGCTGCAAA-AAA-GA
1 AAAAATGACAACAGCTGCAAACAAATGA
827179 AAAAATGACAACA
1 AAAAATGACAACA
827192 ACAAATGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 6 0.19
25 5 0.16
26 15 0.47
28 2 0.06
29 4 0.12
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.11
Consensus pattern (28 bp):
AAAAATGACAACAGCTGCAAACAAATGA
Found at i:827257 original size:56 final size:56
Alignment explanation
Indices: 827176--827295 Score: 204
Period size: 56 Copynumber: 2.1 Consensus size: 56
827166 GCTGCAAAAA
* *
827176 AGAAAAAATGACAACAACAAATGAAAGAAAACAATTAAGCTGTTGAAATGAATAAG
1 AGAAGAAATGACAACAACAAATGAAAAAAAACAATTAAGCTGTTGAAATGAATAAG
* *
827232 AGAAGAAATGATAGCAACAAATGAAAAAAAACAATTAAGCTGTTGAAATGAATAAG
1 AGAAGAAATGACAACAACAAATGAAAAAAAACAATTAAGCTGTTGAAATGAATAAG
827288 AGAAGAAA
1 AGAAGAAA
827296 CAGCAGCAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.59, C:0.07, G:0.17, T:0.16
Consensus pattern (56 bp):
AGAAGAAATGACAACAACAAATGAAAAAAAACAATTAAGCTGTTGAAATGAATAAG
Found at i:827358 original size:26 final size:24
Alignment explanation
Indices: 827329--827384 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
827319 CGATGCAATG
827329 AAGAAGCAATTAAGCTATAGCAAATT
1 AAGAAGCAA-T-AGCTATAGCAAATT
* *
827355 AAGAAGCAATAGTTGTAGCAAATT
1 AAGAAGCAATAGCTATAGCAAATT
827379 AAGAAG
1 AAGAAG
827385 TAACAACTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 18 0.64
25 1 0.04
26 9 0.32
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.21
Consensus pattern (24 bp):
AAGAAGCAATAGCTATAGCAAATT
Found at i:827398 original size:24 final size:24
Alignment explanation
Indices: 827347--827400 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
827337 ATTAAGCTAT
* ** *
827347 AGCAAATTAAGAAGCAATAGTTGT
1 AGCAAATTAAGAAGCAACAACTGC
*
827371 AGCAAATTAAGAAGTAACAACTGC
1 AGCAAATTAAGAAGCAACAACTGC
827395 AGCAAA
1 AGCAAA
827401 AGGAAGAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.19
Consensus pattern (24 bp):
AGCAAATTAAGAAGCAACAACTGC
Found at i:827447 original size:25 final size:26
Alignment explanation
Indices: 827401--827449 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
827391 CTGCAGCAAA
*
827401 AGGAAGAAATCGAAACAGCAAAGAGG
1 AGGAAGAAATCGAAACACCAAAGAGG
* *
827427 AGGAAGACAT-GAAACCCCAAAGA
1 AGGAAGAAATCGAAACACCAAAGA
827450 AAAGAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.53, C:0.16, G:0.27, T:0.04
Consensus pattern (26 bp):
AGGAAGAAATCGAAACACCAAAGAGG
Found at i:827643 original size:22 final size:22
Alignment explanation
Indices: 827618--827661 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
827608 AAGCAGTAGG
*
827618 TCCAACAAACACCAGCAGCAAC
1 TCCAACAAACACCAACAGCAAC
* *
827640 TCCAGCAAACTCCAACAGCAAC
1 TCCAACAAACACCAACAGCAAC
827662 AAACACTAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.41, G:0.09, T:0.07
Consensus pattern (22 bp):
TCCAACAAACACCAACAGCAAC
Found at i:833071 original size:15 final size:14
Alignment explanation
Indices: 833047--833088 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
833037 AAATTTCCTC
*
833047 TAAAATAAGAAAAA
1 TAAAAAAAGAAAAA
833061 TTAAAAAAAGAAAAA
1 -TAAAAAAAGAAAAA
*
833076 -AAGAAAAGAAAAA
1 TAAAAAAAGAAAAA
833089 AGGAAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
15 13 0.52
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (14 bp):
TAAAAAAAGAAAAA
Found at i:833084 original size:13 final size:13
Alignment explanation
Indices: 833066--833095 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
833056 AAAAATTAAA
833066 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
*
833079 AAAAGAAAAAAGG
1 AAAAGAAAAAAAG
833092 AAAA
1 AAAA
833096 AGTGTGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:835340 original size:48 final size:48
Alignment explanation
Indices: 835283--835734 Score: 487
Period size: 48 Copynumber: 9.4 Consensus size: 48
835273 TCGTGTTAAA
* * * * *
835283 GCCTGGTCAAACTCATTTCATCCCTCGTTTGATTGTGTTGGTTTTAGG
1 GCCTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGG
* * * * * *
835331 GCCTAGTCAAACTCTTTTTATCCCTCATTTTATTGTATTAGTGTTAGA
1 GCCTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGG
* * * *
835379 GCCTGGGCAAACTCTTTTCATCCCTCATTTGACTGTATTAGTGTTCGA
1 GCCTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGG
* * *
835427 GCCTAGTCAAACTCTTTTCATCCCTCGTTTGATTGTATTGGTGTTAGG
1 GCCTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGG
* * * * *
835475 GCTTGGTCCAACTCTTTTCATCCCTCATTTAACTGTAATGGTGTTACG
1 GCCTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGG
*
835523 GCCTGGTCAAACTCTTTTCATTCCCTCATTTGACTGTACTGGTGTTAGG
1 GCCTGGTCAAACTCTTTTCA-TCCCTCATTTGACTGTATTGGTGTTAGG
* * * * *
835572 GCCTTGTCATATTTTTTTCATCCCTCATTTAACTGTATTGGTG-TAGG
1 GCCTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGG
* * * *
835619 GCCTAGTCAAACTCTTTTCATCCCTCTTTTGATTGTATTGGTGTTAAG
1 GCCTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGG
* * * * * * *
835667 GCCTGGTC-AACTTTTTTCATCCTTCGTTTAACTCTATTGGTATTATG
1 GCCTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGG
* *
835714 ACCTAGTCAAACT-TTTCTCAT
1 GCCTGGTCAAACTCTTT-TCAT
835735 TTCGATTTGA
Statistics
Matches: 340, Mismatches: 60, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
47 80 0.24
48 219 0.64
49 41 0.12
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.42
Consensus pattern (48 bp):
GCCTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGG
Found at i:835838 original size:44 final size:43
Alignment explanation
Indices: 835715--835948 Score: 165
Period size: 44 Copynumber: 5.4 Consensus size: 43
835705 GGTATTATGA
* *
835715 CCTAGTCAAACTTTTCTCATTTCGATTTGACGTATGGTTACCAC
1 CCTAGTCAAA-TTTTCTCATTTTGATTTGACGTATGGTTAACAC
* * ** * * **
835759 CCTTA-TC-AGTTTTTTTGTTCT-CTTTGATATATGGTTAACAC
1 CC-TAGTCAAATTTTCTCATTTTGATTTGACGTATGGTTAACAC
* * * *
835800 CTTGGTCAAACTTTTCTCATTTTGATCTGACGTATGGTTACCAC
1 CCTAGTCAAA-TTTTCTCATTTTGATTTGACGTATGGTTAACAC
* * * *
835844 CATGGTCAAATTCTTTTCATTTTGATTTGATGTATGGTT-ACTAC
1 CCTAGTCAAATT-TTCTCATTTTGATTTGACGTATGGTTAAC-AC
* *
835888 CCTAGTCAAATCTTCCTC-TTTCCTG-TTTGACGTATGGTTACCAC
1 CCTAGTCAAAT-TTTCTCATTT--TGATTTGACGTATGGTTAACAC
835932 CCTAGTCAAACTTTTCT
1 CCTAGTCAAA-TTTTCT
835949 TTGACATATA
Statistics
Matches: 144, Mismatches: 34, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
40 1 0.01
41 19 0.13
42 8 0.06
43 15 0.10
44 94 0.65
45 7 0.05
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (43 bp):
CCTAGTCAAATTTTCTCATTTTGATTTGACGTATGGTTAACAC
Found at i:835994 original size:123 final size:122
Alignment explanation
Indices: 835827--836054 Score: 296
Period size: 123 Copynumber: 1.9 Consensus size: 122
835817 CATTTTGATC
* * * **
835827 TGACGTATGGTTACCACCATGGTCAAATTCTTTTCATTTTGATTTGATGTATGGTTACTACCCTA
1 TGACATATAGTTACCACCATGGTCAAATTCTTTTCATTCTGATTTGACATATGGTTAC-ACCCTA
* * * *
835892 GTCAAATCTTCCTCTTTCCTGTTTGACGTATGGTTACCACCCTAGTCAAACTTTTCTT
65 GTCAAATCTACCTCTTTCCTGTCTGACATACGGTTACCACCCTAGTCAAACTTTTCTT
* * *
835950 TGACATATAGTTACCACCCTGGT-AAGATTCTTTTCATTCTGATTTGGCATATGGTTACACCCTG
1 TGACATATAGTTACCACCATGGTCAA-ATTCTTTTCATTCTGATTTGACATATGGTTACACCCTA
* * *
836014 GTCAAATCTACCTTTTTCTTGTCTGACATACGGTTATCACC
65 GTCAAATCTACCTCTTTCCTGTCTGACATACGGTTACCACC
836055 TTGGTCATAT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
122 41 0.46
123 48 0.54
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (122 bp):
TGACATATAGTTACCACCATGGTCAAATTCTTTTCATTCTGATTTGACATATGGTTACACCCTAG
TCAAATCTACCTCTTTCCTGTCTGACATACGGTTACCACCCTAGTCAAACTTTTCTT
Found at i:836093 original size:44 final size:43
Alignment explanation
Indices: 835948--836094 Score: 131
Period size: 44 Copynumber: 3.4 Consensus size: 43
835938 CAAACTTTTC
* *
835948 TTTGACATATAGTTACCACCCTGGT-AAGATTCTTTTCATTCTGA
1 TTTGACATATGGTTA-CACCCTGGTCAA-ATTCTTTTCATTTTGA
* *
835992 TTTGGCATATGGTTACACCCTGGTCAAATCTACCTTTT--TCTTG-
1 TTTGACATATGGTTACACCCTGGTCAAAT-T--CTTTTCATTTTGA
* * * *
836035 TCTGACATACGGTTATCACCTTGGTCATATTCTTTTCATTTTGA
1 TTTGACATATGGTTA-CACCCTGGTCAAATTCTTTTCATTTTGA
*
836079 TTTGACGTATGGTTAC
1 TTTGACATATGGTTAC
836095 CATTTTAGTC
Statistics
Matches: 82, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
41 5 0.06
43 29 0.35
44 43 0.52
46 5 0.06
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (43 bp):
TTTGACATATGGTTACACCCTGGTCAAATTCTTTTCATTTTGA
Found at i:836148 original size:44 final size:44
Alignment explanation
Indices: 836100--836232 Score: 119
Period size: 44 Copynumber: 3.0 Consensus size: 44
836090 GTTACCATTT
*
836100 TAGTCAAATTCGCCTCATTTCTGTCTAACGTATGGTTGCCACCC
1 TAGTCAAATTCGTCTCATTTCTGTCTAACGTATGGTTGCCACCC
* ** * * * * *
836144 TAGTCAGATTTTTTTTA-TTCTGATTTGATGTATGGTTGCCACCC
1 TAGTCAAATTCGTCTCATTTCTG-TCTAACGTATGGTTGCCACCC
* *
836188 TAGTCAAA-TCTGTCTC-TTTCCTATCTAACGTATGGTTACCACCC
1 TAGTCAAATTC-GTCTCATTT-CTGTCTAACGTATGGTTGCCACCC
836232 T
1 T
836233 GGTTAGGTTT
Statistics
Matches: 66, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
43 6 0.09
44 58 0.88
45 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (44 bp):
TAGTCAAATTCGTCTCATTTCTGTCTAACGTATGGTTGCCACCC
Found at i:836168 original size:88 final size:88
Alignment explanation
Indices: 835959--836503 Score: 364
Period size: 88 Copynumber: 6.2 Consensus size: 88
835949 TTGACATATA
* * * *** *
835959 GTTACCACCCTGGTAAGATTCTTTTCATTCTGATTTGGCATATGGTTA-CACCCTGGTCAAATCT
1 GTTACCACCCTAGTCAGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGTCAAATCT
* * * * * * *
836023 ACCTTTTTCTTGTCTGACATACG
66 GCCTCTTTCCTATCTAACGTATG
* * * * * * * ***
836046 GTTATCACCTTGGTCATATTCTTTTCATTTTGATTTGACGTATGGTTACCATTTTAGTCAAAT-T
1 GTTACCACCCTAGTCAGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGTCAAATCT
*
836110 CGCCTCATTT-CTGTCTAACGTATG
66 -GCCTC-TTTCCTATCTAACGTATG
* * *
836134 GTTGCCACCCTAGTCAGATTTTTTTTATTCTGATTTGATGTATGGTTGCCACCCTAGTCAAATCT
1 GTTACCACCCTAGTCAGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGTCAAATCT
*
836199 GTCTCTTTCCTATCTAACGTATG
66 GCCTCTTTCCTATCTAACGTATG
* * * * * *
836222 GTTACCACCCTGGTTAGGTTTTTTCCATTCCGATTTGATATATGGTTACCACCCTAGTCAAATCT
1 GTTACCACCCTAGTCAGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGTCAAATCT
* * * * * *
836287 ACCTTTTTTTCTATCTGATGCATG
66 GCC-TCTTTCCTATCTAACGTATG
* * * ** * *
836311 GTTACCACCCTGGCCA-ACTTTTTTTCATTCCGATTTGACATATGGCTACCA-CCTTGATCAAAA
1 GTTACCACCCTAGTCAGA-TTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAG-TC-AAA
* * * *
836374 TCTACCT-TCTTCTTATCTAGCTTATG
63 TCTGCCTCT-TTCCTATCTAACGTATG
* * * * * * * * * * *
836400 GTTACTACCGTGGTTAGATTCTTTTCATTTTGATTTGATATATCGTTACCACCTTGGCCAAATCT
1 GTTACCACCCTAGTCAGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGTCAAATCT
* * * *
836465 GCCTCATTCCTGTTTAACGTATA
66 GCCTCTTTCCTATCTAACGTATG
* *
836488 GTTGCCACCCTGGTCA
1 GTTACCACCCTAGTCA
836504 AATGATTTGT
Statistics
Matches: 358, Mismatches: 87, Indels: 25
0.76 0.19 0.05
Matches are distributed among these distances:
87 45 0.13
88 184 0.51
89 116 0.32
90 13 0.04
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (88 bp):
GTTACCACCCTAGTCAGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGTCAAATCT
GCCTCTTTCCTATCTAACGTATG
Found at i:836401 original size:89 final size:88
Alignment explanation
Indices: 836182--836404 Score: 231
Period size: 89 Copynumber: 2.5 Consensus size: 88
836172 TGTATGGTTG
** * ** **
836182 CCACCCTAGTCAAATCTGTC-TCTT-TCCTATCTAACGTATGGTTACCACCCTGGTTAGGTTTTT
1 CCACCCTAGTCAAATCTACCTTCTTCT-CTATCTAGC-TATGGTTACCACCCTGGCCAACTTTTT
* *
836245 TCCATTCCGATTTGATATATGGTTA
64 TCCATTCCGATTTGACATATGGCTA
* *
836270 CCACCCTAGTCAAATCTACCTTTTTTTCTATCTGATGC-ATGGTTACCACCCTGGCCAACTTTTT
1 CCACCCTAGTCAAATCTACCTTCTTCTCTATCT-A-GCTATGGTTACCACCCTGGCCAACTTTTT
*
836334 TTCATTCCGATTTGACATATGGCTA
64 TCCATTCCGATTTGACATATGGCTA
*
836359 CCA-CCTTGATCAAAATCTACCTTCTTCT-TATCTAGCTTATGGTTAC
1 CCACCCTAG-TC-AAATCTACCTTCTTCTCTATCTAGC-TATGGTTAC
836405 TACCGTGGTT
Statistics
Matches: 113, Mismatches: 14, Indels: 15
0.80 0.10 0.11
Matches are distributed among these distances:
87 2 0.02
88 23 0.20
89 71 0.63
90 16 0.14
91 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.39
Consensus pattern (88 bp):
CCACCCTAGTCAAATCTACCTTCTTCTCTATCTAGCTATGGTTACCACCCTGGCCAACTTTTTTC
CATTCCGATTTGACATATGGCTA
Found at i:836780 original size:42 final size:42
Alignment explanation
Indices: 836700--836972 Score: 180
Period size: 42 Copynumber: 6.5 Consensus size: 42
836690 CAGACCCGAA
* ** **
836700 AGACTTCTTTATCTTTTGTCTACTTGTCAGCTCAGACCTGGG
1 AGACTTCTTTATCCTTTGTCTACTCATCAGCTTTGACCTGGG
* * * * *
836742 ACACTTCTTTATCCTTTGTCTGCTCATCAACTTTGACCTAGA
1 AGACTTCTTTATCCTTTGTCTACTCATCAGCTTTGACCTGGG
* * **
836784 AGACTTCTTTACCCTTTGTCTACCCATTGGCTTTGACCTGGG
1 AGACTTCTTTATCCTTTGTCTACTCATCAGCTTTGACCTGGG
* * * * *
836826 AGACTTCTTTA-CCTTTAGTCTGC-CTGTTAGCTTTAACCTTGG
1 AGACTTCTTTATCCTTT-GTCTACTC-ATCAGCTTTGACCTGGG
* * ***
836868 AAACTTTTTTA-CCTTTAGTCTAC-CTATCAGCTTTGACCTTAA
1 AGACTTCTTTATCCTTT-GTCTACTC-ATCAGCTTTGACCTGGG
* * ** *
836910 AGACTTCTTTA-CCTTTTGTCTACCCATCGGCTTCAACTTGGG
1 AGACTTCTTTATCC-TTTGTCTACTCATCAGCTTTGACCTGGG
*
836952 AGACTTATTTA-CCTTTAGTCT
1 AGACTTCTTTATCCTTT-GTCT
836973 GCCTTTCGGC
Statistics
Matches: 184, Mismatches: 42, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
41 9 0.05
42 171 0.93
43 4 0.02
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.41
Consensus pattern (42 bp):
AGACTTCTTTATCCTTTGTCTACTCATCAGCTTTGACCTGGG
Found at i:836787 original size:84 final size:84
Alignment explanation
Indices: 836579--836806 Score: 260
Period size: 84 Copynumber: 2.7 Consensus size: 84
836569 TATGATACCT
* * * * *
836579 TTTATCCTTTGTCTGCCCGTCGGCTTAGACCTAGGAGACTTTCTTTATCAGTTTGTTTGCTTGTC
1 TTTATCCTTTGTCTGCCCGTCGACTTAGACCTAGAAGAC-TTCTTTATC-CTTTGTCTACTTGTC
* * *
836644 AGCTCAAACTTGGGAGACTTT
64 AGCTCAAACCTGGGACACTTC
* * * *
836665 TTTATCCTTTGTCTGCCCGTTGACTCAGACC-CGAAAGACTTCTTTATCTTTTGTCTACTTGTCA
1 TTTATCCTTTGTCTGCCCGTCGACTTAGACCTAG-AAGACTTCTTTATCCTTTGTCTACTTGTCA
*
836729 GCTCAGACCTGGGACACTTC
65 GCTCAAACCTGGGACACTTC
* * * * *
836749 TTTATCCTTTGTCTGCTCATCAACTTTGACCTAGAAGACTTCTTTACCCTTTGTCTAC
1 TTTATCCTTTGTCTGCCCGTCGACTTAGACCTAGAAGACTTCTTTATCCTTTGTCTAC
836807 CCATTGGCTT
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
84 76 0.64
85 11 0.09
86 32 0.27
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.40
Consensus pattern (84 bp):
TTTATCCTTTGTCTGCCCGTCGACTTAGACCTAGAAGACTTCTTTATCCTTTGTCTACTTGTCAG
CTCAAACCTGGGACACTTC
Found at i:836830 original size:126 final size:126
Alignment explanation
Indices: 836700--837091 Score: 341
Period size: 126 Copynumber: 3.1 Consensus size: 126
836690 CAGACCCGAA
* * * *
836700 AGACTTCTTTATCTTTTGTCTACTTGTCAGC-TCAGACCTGGGACACTTCTTTATCCTTT-GTCT
1 AGACTTCTTTACCTTTAGTCTACCTGTCAGCTTCA-ACCTGGGAAACTTCTTTA-CCTTTAGTCT
* * **
836763 -GCTCATCAACTTTGACC-TAGAAGACTTCTTTACCCTTTGTCTACCCATTGGCTTTGACCTGGG
64 ACCT-ATCAACTTTGACCTTA-AAGACTTCTTTACCCTTTGTCTACCCATCGGCTTCAACCTGGG
* * * * *
836826 AGACTTCTTTACCTTTAGTCTGCCTGTTAGCTTTAACCTTGGAAACTTTTTTACCTTTAGTCTAC
1 AGACTTCTTTACCTTTAGTCTACCTGTCAGCTTCAACCTGGGAAACTTCTTTACCTTTAGTCTAC
* * *
836891 CTATCAGCTTTGACCTTAAAGACTTCTTTACCTTTTGTCTACCCATCGGCTTCAACTTGGG
66 CTATCAACTTTGACCTTAAAGACTTCTTTACCCTTTGTCTACCCATCGGCTTCAACCTGGG
* * * * * ** * *
836952 AGACTTATTTACCTTTAGTCTGCCTTTCGGCTTTAACCCT-ATAGACTT-TTTTCCTTTAGTCTA
1 AGACTTCTTTACCTTTAGTCTACCTGTCAGCTTCAA-CCTGGGAAACTTCTTTACCTTTAGTCTA
** ** * * * * ** * *
837015 CCCGTTGACTTTGACCCTAGAGACTTC-TTA-CCTTTAGTCTGCCCATCGACTTTGATCTTGG
65 CCTATCAACTTTGACCTTAAAGACTTCTTTACCCTTT-GTCTACCCATCGGCTTCAACCTGGG
837076 AGACTTCTTTACCTTT
1 AGACTTCTTTACCTTT
837092 TGTTTGCCCA
Statistics
Matches: 220, Mismatches: 40, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
123 4 0.02
124 36 0.16
125 39 0.18
126 132 0.60
127 9 0.04
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.41
Consensus pattern (126 bp):
AGACTTCTTTACCTTTAGTCTACCTGTCAGCTTCAACCTGGGAAACTTCTTTACCTTTAGTCTAC
CTATCAACTTTGACCTTAAAGACTTCTTTACCCTTTGTCTACCCATCGGCTTCAACCTGGG
Found at i:837101 original size:42 final size:42
Alignment explanation
Indices: 836734--837133 Score: 276
Period size: 42 Copynumber: 9.6 Consensus size: 42
836724 TGTCAGCTCA
* * * *
836734 GACCTGGGACACTTCTTTATCCTTT-GTCTGCTCATCAACTTT
1 GACCTTGGAGACTTCTTTA-CCTTTAGTCTGCCCATCGACTTT
* * * * *
836776 GACCTAGAAGACTTCTTTACCCTTT-GTCTACCCATTGGCTTT
1 GACCTTGGAGACTTCTTTA-CCTTTAGTCTGCCCATCGACTTT
* ** *
836818 GACCTGGGAGACTTCTTTACCTTTAGTCTGCCTGT-TAGCTTT
1 GACCTTGGAGACTTCTTTACCTTTAGTCTGCCCATCGA-CTTT
* * * * *
836860 AACCTTGGAAACTTTTTTACCTTTAGTCTACCTATC-AGCTTT
1 GACCTTGGAGACTTCTTTACCTTTAGTCTGCCCATCGA-CTTT
** * * *
836902 GACCTTAAAGACTTCTTTACCTTTTGTCTACCCATCGGC-TT
1 GACCTTGGAGACTTCTTTACCTTTAGTCTGCCCATCGACTTT
* * * ** *
836943 CAACTTGGGAGACTTATTTACCTTTAGTCTGCCTTTCGGCTTT
1 GACCTT-GGAGACTTCTTTACCTTTAGTCTGCCCATCGACTTT
* * ** * * * *
836986 AACCCTATAGACTT-TTTTCCTTTAGTCTACCCGTTGACTTT
1 GACCTTGGAGACTTCTTTACCTTTAGTCTGCCCATCGACTTT
* *
837027 GACCCTAGAGACTTC-TTACCTTTAGTCTGCCCATCGACTTT
1 GACCTTGGAGACTTCTTTACCTTTAGTCTGCCCATCGACTTT
* * * * *
837068 GATCTTGGAGACTTCTTTACCTTTTGTTTGCCCATAGATTTT
1 GACCTTGGAGACTTCTTTACCTTTAGTCTGCCCATCGACTTT
* *
837110 GACC-CGAGAGACTTTTTTACCTTT
1 GACCTTG-GAGACTTCTTTACCTTT
837134 TGTTGATCGA
Statistics
Matches: 283, Mismatches: 66, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
41 79 0.28
42 199 0.70
43 5 0.02
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (42 bp):
GACCTTGGAGACTTCTTTACCTTTAGTCTGCCCATCGACTTT
Found at i:837999 original size:13 final size:13
Alignment explanation
Indices: 837981--838014 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
837971 GCAACAAATG
837981 GCATTTCATGCAT
1 GCATTTCATGCAT
837994 GCATTTCATGCAT
1 GCATTTCATGCAT
838007 GC-TTTCAT
1 GCATTTCAT
838015 ACATAAGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (13 bp):
GCATTTCATGCAT
Found at i:838262 original size:56 final size:57
Alignment explanation
Indices: 838148--838266 Score: 170
Period size: 56 Copynumber: 2.1 Consensus size: 57
838138 AAACAGCTGC
** *
838148 AATAAAGAAAAAATGGCAGCAACAAATGAAAGAAAAAATAATTAAGCTGTTAAAATG
1 AATAAAGAAAAAATAACAGCAACAAATGAAAGAAAAAATAATTAAGCTGCTAAAATG
* *
838205 AATAAGAGAAAAAATAACAGCAATAAATG-AA-AAAAAATAATTAAGTTGCTAAAATG
1 AATAA-AGAAAAAATAACAGCAACAAATGAAAGAAAAAATAATTAAGCTGCTAAAATG
838261 AATAAA
1 AATAAA
838267 AGAAGAAACA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
55 1 0.02
56 28 0.50
57 7 0.12
58 20 0.36
ACGTcount: A:0.62, C:0.06, G:0.13, T:0.18
Consensus pattern (57 bp):
AATAAAGAAAAAATAACAGCAACAAATGAAAGAAAAAATAATTAAGCTGCTAAAATG
Found at i:838283 original size:56 final size:58
Alignment explanation
Indices: 838164--838286 Score: 160
Period size: 56 Copynumber: 2.2 Consensus size: 58
838154 GAAAAAATGG
* * *
838164 CAGCAACAAATGAAAGAAAAAATAATTAAGCTGTTAAAATGAATAAGAGAAAAAATAA
1 CAGCAACAAATGAAAGAAAAAATAATTAAGCTGCTAAAATGAATAAAAGAAAAAACAA
* * * *
838222 CAGCAATAAATG-AA-AAAAAATAATTAAGTTGCTAAAATGAATAAAAGAAGAAACAG
1 CAGCAACAAATGAAAGAAAAAATAATTAAGCTGCTAAAATGAATAAAAGAAAAAACAA
*
838278 TAGCAACAA
1 CAGCAACAA
838287 GAAATGAAAG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
56 43 0.77
57 2 0.04
58 11 0.20
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.17
Consensus pattern (58 bp):
CAGCAACAAATGAAAGAAAAAATAATTAAGCTGCTAAAATGAATAAAAGAAAAAACAA
Found at i:838430 original size:25 final size:25
Alignment explanation
Indices: 838362--838418 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
838352 CAAAAGAATA
*
838362 AAAATGGATGAAATCGAAACAGCAAAG
1 AAAA-GGAGGAAA-CGAAACAGCAAAG
**
838389 AGGAGGAGGAAACGAAACAGCAAAG
1 AAAAGGAGGAAACGAAACAGCAAAG
838414 AAAAG
1 AAAAG
838419 AGAGAATAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 16 0.64
26 7 0.28
27 2 0.08
ACGTcount: A:0.56, C:0.11, G:0.28, T:0.05
Consensus pattern (25 bp):
AAAAGGAGGAAACGAAACAGCAAAG
Found at i:838604 original size:22 final size:20
Alignment explanation
Indices: 838554--838606 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
838544 AGCACAAAAT
*
838554 AGCAACTCCAGTAACCAAAC
1 AGCAACTCCAGGAACCAAAC
* * *
838574 AGTAGCTCCAGCGAACACCAAC
1 AGCAACTCCAG-GAAC-CAAAC
838596 AGCAACTCCAG
1 AGCAACTCCAG
838607 AAAACTCCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 9 0.36
21 3 0.12
22 13 0.52
ACGTcount: A:0.40, C:0.36, G:0.15, T:0.09
Consensus pattern (20 bp):
AGCAACTCCAGGAACCAAAC
Found at i:843028 original size:13 final size:13
Alignment explanation
Indices: 843010--843034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
843000 ATTTTGCTTA
843010 GTATCGATACATT
1 GTATCGATACATT
843023 GTATCGATACAT
1 GTATCGATACAT
843035 AAACTAGCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:843145 original size:32 final size:32
Alignment explanation
Indices: 843104--843184 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
843094 TTGTGAATAG
*
843104 TATCGATACATCACTGTCCATCACTGTTCATT
1 TATCGATACATCACTGTCCATAACTGTTCATT
*
843136 TATCGATACATCACTGTTCATAACTGTTCATT
1 TATCGATACATCACTGTCCATAACTGTTCATT
* *
843168 TATTGAAACATCACTGT
1 TATCGATACATCACTGT
843185 TCATGTATCG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (32 bp):
TATCGATACATCACTGTCCATAACTGTTCATT
Found at i:843200 original size:22 final size:22
Alignment explanation
Indices: 843158--843200 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
843148 ACTGTTCATA
* *
843158 ACTGTTCATTTATTGAAACATC
1 ACTGTTCATGTATCGAAACATC
*
843180 ACTGTTCATGTATCGATACAT
1 ACTGTTCATGTATCGAAACAT
843201 TGAGTCCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (22 bp):
ACTGTTCATGTATCGAAACATC
Found at i:843673 original size:36 final size:33
Alignment explanation
Indices: 843628--843720 Score: 118
Period size: 36 Copynumber: 2.8 Consensus size: 33
843618 CGAAGTGATT
843628 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGG
1 GAGAGGTTCTATCTTAGCC-TTGAAAAAGATA-GG
*
843663 AGAGAGGTTCTATCTTAGCCCGTG-AAAAGATAGG
1 -GAGAGGTTCTATCTTAG-CCTTGAAAAAGATAGG
*
843697 GAG-GTTTCTATCTTAGCCTTGAAA
1 GAGAGGTTCTATCTTAGCCTTGAAA
843721 GATAGTGTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
31 4 0.08
32 14 0.27
33 3 0.06
34 2 0.04
35 8 0.15
36 19 0.37
37 2 0.04
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (33 bp):
GAGAGGTTCTATCTTAGCCTTGAAAAAGATAGG
Found at i:844575 original size:13 final size:13
Alignment explanation
Indices: 844557--844587 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
844547 CGATACATGG
844557 TACATTGTATCGA
1 TACATTGTATCGA
*
844570 TACATTGTATTGA
1 TACATTGTATCGA
844583 TACAT
1 TACAT
844588 GGTAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:844600 original size:33 final size:33
Alignment explanation
Indices: 844541--844611 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
844531 CTACCACTAT
* ** * *
844541 TTGTATCGATACATGGTACATTGTATCGATACA
1 TTGTATCGATACATGGTAAAAAGTATCAATAAA
*
844574 TTGTATTGATACATGGTAAAAAGTATCAATAAA
1 TTGTATCGATACATGGTAAAAAGTATCAATAAA
844607 TTGTA
1 TTGTA
844612 CCTAATGGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATGGTAAAAAGTATCAATAAA
Found at i:847424 original size:3 final size:3
Alignment explanation
Indices: 847418--847449 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
847408 AATCATCAAA
*
847418 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
847450 AGTTGACTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:852972 original size:7 final size:8
Alignment explanation
Indices: 852950--852974 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
852940 AGGACCAAAT
852950 TGTAAAAA
1 TGTAAAAA
852958 TGTAAAAA
1 TGTAAAAA
852966 TGTAAAAA
1 TGTAAAAA
852974 T
1 T
852975 AAAAGAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (8 bp):
TGTAAAAA
Found at i:854760 original size:20 final size:20
Alignment explanation
Indices: 854735--854788 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
854725 ATTAGAAGCA
*
854735 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
854755 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
854775 ATGTATCGATACAA
1 ATGTATCGATACAA
854789 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:855571 original size:32 final size:32
Alignment explanation
Indices: 855449--855575 Score: 165
Period size: 33 Copynumber: 4.1 Consensus size: 32
855439 TAATTAAGGC
* * *
855449 TTTCGTTATAAAAAATTCTCCCCCTTAATTGA
1 TTTCGTTAAAAAAAATTCTCCCCCTTAATCGG
*
855481 TTTCGTTAAAAAAAAATTCTCCCTCTTAATC-G
1 TTTCGTT-AAAAAAAATTCTCCCCCTTAATCGG
855513 ----GTTAAAAAAAATTCTCCCCCTTTAATCGG
1 TTTCGTTAAAAAAAATTCTCCCCC-TTAATCGG
855542 TTTCGTTAAAAAAAATTCTCCCCCTTAATCGG
1 TTTCGTTAAAAAAAATTCTCCCCCTTAATCGG
855574 TT
1 TT
855576 AAAGAGATTT
Statistics
Matches: 83, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
27 16 0.19
28 9 0.11
29 1 0.01
32 17 0.20
33 40 0.48
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (32 bp):
TTTCGTTAAAAAAAATTCTCCCCCTTAATCGG
Found at i:855592 original size:60 final size:60
Alignment explanation
Indices: 855453--855578 Score: 200
Period size: 60 Copynumber: 2.1 Consensus size: 60
855443 TAAGGCTTTC
* * *
855453 GTTATAAAAAATTCTCCCCCTTAATTGATTTCGTTAAAAAAAAATTCTCCCTCTTAATCG
1 GTTAAAAAAAATTCTCCCCCTTAATCGATTTCGTTAAAAAAAAATTCTCCCCCTTAATCG
*
855513 GTTAAAAAAAATTCTCCCCCTTTAATCGGTTTCGTT-AAAAAAAATTCTCCCCCTTAATCG
1 GTTAAAAAAAATTCTCCCCC-TTAATCGATTTCGTTAAAAAAAAATTCTCCCCCTTAATCG
855573 GTTAAA
1 GTTAAA
855579 GAGATTTTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 48 0.79
61 13 0.21
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (60 bp):
GTTAAAAAAAATTCTCCCCCTTAATCGATTTCGTTAAAAAAAAATTCTCCCCCTTAATCG
Found at i:863448 original size:20 final size:20
Alignment explanation
Indices: 863423--863510 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 20
863413 GTTAGAAGCA
863423 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
863443 ATGTATCGAT---A--CA--
1 ATGTATCGATACAATTCATC
863456 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
*
863476 ATGTATCGATACAATGT-ACC
1 ATGTATCGATACAAT-TCATC
863496 ATGTATCGATACAAT
1 ATGTATCGATACAAT
863511 GTACCAAACA
Statistics
Matches: 59, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
13 10 0.17
15 2 0.03
16 1 0.02
17 1 0.02
18 2 0.03
20 42 0.71
21 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:863463 original size:33 final size:33
Alignment explanation
Indices: 863421--863493 Score: 146
Period size: 33 Copynumber: 2.2 Consensus size: 33
863411 CCGTTAGAAG
863421 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCATCATGTATCGATA
863454 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCATCATGTATCGATA
863487 CAATGTA
1 CAATGTA
863494 CCATGTATCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACAATTCATCATGTATCGATA
Found at i:863512 original size:13 final size:13
Alignment explanation
Indices: 863421--863493 Score: 62
Period size: 13 Copynumber: 6.5 Consensus size: 13
863411 CCGTTAGAAG
863421 CAATGTATCGATA
1 CAATGTATCGATA
863434 CAA--T-TC-AT-
1 CAATGTATCGATA
863442 C-ATGTATCGATA
1 CAATGTATCGATA
863454 CAATGTATCGATA
1 CAATGTATCGATA
863467 CAA--T-TC-AT-
1 CAATGTATCGATA
863475 C-ATGTATCGATA
1 CAATGTATCGATA
863487 CAATGTA
1 CAATGTA
863494 CCATGTATCG
Statistics
Matches: 48, Mismatches: 0, Indels: 24
0.67 0.00 0.33
Matches are distributed among these distances:
7 2 0.04
8 2 0.04
9 6 0.12
10 8 0.17
11 6 0.12
12 2 0.04
13 22 0.46
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:874593 original size:153 final size:154
Alignment explanation
Indices: 874312--875552 Score: 1079
Period size: 153 Copynumber: 8.1 Consensus size: 154
874302 TTTGATGAAT
* * * * * * * *
874312 CTTTTTAAGTCCTTTAGGGGTATTGGGTACTTTTATGTCAAAAGTATCCCCTAGGGGCATTTTCA
1 CTTTTTAAGTCCTTTAAGGGTATCGGGCACTGTTACGTCGAAGGTATCCCCTAGGGGCATTTTCG
* * *
874377 TAATTTTCTAGAATCGAGTCCTAGGTTATCACTGGG-TCGGCTTTCATGCCGAAGGTGGGTATTT
66 TAATTTTCTAAAATCGAGTCCTAGGTTGTCACTGGGTTC-GCTTTTATGCCGAAGGTGGGTATTT
*
874441 AGGATAGGTTCACCACATCTATATC
130 AGGATAGGTTCACCCCATCTATATC
* * *** * *
874466 CTTTTTAAGCCCTTTAAGGGTATCAGATGCTGTTATGTCGAAGGTATCCCCTA-GGGCATTTTCA
1 CTTTTTAAGTCCTTTAAGGGTATCGGGCACTGTTACGTCGAAGGTATCCCCTAGGGGCATTTTCG
* * * * ***
874530 TAATTTTCTAAAATCGAGTCCTAAGTTATCACCGGGTTCGCTTTTATGCCAAAGGTATATATTTA
66 TAATTTTCTAAAATCGAGTCCTAGGTTGTCACTGGGTTCGCTTTTATGCCGAAGGTGGGTATTTA
* * *
874595 GGATAGGTTCATCCCTTTTATGAAT-
131 GGATAGGTTCACCCCATCTAT--ATC
* * * * * * ** ** *
874620 CTTTTTAAGCCCTTT-AGGG-GTCGGGTACTTTTATGTCAAAAATATCCTTTAGGGGCATTTTTG
1 CTTTTTAAGTCCTTTAAGGGTATCGGGCACTGTTACGTCGAAGGTATCCCCTAGGGGCATTTTCG
* * * * * * *
874683 TAATTTTTTAGAACCAAGTTCTAAGTTGTCACTGGG-TCGGCTTTCATGCCGAAGGTGGGTATTT
66 TAATTTTCTAAAATCGAGTCCTAGGTTGTCACTGGGTTC-GCTTTTATGCCGAAGGTGGGTATTT
874747 AGGATAGGTTCACCCCATCTATATC
130 AGGATAGGTTCACCCCATCTATATC
* * * ** * * *
874772 TTTTTTAAGCCCTTT-GGAGGTATCGGGCGTTGTTACATCAAAGGTATCCCTTAGGGGCATTTTC
1 CTTTTTAAGTCCTTTAAG-GGTATCGGGCACTGTTACGTCGAAGGTATCCCCTAGGGGCATTTTC
* * * * * * *
874836 ATAATTTTTTTAAAATCAAGTCCTAAGTTGTC-TTCGAGTTCGCTTTTATGCCAAAGGTGGGTAT
65 GTAA-TTTTCTAAAATCGAGTCCTAGGTTGTCACT-GGGTTCGCTTTTATGCCGAAGGTGGGTAT
* * * *
874900 TTATGATAGGTTCATCTCATCCATATC
128 TTAGGATAGGTTCACCCCATCTATATC
* * ****
874927 CTTTTTAAGTCCTTTAAGGGTATTGGGCACTGTTACGTCGAAGGTATCCCCGAGACATATTTTCG
1 CTTTTTAAGTCCTTTAAGGGTATCGGGCACTGTTACGTCGAAGGTATCCCCTAGGGGCATTTTCG
* *
874992 TAATTTTC-AAAATCGAGTCCTAGGTTGTCACTAGG-TCTGCTTTTATGCCGAAGGTAGGTATTT
66 TAATTTTCTAAAATCGAGTCCTAGGTTGTCACTGGGTTC-GCTTTTATGCCGAAGGTGGGTATTT
*
875055 AGGATAGGTTCACCCCATCCATATC
130 AGGATAGGTTCACCCCATCTATATC
* * * * * *
875080 CTTTTTAAGTCCTTT-AGAGGTATCGAGCGCTGTTACGTTGAAAGTATCCCTTAGGGGCATTTTT
1 CTTTTTAAGTCCTTTAAG-GGTATCGGGCACTGTTACGTCGAAGGTATCCCCTAGGGGCATTTTC
* * ** *
875144 GTAATTTTC-AAAATCGAGTCTTAGGTTGTCATTGGGTTTACTTTTATGCCGAAGTTGGGTATTT
65 GTAATTTTCTAAAATCGAGTCCTAGGTTGTCACTGGGTTCGCTTTTATGCCGAAGGTGGGTATTT
* *
875208 AGGATAAGTTCACCCTAT-TCATATC
130 AGGATAGGTTCACCCCATCT-ATATC
* * * * * **
875233 CTTTTTATGTCCTTTAAGGGTATTGGGCACTGTTACATTGAACGTATCTTCTAGGGGCATTTTCG
1 CTTTTTAAGTCCTTTAAGGGTATCGGGCACTGTTACGTCGAAGGTATCCCCTAGGGGCATTTTCG
** * * * * * * *
875298 TAAGATTCCAAAATCAAGTCTTAGGTTGTCACTGGGTCCACTTTTAT-CTTGAAAGTGGGTATTT
66 TAATTTTCTAAAATCGAGTCCTAGGTTGTCACTGGGTTCGCTTTTATGC-CGAAGGTGGGTATTT
*
875362 AGGATAGGTTCACCCCATCCATATC
130 AGGATAGGTTCACCCCATCTATATC
* ** * * * ** * *
875387 CTTTTTAAGTCCTTTAGGGGTATTAGGTACTTTTACATCGAAGGTATCCCCTAGAAGTATTTTAG
1 CTTTTTAAGTCCTTTAAGGGTATCGGGCACTGTTACGTCGAAGGTATCCCCTAGGGGCATTTTCG
* * * * * * * ** * * * *
875452 TAATTTTCCAGAACCAACTCCTAGATTGTCGCCAGGTCCGCTTTTATGCCAAAGATGGGCATTTA
66 TAATTTTCTAAAATCGAGTCCTAGGTTGTCACTGGGTTCGCTTTTATGCCGAAGGTGGGTATTTA
* * ** *
875517 AGATAGGTTCATCTTATTTATATC
131 GGATAGGTTCACCCCATCTATATC
*
875541 CTTTTTAGGTCC
1 CTTTTTAAGTCC
875553 CTTAGAATCA
Statistics
Matches: 886, Mismatches: 179, Indels: 44
0.80 0.16 0.04
Matches are distributed among these distances:
151 2 0.00
152 43 0.05
153 414 0.47
154 300 0.34
155 124 0.14
156 3 0.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (154 bp):
CTTTTTAAGTCCTTTAAGGGTATCGGGCACTGTTACGTCGAAGGTATCCCCTAGGGGCATTTTCG
TAATTTTCTAAAATCGAGTCCTAGGTTGTCACTGGGTTCGCTTTTATGCCGAAGGTGGGTATTTA
GGATAGGTTCACCCCATCTATATC
Found at i:874717 original size:306 final size:304
Alignment explanation
Indices: 873959--875529 Score: 1353
Period size: 306 Copynumber: 5.2 Consensus size: 304
873949 AGGTCATTGT
* * * *
873959 CGGGTCCGTTTTTATGCCAAAGGTAGATATTTAAGATAGGTTCATCCCTTTTATGAATCTTTTTA
1 CGGGTTCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCTTTCATGAATCTTTTTA
* * *
874024 AGTCTTTTAGGGGTATTGGGTACTTTTATGTTGAAAGTATCCCCTAGGGGTATTTTTGTAATTTT
66 AGTCCTTTAGGGG--TTGGGTACTTTTATGTCGAAAGTATCCCCTAGGGGCATTTTTGTAATTTT
* * * * * *
874089 TTAGAACCGAGTCCTAAGTTATCA-TCGGGTCTGCTTTCATGGCGAAGGTGGTTATTTAGGATAG
129 TTAGAATCGAGTCCTAGGTTGTCACT-GGGTCGGCTTTCATGCCGAAGGTGGGTATTTAGGATAG
* *
874153 GTTCACCCCATCTATATCCTTTCTAAG-TCTTT----TAT--A--CT-TTCACGTCGAAGGTATA
193 GTTCACCCCATCTATATCCTTTTTAAGCCCTTTAGGGTATCGACGCTGTT-ACGTCGAAGGTAT-
** * * * * *
874208 CCTATAGAGGCATTTTCGTAATTTTTTAGAACCAACTCCT-AG--GTCAC
256 CCCCTAG-GGCATTTTCATAATTTTCTAAAATCAAGTCCTAAGTTGTCAC
* * * * * * * *
874255 CGAGTTTGTTTTTATGTCGAAGTTAGATATTTAGGATAGGTTCAT-CATTTGATGAATCTTTTTA
1 CGGGTTCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCTTTCATGAATCTTTTTA
* **
874319 AGTCCTTTAGGGGTATTGGGTACTTTTATGTCAAAAGTATCCCCTAGGGGCATTTTCATAATTTT
66 AGTCCTTTAGGGG--TTGGGTACTTTTATGTCGAAAGTATCCCCTAGGGGCATTTTTGTAATTTT
* *
874384 CTAGAATCGAGTCCTAGGTTATCACTGGGTCGGCTTTCATGCCGAAGGTGGGTATTTAGGATAGG
129 TTAGAATCGAGTCCTAGGTTGTCACTGGGTCGGCTTTCATGCCGAAGGTGGGTATTTAGGATAGG
* * *
874449 TTCACCACATCTATATCCTTTTTAAGCCCTTTAAGGGTATCAGATGCTGTTATGTCGAAGGTATC
194 TTCACCCCATCTATATCCTTTTTAAGCCCTTT-AGGGTATC-GACGCTGTTACGTCGAAGGTATC
* *
874514 CCCTAGGGCATTTTCATAATTTTCTAAAATCGAGTCCTAAGTTATCAC
257 CCCTAGGGCATTTTCATAATTTTCTAAAATCAAGTCCTAAGTTGTCAC
* *
874562 CGGGTTCGCTTTTATGCCAAAGGTATATATTTAGGATAGGTTCATCCCTTTTATGAATCTTTTTA
1 CGGGTTCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCTTTCATGAATCTTTTTA
* * * * **
874627 AGCCCTTTAGGGGTCGGGTACTTTTATGTCAAAAATATCCTTTAGGGGCATTTTTGTAATTTTTT
66 AGTCCTTTAGGGGTTGGGTACTTTTATGTCGAAAGTATCCCCTAGGGGCATTTTTGTAATTTTTT
* * * *
874692 AGAACCAAGTTCTAAGTTGTCACTGGGTCGGCTTTCATGCCGAAGGTGGGTATTTAGGATAGGTT
131 AGAATCGAGTCCTAGGTTGTCACTGGGTCGGCTTTCATGCCGAAGGTGGGTATTTAGGATAGGTT
* * * * * *
874757 CACCCCATCTATATCTTTTTTAAGCCCTTTGGAGGTATCGGGCGTTGTTACATCAAAGGTATCCC
196 CACCCCATCTATATCCTTTTTAAGCCCTTTAG-GGTATC-GACGCTGTTACGTCGAAGGTATCCC
* * **
874822 TTAGGGGCATTTTCATAATTTTTTTAAAATCAAGTCCTAAGTTGTCTT
259 CTA-GGGCATTTTCATAA-TTTTCTAAAATCAAGTCCTAAGTTGTCAC
* * * * * * *
874870 CGAGTTCGCTTTTATGCCAAAGGTGGGTATTTATGATAGGTTCATCTCATCCAT--ATCCTTTTT
1 CGGGTTCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCTTTCATGAAT-CTTTTT
* * * * * * *
874933 AAGTCCTTTAAGGGTATTGGGCACTGTTACGTCGAAGGTATCCCC--GAGACATATTTTCGTAA-
65 AAGTCCTTT-AGGG-GTTGGGTACTTTTATGTCGAAAGTATCCCCTAGGGGCAT-TTTT-GTAAT
* * * * * *
874995 TTTTCAAAATCGAGTCCTAGGTTGTCACTAGGTCTGCTTTTATGCCGAAGGTAGGTATTTAGGAT
126 TTTTTAGAATCGAGTCCTAGGTTGTCACTGGGTCGGCTTTCATGCCGAAGGTGGGTATTTAGGAT
* * * *
875060 AGGTTCACCCCATCCATATCCTTTTTAAGTCCTTTAGAGGTATCGAGCGCTGTTACGTTGAAAGT
191 AGGTTCACCCCATCTATATCCTTTTTAAGCCCTTTAG-GGTATCGA-CGCTGTTACGTCGAAGGT
* ** * * * *
875125 ATCCCTTAGGGGCATTTTTGTAATTTTC-AAAATCGAGTCTTAGGTTGTCAT
254 ATCCCCTA-GGGCATTTTCATAATTTTCTAAAATCAAGTCCTAAGTTGTCAC
* ** * * * * *
875176 TGGGTTTACTTTTATGCCGAAGTTGGGTATTTAGGATAAGTTCA-CCCTATTCAT--ATCCTTTT
1 CGGGTTCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCT-TTCATGAAT-CTTTT
* * * * ** * * ** * **
875238 TATGTCCTTTAAGGGTATTGGGCACTGTTACATTGAACGTATCTTCTAGGGGCATTTTCGTAAGA
64 TAAGTCCTTT-AGGG-GTTGGGTACTTTTATGTCGAAAGTATCCCCTAGGGGCATTTTTGTAATT
** * * * ** * * *
875303 TTCCAAAATCAAGTCTTAGGTTGTCACTGGGTCCACTTTTAT-CTTGAAAGTGGGTATTTAGGAT
127 TTTTAGAATCGAGTCCTAGGTTGTCACTGGGTCGGCTTTCATGC-CGAAGGTGGGTATTTAGGAT
* * * * * *
875367 AGGTTCACCCCATCCATATCCTTTTTAAGTCCTTTAGGGGTAT-TAGGTACTTTTACATCGAAGG
191 AGGTTCACCCCATCTATATCCTTTTTAAGCCCTTTA-GGGTATCGACG--CTGTTACGTCGAAGG
* * * * * * *
875431 TATCCCCTAGAAGTATTTT-AGTAATTTTCCAGAACCAACTCCT-AGATTGTCGC
253 TATCCCCTAG-GGCATTTTCA-TAATTTTCTAAAATCAAGTCCTAAG-TTGTCAC
* * * * ** *
875484 CAGGTCCGCTTTTATGCCAAAGATGGGCATTTAAGATAGGTTCATC
1 CGGGTTCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATC
875530 TTATTTATAT
Statistics
Matches: 1057, Mismatches: 179, Indels: 65
0.81 0.14 0.05
Matches are distributed among these distances:
295 157 0.15
296 43 0.04
301 3 0.00
304 27 0.03
305 11 0.01
306 290 0.27
307 213 0.20
308 288 0.27
309 25 0.02
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (304 bp):
CGGGTTCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCTTTCATGAATCTTTTTA
AGTCCTTTAGGGGTTGGGTACTTTTATGTCGAAAGTATCCCCTAGGGGCATTTTTGTAATTTTTT
AGAATCGAGTCCTAGGTTGTCACTGGGTCGGCTTTCATGCCGAAGGTGGGTATTTAGGATAGGTT
CACCCCATCTATATCCTTTTTAAGCCCTTTAGGGTATCGACGCTGTTACGTCGAAGGTATCCCCT
AGGGCATTTTCATAATTTTCTAAAATCAAGTCCTAAGTTGTCAC
Found at i:874944 original size:461 final size:459
Alignment explanation
Indices: 874312--875440 Score: 1204
Period size: 461 Copynumber: 2.5 Consensus size: 459
874302 TTTGATGAAT
* * * * * ** *
874312 CTTTTTAAGTCCTTTAGGGGTATTGGGTACTTTTATGTCAAAAGTATCCCCTAGGGGCATTTTCA
1 CTTTTTAAGCCCTTTAAGGGTATCGGGCACTGTTACATCAAAAGTATCCCTTAGGGGCATTTTCA
* * * * * *
874377 TAATTTTCTAGAATCGAGTCCTAGGTTATCACTGGGTCGGCTTTCATGCCGAAGGTGGGTATTTA
66 TAATTTTCTAAAATCAAGTCCTAGGTTGTCACTGGTTC-GCTTTTATGCCAAAGGTGGGTATTTA
* * * * * *
874442 GGATAGGTTCACCACATCTATATCCTTTTTAAGCCCTTTAAGGGTATCAGATGCTGTTATGTCGA
130 GGATAGGTTCACCACATCCATATCCTTTTTAAGTCCTTTAAGGGTATTAGGTACTGTTACGTCGA
* *
874507 AGGTATCCCCTAGGGC-ATTTTCATAATTTTCTAAAATCGAGTCCTAAGTTATCACCGGGT-TCG
195 AGGTATCCCCTAGGACAATTTTCATAATTTTC-AAAATCGAGTCCTAAGTTATCACCAGGTCT-G
* * * **
874570 CTTTTATGCCAAAGGTATATATTTAGGATAGGTTCATCCCTTTTATGAAT-CTTTTTAAGCCCTT
258 CTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCACCCCATCCAT--ATCCTTTTTAAGCCCTT
* * * * * * * *
874634 TAG-GG-GTCGGGTACTTTTATGTCAAAAATATCCTTTAGGGGCATTTTTGTAATTTTTTAGAAC
321 TAGAGGTATCGAGCACTGTTACGTCAAAAATATCCCTTAGGGGCATTTTTGTAA-TTTTCAAAAC
* *
874697 CAAGT-TCTAAGTTGTCACTGGGTCGGCTTTCATGCCGAAGGTGGGTATTTAGGATAGGTTCACC
385 CAAGTCT-TAAGTTGTCACTGGGTCGACTTTCATGCCGAAGGTGGGTATTTAGGATAAGTTCACC
874761 CCA-TCTATATC
449 CCATTC-ATATC
* * ** *
874772 TTTTTTAAGCCCTTT-GGAGGTATCGGGCGTTGTTACATCAAAGGTATCCCTTAGGGGCATTTTC
1 CTTTTTAAGCCCTTTAAG-GGTATCGGGCACTGTTACATCAAAAGTATCCCTTAGGGGCATTTTC
* * *
874836 ATAATTTTTTTAAAATCAAGTCCTAAGTTGTC-TTCGAGTTCGCTTTTATGCCAAAGGTGGGTAT
65 ATAA-TTTTCTAAAATCAAGTCCTAGGTTGTCACT-G-GTTCGCTTTTATGCCAAAGGTGGGTAT
* * * * *
874900 TTATGATAGGTTCATCTCATCCATATCCTTTTTAAGTCCTTTAAGGGTATTGGGCACTGTTACGT
127 TTAGGATAGGTTCACCACATCCATATCCTTTTTAAGTCCTTTAAGGGTATTAGGTACTGTTACGT
* * * * *
874965 CGAAGGTATCCCCGA-GACATATTTTCGTAATTTTCAAAATCGAGTCCTAGGTTGTCACTAGGTC
192 CGAAGGTATCCCCTAGGACA-ATTTTCATAATTTTCAAAATCGAGTCCTAAGTTATCACCAGGTC
* * *
875029 TGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGTCCTT
256 TGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGCCCTT
* ** * *
875094 TAGAGGTATCGAGCGCTGTTACGTTGAAAGTATCCCTTAGGGGCATTTTTGTAATTTTCAAAATC
321 TAGAGGTATCGAGCACTGTTACGTCAAAAATATCCCTTAGGGGCATTTTTGTAATTTTCAAAACC
* * * ** * * *
875159 GAGTCTTAGGTTGTCATTGGGTTTACTTTTATGCCGAAGTTGGGTATTTAGGATAAGTTCACCCT
386 AAGTCTTAAGTTGTCACTGGGTCGACTTTCATGCCGAAGGTGGGTATTTAGGATAAGTTCACCCC
875224 ATTCATATC
451 ATTCATATC
* * * ** * *
875233 CTTTTTATGTCCTTTAAGGGTATTGGGCACTGTTACATTGAACGTAT-CTTCTAGGGGCATTTTC
1 CTTTTTAAGCCCTTTAAGGGTATCGGGCACTGTTACATCAAAAGTATCCCT-TAGGGGCATTTTC
* ** * * * * *
875297 GTAAGATTCCAAAATCAAGTCTTAGGTTGTCACTGGGTCCACTTTTAT-CTTGAAA-GTGGGTAT
65 ATAATTTTCTAAAATCAAGTCCTAGGTTGTCACT-GGTTCGCTTTTATGC--CAAAGGTGGGTAT
* * * *
875360 TTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGTCCTTTAGGGGTATTAGGTACTTTTACAT
127 TTAGGATAGGTTCACCACATCCATATCCTTTTTAAGTCCTTTAAGGGTATTAGGTACTGTTACGT
875425 CGAAGGTATCCCCTAG
192 CGAAGGTATCCCCTAG
875441 AAGTATTTTA
Statistics
Matches: 550, Mismatches: 101, Indels: 35
0.80 0.15 0.05
Matches are distributed among these distances:
459 5 0.01
460 185 0.34
461 301 0.55
462 59 0.11
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (459 bp):
CTTTTTAAGCCCTTTAAGGGTATCGGGCACTGTTACATCAAAAGTATCCCTTAGGGGCATTTTCA
TAATTTTCTAAAATCAAGTCCTAGGTTGTCACTGGTTCGCTTTTATGCCAAAGGTGGGTATTTAG
GATAGGTTCACCACATCCATATCCTTTTTAAGTCCTTTAAGGGTATTAGGTACTGTTACGTCGAA
GGTATCCCCTAGGACAATTTTCATAATTTTCAAAATCGAGTCCTAAGTTATCACCAGGTCTGCTT
TTATGCCAAAGGTAGATATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGCCCTTTAGAG
GTATCGAGCACTGTTACGTCAAAAATATCCCTTAGGGGCATTTTTGTAATTTTCAAAACCAAGTC
TTAAGTTGTCACTGGGTCGACTTTCATGCCGAAGGTGGGTATTTAGGATAAGTTCACCCCATTCA
TATC
Found at i:879017 original size:18 final size:18
Alignment explanation
Indices: 879001--879044 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
878991 TCTAAATAAG
879001 AAAAGCAAAAAAAATAAAA
1 AAAAG-AAAAAAAATAAAA
879020 AAAAGAAAAAAAGA-AAAA
1 AAAAGAAAAAAA-ATAAAA
879038 AGAAAGA
1 A-AAAGA
879045 GCATGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAAATAAAA
Found at i:879019 original size:9 final size:9
Alignment explanation
Indices: 879001--879038 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
878991 TCTAAATAAG
879001 AAAAGCAAAA
1 AAAAG-AAAA
*
879011 AAAATAAAA
1 AAAAGAAAA
879020 AAAAG-AAA
1 AAAAGAAAA
879028 AAAAGAAAA
1 AAAAGAAAA
879037 AA
1 AA
879039 GAAAGAGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 8 0.32
9 13 0.52
10 4 0.16
ACGTcount: A:0.87, C:0.03, G:0.08, T:0.03
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:879038 original size:19 final size:18
Alignment explanation
Indices: 879001--879044 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
878991 TCTAAATAAG
*
879001 AAAAGCAAAAAAAATAAAA
1 AAAAG-AAAAAAAAAAAAA
879020 AAAAGAAAAAAAGAAAAAA
1 AAAAGAAAAAAA-AAAAAA
*
879039 GAAAGA
1 AAAAGA
879045 GCATGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAAAAAAAA
Found at i:880782 original size:89 final size:89
Alignment explanation
Indices: 880631--881051 Score: 653
Period size: 89 Copynumber: 4.7 Consensus size: 89
880621 ACAGGAAATC
* * * *
880631 GTGCAGCCCACACATTCCCAATCATATCCCCTTAATCCAACCACTATATGGTATCGATGCATCGC
1 GTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCAC
* *
880696 CAAACCTAATTTCCTCAAGGCAAG
66 CAAGCCTAATTTCCTTAAGGCAAG
* *
880720 GTGCAACCCACACATTCCCAATCATATCCCCTTCGTCCAACCACTAGATGGTATTGATGCATCAC
1 GTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCAC
880785 CAAGCCTAATTTCCTTAAGGCAAG
66 CAAGCCTAATTTCCTTAAGGCAAG
* * *
880809 GTGCAGTCCACACATTCCCAATCATATCCCATTCATCCAACCACTAGATGATATTGATGCATCAC
1 GTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCAC
*
880874 CAAGCTTAATTTCCTTAAGGCAAG
66 CAAGCCTAATTTCCTTAAGGCAAG
*
880898 GTGCAGCCCACACATTCCCAATCATATCACCTTCATCCAACCACTAGATGGTATTGATGCATCAC
1 GTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCAC
* *
880963 CAAGCCTAATTTCCTTGAGGGAAG
66 CAAGCCTAATTTCCTTAAGGCAAG
* * * * * *
880987 GTGCAGTCCACACATTCCCAATCATATTCCCTTCACCCAACTACTAGATGGTACTAATGCATCAC
1 GTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCAC
881052 AAAACTCGAT
Statistics
Matches: 304, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 304 1.00
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (89 bp):
GTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCAC
CAAGCCTAATTTCCTTAAGGCAAG
Found at i:881376 original size:35 final size:35
Alignment explanation
Indices: 881286--881383 Score: 115
Period size: 35 Copynumber: 2.8 Consensus size: 35
881276 TTTTTTATCA
** *
881286 TTTGACTATATCTAGTCAAACCCTTTACACCATCG
1 TTTGACTATATCTAGTCAAACTTTTTCCACCATCG
* *
881321 TTTGGCTATATCTAGCCAAACTTTTTCCACCATCG
1 TTTGACTATATCTAGTCAAACTTTTTCCACCATCG
** *
881356 TTTGACTGCATCTGGTCAAACTTCTTTC
1 TTTGACTATATCTAGTCAAACTT-TTTC
881384 ATCCTTTGAC
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
35 48 0.92
36 4 0.08
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (35 bp):
TTTGACTATATCTAGTCAAACTTTTTCCACCATCG
Found at i:881394 original size:32 final size:31
Alignment explanation
Indices: 881351--881413 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
881341 CTTTTTCCAC
* *
881351 CATCGTTTGACTGCATCTGGTCAAACTTCTTT
1 CATCCTTTGACTACATCTGGTCAAAC-TCTTT
* *
881383 CATCCTTTGACTATATCTGGTTAAACTCTTT
1 CATCCTTTGACTACATCTGGTCAAACTCTTT
881414 TTACCCTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.43
Consensus pattern (31 bp):
CATCCTTTGACTACATCTGGTCAAACTCTTT
Found at i:881557 original size:48 final size:48
Alignment explanation
Indices: 881400--881579 Score: 195
Period size: 48 Copynumber: 3.8 Consensus size: 48
881390 TGACTATATC
* * * ***
881400 TGGTTAAACTCTTTTTA-CCCTTATTTGACTGTATTGGTGTTAGGACC
1 TGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGGGTT
** * * * *
881447 TGGTCAAACT-TAAATCTTTCCTCGTTTGACTTTATTGGTGTTA-GGTT
1 TGGTCAAACTCT-TTTCATCCCTCATTTGACTGTATTGGTGTTAGGGTT
*
881494 TGGTCAAACTCTTTTCATCCCTCATTTGACTATATTGGTGTTAGGGTT
1 TGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGGGTT
* *
881542 TGGTCAAACTCTTTTCATCCCTCGTTTAACTGTATTGG
1 TGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGG
881580 GGCCTAGTCA
Statistics
Matches: 108, Mismatches: 21, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
46 1 0.01
47 46 0.43
48 61 0.56
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (48 bp):
TGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAGGGTT
Found at i:881703 original size:44 final size:43
Alignment explanation
Indices: 881611--881986 Score: 194
Period size: 44 Copynumber: 8.7 Consensus size: 43
881601 TTCCTATGAA
* * * * *
881611 ACATATGGTTACCACCCTGGTCAAATCTACCTTTCTCCTG-TCTA
1 ACATATGGTTACCACCCTGGTCAAATCT--TTTTATTCTGATTTG
*
881655 ACATATGGTTACCACCCTGGTCAGATGCTTTTTATTCTGATTTG
1 ACATATGGTTACCACCCTGGTCAAAT-CTTTTTATTCTGATTTG
** * * * *
881699 ACATATGGTTACCACTTTAGTCAAATCTGCCTCTT-TCCT-ATCTG
1 ACATATGGTTACCACCCTGGTCAAATCT---TTTTATTCTGATTTG
* * * * *
881743 ACGTATGGTTACGACCCTAGAT-AGATTCTTTTTATTCTGAATTG
1 ACATATGGTTACCACCCT-GGTCA-AATCTTTTTATTCTGATTTG
* * * * *
881787 ACATATGGTTACCACCTTGGTCAAATCTGTCTCTT-TCA--TG
1 ACATATGGTTACCACCCTGGTCAAATCTTTTTATTCTGATTTG
* * * * * * *
881827 TCATATGGTTACCAGCCTAGTTAGATTCTTTTCATTTTGATTTG
1 ACATATGGTTACCACCCTGGTCA-AATCTTTTTATTCTGATTTG
* * ** ** * *
881871 ACGTATGATTACCACCCTGGTCAAATCCGCTTCCTTCTTG-TCTA
1 ACATATGGTTACCACCCTGGTCAAAT-CTTTTTATTC-TGATTTG
* * *
881915 ACATATGGTTACCACCCTAGTCAGATTTTTTTCATT-TCGATTTG
1 ACATATGGTTACCACCCTGGTCAAATCTTTTT-ATTCT-GATTTG
* *
881959 ACATACGGTTACCACTCTGGTCAAATCT
1 ACATATGGTTACCACCCTGGTCAAATCT
881987 GCTTCCTTCC
Statistics
Matches: 240, Mismatches: 73, Indels: 38
0.68 0.21 0.11
Matches are distributed among these distances:
40 20 0.08
41 7 0.03
42 8 0.03
43 27 0.11
44 163 0.68
45 12 0.05
46 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (43 bp):
ACATATGGTTACCACCCTGGTCAAATCTTTTTATTCTGATTTG
Found at i:881760 original size:88 final size:88
Alignment explanation
Indices: 881611--881988 Score: 421
Period size: 88 Copynumber: 4.3 Consensus size: 88
881601 TTCCTATGAA
* * *
881611 ACATATGGTTACCACCCTGGTCAAATCTACCT-TTCTCCTGTCTAACATATGGTTACCACCCTGG
1 ACATATGGTTACCACCCTGGTCAAATCTGCCTCTT-TCCTATCTAACATATGGTTACCACCCTAG
*
881675 TCAGATGCTTTTTATTCTGATTTG
65 TCAGATTCTTTTTATTCTGATTTG
** * * * *
881699 ACATATGGTTACCACTTTAGTCAAATCTGCCTCTTTCCTATCTGACGTATGGTTACGACCCTAGA
1 ACATATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTATCTAACATATGGTTACCACCCTAG-
*
881764 T-AGATTCTTTTTATTCTGAATTG
65 TCAGATTCTTTTTATTCTGATTTG
* * * *
881787 ACATATGGTTACCACCTTGGTCAAATCTGTCTCTTT-C-ATGT--CATATGGTTACCAGCCTAGT
1 ACATATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTATCTAACATATGGTTACCACCCTAGT
* * *
881848 TAGATTCTTTTCATTTTGATTTG
66 CAGATTCTTTTTATTCTGATTTG
* * * * * * *
881871 ACGTATGATTACCACCCTGGTCAAATCCGCTTCCTTCTTGTCTAACATATGGTTACCACCCTAGT
1 ACATATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTATCTAACATATGGTTACCACCCTAGT
881936 CAGATT-TTTTTCATT-TCGATTTG
66 CAGATTCTTTTT-ATTCT-GATTTG
* *
881959 ACATACGGTTACCACTCTGGTCAAATCTGC
1 ACATATGGTTACCACCCTGGTCAAATCTGC
881989 TTCCTTCCCG
Statistics
Matches: 242, Mismatches: 39, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
83 1 0.00
84 64 0.26
86 5 0.02
87 6 0.02
88 163 0.67
89 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (88 bp):
ACATATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTATCTAACATATGGTTACCACCCTAGT
CAGATTCTTTTTATTCTGATTTG
Found at i:881924 original size:172 final size:174
Alignment explanation
Indices: 881611--881988 Score: 419
Period size: 172 Copynumber: 2.2 Consensus size: 174
881601 TTCCTATGAA
* * * *
881611 ACATATGGTTACCACCCTGGTCAAATCTACCTTTCTCCTGTCTAACATATGGTTACCACCCTGGT
1 ACATATGGTTACCACCTTGGTCAAATCTGCCTTTCTCATG-CT-ACATATGGTTACCACCCTAGT
* * ** * *
881676 CAGATGCTTTTTATTCTGATTTGACATATGGTTACCACTTTAGTCAAATCTGCCTCTTTCCTATC
64 CAGATGCTTTTCATTCTGATTTGACATATGATTACCACCCTAGTCAAATCCGCCTCCTTCCTATC
* * *
881741 TGACGTATGGTTACGACCCTAGAT-AGATTCTTTTT-A-TTCTGAATTG
129 TAACATATGGTTACCACCCTAG-TCAGATT-TTTTTCATTTC-GAATTG
* * *
881787 ACATATGGTTACCACCTTGGTCAAATCTGTCTCTT-TCATG-T-CATATGGTTACCAGCCTAGTT
1 ACATATGGTTACCACCTTGGTCAAATCTGCCT-TTCTCATGCTACATATGGTTACCACCCTAGTC
* * * * * * *
881849 AGATTCTTTTCATTTTGATTTGACGTATGATTACCACCCTGGTCAAATCCGCTTCCTTCTTGTCT
65 AGATGCTTTTCATTCTGATTTGACATATGATTACCACCCTAGTCAAATCCGCCTCCTTCCTATCT
*
881914 AACATATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGATTTG
130 AACATATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGAATTG
*
881959 ACATACGGTTACCA-CTCTGGTCAAATCTGC
1 ACATATGGTTACCACCT-TGGTCAAATCTGC
881989 TTCCTTCCCG
Statistics
Matches: 171, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
171 8 0.05
172 124 0.73
173 3 0.02
174 1 0.01
176 33 0.19
177 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (174 bp):
ACATATGGTTACCACCTTGGTCAAATCTGCCTTTCTCATGCTACATATGGTTACCACCCTAGTCA
GATGCTTTTCATTCTGATTTGACATATGATTACCACCCTAGTCAAATCCGCCTCCTTCCTATCTA
ACATATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGAATTG
Found at i:882003 original size:44 final size:44
Alignment explanation
Indices: 881879--882003 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 44
881869 TGACGTATGA
* * * * *
881879 TTACCACCCTGGTCAAATCCGCTTCCTTCTTGTCTAACATATGG
1 TTACCACCCTGGTCAAATCTGCTTCCTTCTCGTTTGACATACGG
* * * ** *
881923 TTACCACCCTAGTCAGATTTTTTTCATT-TCGATTTGACATACGG
1 TTACCACCCTGGTCAAATCTGCTTCCTTCTCG-TTTGACATACGG
* *
881967 TTACCACTCTGGTCAAATCTGCTTCCTTCCCGTTTGA
1 TTACCACCCTGGTCAAATCTGCTTCCTTCTCGTTTGA
882004 TGTATGGTTT
Statistics
Matches: 60, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
43 2 0.03
44 56 0.93
45 2 0.03
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.38
Consensus pattern (44 bp):
TTACCACCCTGGTCAAATCTGCTTCCTTCTCGTTTGACATACGG
Found at i:882222 original size:42 final size:42
Alignment explanation
Indices: 882087--882224 Score: 138
Period size: 42 Copynumber: 3.3 Consensus size: 42
882077 CTCAAACCCA
* *
882087 AGAGACTTCTTTATCCTTTGTCTACCCATCAACTCAGG-CCG
1 AGAGACTTCTTTATCCTTTGTCTGCCCGTCAACTCAGGCCCG
* * * *
882128 GGAGGACTT-TTTCATCTTTTTGTCTGCCCGTCAGCTCAGACCC-
1 AGA-GACTTCTTT-ATC-CTTTGTCTGCCCGTCAACTCAGGCCCG
* *
882171 AGGAGACTTCTTTATCCTTTGTTTGCCCGTCAACTTAGGCCCG
1 A-GAGACTTCTTTATCCTTTGTCTGCCCGTCAACTCAGGCCCG
*
882214 AGAAACTTCTT
1 AGAGACTTCTT
882225 CACCTCTTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
41 5 0.06
42 38 0.49
43 27 0.35
44 7 0.09
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (42 bp):
AGAGACTTCTTTATCCTTTGTCTGCCCGTCAACTCAGGCCCG
Found at i:883956 original size:34 final size:35
Alignment explanation
Indices: 883918--883983 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
883908 CCTTACAATA
* *
883918 TTATCTTTT-CGAAGGCTAAGATAGAGCCTCTTCC
1 TTATCTTTTACAAAGGCTAAGATAGAACCTCTTCC
883952 TTATCTTTTACAAAGGCTAAGATAGAACCTCT
1 TTATCTTTTACAAAGGCTAAGATAGAACCTCT
883984 CAATCACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 9 0.31
35 20 0.69
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (35 bp):
TTATCTTTTACAAAGGCTAAGATAGAACCTCTTCC
Found at i:884539 original size:20 final size:20
Alignment explanation
Indices: 884514--884579 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
884504 TTTCAACGAT
884514 TTGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
884534 TTGTATCGATAC----AA--
1 TTGTATCGATACATAAAATG
884548 -TGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
884567 TTGTATCGATACA
1 TTGTATCGATACA
884580 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 24 0.62
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAAAATG
Found at i:884553 original size:13 final size:13
Alignment explanation
Indices: 884535--884592 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
884525 CATAAAATGT
884535 TGTATCGATACAA
1 TGTATCGATACAA
884548 TGTATCGATACATAAAA
1 TGTATCGATAC----AA
884565 TGTTGTATCGATACAA
1 ---TGTATCGATACAA
884581 TGTATCGATACA
1 TGTATCGATACA
884593 TATTTTTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:884614 original size:33 final size:33
Alignment explanation
Indices: 884515--884594 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
884505 TTCAACGATT
884515 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
884548 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
884581 TGTATCGATACATA
1 TGTATCGATACATA
884595 TTTTTTGGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:884675 original size:13 final size:13
Alignment explanation
Indices: 884657--884681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
884647 ATTACTCAAA
884657 TGTATCGATACAT
1 TGTATCGATACAT
884670 TGTATCGATACA
1 TGTATCGATACA
884682 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:888281 original size:33 final size:32
Alignment explanation
Indices: 888224--888287 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
888214 CATTTTATGG
888224 TGTATCGATACAAAGAACATGTATCGATACAA
1 TGTATCGATACAAAGAACATGTATCGATACAA
* * *
888256 TGTATCGTTACTAAGTAATATGTATCGATACA
1 TGTATCGATACAAAG-AACATGTATCGATACA
888288 TCTAGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAA
Found at i:891406 original size:18 final size:17
Alignment explanation
Indices: 891379--891412 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
891369 ATTTTTATGT
891379 TGTTTTTTTGTTGATTG
1 TGTTTTTTTGTTGATTG
891396 TGTTGTTTTTGTTGATT
1 TGTT-TTTTTGTTGATT
891413 AGGGATGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.06, C:0.00, G:0.24, T:0.71
Consensus pattern (17 bp):
TGTTTTTTTGTTGATTG
Found at i:892415 original size:154 final size:154
Alignment explanation
Indices: 892256--893102 Score: 687
Period size: 154 Copynumber: 5.5 Consensus size: 154
892246 GTTATTGTTG
* * * * *
892256 GGTCTGCTTTTATGCCGAATGTAGATATTTAGGATAGGTTCATCC-ATTTTTTGAAT-CTTTTTA
1 GGTCTGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCACCCTA-TCTAT--ATCCTTTTTA
* * * *
892319 AGTCCTTTAGGGGTATCAAATACTT-TTATGTCGAAAGTAT-CCTTAG-GGTTATTTTTATAATT
63 AGTCCTTTAAGGGTATCAAACA-TTATTATGTCGAAAGTATCCCCTAGTGG-CATTTTTATAATT
*
892381 TTTTAAAATCGAGTCCTAGGTTGTCACCGA
126 TTCTAAAATCGAGTCCTAGGTTGTCA-CGA
* * *
892411 -GTCTGCTTTCATGCCGAAGGTAGGTATTTAGGACAGTTTCACCCTATCTATATCCTTTTTAAGT
1 GGTCTGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCACCCTATCTATATCCTTTTTAAGT
** * *
892475 CCTTTAAGGGTATCAGGCATTATTATGTCGAAGGTATCCCCTAGTGGCATTTTTGTAATTTTCTA
66 CCTTTAAGGGTATCAAACATTATTATGTCGAAAGTATCCCCTAGTGGCATTTTTATAATTTTCTA
* *
892540 AAATCGAGTCTTAGGTTGTCACTA
131 AAATCGAGTCCTAGGTTGTCACGA
* * *
892564 GGT-TCGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCACCCTATCCATATCCTTTTTCAA
1 GGTCT-GCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCACCCTATCTATATCCTTTTT-AA
* * * * ** ** * * * *
892628 -TCCTTTAGGGGTATCGAGCACTATTACATCGATGGTATCCTCTAGGGGTATTTTCATAATTTTC
64 GTCCTTTAAGGGTATCAAACATTATTATGTCGAAAGTATCCCCTAGTGGCATTTTTATAATTTTC
* * * *
892692 CAAAATCAAGTTCTAGGTTGTCACTA
129 TAAAATCGAGTCCTAGGTTGTCACGA
* * * * * * * *
892718 GATCCGCTTTTATTCCAAAGATGGGTATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGT
1 GGTCTGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCACCCTATCTATATCCTTTTTAAGT
* * * **** * * * *
892783 CTTTTAGGGGTTTTGGGCATTGTTACGTC-AAAGGCATCCCCTAAG-GGCATTTTTATATTTTTC
66 CCTTTAAGGGTATCAAACATTATTATGTCGAAA-GTATCCCCT-AGTGGCATTTTTATAATTTTC
* ** **
892846 CAAAATAAAGTCCTAGGTTGTCATTA
129 TAAAATCGAGTCCTAGGTTGTCACGA
* * * *
892872 GGTCTACTTTTATGCCGAAGATAGGAATTTAGGATAGGTTCACCAC-ATCCATATCCTTTTTAAG
1 GGTCTGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCACC-CTATCTATATCCTTTTTAAG
* ***** * * * * * * *
892936 TCCTTTAGGGGTATTGGGTACTATTTTATCGAAGGTATCTCCTAG-GGACATTTTTGTAATTTTT
65 TCCTTTAAGGGTATCAAACATTATTATGTCGAAAGTATCCCCTAGTGG-CATTTTTATAATTTTC
*
893000 TAAAATCGAGTCCTAGGTTGTCACTA
129 TAAAATCGAGTCCTAGGTTGTCACGA
* * * * * *
893026 GGTTTGCTTTTACGTCAAAGGTAGGTATTTAGGATAGGTTC-CGCC-ATCCACATCCTTTTTAAG
1 GGTCTGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCAC-CCTATCTATATCCTTTTTAAG
* *
893089 TCTTTTAGGGGTAT
65 TCCTTTAAGGGTAT
893103 TGGGTACTTC
Statistics
Matches: 579, Mismatches: 97, Indels: 34
0.82 0.14 0.05
Matches are distributed among these distances:
152 4 0.01
153 81 0.14
154 484 0.84
155 10 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (154 bp):
GGTCTGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCACCCTATCTATATCCTTTTTAAGT
CCTTTAAGGGTATCAAACATTATTATGTCGAAAGTATCCCCTAGTGGCATTTTTATAATTTTCTA
AAATCGAGTCCTAGGTTGTCACGA
Found at i:892762 original size:308 final size:306
Alignment explanation
Indices: 892312--893218 Score: 963
Period size: 308 Copynumber: 3.0 Consensus size: 306
892302 TTTTTTGAAT
* ** * ** * *
892312 CTTTTTAAGTCCTTTAGGGGTATCAAATACTTTTATGTCGAAAGTATCCT-TAGGGTTATTTTTA
1 CTTTTTAAGTCCTTTAGGGGTATCGAGCACTATTACATCGAAGGTATCCTCTAGGGATATTTTTA
* * * *
892376 TAATTTTTTAAAATCGAGTCCTAGGTTGTCAC-CGAGTCTGCTTTCATGCCGAAGGTAGGTATTT
66 TAATTTTTTAAAATCGAGTCCTAGGTTGTCACTAGA-TCTGCTTTTATTCCAAAGGTAGGTATTT
* * * * * **
892440 AGGACAGTTTCACCCTATCTATATCCTTTTTAAGTCCTTTAAGGGTATCAGGCATTATTATGTCG
130 AGGATAGGTTCACCC-ATCCATATCCTTTTTAAGTCTTTTAGGGGTATTGGGCATTATTATGTCG
*
892505 AAGGTATCCCCTAGTGGCATTTTTGTAATTTTCTAAAATCGAGTCTTAGGTTGTCACTAGGTTCG
194 AAGGTATCCCCTAG-GGCATTTTTGTAATTTTCTAAAATCAAGTCTTAGGTTGTCACTAGGTTCG
*
892570 CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCACC-CTATCCATATC
258 CTTTTATGCCAAAGATGGGTATTTAGGATAGGTTCACCAC-ATCCATATC
* * *
892619 CTTTTTCAA-TCCTTTAGGGGTATCGAGCACTATTACATCGATGGTATCCTCTAGGGGTATTTTC
1 CTTTTT-AAGTCCTTTAGGGGTATCGAGCACTATTACATCGAAGGTATCCTCTAGGGATATTTTT
** * * * * *
892683 ATAATTTTCCAAAATCAAGTTCTAGGTTGTCACTAGATCCGCTTTTATTCCAAAGATGGGTATTT
65 ATAATTTTTTAAAATCGAGTCCTAGGTTGTCACTAGATCTGCTTTTATTCCAAAGGTAGGTATTT
* * * *
892748 AGGATAGGTTCACCCCATCCATATCCTTTTTAAGTCTTTTAGGGGTTTTGGGCATTGTTACGTCA
130 AGGATAGGTTCA-CCCATCCATATCCTTTTTAAGTCTTTTAGGGGTATTGGGCATTATTATGTCG
* * * * * * *
892813 AAGGCATCCCCTAAGGGCATTTTTATATTTTTCCAAAATAAAGTCCTAGGTTGTCATTAGG-TCT
194 AAGGTATCCCCT-AGGGCATTTTTGTAATTTTCTAAAATCAAGTCTTAGGTTGTCACTAGGTTC-
* * * *
892877 ACTTTTATGCCGAAGATAGGAATTTAGGATAGGTTCACCACATCCATATC
257 GCTTTTATGCCAAAGATGGGTATTTAGGATAGGTTCACCACATCCATATC
* * * ** *
892927 CTTTTTAAGTCCTTTAGGGGTATTGGGTACTATTTTATCGAAGGTAT-CTCCTAGGGACATTTTT
1 CTTTTTAAGTCCTTTAGGGGTATCGAGCACTATTACATCGAAGGTATCCT-CTAGGGATATTTTT
* * * *
892991 GTAATTTTTTAAAATCGAGTCCTAGGTTGTCACTAGGTTTGCTTTTACGT-CAAAGGTAGGTATT
65 ATAATTTTTTAAAATCGAGTCCTAGGTTGTCACTAGATCTGCTTTTA-TTCCAAAGGTAGGTATT
* * * *
893055 TAGGATAGGTTC-CGCCATCCACATCCTTTTTAAGTCTTTTAGGGGTATTGGGTACTTCTAAAT-
129 TAGGATAGGTTCAC-CCATCCATATCCTTTTTAAGTCTTTTAGGGGTATTGGGCA-TTAT-TATG
* * * * * * **
893118 T-GAAGGTATCCCTTAGGGGCATTTTAGTAATTTT-TCAAAACCAACTCTTAGGTTGTCGCCAAA
191 TCGAAGGTATCCCCTA-GGGCATTTTTGTAATTTTCT-AAAATCAAGTCTTAGGTTGTCACTAGG
* * *
893181 TCCGCTTTTATGCCAAAGTTGGGTATTTATGATAGGTT
254 TTCGCTTTTATGCCAAAGATGGGTATTTAGGATAGGTT
893219 GATCTTATTT
Statistics
Matches: 490, Mismatches: 94, Indels: 32
0.80 0.15 0.05
Matches are distributed among these distances:
306 2 0.00
307 154 0.31
308 324 0.66
309 10 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (306 bp):
CTTTTTAAGTCCTTTAGGGGTATCGAGCACTATTACATCGAAGGTATCCTCTAGGGATATTTTTA
TAATTTTTTAAAATCGAGTCCTAGGTTGTCACTAGATCTGCTTTTATTCCAAAGGTAGGTATTTA
GGATAGGTTCACCCATCCATATCCTTTTTAAGTCTTTTAGGGGTATTGGGCATTATTATGTCGAA
GGTATCCCCTAGGGCATTTTTGTAATTTTCTAAAATCAAGTCTTAGGTTGTCACTAGGTTCGCTT
TTATGCCAAAGATGGGTATTTAGGATAGGTTCACCACATCCATATC
Found at i:893241 original size:153 final size:154
Alignment explanation
Indices: 892371--893218 Score: 834
Period size: 154 Copynumber: 5.5 Consensus size: 154
892361 TTAGGGTTAT
* * * * * * * * *
892371 TTTTA-TAATTTTTTAAAATCGAGTCCTAGGTTGTCAC-CGAGTCTGCTTTCATGCCGAAGGTAG
1 TTTTAGTAATTTTTCAAAATCAAGTCTTAGGTTGTCACTAG-GTCCGCTTTTATGCCAAAGATGG
* * * * * ** *
892434 GTATTTAGGACAGTTTCACCCTATCTATATCCTTTTTAAGTCCTTTAAGGGTATCAGGCATTATT
65 GTATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGTCCTTTAGGGGTATTGGGCACTATT
** *
892499 ATGTCGAAGGTATCCCCTAGTGGCA
130 ACATCGAAGGTATCCCCTAGGGGCA
* * * *
892524 TTTTTGTAA-TTTTCTAAAATCGAGTCTTAGGTTGTCACTAGGTTCGCTTTTATGCCAAAGGTGG
1 TTTTAGTAATTTTTC-AAAATCAAGTCTTAGGTTGTCACTAGGTCCGCTTTTATGCCAAAGATGG
* * *
892588 GTATTTAGGATAGGTTCACCCTATCCATATCCTTTTTCAA-TCCTTTAGGGGTATCGAGCACTAT
65 GTATTTAGGATAGGTTCACCCCATCCATATCCTTTTT-AAGTCCTTTAGGGGTATTGGGCACTAT
* * *
892652 TACATCGATGGTATCCTCTAGGGGTA
129 TACATCGAAGGTATCCCCTAGGGGCA
* * *
892678 TTTTCA-TAATTTTCCAAAATCAAGT-TCTAGGTTGTCACTAGATCCGCTTTTATTCCAAAGATG
1 TTTT-AGTAATTTTTCAAAATCAAGTCT-TAGGTTGTCACTAGGTCCGCTTTTATGCCAAAGATG
* * * *
892741 GGTATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGTCTTTTAGGGGTTTTGGGCATTGT
64 GGTATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGTCCTTTAGGGGTATTGGGCACTAT
* * * *
892806 TACGTCAAAGGCATCCCCTAAGGGCA
129 TACATCGAAGGTATCCCCTAGGGGCA
* * * ** * *
892832 TTTT--TATATTTTTCCAAAATAAAGTCCTAGGTTGTCATTAGGTCTACTTTTATGCCGAAGATA
1 TTTTAGTA-ATTTTT-CAAAATCAAGTCTTAGGTTGTCACTAGGTCCGCTTTTATGCCAAAGATG
* * *
892895 GGAATTTAGGATAGGTTCACCACATCCATATCCTTTTTAAGTCCTTTAGGGGTATTGGGTACTAT
64 GGTATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGTCCTTTAGGGGTATTGGGCACTAT
** * *
892960 TTTATCGAAGGTATCTCCTAGGGACA
129 TACATCGAAGGTATCCCCTAGGGGCA
* * * * ** * * * *
892986 TTTTTGTAATTTTTTAAAATCGAGTCCTAGGTTGTCACTAGGTTTGCTTTTACGTCAAAGGTAGG
1 TTTTAGTAATTTTTCAAAATCAAGTCTTAGGTTGTCACTAGGTCCGCTTTTATGCCAAAGATGGG
* * * *
893051 TATTTAGGATAGGTTC-CGCCATCCACATCCTTTTTAAGTCTTTTAGGGGTATTGGGTACT-TCT
66 TATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGTCCTTTAGGGGTATTGGGCACTAT-T
* * *
893114 AAATTGAAGGTATCCCTTAGGGGCA
130 ACATCGAAGGTATCCCCTAGGGGCA
* * * * ** *
893139 TTTTAGTAATTTTTCAAAACCAACTCTTAGGTTGTCGCCAAATCCGCTTTTATGCCAAAGTTGGG
1 TTTTAGTAATTTTTCAAAATCAAGTCTTAGGTTGTCACTAGGTCCGCTTTTATGCCAAAGATGGG
*
893204 TATTTATGATAGGTT
66 TATTTAGGATAGGTT
893219 GATCTTATTT
Statistics
Matches: 575, Mismatches: 106, Indels: 28
0.81 0.15 0.04
Matches are distributed among these distances:
152 3 0.01
153 139 0.24
154 418 0.73
155 13 0.02
156 2 0.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (154 bp):
TTTTAGTAATTTTTCAAAATCAAGTCTTAGGTTGTCACTAGGTCCGCTTTTATGCCAAAGATGGG
TATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGTCCTTTAGGGGTATTGGGCACTATTA
CATCGAAGGTATCCCCTAGGGGCA
Found at i:896929 original size:47 final size:47
Alignment explanation
Indices: 896768--896945 Score: 182
Period size: 47 Copynumber: 3.7 Consensus size: 47
896758 TCAACCCCAC
* *
896768 AAATTTTAAAATTTTTCATCGCAGGGATACTCCTTGTTTTTATTTCCA
1 AAATTTTAAAATTTTTCATC-TAGGGATACTCCTCGTTTTTATTTCCA
* * * *
896816 AAATTTTAAAATTTTT-ATCTCGGGGATATTCCAACCCCGTTTTTATTTTC-
1 AAATTTTAAAATTTTTCATCT-AGGGATA---C-TCCTCGTTTTTATTTCCA
*
896866 AAATTTTAAAATTTTTCATCATAGGGATACTCCTCATTTTTATTTCCA
1 AAATTTTAAAATTTTTCATC-TAGGGATACTCCTCGTTTTTATTTCCA
* *
896914 AAATATTAAAA-TTTTCATCTCGGAGATACTCC
1 AAATTTTAAAATTTTTCATCTAGG-GATACTCC
896946 AACCCCATTA
Statistics
Matches: 108, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
46 3 0.03
47 38 0.35
48 27 0.25
50 17 0.16
51 22 0.20
52 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (47 bp):
AAATTTTAAAATTTTTCATCTAGGGATACTCCTCGTTTTTATTTCCA
Found at i:896936 original size:98 final size:98
Alignment explanation
Indices: 896767--896951 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 98
896757 TTCAACCCCA
* ** * *
896767 CAAATTTTAAAATTTTTCATCGCAGGGATACTCCTTGTTTTTATTTCCAAAATTTTAAAATTTTT
1 CAAATTTTAAAATTTTTCATCACAGGGATACTCCTCATTTTTATTTCCAAAATATTAAAATTTTC
* *
896832 ATCTCGGGGATATTCCAACCCCGTTTTTATTTT
66 ATCTCGGAGATACTCCAACCCCGTTTTTATTTT
*
896865 CAAATTTTAAAATTTTTCATCATAGGGATACTCCTCATTTTTATTTCCAAAATATTAAAATTTTC
1 CAAATTTTAAAATTTTTCATCACAGGGATACTCCTCATTTTTATTTCCAAAATATTAAAATTTTC
896930 ATCTCGGAGATACTCCAACCCC
66 ATCTCGGAGATACTCCAACCCC
896952 ATTATTTTCA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 79 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (98 bp):
CAAATTTTAAAATTTTTCATCACAGGGATACTCCTCATTTTTATTTCCAAAATATTAAAATTTTC
ATCTCGGAGATACTCCAACCCCGTTTTTATTTT
Found at i:902685 original size:17 final size:17
Alignment explanation
Indices: 902665--902697 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
902655 AAAATTTAAT
902665 TTATTTTGTATTTTTTG
1 TTATTTTGTATTTTTTG
*
902682 TTATTTTTTATTTTTT
1 TTATTTTGTATTTTTT
902698 TTACGTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (17 bp):
TTATTTTGTATTTTTTG
Done.