Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold126
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: 2080828
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 191490 characters in sequence are not A, C, G, or T
File 6 of 13
Found at i:783550 original size:92 final size:92
Alignment explanation
Indices: 783393--784087 Score: 1230
Period size: 92 Copynumber: 7.5 Consensus size: 92
783383 TTGGTGGCAC
*
783393 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
783458 CTTGAATCAGCATATTGGCACCTTTAT
66 CTTGAATCAGCATATTGGCACCTTTAT
*
783485 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
783550 CTTGAATCAGCATATTGGCACCTTTAT
66 CTTGAATCAGCATATTGGCACCTTTAT
* *
783577 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACAATGGCACCTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
783642 CTTGAATCAGCATATTGGCACCTTTAT
66 CTTGAATCAGCATATTGGCACCTTTAT
783669 -TTTCAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1 CTTT-AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
783733 CCTTGAATCAGCATATTGGCACCTTTAT
65 CCTTGAATCAGCATATTGGCACCTTTAT
* *
783761 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATAGCTAGC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
783826 CTTGAATCAGCATATTGGCACCTTTAT
66 CTTGAATCAGCATATTGGCACCTTTAT
*
783853 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
*
783918 CTTGAATCAGCATATTGGCACCTTCAT
66 CTTGAATCAGCATATTGGCACCTTTAT
* *
783945 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATAGCTAGC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
784010 CTTGAATCAGCATATTGGCACCTTTTCCAT
66 CTTGAATCAGCATATTGGCACC-TTT--AT
* *
784040 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
784088 TTCTCATCTT
Statistics
Matches: 581, Mismatches: 16, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
91 3 0.01
92 527 0.91
93 5 0.01
95 41 0.07
96 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
CTTGAATCAGCATATTGGCACCTTTAT
Found at i:784066 original size:52 final size:53
Alignment explanation
Indices: 783988--784141 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
783978 ACATTGGCAC
*
783988 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
784040 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
784095 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
784142 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 37 0.44
53 5 0.06
54 6 0.07
55 36 0.43
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:784808 original size:19 final size:19
Alignment explanation
Indices: 784784--784837 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
784774 ATTCAACGAT
*
784784 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
*
784803 TTGTATCGATACAAAAGTA
1 TTGTATCGATACATAAGTA
784822 TTGTATCGATACATAA
1 TTGTATCGATACATAA
784838 TTAGCTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:788256 original size:13 final size:13
Alignment explanation
Indices: 788238--788263 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
788228 AAAAATCATC
788238 GCTTGCATGCCTA
1 GCTTGCATGCCTA
788251 GCTTGCATGCCTA
1 GCTTGCATGCCTA
788264 ATCAACATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (13 bp):
GCTTGCATGCCTA
Found at i:798078 original size:13 final size:13
Alignment explanation
Indices: 798053--798092 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
798043 ACAATATTTT
798053 TTGTATCGATACA
1 TTGTATCGATACA
* *
798066 TTTTATTGATACA
1 TTGTATCGATACA
798079 TTGTATCGATACA
1 TTGTATCGATACA
798092 T
1 T
798093 ACGTTACCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:798257 original size:20 final size:20
Alignment explanation
Indices: 798219--798258 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
798209 TTATAAATTT
798219 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
798240 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
798259 TATGAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:801357 original size:13 final size:13
Alignment explanation
Indices: 801339--801363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
801329 ACATTTGGTC
801339 ATGTATCGATACA
1 ATGTATCGATACA
801352 ATGTATCGATAC
1 ATGTATCGATAC
801364 TGTGCAATCT
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):
ATGTATCGATACA
Found at i:801831 original size:71 final size:71
Alignment explanation
Indices: 801734--801888 Score: 274
Period size: 71 Copynumber: 2.2 Consensus size: 71
801724 CAAAGGTATT
* * *
801734 TGTATCAATACATTATGGTTGACTTAAGCTACAAAGGTCAAAACCCTTGAATGTATCGATACACA
1 TGTATCGATACATTATGGTTGACTTAAACTACAAAGGTCAAAACCCTTGAAGGTATCGATACACA
801799 CCCAGA
66 CCCAGA
801805 TGTATCGATACATTATGGTTGACTTAAACTACAAAGGTCAAAACCCTTGAAGGTATCGATACACA
1 TGTATCGATACATTATGGTTGACTTAAACTACAAAGGTCAAAACCCTTGAAGGTATCGATACACA
*
801870 CCTAGA
66 CCCAGA
801876 TGTATCGATACAT
1 TGTATCGATACAT
801889 GGACAACTGT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 80 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (71 bp):
TGTATCGATACATTATGGTTGACTTAAACTACAAAGGTCAAAACCCTTGAAGGTATCGATACACA
CCCAGA
Found at i:802244 original size:13 final size:13
Alignment explanation
Indices: 802226--802250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
802216 ATAATGCACA
802226 GTATCGATACATT
1 GTATCGATACATT
802239 GTATCGATACAT
1 GTATCGATACAT
802251 GACCACTGTA
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:802382 original size:33 final size:32
Alignment explanation
Indices: 802319--802386 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
802309 CCTTAACTGT
*
802319 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCAATACATACAAGATGTATCGATACA
*
802351 TTGTATCAATACATGACTAA-ATGTATTGATACA
1 TTGTATCAATACAT-AC-AAGATGTATCGATACA
802384 TTG
1 TTG
802387 GCTTGTAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 13 0.41
33 17 0.53
34 2 0.06
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (32 bp):
TTGTATCAATACATACAAGATGTATCGATACA
Found at i:805517 original size:19 final size:20
Alignment explanation
Indices: 805493--805544 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
805483 CTTAACTGTT
*
805493 TGTATCGATACAT-A-TAAGA
1 TGTATCGATACATGACCAA-A
805512 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
805532 TGTATCGATACAT
1 TGTATCGATACAT
805545 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.43
20 15 0.50
21 2 0.07
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:806338 original size:13 final size:13
Alignment explanation
Indices: 806320--806372 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
806310 CGATACATGG
*
806320 TACATTGTATTGA
1 TACATTGTATCGA
806333 TACATTGTATCGA
1 TACATTGTATCGA
806346 TACA-TG-AT-G-
1 TACATTGTATCGA
806355 -A-ATTGTATCGA
1 TACATTGTATCGA
806366 TACATTG
1 TACATTG
806373 CTTCTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:806350 original size:33 final size:33
Alignment explanation
Indices: 806308--806372 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
806298 TACTGTTTGC
* *
806308 ATCGATACATGGT-ACATTGTATTGATACATTGT
1 ATCGATACATGATGA-ATTGTATCGATACATTGT
806341 ATCGATACATGATGAATTGTATCGATACATTG
1 ATCGATACATGATGAATTGTATCGATACATTG
806373 CTTCTAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (33 bp):
ATCGATACATGATGAATTGTATCGATACATTGT
Found at i:807997 original size:20 final size:20
Alignment explanation
Indices: 807972--808040 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
807962 TTCTGATAAA
*
807972 ATTGTAACGATACATTAGTC
1 ATTGTATCGATACATTAGTC
***
807992 ATTGTATCGATACATGCTTAC
1 ATTGTATCGATACATTAGT-C
* *
808013 AATGTATCGAGACATTAGTC
1 ATTGTATCGATACATTAGTC
808033 ATTGTATC
1 ATTGTATC
808041 AATATATTCA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 23 0.61
21 15 0.39
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATTAGTC
Found at i:809172 original size:13 final size:13
Alignment explanation
Indices: 809154--809178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
809144 CATTTTATGG
809154 TGTATCGATACAA
1 TGTATCGATACAA
809167 TGTATCGATACA
1 TGTATCGATACA
809179 TACTGTGTGT
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:809194 original size:32 final size:33
Alignment explanation
Indices: 809131--809198 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
809121 CGTTACAAGC
**
809131 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
809164 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
809196 CAA
1 CAA
809199 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:809273 original size:20 final size:21
Alignment explanation
Indices: 809230--809282 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
809220 ACCAATGACT
**
809230 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
809251 TGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
809271 TGTATCGATACA
1 TGTATCGATACA
809283 ATGTATCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:809288 original size:13 final size:13
Alignment explanation
Indices: 809270--809294 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
809260 ACATTTGGTC
809270 ATGTATCGATACA
1 ATGTATCGATACA
809283 ATGTATCGATAC
1 ATGTATCGATAC
809295 TGTGCAACAT
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):
ATGTATCGATACA
Found at i:809887 original size:22 final size:23
Alignment explanation
Indices: 809848--809893 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
809838 TTTTCTTATC
809848 TCTCCCCCTTAATCAAAGAAATT
1 TCTCCCCCTTAATCAAAGAAATT
*
809871 TCTCCCCCTTAAT-AAAGCAATT
1 TCTCCCCCTTAATCAAAGAAATT
809893 T
1 T
809894 AATAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (23 bp):
TCTCCCCCTTAATCAAAGAAATT
Found at i:811759 original size:13 final size:13
Alignment explanation
Indices: 811741--811775 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
811731 AAACCCCTTG
*
811741 TATCGATACACTA
1 TATCGATACAATA
*
811754 TATCGATACAATG
1 TATCGATACAATA
811767 TATCGATAC
1 TATCGATAC
811776 CGAGAATGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:811992 original size:8 final size:8
Alignment explanation
Indices: 811979--812004 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
811969 AACATCATTC
811979 ATCACAAA
1 ATCACAAA
811987 ATCACAAA
1 ATCACAAA
811995 ATCACAAA
1 ATCACAAA
812003 AT
1 AT
812005 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:817979 original size:13 final size:13
Alignment explanation
Indices: 817961--817985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
817951 CATTTTATGG
817961 TGTATCGATACAA
1 TGTATCGATACAA
817974 TGTATCGATACA
1 TGTATCGATACA
817986 TACTGTGTGT
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:818001 original size:32 final size:33
Alignment explanation
Indices: 817938--818005 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
817928 CGTTACAAGC
**
817938 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
817971 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
818003 CAA
1 CAA
818006 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:818091 original size:26 final size:27
Alignment explanation
Indices: 818039--818093 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
818029 CAATGACTTG
**
818039 TATCGATACATTCTTTTCATGTATCGA
1 TATCGATACATTCTGGTCATGTATCGA
818066 TATCGATACATT-TGGTCATGTATCGA
1 TATCGATACATTCTGGTCATGTATCGA
818092 TA
1 TA
818094 CAATGTATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (27 bp):
TATCGATACATTCTGGTCATGTATCGA
Found at i:818101 original size:13 final size:13
Alignment explanation
Indices: 818083--818107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
818073 ACATTTGGTC
818083 ATGTATCGATACA
1 ATGTATCGATACA
818096 ATGTATCGATAC
1 ATGTATCGATAC
818108 TGTGCAACAT
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):
ATGTATCGATACA
Found at i:826543 original size:20 final size:22
Alignment explanation
Indices: 826505--826545 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
826495 TTGTGGGTGT
*
826505 GGGAGCTGCTCGATTGCGACCA
1 GGGAGCTGCTCGATCGCGACCA
826527 GGGAG-TGC-CGATCGCGACC
1 GGGAGCTGCTCGATCGCGACC
826546 TGGAGATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.17, C:0.29, G:0.39, T:0.15
Consensus pattern (22 bp):
GGGAGCTGCTCGATCGCGACCA
Found at i:833171 original size:33 final size:33
Alignment explanation
Indices: 833129--833193 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
833119 TTTGATGCAA
*
833129 TGTATCGATACAAT-TCATCATGTATCAATACAT
1 TGTATCGATACAATGT-ACCATGTATCAATACAT
*
833162 TGTATCGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCAATACA
833194 AACCGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCAATACAT
Found at i:833267 original size:19 final size:19
Alignment explanation
Indices: 833223--833278 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
833213 CTACCAGTTT
**
833223 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
833243 CATGTATTGATACAATGAA
1 CATGTATCGATACAATGAA
*
833262 CATGTATCGATATAATG
1 CATGTATCGATACAATG
833279 TGTTAATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:838994 original size:3 final size:3
Alignment explanation
Indices: 838980--839013 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
838970 CGAGTCAACC
* *
838980 TCA TCA TTA TCA TCA TCA TCA TCA TCA TCT TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
839014 TATCTTTGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (3 bp):
TCA
Found at i:840431 original size:13 final size:13
Alignment explanation
Indices: 840415--840444 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
840405 TATTTACTTC
840415 ATGTATCGATACA
1 ATGTATCGATACA
840428 ATGTATCGATACA
1 ATGTATCGATACA
840441 ATGT
1 ATGT
840445 CCCATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:840515 original size:20 final size:20
Alignment explanation
Indices: 840490--840580 Score: 73
Period size: 20 Copynumber: 4.6 Consensus size: 20
840480 TGCCACTTTC
840490 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAATTGAGT
* **
840510 ATGTATCAATACAA-TGAAC
1 ATGTATCGATACAATTGAGT
***
840529 ATGTATCGATACAAAACA-T
1 ATGTATCGATACAATTGAGT
840548 AATGTATCGATAC-ATCTG-GAT
1 -ATGTATCGATACAAT-TGAG-T
840569 ATGTATCGATAC
1 ATGTATCGATAC
840581 TTTCTAGGGT
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
19 17 0.30
20 38 0.68
21 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATTGAGT
Found at i:840534 original size:19 final size:20
Alignment explanation
Indices: 840489--840542 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
840479 TTGCCACTTT
*
840489 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAA
* *
840509 TATGTATCAATACAA-TGAA
1 CATGTATCGATACAATTGAA
840528 CATGTATCGATACAA
1 CATGTATCGATACAA
840543 AACATAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:842836 original size:20 final size:19
Alignment explanation
Indices: 842810--842849 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
842800 AAAACTTACA
842810 TAGAAAAATTT-GATTTTAT
1 TAGAAAAATTTGGA-TTTAT
842829 TAGAAAAATTTGGATTTAT
1 TAGAAAAATTTGGATTTAT
842848 TA
1 TA
842850 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (19 bp):
TAGAAAAATTTGGATTTAT
Found at i:845026 original size:33 final size:33
Alignment explanation
Indices: 844975--845039 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
844965 CACATGCATA
* *
844975 TGTATCGATACAAGTTGCAATCTATCGATACAT
1 TGTATCAATACAAATTGCAATCTATCGATACAT
* *
845008 TGTATCAATATAAATTGCAATGTATCGATACA
1 TGTATCAATACAAATTGCAATCTATCGATACA
845040 CTATGAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCAATACAAATTGCAATCTATCGATACAT
Found at i:845642 original size:34 final size:35
Alignment explanation
Indices: 845599--845768 Score: 217
Period size: 34 Copynumber: 5.0 Consensus size: 35
845589 TTCTCGAAGT
845599 GAAGAGGTTCTATCTTAG-CTTGTGAAAAGATAGA
1 GAAGAGGTTCTATCTTAGCCTTGTGAAAAGATAGA
* * *
845633 GAAGAGGTTCTATCTTAGCCTTCG-AAAAAGCTAGG
1 GAAGAGGTTCTATCTTAGCCTT-GTGAAAAGATAGA
* *
845668 GAAAAGGTTCTATCTTAG-CTTGTGAAAAGATAGG
1 GAAGAGGTTCTATCTTAGCCTTGTGAAAAGATAGA
*
845702 GAAGAGGTTCTATCTTAGTCTT-TGAAAAGATA-A
1 GAAGAGGTTCTATCTTAGCCTTGTGAAAAGATAGA
*
845735 GGAAGAGGTTCTATCTTAGCCTT-CGAAAAGATAG
1 -GAAGAGGTTCTATCTTAGCCTTGTGAAAAGATAG
845769 GGTTGTAAGG
Statistics
Matches: 120, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
33 1 0.01
34 87 0.73
35 31 0.26
36 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (35 bp):
GAAGAGGTTCTATCTTAGCCTTGTGAAAAGATAGA
Found at i:845714 original size:69 final size:68
Alignment explanation
Indices: 845603--845770 Score: 248
Period size: 69 Copynumber: 2.5 Consensus size: 68
845593 CGAAGTGAAG
* * *
845603 AGGTTCTATCTTAGCTTGTGAAAAGATAGAGAAGAGGTTCTATCTTAGCCTTCGAAAAAGCTAGG
1 AGGTTCTATCTTAGCTTGTGAAAAGATAGGGAAGAGGTTCTATCTTAGCCTTCG-AAAAGATAAG
845668 GAAA
65 GAAA
* *
845672 AGGTTCTATCTTAGCTTGTGAAAAGATAGGGAAGAGGTTCTATCTTAGTCTTTGAAAAGATAAGG
1 AGGTTCTATCTTAGCTTGTGAAAAGATAGGGAAGAGGTTCTATCTTAGCCTTCGAAAAGATAAGG
*
845737 AAG
66 AAA
*
845740 AGGTTCTATCTTAGCCTT-CGAAAAGATAGGG
1 AGGTTCTATCTTAG-CTTGTGAAAAGATAGGG
845771 TTGTAAGGTT
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
68 37 0.41
69 54 0.59
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (68 bp):
AGGTTCTATCTTAGCTTGTGAAAAGATAGGGAAGAGGTTCTATCTTAGCCTTCGAAAAGATAAGG
AAA
Found at i:850821 original size:52 final size:52
Alignment explanation
Indices: 850743--850871 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
850733 CGAAATATGA
* * *
850743 AAATTTTCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAAGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTAAGC
* *
850795 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCAATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTAAGC
850847 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
850872 AAGATTAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTAAGC
Found at i:850881 original size:52 final size:52
Alignment explanation
Indices: 850743--850891 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 52
850733 CGAAATATGA
* **
850743 AAATTTTCCTGCATGTATCGATAC-ATTTTATAGTGTATCGATACATCTAAGC
1 AAATTTGCCTGCATGTATCGATACAATCAT-TAGTGTATCGATACATCTAAGC
* * * *
850795 AAATTTGCCTGTATGTATCGATACATTTCA-TAGTGTATCAATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-ATCATTAGTGTATCGATACATCTAAGC
**
850847 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAATCATTAGTGTATCGATACA
850892 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 1 0.01
52 80 0.98
54 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACAATCATTAGTGTATCGATACATCTAAGC
Found at i:850898 original size:13 final size:13
Alignment explanation
Indices: 850880--850904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
850870 CAAAGATTAG
850880 TGTATCGATACAA
1 TGTATCGATACAA
850893 TGTATCGATACA
1 TGTATCGATACA
850905 TTTTCTTGGT
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:850946 original size:19 final size:19
Alignment explanation
Indices: 850922--850958 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
850912 GGTAGTAGCT
850922 ACTTATGTATCAATACAAC
1 ACTTATGTATCAATACAAC
*
850941 ACTTATGTATCGATACAA
1 ACTTATGTATCAATACAA
850959 ATCGTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (19 bp):
ACTTATGTATCAATACAAC
Found at i:855133 original size:34 final size:34
Alignment explanation
Indices: 855087--855152 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
855077 GAAGTGATTG
* *
855087 AGAGGTTTTATCTTAGCCTGT-GAAAAGATAGGCA
1 AGAGGTTCTATCTTAGCCT-TCAAAAAGATAGGCA
855121 AGAGGTTCTATCTTAGCCTTCAAAAAGATAGG
1 AGAGGTTCTATCTTAGCCTTCAAAAAGATAGG
855153 GTTGTAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 1 0.03
34 28 0.97
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTCAAAAAGATAGGCA
Found at i:857087 original size:58 final size:58
Alignment explanation
Indices: 856992--857117 Score: 144
Period size: 58 Copynumber: 2.2 Consensus size: 58
856982 GCATGTAAAA
* * **
856992 TAACCTAAATGACCCTAAAATACATTAAAAGTACAAAATAATCCATATTTTATGAAAT
1 TAACCTAAATAACCCTAAAATACATGAAAAGTACAAAATAATCCATAAATTATGAAAT
* * * * * * * *
857050 TAACATAAATAACCTTAAAATGCATGAAAATTGCAAAATGATCCTTAAATTATGGAAT
1 TAACCTAAATAACCCTAAAATACATGAAAAGTACAAAATAATCCATAAATTATGAAAT
857108 TAACCTAAAT
1 TAACCTAAAT
857118 GATCCTAACA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.29
Consensus pattern (58 bp):
TAACCTAAATAACCCTAAAATACATGAAAAGTACAAAATAATCCATAAATTATGAAAT
Found at i:859259 original size:17 final size:17
Alignment explanation
Indices: 859233--859271 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
859223 AGCTTTCTTT
*
859233 TTTTTTCTTTTTCTCTC
1 TTTTTACTTTTTCTCTC
* *
859250 TTTTTACTTTTTGTTTC
1 TTTTTACTTTTTCTCTC
859267 TTTTT
1 TTTTT
859272 TGGTCTCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTACTTTTTCTCTC
Found at i:861210 original size:136 final size:135
Alignment explanation
Indices: 860965--861235 Score: 395
Period size: 136 Copynumber: 2.0 Consensus size: 135
860955 TCATTTTAGG
*
860965 TGTTAGGATCTTGATTTTAATATAACAAAGATTGAATAAAACCGGAAAAGACTTTGAAAAATCGT
1 TGTTAGGATCTTGATTTTAATATAACAAAGATTGAATAAAACCGGAAAAGACTTTGAAAAACCGT
* * * * * *
861030 AAACAAGTTTTGTTCGTTTAAAAACACTCTAAAAACATGTTCTAAGT-AGTTTTCTATATCAATA
66 AAACAAGTTTTATTCATTCAAAAACACTCAAAAAACAAGTTCTAAATGA-TTTTC--TATCAATA
861094 AATGTTTT
128 AATGTTTT
* * *
861102 TGTTAGGATCTTGGTTTTGATATAACAAAGATTGAATAAAACC-GAAAA-ATGTTTGAAAAACCG
1 TGTTAGGATCTTGATTTTAATATAACAAAGATTGAATAAAACCGGAAAAGA-CTTTGAAAAACCG
861165 TAAACAAGTTTTATTCATTCAAAAACACTCAAAAAACAAGTTCTAAATGATTTTCTATCAATAAA
65 TAAACAAGTTTTATTCATTCAAAAACACTCAAAAAACAAGTTCTAAATGATTTTCTATCAATAAA
861230 TGTTTT
130 TGTTTT
861236 AGAGTTATAA
Statistics
Matches: 122, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
134 16 0.13
135 1 0.01
136 63 0.52
137 42 0.34
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (135 bp):
TGTTAGGATCTTGATTTTAATATAACAAAGATTGAATAAAACCGGAAAAGACTTTGAAAAACCGT
AAACAAGTTTTATTCATTCAAAAACACTCAAAAAACAAGTTCTAAATGATTTTCTATCAATAAAT
GTTTT
Found at i:861453 original size:33 final size:33
Alignment explanation
Indices: 861416--861550 Score: 81
Period size: 33 Copynumber: 4.2 Consensus size: 33
861406 CTTTGTATTA
861416 ATACATTGTATCGATACATGGACAATTGTATCG
1 ATACATTGTATCGATACATGGACAATTGTATCG
* * * *
861449 ATACA-TG-A---A-AC-TGG-CAGTAGCTACCCT
1 ATACATTGTATCGATACATGGACAATTG-TA-TCG
861476 ATCACTATTTGTATCGATACATGGTACAA-TGTATCG
1 AT-AC-AT-TGTATCGATACATGG-ACAATTGTATCG
* * * *
861512 ACACATTGTATCGATACATGAAGAAATGTATCG
1 ATACATTGTATCGATACATGGACAATTGTATCG
861545 ATACAT
1 ATACAT
861551 AGCTTGTAAC
Statistics
Matches: 75, Mismatches: 12, Indels: 30
0.64 0.10 0.26
Matches are distributed among these distances:
25 4 0.05
26 5 0.07
27 5 0.07
28 3 0.04
29 1 0.01
31 3 0.04
32 6 0.08
33 31 0.41
34 2 0.03
35 3 0.04
36 4 0.05
37 5 0.07
38 1 0.01
39 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (33 bp):
ATACATTGTATCGATACATGGACAATTGTATCG
Found at i:866330 original size:51 final size:52
Alignment explanation
Indices: 866262--866381 Score: 206
Period size: 51 Copynumber: 2.3 Consensus size: 52
866252 GAAAATTTAT
*
866262 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCT-GGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
866313 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
866365 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
866382 AAGATCAGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 37 0.58
52 27 0.42
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:866394 original size:52 final size:50
Alignment explanation
Indices: 866262--866401 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 50
866252 GAAAATTTAT
866262 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGCAAATTTGC
* * *
866313 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCT-GGCAAATTTGC
*
866365 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
866402 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
51 39 0.49
52 40 0.51
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (50 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGCAAATTTGC
Found at i:866408 original size:13 final size:13
Alignment explanation
Indices: 866390--866414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
866380 CAAAGATCAG
866390 TGTATCGATACAA
1 TGTATCGATACAA
866403 TGTATCGATACA
1 TGTATCGATACA
866415 TGTGAGTAAT
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:866496 original size:13 final size:13
Alignment explanation
Indices: 866478--866502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
866468 CAAAAAAATA
866478 TGTATCGATACAT
1 TGTATCGATACAT
866491 TGTATCGATACA
1 TGTATCGATACA
866503 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:867491 original size:43 final size:43
Alignment explanation
Indices: 867430--868749 Score: 603
Period size: 43 Copynumber: 29.7 Consensus size: 43
867420 TAAAGATGGA
* * *
867430 AAAGGTGTCAATATGCTGATTCAAGGCCAGCTATATCGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
867473 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* *
867522 GAAAAAGGTGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
867568 AAAGGTGCCAATGTGCCGATTCAAGGCCAGCAACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
867611 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
867660 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * * * *
867703 AAAGATG-AAGATGAGAAAAGTGA-TAAAGATGCCA-ATATGTT-GA-TT
1 AAAGGTGCCA-ATGTG----CTGATTCAAG--GCCAGCTATATTGGACTT
* * * * * ** * * *
867748 -CACG-GCCAA--CGAT-ATT---GGGCTTCAAGA-TGAGA--A
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTG-GACTT
* * *
867781 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* *
867831 GGAAAAGGTGCCAATATGCTGATTTAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
867877 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
867920 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
867969 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * * * *
868012 AAAGATG-AAGATGAGAAAAGTGA-TAAAGATGCCA-ATATGTT-GA-TT
1 AAAGGTGCCA-ATGTG----CTGATTCAAG--GCCAGCTATATTGGACTT
* * * * * ** * * *
868057 -CACG-GCCAA--CGAT-ATT---GGGCTTCAAGA-TGAGA--A
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTG-GACTT
* * **
868090 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTCAACTTAAAGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
*
868140 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
868186 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
868229 AAAGAAGAAGTTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 --A-AAG--G-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
868278 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
868321 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
868370 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
868413 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *** * * * *
868456 AAAGATGATGATGAGAAAAGTGA-TAAAGATGCCA-ATATATT-GA-TT
1 AAAGGTGCCAATGTG----CTGATTCAAG--GCCAGCTATATTGGACTT
* * * * * * * * *
868501 -CACG-GCCAA--CGAT-ATT---GGGC--TTAAAGATGAGA--A
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATA-TTG-GACTT
* * *
868534 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* *
868584 GGAAAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
868630 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
868673 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
868722 AAAGGTGCCAATGTGCTGATTCAAGGCC
1 AAAGGTGCCAATGTGCTGATTCAAGGCC
868750 GTCTACATTG
Statistics
Matches: 968, Mismatches: 172, Indels: 274
0.68 0.12 0.19
Matches are distributed among these distances:
31 3 0.00
32 9 0.01
33 2 0.00
34 15 0.02
36 15 0.02
37 6 0.01
38 6 0.01
39 9 0.01
41 3 0.00
42 20 0.02
43 443 0.46
44 19 0.02
45 11 0.01
46 34 0.04
47 25 0.03
48 22 0.02
49 177 0.18
51 4 0.00
52 130 0.13
53 15 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:867849 original size:309 final size:309
Alignment explanation
Indices: 867473--868330 Score: 1574
Period size: 309 Copynumber: 2.8 Consensus size: 309
867463 TATCGGACTT
* * * * *
867473 AAAGG-TGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGAAAAAGGTGTCAAT
1 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
* *
867537 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCCGATTCAAGGCCAGCAAC
66 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
* *
867602 ATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTTAAAGGTG
131 ATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
867667 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGA
196 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGA
867732 TGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTCAAGATGAGAA
261 TGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTCAAGATGAGAA
867781 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
* *
867846 ATGCTGATTTAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGTTGATTCAAGGCCAGCTAC
66 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
867911 ATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
131 ATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
867976 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGA
196 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGA
868041 TGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTCAAGATGAGAA
261 TGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTCAAGATGAGAA
*
868090 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTCAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
868155 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
66 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
* * *
868220 ATTGGACTTAAAGAAGAAGTTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTG
131 ATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
868285 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
196 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
868331 GTGCCAATAT
Statistics
Matches: 532, Mismatches: 17, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
308 5 0.01
309 527 0.99
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (309 bp):
AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
ATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGA
TGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTCAAGATGAGAA
Found at i:867881 original size:22 final size:22
Alignment explanation
Indices: 867856--867923 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
867846 ATGCTGATTT
867856 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
867878 AAGGTGCCA-ATGTGTT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
867899 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
867921 AAG
1 AAG
867924 ATGAAGATGC
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 9 0.28
23 5 0.16
24 4 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:867996 original size:92 final size:92
Alignment explanation
Indices: 867781--868024 Score: 398
Period size: 92 Copynumber: 2.6 Consensus size: 92
867771 AAGATGAGAA
* * *
867781 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAAT
* *
867846 ATGCTGATTTAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
*
867877 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
867942 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
867969 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG
868025 AGAAAAGTGA
Statistics
Matches: 141, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
92 94 0.67
94 1 0.01
95 41 0.29
96 5 0.04
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:868289 original size:444 final size:440
Alignment explanation
Indices: 867834--868770 Score: 1594
Period size: 444 Copynumber: 2.1 Consensus size: 440
867824 TAAAGATGGA
* * * * *
867834 AAAGGTGCCAATATGCTGATTTAAGGCCAGCTATATTGGACTT-A-AAGGTGCCAATGTGTTGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAGAAGGTGCCAATATGCTGAT
867897 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATAT
66 TCAAGGCCAGCTACATTGGACTT-AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCGATAT
867962 TGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAG
125 TGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAG
* *
868027 AAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTCAAGATGAGAAAA
190 AAAAGTGATAAAGATGCCAATATATTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAA
868092 AGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTCAACTTAAAGATGGAAAAGGTGCCAATAT
255 AGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTCAACTTAAAGATGGAAAAGGTGCCAATAT
*
868157 GCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
320 ACTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
*
868222 TGGACTTAAAGAAGAAGTTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
385 TGGACTTAAAGAAGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
868278 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A-A-GAAGGTGCCAATATGC
* * *
868343 TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTG
62 TGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
*
868408 GACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGAGAA
127 GACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAA
868473 AAGTGATAAAGATGCCAATATATTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
192 AAGTGATAAAGATGCCAATATATTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
*
868538 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATAC
257 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTCAACTTAAAGATGGAAAAGGTGCCAATATAC
868603 TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
322 TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
*
868668 GACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
387 GACTTAAAGAAGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
868722 AAAGGTGCCAATGTGCTGATTCAAGGCC-GTCTACATTGGGCTT-AGAAGG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAG-CTACATTGGACTTAAGAAGG
868771 GTTGCCACCG
Statistics
Matches: 468, Mismatches: 18, Indels: 19
0.93 0.04 0.04
Matches are distributed among these distances:
439 5 0.01
440 1 0.00
443 1 0.00
444 416 0.89
445 1 0.00
447 1 0.00
448 2 0.00
449 2 0.00
450 39 0.08
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (440 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGT
GATAAAGATGCCAATATATTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATG
TCAATGTGCTGATTCAAGGCCAGCTACATTCAACTTAAAGATGGAAAAGGTGCCAATATACTGAT
TCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
TAAAGAAGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:868305 original size:92 final size:92
Alignment explanation
Indices: 868090--868459 Score: 563
Period size: 92 Copynumber: 4.0 Consensus size: 92
868080 AAGATGAGAA
* ** *
868090 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTCAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
868155 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
*
868186 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
868251 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
868278 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
868343 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
868370 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
868429 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
868456 AAAG
1 AAAG
868460 ATGATGATGA
Statistics
Matches: 259, Mismatches: 15, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
86 44 0.17
92 170 0.66
95 40 0.15
96 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:868374 original size:22 final size:22
Alignment explanation
Indices: 868349--868417 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
868339 ATGCTGATTC
868349 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
868371 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
868392 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
868414 AAGG
1 AAGG
868418 TGCCAATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:868395 original size:21 final size:21
Alignment explanation
Indices: 868371--868438 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
868361 ATTGGACTTA
868371 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
868392 AAGGCCAGCTATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
868414 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
868435 AAGG
1 AAGG
868439 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:868422 original size:24 final size:24
Alignment explanation
Indices: 868352--868422 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
868342 CTGATTCAAG
868352 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
* * ** *
868376 GCCA-ATGTGCT-GA-TTCAA-G-
1 GCCAGCTATATTGGACTTAAAGGT
868395 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
868419 GCCA
1 GCCA
868423 ATGTGCTGAT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 6 0.19
23 4 0.12
24 8 0.25
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (24 bp):
GCCAGCTATATTGGACTTAAAGGT
Found at i:868726 original size:92 final size:94
Alignment explanation
Indices: 868534--868765 Score: 362
Period size: 92 Copynumber: 2.5 Consensus size: 94
868524 AAGATGAGAA
* * *
868534 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG-AAAGATGCCAAT
*
868599 ATACTGATTCAAGGCCAGCTATATTGGACTT
64 ATACTGATTCAAGGCCAGCGATATTGGACTT
868630 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAGATGCCAATAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAGATGCCAATAT
*
868693 GCTGATTCAAGGCCAGCGATATTGGACTT
66 ACTGATTCAAGGCCAGCGATATTGGACTT
*
868722 AAAGGTGCCAATGTGCTGATTCAAGGCC-GTCTACATTGGGCTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAG-CTACATTGGACTTA
868766 GAAGGGTTGC
Statistics
Matches: 129, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
91 1 0.01
92 80 0.62
94 1 0.01
95 42 0.33
96 5 0.04
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (94 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAGATGCCAATAT
ACTGATTCAAGGCCAGCGATATTGGACTT
Found at i:868760 original size:43 final size:43
Alignment explanation
Indices: 868587--868770 Score: 226
Period size: 43 Copynumber: 4.1 Consensus size: 43
868577 TAAAGATGGA
* *
868587 AAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
868630 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
868673 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
868722 AAAGGTGCCAATGTGCTGATTCAAGGCC-GTCTACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAG-CTACATTGGACTT
868765 AGAAGG
1 A-AAGG
868771 GTTGCCACCG
Statistics
Matches: 123, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.01
43 73 0.59
44 7 0.06
45 1 0.01
46 2 0.02
47 1 0.01
48 3 0.02
49 35 0.28
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:868809 original size:33 final size:32
Alignment explanation
Indices: 868758--868862 Score: 144
Period size: 33 Copynumber: 3.3 Consensus size: 32
868748 CCGTCTACAT
*
868758 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAATGGTTGCCACCGACTTGTG
868788 TGGGCTTTAGAGAATGGTTGCCACCGACTTGTG
1 TGGGCTTT-GAGAATGGTTGCCACCGACTTGTG
*
868821 TGGGCTTTGA-AATAAGGTTTCCACCGACTTGTG
1 TGGGCTTTGAGAAT--GGTTGCCACCGACTTGTG
868854 TGGGCTTTG
1 TGGGCTTTG
868863 GGAAGAATGT
Statistics
Matches: 68, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
30 5 0.07
31 5 0.07
32 2 0.03
33 56 0.82
ACGTcount: A:0.17, C:0.18, G:0.33, T:0.31
Consensus pattern (32 bp):
TGGGCTTTGAGAATGGTTGCCACCGACTTGTG
Found at i:869082 original size:61 final size:61
Alignment explanation
Indices: 869005--869121 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 61
868995 AAAAGAAAAA
* *
869005 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGATGTTGTGGGCTTCAACG
1 GGTGCCACGGAATTGTGGACTTAGAAGGAAAAAGAGTGCCACGATGTTATGGGCTTCAACG
869066 GGTGCCACGGAATTGTGGACTTAGAAGGAAAAAGAGTGCCACGATGTTATGGGCTT
1 GGTGCCACGGAATTGTGGACTTAGAAGGAAAAAGAGTGCCACGATGTTATGGGCTT
869122 TAAAAAGAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.22
Consensus pattern (61 bp):
GGTGCCACGGAATTGTGGACTTAGAAGGAAAAAGAGTGCCACGATGTTATGGGCTTCAACG
Found at i:869286 original size:231 final size:231
Alignment explanation
Indices: 868950--869497 Score: 981
Period size: 231 Copynumber: 2.4 Consensus size: 231
868940 CCCTAAGTCA
** * * *
868950 TGGACTGTAAAAGGGAAAAAGAGTGCCATAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACGG
1 TGGACT-TAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
*
869015 AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGATGTTGTGGGCTTCAACGGGTGCCACGGAATT
65 AGTTGTGGACTTAGAAGGAAAAAGAGTACCACGATGTTGTGGGCTTCAACGGGTGCCACGGAATT
*
869080 GTGGACTTAGAAGGAAAAAGAGTGCCACGATGTTATGGGCTTTAAAAAGAAAAAGGTGCCACGGA
130 ATGGACTTAGAAGGAAAAAGAGTGCCACGATGTTATGGGCTTTAAAAAGAAAAAGGTGCCACGGA
869145 GTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTG
195 GTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTG
869182 TGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGA
1 TGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGA
*
869247 GTTGTGGACTTAGAAGGAAAAAGAGTACCACGGTGTTGTGGGCTTCAACGGGTGCCACGGAATTA
66 GTTGTGGACTTAGAAGGAAAAAGAGTACCACGATGTTGTGGGCTTCAACGGGTGCCACGGAATTA
*
869312 TGGACTTAGAAGGAAAAAGAGTGCCACGATGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAG
131 TGGACTTAGAAGGAAAAAGAGTGCCACGATGTTATGGGCTTTAAAAAGAAAAAGGTGCCACGGAG
869377 TTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTG
196 TTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTG
869413 TGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGA
1 TGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGA
* *
869478 GTTGTGGGCTTTGAA-GAAAA
66 GTTGTGGACTTAGAAGGAAAA
869498 GGATGCCACT
Statistics
Matches: 305, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
230 5 0.02
231 294 0.96
232 6 0.02
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (231 bp):
TGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGA
GTTGTGGACTTAGAAGGAAAAAGAGTACCACGATGTTGTGGGCTTCAACGGGTGCCACGGAATTA
TGGACTTAGAAGGAAAAAGAGTGCCACGATGTTATGGGCTTTAAAAAGAAAAAGGTGCCACGGAG
TTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTG
Found at i:869351 original size:129 final size:129
Alignment explanation
Indices: 869067--869415 Score: 409
Period size: 129 Copynumber: 2.7 Consensus size: 129
869057 GCTTCAACGG
* * * * * * *
869067 GTGCCACGGAATTGTGGAC-TTAGAAGGAAAAAGAGTGCCAC-GATGTTATGGGCTTTAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGA-GTTGTGGAC-TTAAAAGGA
* * * * * *
869130 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGG
63 AAAAGGTACCACGGAGTTGTGGGCTT-----CAAC-GGGTGCCACGGAATTATGGACTTAAAAGG
869195 GAAAAAGA
122 GAAAAAGA
*
869203 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* *
869268 AGAGTACCACGGTGTTGTGGGCTTCAACGGGTGCCACGGAATTATGGACTTAGAA-GGAAAAAGA
66 AG-GTACCACGGAGTTGTGGGCTTCAACGGGTGCCACGGAATTATGGACTTAAAAGGGAAAAAGA
*
869332 GTGCCAC-GATGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAC
1 GTGCCACGGA-GTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAA
*
869396 AAGGTGCCACGGAGTTGTGG
65 AAGGTACCACGGAGTTGTGG
869416 ACTTAAAAGG
Statistics
Matches: 189, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
128 17 0.09
129 71 0.38
130 23 0.12
131 3 0.02
135 12 0.06
136 49 0.26
137 14 0.07
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (129 bp):
GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
AGGTACCACGGAGTTGTGGGCTTCAACGGGTGCCACGGAATTATGGACTTAAAAGGGAAAAAGA
Found at i:869489 original size:34 final size:33
Alignment explanation
Indices: 868871--869484 Score: 537
Period size: 34 Copynumber: 18.5 Consensus size: 33
868861 TGGGAAGAAT
* *
868871 GTGCCACGGAGTCGTGGACTTGAAAGGAAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA-G
* ***
868905 GTGCCACGGAGTTGTGGGCTTTGTA-G-AAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* ** **
868936 GATACC-CTAAGTCATGGACTGTAAAAGGGAAAAAG
1 G-TGCCACGGAGTTGTGGACT-TAAAA-GGAAAAAG
** *
868971 AGTGCCATAGAGTTATGGACTTTGAAAA-GAAAAAG
1 -GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAG
*
869006 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * *
869039 AGTGCCAC-GATGTTGTGGGCTT-CAACG-----G
1 -GTGCCACGGA-GTTGTGGACTTAAAAGGAAAAAG
* *
869067 GTGCCACGGAATTGTGGACTTAGAAGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * *
869100 AGTGCCAC-GATGTTATGGGCTTTAAAAAGAAAAAG
1 -GTGCCACGGA-GTTGTGGAC-TTAAAAGGAAAAAG
*
869135 GTGCCACGGAGTTGTGGACTTAAAAGGAACAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
869168 GTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAA-GGAAAAAG
* *
869202 AGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 -GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAG
*
869237 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * * * *
869270 AGTACCACGGTGTTGTGGGCTT-CAACG-----G
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * *
869298 GTGCCACGGAATTATGGACTTAGAAGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* *
869331 AGTGCCAC-GATGTTGTGGGCTTTAAAAAGAAAAAG
1 -GTGCCACGGA-GTTGTGGAC-TTAAAAGGAAAAAG
*
869366 GTGCCACGGAGTTGTGGACTTAAAAGGAACAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
869399 GTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAA-GGAAAAAG
* *
869433 AGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 -GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAG
869468 GTGCCACGGAGTTGTGG
1 GTGCCACGGAGTTGTGG
869485 GCTTTGAAGA
Statistics
Matches: 472, Mismatches: 68, Indels: 80
0.76 0.11 0.13
Matches are distributed among these distances:
27 32 0.07
28 10 0.02
31 11 0.02
32 12 0.03
33 110 0.23
34 176 0.37
35 93 0.20
36 23 0.05
37 5 0.01
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (33 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
Found at i:869552 original size:62 final size:63
Alignment explanation
Indices: 869469--869616 Score: 237
Period size: 62 Copynumber: 2.4 Consensus size: 63
869459 AAGAAAAAGG
* *
869469 TGCCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGA-AGAGAA
* *
869531 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGAAGAGAA
869594 TGCCACTGAGTCGTGGGCTTTGA
1 TGCCACTGAGTCGTGGGCTTTGA
869617 GAAGAGATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
61 1 0.01
62 55 0.70
63 23 0.29
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGAAGAGAA
Found at i:869625 original size:31 final size:30
Alignment explanation
Indices: 869463--869624 Score: 182
Period size: 32 Copynumber: 5.2 Consensus size: 30
869453 TTTAAAAAGA
* * * *
869463 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
*
869494 AAAAGGATGCCACTAAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
869525 ACAAA-ATGCCACTGAGTCGTGGACTTTGAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTTG-AG
*
869556 AAAAGGATGCCACTAAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
869587 AAGAGATTGCCACTGAGTCGTGGGCTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
*
869618 AAGAGAT
1 AAAAGAT
869625 TTGAAGAATT
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
30 28 0.24
31 43 0.37
32 44 0.38
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:877968 original size:13 final size:13
Alignment explanation
Indices: 877950--877990 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
877940 ACAACATTCC
877950 TTGTATCGATACA
1 TTGTATCGATACA
877963 TTGTATCGATACA
1 TTGTATCGATACA
* *
877976 ATGTATCGATGCA
1 TTGTATCGATACA
877989 TT
1 TT
877991 AGGTACTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:879871 original size:25 final size:25
Alignment explanation
Indices: 879835--879885 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
879825 TGAAAATAAA
*
879835 TTTTTTTAATAAAGGGGGAGAAAAT
1 TTTTTTTAATAAAGGAGGAGAAAAT
* *
879860 TTTTTTTTATAAAGGAGGAGATAAT
1 TTTTTTTAATAAAGGAGGAGAAAAT
879885 T
1 T
879886 GTTTAAGGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (25 bp):
TTTTTTTAATAAAGGAGGAGAAAAT
Found at i:880488 original size:28 final size:27
Alignment explanation
Indices: 880436--880494 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
880426 TGCACACCCA
*
880436 GATGTATCGATACATGCTGCTTTGTATC
1 GATGTATCGATACATGC-GCATTGTATC
880464 GATGTATCGATACATG-GACAATTGTATC
1 GATGTATCGATACATGCG-C-ATTGTATC
880492 GAT
1 GAT
880495 ACATGAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 1 0.04
27 1 0.04
28 26 0.93
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (27 bp):
GATGTATCGATACATGCGCATTGTATC
Found at i:881539 original size:19 final size:19
Alignment explanation
Indices: 881514--881570 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
881504 TTATATCGAT
*
881514 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* * *
881533 TCATTGTGTCGATACAAGC
1 ACATTGTATCGATACATGC
881552 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
881571 ATGAATTGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:881577 original size:20 final size:20
Alignment explanation
Indices: 881516--881582 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
881506 ATATCGATAC
*
881516 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGATCA
* *
881535 ATTGTGTCGATACAAGCA-CA
1 ATTGTATCGATACATG-ATCA
*
881555 ATTGTATCGATACATGATGA
1 ATTGTATCGATACATGATCA
881575 ATTGTATC
1 ATTGTATC
881583 AATGCATTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 16 0.41
20 23 0.59
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGATCA
Found at i:887721 original size:14 final size:14
Alignment explanation
Indices: 887702--887748 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
887692 TTGATCAGTT
887702 GAAAAAAGAAAAGA
1 GAAAAAAGAAAAGA
* *
887716 GAAAAAAGAGAAGG
1 GAAAAAAGAAAAGA
887730 GAAGAAAAGAAAAAGA
1 GAA-AAAAG-AAAAGA
887746 GAA
1 GAA
887749 GTAAATAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 15 0.56
15 5 0.19
16 7 0.26
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
GAAAAAAGAAAAGA
Found at i:895073 original size:53 final size:53
Alignment explanation
Indices: 895007--895143 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
894997 CTACTTCCAA
895007 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * *
895060 TGTATCGATACATATTGTGTGTATTGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
895113 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
895144 TATGCAATTT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 66 0.85
54 12 0.15
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:895176 original size:20 final size:20
Alignment explanation
Indices: 895113--895183 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
895103 GCCAATGTCC
**
895113 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
895133 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
895153 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
895173 TGTATCGATAC
1 TGTATCGATAC
895184 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:895249 original size:21 final size:21
Alignment explanation
Indices: 895223--895263 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
895213 GTCAACCTTG
895223 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
895244 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
895264 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:896098 original size:64 final size:63
Alignment explanation
Indices: 895997--896128 Score: 255
Period size: 64 Copynumber: 2.1 Consensus size: 63
895987 CAACTAATAC
895997 CAAACGTTTATGCAAGCTCTCCCCCTTAATACAAGTGTTCTTCCCTTTAATACAAAATTTATAA
1 CAAACGTTTATGCAAGCTCTCCCCCTTAATACAAGTGTTCTTCCCTTTAATACAAAATTTAT-A
896061 CAAACGTTTATGCAAGCTCTCCCCCTTAATACAAGTGTTCTTCCCTTTAATACAAAATTTATA
1 CAAACGTTTATGCAAGCTCTCCCCCTTAATACAAGTGTTCTTCCCTTTAATACAAAATTTATA
896124 CAAAC
1 CAAAC
896129 TCTCCCCCTT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 6 0.09
64 62 0.91
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (63 bp):
CAAACGTTTATGCAAGCTCTCCCCCTTAATACAAGTGTTCTTCCCTTTAATACAAAATTTATA
Found at i:896998 original size:13 final size:13
Alignment explanation
Indices: 896980--897004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
896970 ACTGAAGCAA
896980 TGTATCGATATAT
1 TGTATCGATATAT
896993 TGTATCGATATA
1 TGTATCGATATA
897005 ATCTGGAAAA
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:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
TGTATCGATATAT
Found at i:900744 original size:13 final size:13
Alignment explanation
Indices: 900726--900751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
900716 CTATTTATGA
900726 TGTATCGATACAC
1 TGTATCGATACAC
900739 TGTATCGATACAC
1 TGTATCGATACAC
900752 ATAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:900880 original size:53 final size:53
Alignment explanation
Indices: 900814--900950 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
900804 CTACTTCCAA
900814 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
900867 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
900920 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
900951 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:900983 original size:20 final size:20
Alignment explanation
Indices: 900920--900990 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
900910 GCCAATGTCC
**
900920 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
900940 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
900960 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
900980 TGTATCGATAC
1 TGTATCGATAC
900991 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:901056 original size:21 final size:21
Alignment explanation
Indices: 901030--901070 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
901020 GTCAACCTTG
901030 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
901051 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
901071 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:904409 original size:134 final size:134
Alignment explanation
Indices: 904169--904439 Score: 443
Period size: 134 Copynumber: 2.0 Consensus size: 134
904159 GATTCTAATT
* * * *
904169 TGTTTTGGTGCTTGAGCTTATGATGTTTGGCCTTTATTGGGATGACCTGAAGTGTGGAAATACGT
1 TGTTTTGGAGCTTGAGCTTATGATGTTTGGCATGTATTGGGATGACCTAAAGTGTGGAAATACGT
* *
904234 ATCCATAGCAAACATTGGGTCCCACCAGCCAAGGTTGAAAATGGCCAGAAATACTTAATTTTAAC
66 ATCCATACCAAACATTGGGCCCCACCAGCCAAGGTTGAAAATGGCCAGAAATACTTAATTTTAAC
904299 TAGA
131 TAGA
* * *
904303 TGTTTTGGAGCTTGAGCTTGTGATGTTTGGCATGTATTGTGATGACCTAAAGTGTGGAAATATGT
1 TGTTTTGGAGCTTGAGCTTATGATGTTTGGCATGTATTGGGATGACCTAAAGTGTGGAAATACGT
* *
904368 ATCCATACCAGACATTGGGCCCCACCAGCCAAGGTTGAAAATGGCCCGAAATACTTAATTTTAAC
66 ATCCATACCAAACATTGGGCCCCACCAGCCAAGGTTGAAAATGGCCAGAAATACTTAATTTTAAC
904433 TAGA
131 TAGA
904437 TGT
1 TGT
904440 ATCGATACAT
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 126 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (134 bp):
TGTTTTGGAGCTTGAGCTTATGATGTTTGGCATGTATTGGGATGACCTAAAGTGTGGAAATACGT
ATCCATACCAAACATTGGGCCCCACCAGCCAAGGTTGAAAATGGCCAGAAATACTTAATTTTAAC
TAGA
Found at i:904509 original size:20 final size:21
Alignment explanation
Indices: 904484--904540 Score: 100
Period size: 20 Copynumber: 2.8 Consensus size: 21
904474 GTAAAAAGAT
904484 AGAATGTATCGATACATT-AA
1 AGAATGTATCGATACATTGAA
904504 AGAATGTATCGATACATTGAA
1 AGAATGTATCGATACATTGAA
904525 A-AATGTATCGATACAT
1 AGAATGTATCGATACAT
904541 CGGGGTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 33 0.92
21 3 0.08
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (21 bp):
AGAATGTATCGATACATTGAA
Found at i:905306 original size:28 final size:28
Alignment explanation
Indices: 905266--905831 Score: 557
Period size: 28 Copynumber: 20.2 Consensus size: 28
905256 ATATGCTAAT
905266 TTGTGGGCTTTGAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* *
905294 TTGTGGGCTTTGAAGGGGTACCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* *
905322 TTATGGGCTTTGAAAGGGTGCCACTGAT
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* *
905350 TTGTGGGCTTTGAAAAGGTGCCACCGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
*
905378 TTGTGGGCTTTGAAAGGGTGCCACCGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * *
905406 TTATGGTCTTTTG-AAGAGATGCCACTGAC
1 TTGTGGGC-TTTGAAAG-GGTGCCACTGAC
* * *
905435 TTGTGGGCTTTAAAAGGATGCCACTAAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* *
905463 TTGTGAGCTTTGAAAGGATGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
*
905491 TTGTAGGCTTTGAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
*
905519 TTGTGGGCTTTGAAAGGGTGCCACTGAT
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * *
905547 TTGTGGGCTTGGAAAAAGATGCCACTGAC
1 TTGTGGGCTTTG-AAAGGGTGCCACTGAC
* * * *
905576 TTGTGGACTTTGAAAGGATGCCATTGAG
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
905604 TTGTGGGCTTTGAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* *
905632 TTGTGGGCTTTGAAAGGGTGCCACTAAT
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * *
905660 TTGTGGGCTTTGAAAAGGATGCCACGGAG
1 TTGTGGGCTTTG-AAAGGGTGCCACTGAC
* * * * *
905689 TAGTGGAC-TTAAAAGGATGCCA-TGGAG
1 TTGTGGGCTTTGAAAGGGTGCCACT-GAC
** * * * *
905716 TTGTGTACTTTAAAAGGATGCCACGGAG
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * * * *
905744 TTGTGGACTTTAAAAGGATGCCACGGAG
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * * * * *
905772 TTTTGGAC-TTAAAAGGTTGCCACAGAG
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * * *
905799 TTGTGGAC-TTAAAAGGGTGCCACAGAG
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
905826 TTGTGG
1 TTGTGG
905832 ACTTAAAAGG
Statistics
Matches: 471, Mismatches: 59, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
27 68 0.14
28 339 0.72
29 64 0.14
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (28 bp):
TTGTGGGCTTTGAAAGGGTGCCACTGAC
Found at i:905467 original size:113 final size:112
Alignment explanation
Indices: 905266--905831 Score: 595
Period size: 113 Copynumber: 5.1 Consensus size: 112
905256 ATATGCTAAT
* * *
905266 TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAGGGGTACCACTGACTTATGGGCT
1 TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * *
905331 TTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGG-TGCCACCGAC
66 TTAAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGAC
* * * *
905378 TTGTGGGCTTTGAAAGGGTGCCACCGACTTATGGTCTTTTG-AAGAGATGCCACTGACTTGTGGG
1 TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC-TTTGAAAG-GGTGCCACTGACTTGTGGG
* *
905442 CTTTAAAAGGATGCCACTAACTTGTGAGCTTTGAAAGGATGCCACTGAC
64 CTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGAC
* *
905491 TTGTAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCT
1 TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * * *
905556 TGGAAAAAGATGCCACTGACTTGTGGACTTTGAAAGGATGCCATTGAG
66 T-TAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGAC
* *
905604 TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAATTTGTGGGCT
1 TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * * * *
905669 TTGAAAAGGATGCCACGGAGTAGTGGAC-TTAAAAGGATGCCA-TGGAG
66 TT-AAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT-GAC
** * * * * * * * * * * *
905716 TTGTGTACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTTTGGAC-
1 TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * * * * * *
905780 TTAAAAGGTTGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACAGAG
66 TTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGAC
905826 TTGTGG
1 TTGTGG
905832 ACTTAAAAGG
Statistics
Matches: 392, Mismatches: 54, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
110 43 0.11
111 3 0.01
112 130 0.33
113 216 0.55
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (112 bp):
TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
TTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGAC
Found at i:905528 original size:141 final size:141
Alignment explanation
Indices: 905284--905821 Score: 568
Period size: 141 Copynumber: 3.8 Consensus size: 141
905274 TTTGAAAGGG
* * * *
905284 TGCCACTGACTTGTGGGCTTTGAAGGGGTACCACTGACTTATGGGCTTTGAAAGGGTGCCACTGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
* * * *
905349 TTTGTGGGCTTTGAAAAGGTGCCACCGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTATGGTC
66 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTATGGGC
* *
905414 TTTTG-AAGAGA
131 -TTGGAAAAAGA
* * * *
905425 TGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACTTGTGAGCTTTGAAAGGATGCCACTGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
* * * *
905490 CTTGTAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGC
66 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTATGGGC
905555 TTGGAAAAAGA
131 TTGGAAAAAGA
* * *
905566 TGCCACTGACTTGTGGACTTTGAAAGGATGCCATTGAGTTGTGGGCTTTGAAAGGGTGCCACTGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
* * * * *
905631 CTTGTGGGCTTTGAAAGGGTGCCACTAATTTGTGGGCTTTGAAAAGGATGCCACGGA-GTAGTGG
66 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACCGACTTA-TGG
* *
905695 ACTT--AAAAGGA
129 GCTTGGAAAAAGA
* ** * * * * * * *
905706 TGCCA-TGGAGTTGTGTACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGG
1 TGCCACT-GACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
* * * * * * * * *
905770 AGTTTTGGAC-TTAAAAGGTTGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCAC
65 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
905822 AGAGTTGTGG
Statistics
Matches: 339, Mismatches: 54, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
137 11 0.03
138 2 0.01
139 22 0.06
140 69 0.20
141 216 0.64
142 19 0.06
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (141 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTATGGGC
TTGGAAAAAGA
Found at i:905895 original size:27 final size:27
Alignment explanation
Indices: 905423--905893 Score: 334
Period size: 28 Copynumber: 17.0 Consensus size: 27
905413 CTTTTGAAGA
* * *
905423 GATGCCACTGACTTGTGGGCTTTAAAAG
1 GATGCCACGGAGTTGTGGAC-TTAAAAG
** * *
905451 GATGCCACTAACTTGT-GAGCTTTGAAAG
1 GATGCCACGGAGTTGTGGA-C-TTAAAAG
* * *
905479 GATGCCACTGACTTGTAGG-CTTTGAAAG
1 GATGCCACGGAGTTGT-GGAC-TTAAAAG
* * * * *
905507 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GATGCCACGGAGTTGTGGAC-TTAAAAG
* * * * *
905535 GGTGCCACTGATTTGTGGGCTTGGAAAAA
1 GATGCCACGGAGTTGTGGACTT--AAAAG
* * *
905564 GATGCCACTGACTTGTGGACTTTGAAAG
1 GATGCCACGGAGTTGTGGAC-TTAAAAG
** * *
905592 GATGCCATTGAGTTGTGGGCTTTGAAAG
1 GATGCCACGGAGTTGTGGAC-TTAAAAG
* * * * *
905620 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GATGCCACGGAGTTGTGGAC-TTAAAAG
* ** * *
905648 GGTGCCACTAATTTGTGGGCTTTGAAAAG
1 GATGCCACGGAGTTGTGGAC-TT-AAAAG
*
905677 GATGCCACGGAGTAGTGGACTTAAAAG
1 GATGCCACGGAGTTGTGGACTTAAAAG
* *
905704 GATGCCATGGAGTTGTGTACTTTAAAAG
1 GATGCCACGGAGTTGTGGAC-TTAAAAG
905732 GATGCCACGGAGTTGTGGACTTTAAAAG
1 GATGCCACGGAGTTGTGGAC-TTAAAAG
*
905760 GATGCCACGGAGTTTTGGACTTAAAAG
1 GATGCCACGGAGTTGTGGACTTAAAAG
* *
905787 GTTGCCACAGAGTTGTGGACTTAAAAG
1 GATGCCACGGAGTTGTGGACTTAAAAG
* *
905814 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GATGCCACGGAGTTGTGGACTTAAAAG
* * *
905841 GTTACCACGGAGTTGTGGACTTAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAG
* * *
905868 GTTGTCACGGAGTTATGGACTTAAAA
1 GATGCCACGGAGTTGTGGACTTAAAA
905894 AGAAATGCCA
Statistics
Matches: 389, Mismatches: 45, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
27 130 0.33
28 218 0.56
29 38 0.10
30 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.28
Consensus pattern (27 bp):
GATGCCACGGAGTTGTGGACTTAAAAG
Found at i:907329 original size:20 final size:20
Alignment explanation
Indices: 907304--907366 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
907294 TTCCCTTTCC
907304 TTATTTTACTTTTGCACTTT
1 TTATTTTACTTTTGCACTTT
* *
907324 TTATTTTTCTTTT-CATTTTT
1 TTATTTTACTTTTGCA-CTTT
*
907344 TGTACTTTTGCTTTTG-ACTTT
1 T-TA-TTTTACTTTTGCACTTT
907365 TT
1 TT
907367 CATAATTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.06
20 17 0.49
21 6 0.17
22 10 0.29
ACGTcount: A:0.11, C:0.13, G:0.06, T:0.70
Consensus pattern (20 bp):
TTATTTTACTTTTGCACTTT
Found at i:915708 original size:330 final size:330
Alignment explanation
Indices: 915102--915761 Score: 1070
Period size: 330 Copynumber: 2.0 Consensus size: 330
915092 ATGGTATACA
**
915102 GCATCAGACAACACCTCCAAAGATGCCGCAGTTGAATGGCTTAGCTGAGAGGATGAATAGAACTT
1 GCATCAGACAACACCTCCAAAGACACCGCAGTTGAATGGCTTAGCTGAGAGGATGAATAGAACTT
* * *
915167 TTATGGAGAGAGTTAGATGTTTACTCTCACATACAAAGTTGCCAAAGACGTTTTGGGGTGAGGCT
66 TGATGGAGAGAGTTAGATGTTTACTCTCACATACAAAGTTGCCAAAGACATTTTAGGGTGAGGCT
* * *
915232 ATACTGGCAGTTATTTATGTGTTAAACCTTTCACCATGTGTCCCTTTACAATTTGATACTCCTAA
131 ATACTAGCAGTTATTCATGTGTTAAACCTTTCACCATGTGTCCCTCTACAATTTGATACTCCTAA
915297 GAAAGTATGGTCAGGAAATGATATTTCTTATAATCATCTGCGAGTGCTTGGTTGTAAAGCTTTTG
196 GAAAGTATGGTCAGGAAATGATATTTCTTATAATCATCTGCGAGTGCTTGGTTGTAAAGCTTTTG
* * **
915362 TGCATATTCCGAAGGATGAGAGGTCAAAGCTTGATGTTAAGACATGGCAATATATGTTCATTGGT
261 TGCATATTCCGAAGGATGAGAAGTCAAAGCTTGATGTCAAGACACAGCAATATATGTTCATTGGT
915427 TATGG
326 TATGG
**
915432 GCATCAGACAACACCAT-CAAAGACATTGCAGTTGAATGGCTTAGCTGAGAGGATGAATAGAACT
1 GCATCAGACAACACC-TCCAAAGACACCGCAGTTGAATGGCTTAGCTGAGAGGATGAATAGAACT
* *
915496 TTGATGGAGAGAGTTAGATGTTTACTTTCACATGCAAAGTTGCCAAAGACATTTTAGGGTGAGGC
65 TTGATGGAGAGAGTTAGATGTTTACTCTCACATACAAAGTTGCCAAAGACATTTTAGGGTGAGGC
* * * *
915561 TATACTAGTAGTTGTTCATGTGTTAAACCTTTCACCATGTGTCCGTCTATAATTTGATACTCCTA
130 TATACTAGCAGTTATTCATGTGTTAAACCTTTCACCATGTGTCCCTCTACAATTTGATACTCCTA
* *
915626 AGAAAGTATGGTCAGGAAATGATGTTTCTTATAATCATCTGCGAGTGTTTGGTTGTAAAGCTTTT
195 AGAAAGTATGGTCAGGAAATGATATTTCTTATAATCATCTGCGAGTGCTTGGTTGTAAAGCTTTT
* * * *
915691 GTGCATTTTCTGAAGGATGAGAAGTCAAAGCTTGATGTCAAGACACAGCAATGTGTGTTCATTGG
260 GTGCATATTCCGAAGGATGAGAAGTCAAAGCTTGATGTCAAGACACAGCAATATATGTTCATTGG
915756 TTATGG
325 TTATGG
915762 TCAAGATCAG
Statistics
Matches: 303, Mismatches: 26, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
330 302 1.00
331 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (330 bp):
GCATCAGACAACACCTCCAAAGACACCGCAGTTGAATGGCTTAGCTGAGAGGATGAATAGAACTT
TGATGGAGAGAGTTAGATGTTTACTCTCACATACAAAGTTGCCAAAGACATTTTAGGGTGAGGCT
ATACTAGCAGTTATTCATGTGTTAAACCTTTCACCATGTGTCCCTCTACAATTTGATACTCCTAA
GAAAGTATGGTCAGGAAATGATATTTCTTATAATCATCTGCGAGTGCTTGGTTGTAAAGCTTTTG
TGCATATTCCGAAGGATGAGAAGTCAAAGCTTGATGTCAAGACACAGCAATATATGTTCATTGGT
TATGG
Found at i:926162 original size:27 final size:26
Alignment explanation
Indices: 926123--926250 Score: 130
Period size: 28 Copynumber: 4.7 Consensus size: 26
926113 GTAACATTTT
*
926123 TCTTTTTAAAGTCCACAACCTAATGGCA
1 TCTTTTT-AAGTCCACAACCT-GTGGCA
926151 TCTTTTTAAGTCCACAACTCTGTGGCA
1 TCTTTTTAAGTCCACAAC-CTGTGGCA
*
926178 TCTTTTTAAGTCCACAACTTCGTGGCA
1 TCTTTTTAAGTCCACAACCT-GTGGCA
* * *
926205 TCCTTCTAAAGTCCACAACTCCGTGGCA
1 T-CTTTTTAAGTCCACAAC-CTGTGGCA
* *
926233 TCCTTTTTAGGCCCACAA
1 T-CTTTTTAAGTCCACAA
926251 GTCAGTCTCC
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 41 0.48
28 44 0.51
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (26 bp):
TCTTTTTAAGTCCACAACCTGTGGCA
Found at i:926184 original size:28 final size:28
Alignment explanation
Indices: 926124--926573 Score: 315
Period size: 27 Copynumber: 16.0 Consensus size: 28
926114 TAACATTTTT
*
926124 CTTTTTAAAGTCCACAAC-CTAATGGCAT-
1 CTTTTT-AAGTCCACAACTCT-GTGGCATC
926152 CTTTTTAAGTCCACAACTCTGTGGCAT-
1 CTTTTTAAGTCCACAACTCTGTGGCATC
926179 CTTTTTAAGTCCACAACT-TCGTGGCATC
1 CTTTTTAAGTCCACAACTCT-GTGGCATC
* * *
926207 CTTCTAAAGTCCACAACTCCGTGGCATC
1 CTTTTTAAGTCCACAACTCTGTGGCATC
* *
926235 CTTTTTAGGCCCACAAGTCAGTCTCCGTGGCATC
1 CTTTTTAAGTCCACAA--C--TCT--GTGGCATC
* * * * *
926269 CTTTTTAGGCCCACAAGTCAGTGGCACC
1 CTTTTTAAGTCCACAACTCTGTGGCATC
*** * * * * *
926297 CTTCCAAAGGCCATAAGTCAGTGGCACC
1 CTTTTTAAGTCCACAACTCTGTGGCATC
* ** * *
926325 CTTTTCAAAACCTACAAGTCAGTGGCATC
1 CTTTTTAAGTCC-ACAACTCTGTGGCATC
* * *
926354 CTTTTTAAGCCCACAAGTCAGTGGCATCC
1 CTTTTTAAGTCCACAACTCTGTGGCAT-C
*
926383 CTTTTTAAGCCCACAACTCTGTGGCA-C
1 CTTTTTAAGTCCACAACTCTGTGGCATC
* *
926410 CCTTTAAAGTCCACAACTCTGTGGCA-C
1 CTTTTTAAGTCCACAACTCTGTGGCATC
* * * *
926437 CCTTTAAAGTCCATAACTCCGTGGCA-C
1 CTTTTTAAGTCCACAACTCTGTGGCATC
* ** *
926464 CCTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTTAAGTCCACAACTCTGTGGCATC
* * *
926492 CTTTTAAAGTCCACCACTCCGTGGCA-C
1 CTTTTTAAGTCCACAACTCTGTGGCATC
* * *
926519 CCTTTTAAGTCCACCACTCTATGGCA-C
1 CTTTTTAAGTCCACAACTCTGTGGCATC
* * *
926546 CCTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTTTAAGTCCACAACTCTGTGGCATC
926574 ATTTCAAAGC
Statistics
Matches: 358, Mismatches: 50, Indels: 28
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.00
27 161 0.45
28 119 0.33
29 48 0.13
30 3 0.01
32 2 0.01
34 24 0.07
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.28
Consensus pattern (28 bp):
CTTTTTAAGTCCACAACTCTGTGGCATC
Found at i:926220 original size:55 final size:56
Alignment explanation
Indices: 926123--926610 Score: 318
Period size: 55 Copynumber: 8.7 Consensus size: 56
926113 GTAACATTTT
* * * * *
926123 TCTTTTTAAAGTCCACAACCT-AATGGCA-TCTTTTTAAGTCCACAACTCTGTGGCA
1 TCTTTTT-AAGTCCACAACTTCAGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA
* *
926178 TCTTTTTAAGTCCACAACTTC-GTGGCATCCTTCTAAAGTCCACAACTCCGTGGCA
1 TCTTTTTAAGTCCACAACTTCAGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA
* * * * * * * * *
926233 TCCTTTTTAGGCCCACAAGTCAGTCTCCGTGGCATCCTTTTTAGGCCCACAAGTCAGTGGCA
1 T-CTTTTTAAGTCCACAA--C--T-TCAGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA
* *** * * * * * *
926295 CCCTTCCAAAGGCCATAA-GTCAGTGGCACCCTTTTCAAA-ACCTACAAGTCAGTGGCA
1 -TCTTTTTAAGTCCACAACTTCAGTGGCACCCTTTT-AAAGTCC-ACAACTCCGTGGCA
* * * * *
926352 TCCTTTTTAAGCCCACAA-GTCAGTGGCATCCCTTTTTAAGCCCACAACTCTGTGGCA
1 T-CTTTTTAAGTCCACAACTTCAGTGGCA-CCCTTTTAAAGTCCACAACTCCGTGGCA
* * * * *
926409 CCCTTTAAAGTCCACAAC-TCTGTGGCACCC-TTTAAAGTCCATAACTCCGTGGCA
1 TCTTTTTAAGTCCACAACTTCAGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA
* * * *
926463 CCCTTTTAAGTCCACAACTCCA-TGGCACCCTTTTAAAGTCCACCACTCCGTGGCA
1 TCTTTTTAAGTCCACAACTTCAGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA
* * *
926518 CCCTTTTAAGTCCACCAC-TCTA-TGGCACCC-TTTAAAGTCCACAACTCCGTGGCA
1 TCTTTTTAAGTCCACAACTTC-AGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA
** * * * *
926572 TCATTTCAAAGCCCACAAGTT-AGTGGCACCATTTCAAAG
1 TC-TTTTTAAGTCCACAACTTCAGTGGCACCCTTTTAAAG
926611 CTCACAAGTC
Statistics
Matches: 347, Mismatches: 63, Indels: 45
0.76 0.14 0.10
Matches are distributed among these distances:
54 88 0.25
55 100 0.29
56 58 0.17
57 50 0.14
58 10 0.03
60 1 0.00
61 2 0.01
62 38 0.11
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (56 bp):
TCTTTTTAAGTCCACAACTTCAGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA
Found at i:926261 original size:34 final size:34
Alignment explanation
Indices: 926223--926290 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
926213 AAGTCCACAA
926223 CTCCGTGGCATCCTTTTTAGGCCCACAAGTCAGT
1 CTCCGTGGCATCCTTTTTAGGCCCACAAGTCAGT
926257 CTCCGTGGCATCCTTTTTAGGCCCACAAGTCAGT
1 CTCCGTGGCATCCTTTTTAGGCCCACAAGTCAGT
926291 GGCACCCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.18, C:0.32, G:0.21, T:0.29
Consensus pattern (34 bp):
CTCCGTGGCATCCTTTTTAGGCCCACAAGTCAGT
Found at i:926516 original size:82 final size:81
Alignment explanation
Indices: 926346--926589 Score: 272
Period size: 82 Copynumber: 3.0 Consensus size: 81
926336 CTACAAGTCA
* * * * * * *
926346 GTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCATCCCTTTTTAAGCCCACAACTCTGTGGCACC
1 GTGGCA-CCCTTTAAAGTCCACAACTCCGTGGCA-CCC-TTTTAAGTCCACAACTCCGTGGCACC
*
926411 CTTTAAAGTCCACAACTCT
63 CTTTAAAGTCCACAACTCC
* *
926430 GTGGCACCCTTTAAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTT
1 GTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC-T
*
926495 TTAAAGTCCACCACTCC
65 TTAAAGTCCACAACTCC
* * ** * * *
926512 GTGGCACCCTTTTAAGTCCACCACTCTATGGCACCCTTTAAAGTCCACAACTCCGTGGCATCATT
1 GTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTT
*
926577 TCAAAGCCCACAA
66 T-AAAGTCCACAA
926590 GTTAGTGGCA
Statistics
Matches: 136, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
81 27 0.20
82 82 0.60
83 21 0.15
84 6 0.04
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.26
Consensus pattern (81 bp):
GTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTT
TAAAGTCCACAACTCC
Found at i:926588 original size:28 final size:28
Alignment explanation
Indices: 926199--927110 Score: 513
Period size: 28 Copynumber: 31.8 Consensus size: 28
926189 CCACAACTTC
* * *
926199 GTGGCATCC-TTCTAAAGTCCACAACTCC
1 GTGGCATCCTTTC-AAAGCCCACAAGTCA
** *
926227 GTGGCATCCTTTTTAGGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
** *
926255 GTCTCCGTGGCATCCTTTTTAGGCCCACAAGTCA
1 ------GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
926289 GTGGCACCCTTCCAAAGGCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
926317 GTGGCACCCTTTTCAAAACCTACAAGTCA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
**
926346 GTGGCATCCTTTTTAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
** * *
926374 GTGGCATCCCTTTTTAAGCCCACAACTCT
1 GTGGCAT-CCTTTCAAAGCCCACAAGTCA
* * * *
926403 GTGGCACCCTTT-AAAGTCCACAACTCT
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * *
926430 GTGGCACCCTTT-AAAGTCCATAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
926457 GTGGCACCCTTT-TAAGTCCACAACTCCA
1 GTGGCATCCTTTCAAAGCCCACAAGT-CA
* * * * * *
926485 -TGGCACCCTTTTAAAGTCCACCACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * *
926512 GTGGCACCCTTT-TAAGTCCACCACTCTA
1 GTGGCATCCTTTCAAAGCCCACAAGTC-A
* * * *
926540 -TGGCACCCTTT-AAAGTCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
926566 GTGGCATCATTTCAAAGCCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
926594 GTGGCA-CCATTTCAAAGCTCACAAGTCA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
*
926622 GGGGCA-CCATTTCAAAGCCCACAAGTCA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
* * *
926650 GTTGCATCATTTCAAAGCCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
926678 ATGGCA-CCATTTCAAAGCCCACAAGTTA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
*
926706 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
926734 GTGGCATCCTTTCAAAGCCCACAAGTCCA
1 GTGGCATCCTTTCAAAGCCCACAAGT-CA
* **
926763 -TGGCATCATTTCAAAGCCCACAAGTTG
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
926790 GTGGCAACTCATTTCAAAACCCATACAAGTCG
1 GTGGC-A-TCCTTTCAAAGCCC--ACAAGTCA
* *
926822 GTGGCAACTCATTTGAAAGCCCGTACAAGTC-
1 GTGGC-A-TCCTTTCAAAGCCC--ACAAGTCA
* * * *
926853 GACGACAACCTATTTCAAAGCCCACACAAGTCG
1 G-TGGCATCC--TTTCAAAG-CC-CACAAGTCA
* * *
926886 GTGGGAACCCTTTCAAAGCCCATAAGTCA
1 GT-GGCATCCTTTCAAAGCCCACAAGTCA
** * * * *
926915 ACGACATCCTTTTAAAGCCCAAAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
926943 GTGGCATCATTTCAAAACCCATAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
926971 GTGGCA-CCATTTCAAAACCCACAAGTTA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
*
926999 GTGGCATACCCTTTCAAAGCCCACAAGTCG
1 GTGGCAT--CCTTTCAAAGCCCACAAGTCA
* *
927029 GTGGCACCCATTCAAAGCCCACACAAGTCGA
1 GTGGCATCCTTTCAAAG-CC-CACAAGTC-A
** * ** *
927060 CG-GTAAATCTTTTCAAAGCTTACAAGTTA
1 -GTG-GCATCCTTTCAAAGCCCACAAGTCA
*
927089 GTGGCACCCTTTCAAAGCCCAC
1 GTGGCATCCTTTCAAAGCCCAC
927111 GCAAGTTGGT
Statistics
Matches: 723, Mismatches: 119, Indels: 84
0.78 0.13 0.09
Matches are distributed among these distances:
27 121 0.17
28 374 0.52
29 65 0.09
30 52 0.07
31 14 0.02
32 61 0.08
33 7 0.01
34 29 0.04
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (28 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:927085 original size:60 final size:60
Alignment explanation
Indices: 927010--927143 Score: 178
Period size: 60 Copynumber: 2.2 Consensus size: 60
927000 TGGCATACCC
*
927010 TTTCAAAGCCCACAAGTCGGTGGCACCCATTCAAAGCCCACACAAGTCGACGGTAAATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGCCCACACAAGTCGACGGTAAATCT
** * * * * ** *
927070 TTTCAAAGCTTACAAGTTAGTGGCACCCTTTCAAAGCCCACGCAAGTTGGTGGTAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGCCCACACAAGTCGACGGTAAATCT
927130 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
927144 TAAGTTAGTG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (60 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGCCCACACAAGTCGACGGTAAATCT
Found at i:927143 original size:265 final size:264
Alignment explanation
Indices: 926613--927116 Score: 597
Period size: 265 Copynumber: 1.9 Consensus size: 264
926603 TTTCAAAGCT
* ** *
926613 CACAAGTCAGGGGCACCATTTCAAAGCCCACAAGTCAGTTGCATCATTTCAAAGCCCACAAGTTA
1 CACAAGTCAGGGGAACCATTTCAAAGCCCACAAGTCAGACGCATCATTTCAAAGCCCAAAAGTTA
* * *
926678 ATGGCACCATTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCC
66 ATGGCACCATTTCAAAACCCACAAGTTAGTGGCACCATTTCAAAACCCACAAGTCAGTGGCATCC
* * ** *
926743 TTTCAAAGCCCACAAGTCCATGGCATCATTTCAAAGCCCACAAGTTGGTGGCAACTCATTTCAAA
131 TTTCAAAGCCCACAAGTCCATGGCACCATTTCAAAGCCCACAAGTCGACGGCAAATCATTTCAAA
* * **
926808 ACCCATACAAGTCGGTGGCAACTCATTTGAAAGCCCGTACAAGTCGACGACAACCTATTTCAAAG
196 ACCCATACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGACGACAACCTATTTCAAAG
926873 CCCA
261 CCCA
* * * * *
926877 CACAAGTCGGTGGGAACCCTTTCAAAGCCCATAAGTCA-ACGACATCCTTTTAAAGCCCAAAAGT
1 CACAAGTCAG-GGGAACCATTTCAAAGCCCACAAGTCAGACG-CATCATTTCAAAGCCCAAAAGT
* * * *
926941 TAGTGGCATCATTTCAAAACCCATAAGTTAGTGGCACCATTTCAAAACCCACAAGTTAGTGGCAT
64 TAATGGCACCATTTCAAAACCCACAAGTTAGTGGCACCATTTCAAAACCCACAAGTCAGTGGCAT
** * *
927006 ACCCTTTCAAAGCCCACAAGTCGGTGGCACCCA-TTCAAAGCCCACACAAGTCGACGGTAAATCT
129 --CCTTTCAAAGCCCACAAGTCCATGGCA-CCATTTCAAAG-CC-CACAAGTCGACGGCAAATCA
* * * * *
927070 TTTC-AAA-GCTTACAAGTTAGTGGC-AC-CCTTTCAAAGCCCACGCAAGT
189 TTTCAAAACCCATACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGT
927117 TGGTGGTAAC
Statistics
Matches: 199, Mismatches: 34, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
264 10 0.05
265 117 0.59
266 2 0.01
267 45 0.23
268 7 0.04
269 18 0.09
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.22
Consensus pattern (264 bp):
CACAAGTCAGGGGAACCATTTCAAAGCCCACAAGTCAGACGCATCATTTCAAAGCCCAAAAGTTA
ATGGCACCATTTCAAAACCCACAAGTTAGTGGCACCATTTCAAAACCCACAAGTCAGTGGCATCC
TTTCAAAGCCCACAAGTCCATGGCACCATTTCAAAGCCCACAAGTCGACGGCAAATCATTTCAAA
ACCCATACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGACGACAACCTATTTCAAAG
CCCA
Found at i:927149 original size:32 final size:32
Alignment explanation
Indices: 927039--927149 Score: 95
Period size: 32 Copynumber: 3.6 Consensus size: 32
927029 GTGGCACCCA
* ** *
927039 TTCAAAGCCCACACAAGTCGACGGTAAATCTT
1 TTCAAAGCCCACACAAGTTGGTGGTAACTCTT
** * * *
927071 TTCAAAG--CTTACAAGTTAGTGG-CAC-CCT
1 TTCAAAGCCCACACAAGTTGGTGGTAACTCTT
*
927099 TTCAAAGCCCACGCAAGTTGGTGGTAACTCTT
1 TTCAAAGCCCACACAAGTTGGTGGTAACTCTT
*
927131 TTCAAAGCCCACATAAGTT
1 TTCAAAGCCCACACAAGTT
927150 AGTGACACTT
Statistics
Matches: 58, Mismatches: 17, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
28 9 0.16
29 1 0.02
30 20 0.34
31 2 0.03
32 26 0.45
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (32 bp):
TTCAAAGCCCACACAAGTTGGTGGTAACTCTT
Found at i:927879 original size:19 final size:20
Alignment explanation
Indices: 927843--927886 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
927833 CTTCAGTTTT
927843 AAAATTATAGAAATAAAAGA
1 AAAATTATAGAAATAAAAGA
927863 AAAAGTTAT-GAAA-AAAAGA
1 AAAA-TTATAGAAATAAAAGA
927882 AAAAT
1 AAAAT
927887 AAAAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.04
19 10 0.43
20 8 0.35
21 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAATTATAGAAATAAAAGA
Found at i:929541 original size:20 final size:21
Alignment explanation
Indices: 929494--929546 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
929484 GCCAATGACC
929494 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTTTACA
*
929515 AGTATCGATACATT-TGTT-CA
1 TGTATCGATACATTCT-TTACA
929535 TGTATCGATACA
1 TGTATCGATACA
929547 ATGTATCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTTTACA
Found at i:929552 original size:13 final size:13
Alignment explanation
Indices: 929534--929558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
929524 ACATTTGTTC
929534 ATGTATCGATACA
1 ATGTATCGATACA
929547 ATGTATCGATAC
1 ATGTATCGATAC
929559 TGTGCAATCT
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):
ATGTATCGATACA
Found at i:932039 original size:13 final size:13
Alignment explanation
Indices: 932021--932045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
932011 ATAAACCCTT
932021 TGTATCGATACAA
1 TGTATCGATACAA
932034 TGTATCGATACA
1 TGTATCGATACA
932046 GAGAATGCTG
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:938211 original size:13 final size:13
Alignment explanation
Indices: 938193--938218 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
938183 CATTTTGGGA
938193 TGTATCGATACAT
1 TGTATCGATACAT
938206 TGTATCGATACAT
1 TGTATCGATACAT
938219 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:938215 original size:33 final size:32
Alignment explanation
Indices: 938173--938236 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
938163 TACTAGCCAA
*
938173 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
938206 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
938237 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:938324 original size:20 final size:21
Alignment explanation
Indices: 938277--938329 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
938267 GCCAATGACC
938277 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTTTACA
*
938298 AGTATCGATACATT-TGTT-CA
1 TGTATCGATACATTCT-TTACA
938318 TGTATCGATACA
1 TGTATCGATACA
938330 ATGTATTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTTTACA
Found at i:941423 original size:43 final size:43
Alignment explanation
Indices: 941362--941451 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
941352 GGAGAAGATA
*
941362 ATGGCAACTAAGACTTGGTTTCCAACTCA-ATTTCTATTTTGGT
1 ATGGCAACTAAGACTTGGTTTCCAACT-ATAATTCTATTTTGGT
* *
941405 ATGGCAGCTAAGACTTGGTTTCCAAGTATAATTCTATTTTGGT
1 ATGGCAACTAAGACTTGGTTTCCAACTATAATTCTATTTTGGT
941448 -TGGC
1 ATGGC
941452 TAAAATTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (43 bp):
ATGGCAACTAAGACTTGGTTTCCAACTATAATTCTATTTTGGT
Found at i:943049 original size:20 final size:19
Alignment explanation
Indices: 942967--943057 Score: 92
Period size: 20 Copynumber: 4.6 Consensus size: 19
942957 TGCCACTTTC
*
942967 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAATGGA-T
* *
942987 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGGAT
* *
943006 ATGTATCGATACAAAGCAT
1 ATGTATCGATACAATGGAT
*
943025 AATGTATCGATACATCTGGAT
1 -ATGTATCGATACA-ATGGAT
*
943046 ATGTATTGATAC
1 ATGTATCGATAC
943058 TTTCTAGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.27
20 40 0.68
21 3 0.05
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACAATGGAT
Found at i:945255 original size:22 final size:22
Alignment explanation
Indices: 945224--945281 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
945214 TTAGAGAATA
*
945224 AAAAAGAACCTAAAGATCTAAG
1 AAAAACAACCTAAAGATCTAAG
945246 AAAAACAACCTAAAGATCTAAG
1 AAAAACAACCTAAAGATCTAAG
945268 AAAAACAACCTAAA
1 AAAAACAACCTAAA
945282 AAGTACAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.62, C:0.17, G:0.09, T:0.12
Consensus pattern (22 bp):
AAAAACAACCTAAAGATCTAAG
Found at i:945507 original size:13 final size:13
Alignment explanation
Indices: 945489--945515 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
945479 ATAGTAACCC
945489 ATGTATCGATACA
1 ATGTATCGATACA
945502 ATGTATCGATACA
1 ATGTATCGATACA
945515 A
1 A
945516 AGAACATTGT
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:949285 original size:52 final size:52
Alignment explanation
Indices: 949218--949335 Score: 209
Period size: 52 Copynumber: 2.3 Consensus size: 52
949208 AATTTATCTG
*
949218 CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
* *
949270 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
949322 CATGTATCGATACA
1 CATGTATCGATACA
949336 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:949348 original size:52 final size:51
Alignment explanation
Indices: 949215--949355 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
949205 GAAAATTTAT
949215 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* * *
949267 CTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
949319 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
949356 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:949362 original size:13 final size:13
Alignment explanation
Indices: 949344--949368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
949334 CAAAGATCAG
949344 TGTATCGATACAA
1 TGTATCGATACAA
949357 TGTATCGATACA
1 TGTATCGATACA
949369 TGTGAGTAAT
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:949451 original size:13 final size:13
Alignment explanation
Indices: 949433--949457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
949423 CAAAAAAATA
949433 TGTATCGATACAT
1 TGTATCGATACAT
949446 TGTATCGATACA
1 TGTATCGATACA
949458 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:949453 original size:33 final size:33
Alignment explanation
Indices: 949411--949477 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
949401 AGTAGCTTAA
949411 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
949444 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
949477 A
1 A
949478 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:969264 original size:13 final size:13
Alignment explanation
Indices: 969246--969270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
969236 CATTTTATGG
969246 TGTATCGATACAA
1 TGTATCGATACAA
969259 TGTATCGATACA
1 TGTATCGATACA
969271 TACTGTGTGT
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:969286 original size:32 final size:33
Alignment explanation
Indices: 969223--969290 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
969213 CGTTACAAGC
**
969223 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
969256 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
969288 CAA
1 CAA
969291 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:969386 original size:20 final size:20
Alignment explanation
Indices: 969344--969393 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
969334 TGTTTTTCAA
*
969344 GTATCGATACAATGCAACAT
1 GTATCGATACAATGAAACAT
* **
969364 GTATCGATACAATTAAATGT
1 GTATCGATACAATGAAACAT
969384 GTATCGATAC
1 GTATCGATAC
969394 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATGAAACAT
Found at i:971341 original size:21 final size:20
Alignment explanation
Indices: 971312--971354 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
971302 GGCTAGTGTA
* *
971312 GGGGCTGCCCGGTTGTGACCT
1 GGGGCTG-CCAGTCGTGACCT
*
971333 GGGGGTGCCAGTCGTGACCT
1 GGGGCTGCCAGTCGTGACCT
971353 GG
1 GG
971355 TGGGCGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.07, C:0.26, G:0.47, T:0.21
Consensus pattern (20 bp):
GGGGCTGCCAGTCGTGACCT
Found at i:971818 original size:13 final size:13
Alignment explanation
Indices: 971796--971834 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
971786 ATAATCCCCC
* *
971796 TGTATTGATACAG
1 TGTATCGATACAA
971809 TGTATCGATACAA
1 TGTATCGATACAA
*
971822 TGTATCGTTACAA
1 TGTATCGATACAA
971835 AGAATTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Done.