Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 23 of 56
Found at i:4062719 original size:20 final size:22
Alignment explanation
Indices: 4062694--4062743 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
4062684 TAAAATAGAG
4062694 ATATAAAAAAT-T-TAAATATA
1 ATATAAAAAATATATAAATATA
*
4062714 ATATAAAAAATAATATAAATATG
1 ATATAAAAAAT-ATATAAATATA
4062737 ATATAAA
1 ATATAAA
4062744 TATTAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
22 1 0.04
23 14 0.54
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
ATATAAAAAATATATAAATATA
Found at i:4062740 original size:28 final size:29
Alignment explanation
Indices: 4062709--4062773 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
4062699 AAAAATTTAA
4062709 ATAT-AATA-TAAAAAATAATATAAATATG
1 ATATAAATATTAAAAAATAATA-AAATATG
* *
4062737 ATATAAATATTAAAATATATTAAAATAT-
1 ATATAAATATTAAAAAATAATAAAATATG
*
4062765 AAATAAATA
1 ATATAAATA
4062774 AATAATTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.38
29 10 0.31
30 10 0.31
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (29 bp):
ATATAAATATTAAAAAATAATAAAATATG
Found at i:4062742 original size:11 final size:11
Alignment explanation
Indices: 4062694--4062777 Score: 67
Period size: 11 Copynumber: 8.3 Consensus size: 11
4062684 TAAAATAGAG
4062694 ATATAAA-A-A
1 ATATAAATATA
*
4062703 ATTTAAATATA
1 ATATAAATATA
*
4062714 ATATAAAAAATA
1 ATAT-AAATATA
*
4062726 ATATAAATATG
1 ATATAAATATA
4062737 ATATAAATAT-
1 ATATAAATATA
4062747 -TA-AAATATA
1 ATATAAATATA
*
4062756 TTA-AAATATA
1 ATATAAATATA
4062766 A-ATAAATA-A
1 ATATAAATATA
4062775 ATA
1 ATA
4062778 ATTAACGTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
8 6 0.10
9 11 0.18
10 16 0.26
11 19 0.31
12 10 0.16
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (11 bp):
ATATAAATATA
Found at i:4062745 original size:17 final size:18
Alignment explanation
Indices: 4062725--4062769 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
4062715 TATAAAAAAT
4062725 AATATAAATATGATA-T-A
1 AATATAAATAT-ATATTAA
4062742 AATATTAAA-ATATATTAA
1 AATA-TAAATATATATTAA
4062760 AATATAAATA
1 AATATAAATA
4062770 AATAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.12
17 11 0.46
18 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AATATAAATATATATTAA
Found at i:4062904 original size:104 final size:104
Alignment explanation
Indices: 4062716--4062904 Score: 251
Period size: 104 Copynumber: 1.8 Consensus size: 104
4062706 TAAATATAAT
* *
4062716 ATAAAAAATAATATAAATATGATATAAATATTAAAATATATTAAAATATAAATAAATAAATAATT
1 ATAAAAAATAATATAAACATGATATAAATATAAAAATATATTAAAATATAAATAAATAAATAATT
* *
4062781 AACGTATAAAAATATATATAAATTTATTTTATTTTAAAA
66 AACATATAAAAATACATATAAATTTATTTTATTTTAAAA
**
4062820 ATAAAAAATAATATAAACATGATATTTATA-AAAAATAT-TTAAAATATAACAT-AA-AAATAAT
1 ATAAAAAATAATATAAACATGATATAAATATAAAAATATATTAAAATATAA-ATAAATAAATAAT
*
4062881 TTACATATAATATGAATACATATA
65 TAACATATAA-A--AATACATATA
4062905 TATAAAAATA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
101 15 0.20
102 14 0.19
103 9 0.12
104 36 0.49
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (104 bp):
ATAAAAAATAATATAAACATGATATAAATATAAAAATATATTAAAATATAAATAAATAAATAATT
AACATATAAAAATACATATAAATTTATTTTATTTTAAAA
Found at i:4062915 original size:10 final size:10
Alignment explanation
Indices: 4062902--4062965 Score: 69
Period size: 10 Copynumber: 6.5 Consensus size: 10
4062892 ATGAATACAT
4062902 ATATATAAAA
1 ATATATAAAA
4062912 ATATATAAAA
1 ATATATAAAA
* *
4062922 AAATAAAATAA
1 ATATATAA-AA
* *
4062933 AT-TATTAAT
1 ATATATAAAA
4062942 ATATA-AAAA
1 ATATATAAAA
4062951 ATATATAAAA
1 ATATATAAAA
4062961 ATATA
1 ATATA
4062966 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
9 10 0.23
10 30 0.70
11 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
ATATATAAAA
Found at i:4063003 original size:27 final size:25
Alignment explanation
Indices: 4062900--4063002 Score: 71
Period size: 27 Copynumber: 3.8 Consensus size: 25
4062890 ATATGAATAC
*
4062900 ATATATATAAAAATATATAAAAAAATA
1 ATATAAAT-AAAATATATAAAAAAA-A
* * *
4062927 AAATAAATTATTAATATATAAAAAATAT
1 ATATAAA-TA-AAATATATAAAAAA-AA
* * *
4062955 ATAAAAATATAATATTTTAAATAAAAA
1 ATATAAATAAAATA-TATAAA-AAAAA
4062982 ATATAAATACAAATATATAAA
1 ATATAAATA-AAATATATAAA
4063003 TTTTTTTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
26 5 0.08
27 27 0.46
28 26 0.44
29 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (25 bp):
ATATAAATAAAATATATAAAAAAAA
Found at i:4065855 original size:16 final size:16
Alignment explanation
Indices: 4065801--4065865 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 16
4065791 AAAAATTAAA
*
4065801 ATTAAAATATAATTAT
1 ATTAAAATATATTTAT
* ** *
4065817 TTTAAAATATATAAAAA
1 ATTAAAATATAT-TTAT
4065834 ATTAAAATATATTTAT
1 ATTAAAATATATTTAT
*
4065850 ATTAAATACATATTTA
1 ATTAAA-ATATATTTA
4065866 ATATAATCTA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
16 17 0.46
17 20 0.54
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTAAAATATATTTAT
Found at i:4068730 original size:2 final size:2
Alignment explanation
Indices: 4068723--4068748 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4068713 TTTTCTTTTC
4068723 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
4068749 ACTTGTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4077529 original size:30 final size:30
Alignment explanation
Indices: 4077468--4077549 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
4077458 TTAGCATAGG
* * * * *
4077468 TGCTCTTGGCACAACACTCATTAGCACAAA
1 TGCTTTTGGCACAATATTCTTTAACACAAA
*
4077498 TGCTTTTGGCACAATATTCTTTAACATAAA
1 TGCTTTTGGCACAATATTCTTTAACACAAA
*
4077528 TGTTTTTGGCACAACT-TTCTTT
1 TGCTTTTGGCACAA-TATTCTTT
4077550 GGCAGAGGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 43 0.98
31 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (30 bp):
TGCTTTTGGCACAATATTCTTTAACACAAA
Found at i:4077644 original size:30 final size:30
Alignment explanation
Indices: 4077610--4077685 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
4077600 ATAGTATTAC
* *
4077610 TTGGCACAACATTTTTTGGCATAAGTGCTT
1 TTGGCACAACATTCTTTGGCAGAAGTGCTT
** * * * *
4077640 TTGGCATGACCTTCTTTGGTAGAGGTTCTT
1 TTGGCACAACATTCTTTGGCAGAAGTGCTT
4077670 TTGGCACAACATTCTT
1 TTGGCACAACATTCTT
4077686 CGATAGCAGC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (30 bp):
TTGGCACAACATTCTTTGGCAGAAGTGCTT
Found at i:4077694 original size:107 final size:107
Alignment explanation
Indices: 4077503--4077696 Score: 246
Period size: 107 Copynumber: 1.8 Consensus size: 107
4077493 ACAAATGCTT
* * * *
4077503 TTGGCACAATATTCTTTAACATAAATGTTTTTGGCACAACTTTCTTTGGCAGAGGTTTTTTTGGC
1 TTGGCACAACATTCTTTAACATAAATGCTTTTGGCACAACCTTCTTTGGCAGAGGTTCTTTTGGC
* *
4077568 ATAGCACTTTTCGACAGCAGCACTTTTTAGCAATAGTATTAC
66 ACAACACTTTTCGACAGCAGCACTTTTTAGCAATAGTATTAC
* ** * ** *
4077610 TTGGCACAACATTTTTTGGCATAAGTGCTTTTGGCATGACCTTCTTTGGTAGAGGTTCTTTTGGC
1 TTGGCACAACATTCTTTAACATAAATGCTTTTGGCACAACCTTCTTTGGCAGAGGTTCTTTTGGC
*
4077675 ACAACA-TTCTTCGATAGCAGCA
66 ACAACACTT-TTCGACAGCAGCA
4077697 TTTCTTGACA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
106 2 0.03
107 70 0.97
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (107 bp):
TTGGCACAACATTCTTTAACATAAATGCTTTTGGCACAACCTTCTTTGGCAGAGGTTCTTTTGGC
ACAACACTTTTCGACAGCAGCACTTTTTAGCAATAGTATTAC
Found at i:4079221 original size:28 final size:28
Alignment explanation
Indices: 4079181--4079252 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
4079171 GGAATAAAGC
**
4079181 CGGGGTTGGAGTATCCCCTCGGA-AGTAA
1 CGGGGTTGGAGTATCCCCGAGGAGA-TAA
*
4079209 CGGGGTTGGAGTATCCCCGATGAGATAA
1 CGGGGTTGGAGTATCCCCGAGGAGATAA
*
4079237 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
4079253 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAGATAA
Found at i:4079350 original size:53 final size:51
Alignment explanation
Indices: 4079240--4079410 Score: 209
Period size: 51 Copynumber: 3.3 Consensus size: 51
4079230 GAGATAACGA
*
4079240 GGTTGGAGTATCCTCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAG-GAAAAATTGGTA-TTTTGGAAATAAAATCGG
* * * *
4079292 AGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--AGGAAAAATTGGTATTTTGGAAATAAAATCGG
* *** *
4079345 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTAGGAAAAATTGGTATTTTGGAAATAAAATCGG
4079396 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
4079411 TCGGAAATAA
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
51 39 0.38
52 17 0.17
53 34 0.33
54 11 0.11
55 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTAGGAAAAATTGGTATTTTGGAAATAAAATCGG
Found at i:4079456 original size:27 final size:28
Alignment explanation
Indices: 4079393--4079468 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
4079383 GAAATAAAGT
***
4079393 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
4079421 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
4079448 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
4079469 TGTGAAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:4081883 original size:13 final size:13
Alignment explanation
Indices: 4081865--4081891 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4081855 AAAATTTCCA
4081865 AATGTATCGATAC
1 AATGTATCGATAC
4081878 AATGTATCGATAC
1 AATGTATCGATAC
4081891 A
1 A
4081892 CAGAAAAATG
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):
AATGTATCGATAC
Found at i:4081955 original size:19 final size:18
Alignment explanation
Indices: 4081931--4081998 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
4081921 CAGTAGCTAA
4081931 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
4081950 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4081965 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
4081982 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
4081999 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:4081971 original size:13 final size:13
Alignment explanation
Indices: 4081953--4081977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4081943 ACAATACTTA
4081953 TGTATCGATACAT
1 TGTATCGATACAT
4081966 TGTATCGATACA
1 TGTATCGATACA
4081978 AAACTTATGT
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:4081975 original size:32 final size:32
Alignment explanation
Indices: 4081934--4081996 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4081924 TAGCTAATTA
*
4081934 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
4081966 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
4081997 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:4082060 original size:21 final size:22
Alignment explanation
Indices: 4082034--4082090 Score: 91
Period size: 21 Copynumber: 2.7 Consensus size: 22
4082024 GTTGGGACCC
*
4082034 TGTATCGATATATTTC-ACAAA
1 TGTATCGATACATTTCTACAAA
4082055 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTCTACAAA
4082076 TGTATCGATACATTT
1 TGTATCGATACATTT
4082091 GAATAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 3 0.09
21 28 0.85
22 2 0.06
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (22 bp):
TGTATCGATACATTTCTACAAA
Found at i:4086202 original size:19 final size:21
Alignment explanation
Indices: 4086159--4086210 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
4086149 TTCAATAATT
*
4086159 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
*
4086180 TGTATTGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
4086199 TGTATCGATACA
1 TGTATCGATACA
4086211 GTGTATCGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.46
20 4 0.14
21 11 0.39
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:4086281 original size:13 final size:13
Alignment explanation
Indices: 4086263--4086288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4086253 ATTTGTAGAA
4086263 TGTATCGATACAT
1 TGTATCGATACAT
4086276 TGTATCGATACAT
1 TGTATCGATACAT
4086289 CAGTCTTTGT
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:4088725 original size:51 final size:48
Alignment explanation
Indices: 4088665--4088778 Score: 140
Period size: 51 Copynumber: 2.3 Consensus size: 48
4088655 TCATCTCGAT
* * *
4088665 GATACTCCAATCCCGGTTTCATTTCCAAGACATCAATTTTTCTTAATTGGG
1 GATACTCCAATCCCGATTTCATTTCCAAAACATCAATTTTTC---ATCGGG
* *
4088716 GATACTCCAA-CTCCGATTTTATTTCTAAAACATCAATTTTTCATCGGG
1 GATACTCCAATC-CCGATTTCATTTCCAAAACATCAATTTTTCATCGGG
4088764 GATACTCCAATCCCG
1 GATACTCCAATCCCG
4088779 TTATTTTCGA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
48 18 0.32
49 1 0.02
50 1 0.02
51 36 0.64
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (48 bp):
GATACTCCAATCCCGATTTCATTTCCAAAACATCAATTTTTCATCGGG
Found at i:4088859 original size:79 final size:79
Alignment explanation
Indices: 4088713--4089087 Score: 406
Period size: 79 Copynumber: 4.8 Consensus size: 79
4088703 TTTCTTAATT
* ** * *
4088713 GGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTT-T--TCATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
4088775 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * *
4088789 GGGGATACTCTAACCCCGGCTTTATTT-TCAAAATATTAATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGCTTTATTTCT-AAAACATCAATTTCTCATAATCGGGGATACTCCAA
*
4088853 CCCCGTTATTTTTGA
65 CCCCGTTATTTTCGA
* * * * *
4088868 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATTGGGAATACTCCAAT
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
* *
4088933 CCCGTTATTTCCAA
66 CCCGTTATTTTCGA
** ** * *
4088947 GGAAATACTCCAACCCCGATTTTATTTCTAAAACACCAA-TTCTCCATAATCGGGGATACTTCAA
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTCT-CATAATCGGGGATACTCCAA
4089011 CCCCGTTA-TTTC--
65 CCCCGTTATTTTCGA
* * ** * * * *
4089023 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTTTCACAATTGGGGATACTTCAAC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
4089088 TCCGGCCTTA
Statistics
Matches: 250, Mismatches: 42, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
75 1 0.00
76 83 0.33
77 4 0.02
78 6 0.02
79 155 0.62
80 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:4089099 original size:51 final size:51
Alignment explanation
Indices: 4089021--4089189 Score: 275
Period size: 51 Copynumber: 3.3 Consensus size: 51
4089011 CCCCGTTATT
* * * *
4089021 TCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTTTCACAA
1 TCGGGGATACTCCAACTCCGGCCTTATTTCTAAAATATTGATTTCTCACAA
* *
4089072 TTGGGGATACTTCAACTCCGGCCTTATTTCTAAAATATTGATTTCTCACAA
1 TCGGGGATACTCCAACTCCGGCCTTATTTCTAAAATATTGATTTCTCACAA
*
4089123 TCGGGGATACTTCAACTCCGGCCTTATTTCTAAAATATTGATTTCTCACAA
1 TCGGGGATACTCCAACTCCGGCCTTATTTCTAAAATATTGATTTCTCACAA
4089174 TCGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
4089190 CCCGTTACTT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 110 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGGCCTTATTTCTAAAATATTGATTTCTCACAA
Found at i:4089259 original size:79 final size:79
Alignment explanation
Indices: 4089124--4089309 Score: 248
Period size: 79 Copynumber: 2.4 Consensus size: 79
4089114 TTCTCACAAT
* * * *
4089124 CGGGGATACTTCAACTCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAA
1 CGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAA
* *
4089189 CCCCGTTACTTCTGA
66 CCCCATTA-TTCTCA
* * *
4089204 -GGGGATACTCCAACCCCGATTTTATTTCTAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 CGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAA
* *
4089268 CCCTATTATTTTCA
66 CCCCATTATTCTCA
*
4089282 CGGGGATACTCCAATCCCGACTTTATTT
1 CGGGGATACTCCAACCCCGACTTTATTT
4089310 TTGAAACATC
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 4 0.04
79 88 0.96
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAA
CCCCATTATTCTCA
Found at i:4089332 original size:79 final size:79
Alignment explanation
Indices: 4089125--4089350 Score: 242
Period size: 79 Copynumber: 2.9 Consensus size: 79
4089115 TCTCACAATC
* * * * * *
4089125 GGGGATACTTCAACTCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAACATTGATTTCTCATAATCGGGGATACTCCAAC
** *
4089190 CCCGTTACTTCTGA
66 CCTATTACTTCTCA
* * *
4089204 GGGGATACTCCAACCCCGATTTTATTTCTAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAACATTGATTTCTCATAATCGGGGATACTCCAAC
*
4089269 CCTATTA-TTTTCA
66 CCTATTACTTCTCA
* * * * *
4089282 CGGGGATACTCCAATCCCGACTTTATTTTTGAAACATCT-ATTT-TCTATAATCGGGGACACTTC
1 -GGGGATACTCCAACCCCGACTTTATTTCTAAAACAT-TGATTTCTC-ATAATCGGGGATACTCC
4089345 AACCCT
63 AACCCT
4089351 TGTCTTATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 6 0.05
79 118 0.94
80 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGACTTTATTTCTAAAACATTGATTTCTCATAATCGGGGATACTCCAAC
CCTATTACTTCTCA
Found at i:4091496 original size:4 final size:4
Alignment explanation
Indices: 4091487--4091511 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4091477 TATTTTGAGG
4091487 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
4091512 TGTTTTATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:4093673 original size:20 final size:20
Alignment explanation
Indices: 4093645--4093719 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
4093635 TCATACCCTG
4093645 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
4093665 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
4093685 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
4093705 ATGTATCGATACATT
1 ATGTATCGATACATT
4093720 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4093712 original size:40 final size:39
Alignment explanation
Indices: 4093645--4093722 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
4093635 TCATACCCTG
* *
4093645 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
4093685 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
4093723 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:4094657 original size:23 final size:23
Alignment explanation
Indices: 4094630--4094681 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
4094620 AGCCTTTGAC
4094630 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
4094653 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
4094675 CATGCAT
1 CATGCAT
4094682 ATTTAACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:4098007 original size:4 final size:4
Alignment explanation
Indices: 4098000--4098030 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4097990 GATGTTCATT
4098000 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
4098031 TGCTATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:4107790 original size:26 final size:25
Alignment explanation
Indices: 4107755--4107804 Score: 91
Period size: 26 Copynumber: 2.0 Consensus size: 25
4107745 TCCTTTACAC
4107755 CCAAAAAAAAAAACAAAAAAAAAAA
1 CCAAAAAAAAAAACAAAAAAAAAAA
4107780 CCAAAACAAAAAAACAAAAAAAAAA
1 CCAAAA-AAAAAAACAAAAAAAAAA
4107805 GAAAAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (25 bp):
CCAAAAAAAAAAACAAAAAAAAAAA
Found at i:4107811 original size:13 final size:13
Alignment explanation
Indices: 4107757--4107804 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
4107747 CTTTACACCC
4107757 AAAAAAAAAAACA
1 AAAAAAAAAAACA
*
4107770 AAAAAAAAAACCA
1 AAAAAAAAAAACA
*
4107783 AAACAAAAAAACA
1 AAAAAAAAAAACA
4107796 AAAAAAAAA
1 AAAAAAAAA
4107805 GAAAAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACA
Found at i:4107821 original size:1 final size:1
Alignment explanation
Indices: 4107757--4107811 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
4107747 CTTTACACCC
* ** * * *
4107757 AAAAAAAAAAACAAAAAAAAAAACCAAAACAAAAAAACAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4107812 TAGCAAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:4109080 original size:29 final size:29
Alignment explanation
Indices: 4109038--4110603 Score: 2341
Period size: 29 Copynumber: 54.9 Consensus size: 29
4109028 AATGTTCATC
4109038 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
**
4109067 CCTTTCAAAGCCCACAAACCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109096 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109125 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4109153 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4109182 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109211 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109239 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109267 CCTGTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4109296 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109325 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4109354 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4109383 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109411 CCTTTCAAAGCCCACAAGTCAGTGGCACC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109440 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4109468 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4109497 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
4109526 CTTTTTAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4109555 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4109583 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4109612 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109641 CTTTTCAAAGCCCACAA-TCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109669 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109697 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4109725 CCTTTCAAAGCCCACAAGT-AGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4109752 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4109781 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109810 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109838 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109866 CCTGTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4109895 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4109924 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4109953 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4109982 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4110010 CCTTTCAAAGCCCACAAGTCAGTGGCACC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4110039 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4110067 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4110096 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
4110125 CTTTTTAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4110154 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4110182 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4110211 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4110240 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4110269 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4110297 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4110325 CCTTTC-AAG-CCACAAGT-AGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4110350 CC-TTCAGAG-CCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4110376 CCTTTCGAGGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
4110404 CATTGCGAAGCCCACAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4110433 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4110460 CCTTTTAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4110489 -CTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4110516 CCTTTCAAAGCCCACGAGTTAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4110544 TCTTTCAAAGCCCACGCAAGTCAAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTC-AGTGGCACT
* *
4110575 CCTTTTAAAGCCCATGCAAGTCAATGGCA
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCA
4110604 ACCCTTTTCA
Statistics
Matches: 1428, Mismatches: 85, Indels: 47
0.92 0.05 0.03
Matches are distributed among these distances:
24 3 0.00
25 20 0.01
26 18 0.01
27 35 0.02
28 555 0.39
29 761 0.53
30 10 0.01
31 26 0.02
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:4109186 original size:86 final size:86
Alignment explanation
Indices: 4109040--4110615 Score: 2366
Period size: 86 Copynumber: 18.4 Consensus size: 86
4109030 TGTTCATCCC
** *
4109040 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAACCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
4109105 GCCCACAAGTCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
*
4109127 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4109192 CCCACAAATCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACTCT
* *
4109213 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCAC-CCTGTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4109277 CCCACAAGTCAGTGGCACTCC
66 CCCACAAGTCAGTGGCACTCT
* *
4109298 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
*
4109363 GCCCACAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
* *
4109385 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
* *
4109450 CCCACAACTCAGTGGCAC-CC
66 CCCACAAGTCAGTGGCACTCT
* *
4109470 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
*
4109535 GCCCACAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
*
4109557 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
4109622 CCCACAAGTCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACTCT
*
4109643 TTTCAAAGCCCACAA-TCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
* *
4109706 GCCCACAAGTTAGTGGCAC-CC
65 GCCCACAAGTCAGTGGCACTCT
*
4109727 TTTCAAAGCCCACAAGT-AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4109791 CCCACAAATCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACTCT
* *
4109812 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCAC-CCTGTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4109876 CCCACAAGTCAGTGGCACTCC
66 CCCACAAGTCAGTGGCACTCT
* *
4109897 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
*
4109962 GCCCACAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
* *
4109984 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
* *
4110049 CCCACAACTCAGTGGCAC-CC
66 CCCACAAGTCAGTGGCACTCT
* *
4110069 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
*
4110134 GCCCACAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
*
4110156 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
4110221 CCCACAAGTCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACTCT
* *
4110242 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
* *
4110306 GCCCACAAGTTAGTGGCAC-CC
65 GCCCACAAGTCAGTGGCACTCT
* * *
4110327 TTTC-AAG-CCACAAGT-AGTGGCACCC-TTCAGAG-CCACAAGTCAGTGGCAC-CCTTTCGAGG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4110386 CCCACAAGTCAGTGGCAC-CA
66 CCCACAAGTCAGTGGCACTCT
* * * * *
4110406 TTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTTAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
4110470 CCCACAAGTCAGTGGCACTC-
66 CCCACAAGTCAGTGGCACTCT
* * * *
4110490 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTAGTGGCA-TTCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4110554 CCCACGCAAGTCAAGTGGCACCCT
66 CCCA--CAAGTC-AGTGGCACTCT
*
4110578 TTT-AAAGCCCATGCAAGTCAATGGCAACCCTTTTCAAA
1 TTTCAAAGCCCA--CAAGTCAGTGGC-ACCC-TTTCAAA
4110616 TCACCACTGT
Statistics
Matches: 1363, Mismatches: 97, Indels: 54
0.90 0.06 0.04
Matches are distributed among these distances:
79 46 0.03
80 9 0.01
81 8 0.01
82 17 0.01
83 40 0.03
84 152 0.11
85 219 0.16
86 622 0.46
87 226 0.17
88 3 0.00
89 11 0.01
90 3 0.00
91 7 0.01
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (86 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
CCCACAAGTCAGTGGCACTCT
Found at i:4111157 original size:20 final size:20
Alignment explanation
Indices: 4111129--4111203 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
4111119 TCATACCCTG
4111129 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
4111149 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
4111169 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
4111189 ATGTATCGATACATT
1 ATGTATCGATACATT
4111204 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4111196 original size:40 final size:39
Alignment explanation
Indices: 4111129--4111206 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
4111119 TCATACCCTG
* *
4111129 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
4111169 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
4111207 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:4112141 original size:23 final size:23
Alignment explanation
Indices: 4112114--4112165 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
4112104 AGCCTTTGAC
4112114 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
4112137 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
4112159 CATGCAT
1 CATGCAT
4112166 ATTTAACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:4117631 original size:23 final size:21
Alignment explanation
Indices: 4117605--4117678 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 21
4117595 TTATATATCG
4117605 TTATATAAATTTTAATATAATTT
1 TTATA-AAATTTTAAT-TAATTT
*
4117628 TTATAACATATTTTATTTAAATATT
1 TTATAA-A-ATTTTAATT-AAT-TT
* *
4117653 TTATAATATTTTAATTATTTT
1 TTATAAAATTTTAATTAATTT
4117674 TTATA
1 TTATA
4117679 TCATTTCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 7 0.16
22 3 0.07
23 15 0.35
24 10 0.23
25 8 0.19
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATAAAATTTTAATTAATTT
Found at i:4117641 original size:12 final size:11
Alignment explanation
Indices: 4117608--4117665 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 11
4117598 TATATCGTTA
4117608 TATAAAT-TTT
1 TATAAATATTT
*
4117618 AATATAAT-TTT
1 TATA-AATATTT
4117629 TATAACATATTT
1 TATAA-ATATTT
4117641 TATTTAAATATTT
1 TA--TAAATATTT
4117654 TAT-AATATTT
1 TATAAATATTT
4117664 TA
1 TA
4117666 ATTATTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 13 0.32
11 12 0.29
12 5 0.12
13 8 0.20
14 3 0.07
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TATAAATATTT
Found at i:4118705 original size:11 final size:11
Alignment explanation
Indices: 4118682--4118807 Score: 68
Period size: 11 Copynumber: 11.6 Consensus size: 11
4118672 ATGATATAAA
4118682 AAAT-TAATAT
1 AAATATAATAT
*
4118692 AAATATAATTT
1 AAATATAATAT
4118703 AAATAT--TAT
1 AAATATAATAT
*
4118712 AAATATATTA-
1 AAATATAATAT
* *
4118722 AAATTTTATAT
1 AAATATAATAT
4118733 AAA-ATAAATTAT
1 AAATAT-AA-TAT
*
4118745 TAATAT-ATA-
1 AAATATAATAT
*
4118754 AAATTTTAAATAT
1 AAA-TAT-AATAT
*
4118767 AATTATAATAT
1 AAATATAATAT
* *
4118778 AAATTTAATACC
1 AAATATAATA-T
*
4118790 AAATATAAAAT
1 AAATATAATAT
4118801 AAATATA
1 AAATATA
4118808 TAAATAATTA
Statistics
Matches: 86, Mismatches: 18, Indels: 23
0.68 0.14 0.18
Matches are distributed among these distances:
9 10 0.12
10 16 0.19
11 38 0.44
12 18 0.21
13 4 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATATAATAT
Found at i:4118730 original size:19 final size:20
Alignment explanation
Indices: 4118689--4118731 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
4118679 AAAAAATTAA
*
4118689 TATAAATATAATTTAAATAT
1 TATAAATATAATTAAAATAT
*
4118709 TATAAATAT-ATTAAAATTT
1 TATAAATATAATTAAAATAT
4118728 TATA
1 TATA
4118732 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATAAATATAATTAAAATAT
Found at i:4118768 original size:14 final size:16
Alignment explanation
Indices: 4118702--4118768 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
4118692 AAATATAATT
*
4118702 TAAATATTATAAATATA
1 TAAA-ATTATTAATATA
4118719 TTAAAATT-TT-ATATAA
1 -TAAAATTATTAATAT-A
*
4118735 AATAAATTATTAATATA
1 TA-AAATTATTAATATA
4118752 TAAAATT-TTAA-ATA
1 TAAAATTATTAATATA
4118766 TAA
1 TAA
4118769 TTATAATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 6 0.14
15 9 0.21
16 12 0.29
17 7 0.17
18 8 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAATTATTAATATA
Found at i:4119103 original size:12 final size:12
Alignment explanation
Indices: 4119082--4119158 Score: 51
Period size: 12 Copynumber: 6.9 Consensus size: 12
4119072 GATGAAAATG
4119082 AAATTAAATTTA
1 AAATTAAATTTA
*
4119094 AAATTTAATTT-
1 AAATTAAATTTA
*
4119105 AAA-TAATTTTAA
1 AAATTAAATTT-A
*
4119117 AAATTAATTTTA
1 AAATTAAATTTA
4119129 AAA--AAA-TT-
1 AAATTAAATTTA
4119137 AAA-TAAATTTA
1 AAATTAAATTTA
**
4119148 AGTTTAAATTT
1 AAATTAAATTT
4119159 TAATATTTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
8 3 0.06
9 5 0.10
10 9 0.17
11 4 0.08
12 24 0.46
13 7 0.13
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (12 bp):
AAATTAAATTTA
Found at i:4119126 original size:13 final size:13
Alignment explanation
Indices: 4119082--4119132 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
4119072 GATGAAAATG
*
4119082 AAATTAAATTTAA
1 AAATTAATTTTAA
*
4119095 AATTTAA-TTT--
1 AAATTAATTTTAA
4119105 AAA-TAATTTTAA
1 AAATTAATTTTAA
4119117 AAATTAATTTTAA
1 AAATTAATTTTAA
4119130 AAA
1 AAA
4119133 AATTAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
9 3 0.09
10 5 0.16
12 6 0.19
13 18 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATTAATTTTAA
Found at i:4119138 original size:22 final size:22
Alignment explanation
Indices: 4119086--4119139 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
4119076 AAAATGAAAT
* *
4119086 TAAATTTAAAATTTAATTTAAA
1 TAAAATTAAAAATTAATTTAAA
**
4119108 TAATTTTAAAAATTAATTTTAAA
1 TAAAATTAAAAATTAA-TTTAAA
4119131 -AAAATTAAA
1 TAAAATTAAA
4119140 TAAATTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAAATTAATTTAAA
Found at i:4119995 original size:20 final size:19
Alignment explanation
Indices: 4119972--4120013 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
4119962 TATATTTTAT
4119972 TAAAAT-TTAATTATAAAATA
1 TAAAATATTAA-TATAAAA-A
4119992 TAAAATATTAATATAAAAA
1 TAAAATATTAATATAAAAA
4120011 TAA
1 TAA
4120014 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATATTAATATAAAAA
Found at i:4120448 original size:3 final size:3
Alignment explanation
Indices: 4120440--4120490 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
4120430 TCTCTTTTTA
4120440 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4120488 ATT
1 ATT
4120491 TTCGTATCTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4122851 original size:21 final size:21
Alignment explanation
Indices: 4122825--4122880 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
4122815 TTAAAATATA
* * *
4122825 AAATAAAATATGATATTTTAT
1 AAATAAAATATAAAATTTAAT
4122846 AAATAATAATA-AAAATTTAAT
1 AAATAA-AATATAAAATTTAAT
4122867 AAATATAAATATAA
1 AAATA-AAATATAA
4122881 CAAAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 22 0.76
22 7 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATAAAATATAAAATTTAAT
Found at i:4122877 original size:24 final size:25
Alignment explanation
Indices: 4122843--4122897 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 25
4122833 TATGATATTT
*
4122843 TATAAATAATAATAAAAATTTAATA-AA
1 TATAAAT-ATAA-CAAAA-TTAATACAA
4122870 TATAAATATAACAAAATTAATACAA
1 TATAAATATAACAAAATTAATACAA
4122895 TAT
1 TAT
4122898 TTTTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 9 0.35
26 4 0.15
27 7 0.27
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
TATAAATATAACAAAATTAATACAA
Found at i:4130617 original size:291 final size:283
Alignment explanation
Indices: 4130095--4131211 Score: 1349
Period size: 262 Copynumber: 4.0 Consensus size: 283
4130085 AAAACATGCT
* *
4130095 ACATCGTTCATTTGCCAAACTATTAAATAAGGTAAACTAGCTGCAAGAAAGAAAAATAACAATAA
1 ACATCGTTCATTTGCCAAACTATTAAGTGAGGTAAACTAGCTGCAAGAAAGAAAAATAACAATAA
** * * *
4130160 GCATT-ACAAACTACACAGGTAAACAAATTATGACAGCACTAAAACGAATTAGTACTTGACAGTA
66 GCATTAACAAACTATGCAGGTAAACAAATTATGACA-CACTAAAATGAATTAGCACTTGACAGGA
* * * *
4130224 AAACACGTTAAGGATAATTCTGAATCCGACAGGCATCGGATCTTAGGGAGGCTTAAGGAAAATGA
130 AAACACATGAAGGATAATTCTGAATCCGACAGGCATTGGATCTTAGGGAGACTTAAGGAAAATGA
4130289 CGAAAAATGCTTTAAAATTATCTAGATATCAATGTTC-TCTCAACAAACACCCAAAAGCAAAACA
195 CGAAAAATGCTTTAAAATTATCTAGATATCAATGTTCTTC-CAACAAACACCCAAAAGCAAAACA
* *
4130353 TGTTAGAATGTAGGCAGAGAAAGAA
259 TGTTACAATGTATGCAGAGAAAGAA
* * *
4130378 ACATCTTTCATTTGCCAAACCATTATGTGAGGTAAACTAGCTGCCAAGAAAGAAAAATAACAATA
1 ACATCGTTCATTTGCCAAACTATTAAGTGAGGTAAACTAGCTG-CAAGAAAGAAAAATAACAATA
* * * * **
4130443 AGCATTAAGAAATTATTCAGGTAAACAAATTATGATGACACTAAAATGAATTGAATTAGCACTCA
65 AGCATTAACAAACTATGCAGGTAAACAAATTATGA-CACACT--AA--AA-TGAATTAGCACTTG
4130508 ACAGGAAAACACATGAAGGGATAATTCTGAATCCGACAGGCATTGGATCTTAGGGAGACTTAAGG
124 ACAGGAAAACACATGAA-GGATAATTCTGAATCCGACAGGCATTGGATCTTAGGGAGACTTAAGG
* * * * *
4130573 AAAATGATGAAAAATGCTTTAAAATTATATGGATGTCAATGTTCTTCCAACAAACACCCAGAAGC
188 AAAATGACGAAAAATGCTTTAAAATTATCTAGATATCAATGTTCTTCCAACAAACACCCAAAAGC
*
4130638 AAAACATGTTACAATGTATGCAGAGGAAGAA
253 AAAACATGTTACAATGTATGCAGAGAAAGAA
* *
4130669 ACAT--TTCATTTGCTAAAACTATTAAGTGCA-GTAAACTAGCTGCGAAGAAATAAAAATAACAA
1 ACATCGTTCATTTGC-CAAACTATTAAGTG-AGGTAAACTAGCTGC-AAGAAAGAAAAATAACAA
* * * *
4130731 TAAGCACTAAGAAATTATGCAGGTAAACAAATTATGACAAACTAAAATGAATTAGCACTTGACAG
63 TAAGCATTAACAAACTATGCAGGTAAACAAATTATGACACACTAAAATGAATTAGCACTTGACAG
* *
4130796 GAAAACACATGAAGGGATAATTCTGAATCTGACAGGCATTGGATCTTAAGGAGACTTAAGG-AAA
128 GAAAACACATGAA-GGATAATTCTGAATCCGACAGGCATTGGATCTTAGGGAGACTTAAGGAAAA
* * **
4130860 TGATGAAAAATGCTTTAAAATTATCTGGATATTGATGTTCTTCCAACAAACACCCAAAAG-ATAA
192 TGACGAAAAATGCTTTAAAATTATCTAGATATCAATGTTCTTCCAACAAACACCCAAAAGCA-AA
4130924 ACATG---C------T------------
256 ACATGTTACAATGTATGCAGAGAAAGAA
* * * *
4130931 ACATCGTTCATTTGCCAAACAATTAAGTGAGCTAAACTAGCTGCAAGAAAGAATAATAACGATAA
1 ACATCGTTCATTTGCCAAACTATTAAGTGAGGTAAACTAGCTGCAAGAAAGAAAAATAACAATAA
* *
4130996 GCATTAACAAACTATGCAGGTAAACAAATTATGACAACACTAAAATG-ATTAGCACTTGACAAGC
66 GCATTAACAAACTATGCAGGTAAACAAATTATGAC-ACACTAAAATGAATTAGCACTTGACAGGA
** * * * * *
4131060 AAACATGTGAAGGATAATTCTCAATCCAACAGGAATTGGAT-TTTGGGCAGACTTAAGGAATATG
130 AAACACATGAAGGATAATTCTGAATCCGACAGGCATTGGATCTTAGGG-AGACTTAAGGAAAATG
* * *
4131124 ACGAAAAATGCTTTAAAATTATCTAGATAGCGATGTTCTTCCAACAAACACCCAAAAGCAAAATA
194 ACGAAAAATGCTTTAAAATTATCTAGATATCAATGTTCTTCCAACAAACACCCAAAAGCAAAACA
* *
4131189 TGCTACAATGTTTGCAGAGAAAG
259 TGTTACAATGTATGCAGAGAAAG
4131212 GAACGTCATT
Statistics
Matches: 724, Mismatches: 70, Indels: 82
0.83 0.08 0.09
Matches are distributed among these distances:
260 4 0.01
261 36 0.05
262 143 0.20
263 35 0.05
264 9 0.01
265 1 0.00
271 1 0.00
274 1 0.00
280 1 0.00
282 1 0.00
283 103 0.14
284 102 0.14
285 30 0.04
286 1 0.00
287 4 0.01
289 16 0.02
290 99 0.14
291 135 0.19
292 2 0.00
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.24
Consensus pattern (283 bp):
ACATCGTTCATTTGCCAAACTATTAAGTGAGGTAAACTAGCTGCAAGAAAGAAAAATAACAATAA
GCATTAACAAACTATGCAGGTAAACAAATTATGACACACTAAAATGAATTAGCACTTGACAGGAA
AACACATGAAGGATAATTCTGAATCCGACAGGCATTGGATCTTAGGGAGACTTAAGGAAAATGAC
GAAAAATGCTTTAAAATTATCTAGATATCAATGTTCTTCCAACAAACACCCAAAAGCAAAACATG
TTACAATGTATGCAGAGAAAGAA
Found at i:4132551 original size:11 final size:11
Alignment explanation
Indices: 4132532--4132588 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
4132522 ATTTATATAA
4132532 TTTATAATAAAT
1 TTTA-AATAAAT
4132544 TTTAAATAAAT
1 TTTAAATAAAT
4132555 TTTATTAATAAAT
1 TTTA--AATAAAT
* *
4132568 TTTAATTAAAA
1 TTTAAATAAAT
*
4132579 TTAAAATAAA
1 TTTAAATAAA
4132589 AATCGAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
11 24 0.62
12 4 0.10
13 11 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TTTAAATAAAT
Found at i:4132562 original size:14 final size:15
Alignment explanation
Indices: 4132545--4132577 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
4132535 ATAATAAATT
4132545 TTAAATAAATTTT-A
1 TTAAATAAATTTTAA
4132559 TT-AATAAATTTTAA
1 TTAAATAAATTTTAA
4132573 TTAAA
1 TTAAA
4132578 ATTAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.59
14 5 0.29
15 2 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAATAAATTTTAA
Found at i:4132567 original size:24 final size:23
Alignment explanation
Indices: 4132532--4132577 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
4132522 ATTTATATAA
4132532 TTTATAATAAATTTTAAATAAAT
1 TTTATAATAAATTTTAAATAAAT
*
4132555 TTTATTAATAAATTTTAATTAAA
1 TTTA-TAATAAATTTTAAATAAA
4132578 ATTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTATAATAAATTTTAAATAAAT
Found at i:4132586 original size:35 final size:36
Alignment explanation
Indices: 4132521--4132588 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
4132511 TATATGTTTA
* * *
4132521 TATTTATATAATTTATAATAAATTTTAAATAAATTT
1 TATTAATATAATTTATAATAAAATTAAAATAAATTT
4132557 TATTAATA-AATTT-TAATTAAAATTAAAATAAA
1 TATTAATATAATTTATAA-TAAAATTAAAATAAA
4132589 AATCGAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 3 0.11
35 18 0.64
36 7 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (36 bp):
TATTAATATAATTTATAATAAAATTAAAATAAATTT
Found at i:4135517 original size:40 final size:41
Alignment explanation
Indices: 4135473--4135556 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 41
4135463 AAAATATATC
** *
4135473 ATACATAAAAATCAAATATAAATATTTTAAAAAAA-TTAAA
1 ATACATAAAAATCAAATATAAATATTAAAAAAAAAGTCAAA
*
4135513 ATACATAAAAATTAAATATAAATATTAAAAAAAAAGTCAAA
1 ATACATAAAAATCAAATATAAATATTAAAAAAAAAGTCAAA
4135554 ATA
1 ATA
4135557 AAATAATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 32 0.82
41 7 0.18
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (41 bp):
ATACATAAAAATCAAATATAAATATTAAAAAAAAAGTCAAA
Found at i:4139004 original size:11 final size:10
Alignment explanation
Indices: 4138977--4139003 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4138967 TTCTTCCTTT
4138977 AAAAAAAGAA
1 AAAAAAAGAA
4138987 AAAAAAAGAA
1 AAAAAAAGAA
4138997 AAAAAAA
1 AAAAAAA
4139004 ATCTGTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:4140071 original size:5 final size:5
Alignment explanation
Indices: 4140053--4140089 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
4140043 CAATTAAATT
**
4140053 TTAAA TTATT TTAAA TTAAA TTAAA TTAAA TTAAA TT
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TT
4140090 TTAATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (5 bp):
TTAAA
Found at i:4140408 original size:21 final size:19
Alignment explanation
Indices: 4140368--4140413 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
4140358 TATAATAAAG
4140368 TTTCAATTTTTTTAATTAT
1 TTTCAATTTTTTTAATTAT
4140387 TTTCATATTTCTTTT-ATATAT
1 TTTCA-ATTT-TTTTAAT-TAT
4140408 TTTCAA
1 TTTCAA
4140414 CATATATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 7 0.29
21 12 0.50
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTCAATTTTTTTAATTAT
Found at i:4140632 original size:26 final size:25
Alignment explanation
Indices: 4140567--4140637 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 25
4140557 TATTATAAAT
*
4140567 ATTAAATTAATTTAAATTTAAATTAC
1 ATTAAATT-ATTTAAATTTAAATTAA
* * *
4140593 TTTAATTTAATTAAATTTAAATATAA
1 ATTAAATTATTTAAATTTAAAT-TAA
* *
4140619 ATTAAACTATTTAATTTTA
1 ATTAAATTATTTAAATTTA
4140638 TTATCCATCC
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 13 0.37
26 22 0.63
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTAAATTATTTAAATTTAAATTAA
Found at i:4142330 original size:14 final size:15
Alignment explanation
Indices: 4142311--4142340 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4142301 TTTTAAGTAT
4142311 ATTTAA-AAAAATTA
1 ATTTAAGAAAAATTA
4142325 ATTTAAGAAAAATTA
1 ATTTAAGAAAAATTA
4142340 A
1 A
4142341 ATATTTAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATTTAAGAAAAATTA
Found at i:4142769 original size:15 final size:13
Alignment explanation
Indices: 4142735--4142785 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 13
4142725 AAATGATAAT
* *
4142735 ATTCTAATAGCAA
1 ATTCAAATATCAA
4142748 TATTCAAATATGACAA
1 -ATTCAAATAT--CAA
4142764 ATTCAAATATCAA
1 ATTCAAATATCAA
4142777 A-TCAAATAT
1 ATTCAAATAT
4142786 TTTAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 8 0.24
13 4 0.12
14 8 0.24
15 10 0.30
16 3 0.09
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (13 bp):
ATTCAAATATCAA
Found at i:4142783 original size:12 final size:14
Alignment explanation
Indices: 4142749--4142785 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
4142739 TAATAGCAAT
4142749 ATTCAAATATGACAA
1 ATTCAAATAT-ACAA
4142764 ATTCAAATAT-CAA
1 ATTCAAATATACAA
4142777 A-TCAAATAT
1 ATTCAAATAT
4142786 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.36
13 4 0.18
15 10 0.45
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.30
Consensus pattern (14 bp):
ATTCAAATATACAA
Found at i:4145412 original size:21 final size:21
Alignment explanation
Indices: 4145386--4145438 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
4145376 TTAATATTTA
4145386 AATTTTAATTTAATGAAA-AAT
1 AATTTTAATTTAAT-AAATAAT
* *
4145407 AATTTTTTATTTTATAAATAAT
1 AA-TTTTAATTTAATAAATAAT
*
4145429 AATTTAAATT
1 AATTTTAATT
4145439 AAATTGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTTAATTTAATAAATAAT
Found at i:4145418 original size:22 final size:22
Alignment explanation
Indices: 4145388--4145433 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4145378 AATATTTAAA
4145388 TTTTAATTTAATGAAA-AATAAT
1 TTTTAATTTAAT-AAATAATAAT
* *
4145410 TTTTTATTTTATAAATAATAAT
1 TTTTAATTTAATAAATAATAAT
4145432 TT
1 TT
4145434 AAATTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTTAATTTAATAAATAATAAT
Found at i:4146347 original size:15 final size:15
Alignment explanation
Indices: 4146327--4146374 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 15
4146317 TACTAATATT
4146327 TATAATAATATTTAA
1 TATAATAATATTTAA
4146342 TATAATTAATTATTATAA
1 TATAA-TAA-TATT-TAA
*
4146360 TATTAATTATATTTA
1 TA-TAATAATATTTA
4146375 TAATTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 5 0.18
16 5 0.18
17 8 0.29
18 7 0.25
19 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATAATAATATTTAA
Found at i:4149242 original size:20 final size:20
Alignment explanation
Indices: 4149214--4149288 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
4149204 TCATACCCTG
4149214 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
4149234 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
4149254 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
4149274 ATGTATCGATACATT
1 ATGTATCGATACATT
4149289 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4149281 original size:40 final size:39
Alignment explanation
Indices: 4149214--4149291 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
4149204 TCATACCCTG
* *
4149214 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
4149254 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
4149292 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:4150228 original size:23 final size:22
Alignment explanation
Indices: 4150201--4150251 Score: 86
Period size: 21 Copynumber: 2.3 Consensus size: 22
4150191 AGCCTTTGAC
4150201 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTA-TATGTTT
4150224 CATGCA-TTTTTTTATATGTTT
1 CATGCATTTTTTTTATATGTTT
4150245 CATGCAT
1 CATGCAT
4150252 ATTTAACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.48
22 8 0.30
23 6 0.22
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.59
Consensus pattern (22 bp):
CATGCATTTTTTTTATATGTTT
Found at i:4150256 original size:19 final size:21
Alignment explanation
Indices: 4150212--4150256 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4150202 ATGCATTTTT
4150212 TTTATTATGTTTCATGCATT-
1 TTTATTATGTTTCATGCATTA
*
4150232 TTTTTATATGTTTCATGCA-TA
1 TTTAT-TATGTTTCATGCATTA
4150253 TTTA
1 TTTA
4150257 ACATGTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTATTATGTTTCATGCATTA
Found at i:4153578 original size:4 final size:4
Alignment explanation
Indices: 4153571--4153601 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4153561 GATGTTCATT
4153571 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
4153602 TGCTATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:4163382 original size:13 final size:13
Alignment explanation
Indices: 4163329--4163375 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
4163319 CTTTACACCC
4163329 AAAAAAAAAACAA
1 AAAAAAAAAACAA
*
4163342 AAAAAAAAACCAA
1 AAAAAAAAAACAA
*
4163355 AACAAAAAAACAA
1 AAAAAAAAAACAA
4163368 AAAAAAAA
1 AAAAAAAA
4163376 GAAAAAATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:4163392 original size:1 final size:1
Alignment explanation
Indices: 4163329--4163382 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
4163319 CTTTACACCC
* ** * * *
4163329 AAAAAAAAAACAAAAAAAAAAACCAAAACAAAAAAACAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4163383 TAGCAAAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:4164653 original size:29 final size:29
Alignment explanation
Indices: 4164611--4166182 Score: 2384
Period size: 29 Copynumber: 54.9 Consensus size: 29
4164601 AATGTTCATC
4164611 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
**
4164640 CCTTTCAAAGCCCACAAACCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4164669 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4164698 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4164726 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4164755 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4164784 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4164812 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4164840 CCTGTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4164869 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4164898 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4164927 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4164956 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4164984 CCTTTCAAAGCCCACAAGTCAGTGGCACC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165013 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4165041 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4165070 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
4165099 CTTTTTAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4165128 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4165156 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4165185 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4165214 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165243 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165271 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165299 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4165327 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4165356 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165385 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165413 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165441 CCTGTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4165470 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165499 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4165528 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4165557 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165585 CCTTTCAAAGCCCACAAGTCAGTGGCACC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165614 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4165642 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4165671 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
4165700 CTTTTTAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4165729 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4165757 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4165786 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4165815 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165844 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165872 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165900 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4165928 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4165956 CCTTTCGAGGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
4165984 CATTGCGAAGCCCACAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4166013 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4166040 CCTTTTAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
4166069 -CTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
4166096 CCTTTCAAAGCCCACGAGTTAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
4166124 TCTTTCAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
4166154 CCTTTTAAAGCCCATGCAAGTCAATGGCA
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCA
4166183 ACCCTTTTCA
Statistics
Matches: 1437, Mismatches: 89, Indels: 33
0.92 0.06 0.02
Matches are distributed among these distances:
27 1 0.00
28 611 0.43
29 789 0.55
30 36 0.03
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:4164759 original size:86 final size:86
Alignment explanation
Indices: 4164613--4166194 Score: 2409
Period size: 86 Copynumber: 18.4 Consensus size: 86
4164603 TGTTCATCCC
** *
4164613 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAACCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
4164678 GCCCACAAGTCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
*
4164700 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4164765 CCCACAAATCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACTCT
* *
4164786 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCAC-CCTGTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4164850 CCCACAAGTCAGTGGCACTCC
66 CCCACAAGTCAGTGGCACTCT
* *
4164871 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
*
4164936 GCCCACAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
* *
4164958 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
* *
4165023 CCCACAACTCAGTGGCAC-CC
66 CCCACAAGTCAGTGGCACTCT
* *
4165043 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
*
4165108 GCCCACAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
*
4165130 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
4165195 CCCACAAGTCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACTCT
* *
4165216 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
* *
4165280 GCCCACAAGTTAGTGGCAC-CC
65 GCCCACAAGTCAGTGGCACTCT
* *
4165301 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4165366 CCCACAAATCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACTCT
* *
4165387 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCAC-CCTGTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4165451 CCCACAAGTCAGTGGCACTCC
66 CCCACAAGTCAGTGGCACTCT
* *
4165472 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
*
4165537 GCCCACAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
* *
4165559 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
* *
4165624 CCCACAACTCAGTGGCAC-CC
66 CCCACAAGTCAGTGGCACTCT
* *
4165644 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
*
4165709 GCCCACAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
*
4165731 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
4165796 CCCACAAGTCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACTCT
* *
4165817 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
* *
4165881 GCCCACAAGTTAGTGGCAC-CC
65 GCCCACAAGTCAGTGGCACTCT
* * * *
4165902 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAGAGCCCACAAGTCAGTGGCAC-CCTTTCGAGG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4165966 CCCACAAGTCAGTGGCAC-CA
66 CCCACAAGTCAGTGGCACTCT
* * * * *
4165986 TTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTTAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
4166050 CCCACAAGTCAGTGGCACTC-
66 CCCACAAGTCAGTGGCACTCT
* * * *
4166070 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTAGTGGCA-TTCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
4166134 CCCACGCAAGTCAGTGGCACCCT
66 CCCA--CAAGTCAGTGGCACTCT
*
4166157 TTT-AAAGCCCATGCAAGTCAATGGCAACCCTTTTCAAA
1 TTTCAAAGCCCA--CAAGTCAGTGGC-ACCC-TTTCAAA
4166195 TCACCACTGT
Statistics
Matches: 1370, Mismatches: 104, Indels: 39
0.91 0.07 0.03
Matches are distributed among these distances:
84 210 0.15
85 234 0.17
86 666 0.49
87 239 0.17
88 11 0.01
89 3 0.00
90 7 0.01
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (86 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
CCCACAAGTCAGTGGCACTCT
Found at i:4165695 original size:601 final size:601
Alignment explanation
Indices: 4164613--4166194 Score: 2789
Period size: 601 Copynumber: 2.6 Consensus size: 601
4164603 TGTTCATCCC
* * ** *
4164613 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAACCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * *
4164678 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
65 GCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAA
4164743 GTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTG
129 GTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTG
4164808 GCACCCTTTCAAAGCCCACAACTCAGTGGCACCCTGTCAAAGCCCACAAGTCAGTGGCACTCCTT
194 GCACCCTTTCAAAGCCCACAACTCAGTGGCACCCTGTCAAAGCCCACAAGTCAGTGGCACTCCTT
4164873 TCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
259 TCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
4164938 CCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGT
324 CCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGT
4165003 CAGTGGCACCCCTTTCAAAGCCCACAACTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
389 CAGTGGCACCCCTTTCAAAGCCCACAACTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
4165068 CTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACAAATCAGTGGCACTCTTTT
454 CTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACAAATCAGTGGCACTCTTTT
4165133 CAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCC
519 CAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCC
4165198 ACAAGTCAGTGGCACTCT
584 ACAAGTCAGTGGCACTCT
4165216 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
4165281 CCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGT
66 CCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGT
4165346 CAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC
131 CAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC
4165411 ACCCTTTCAAAGCCCACAACTCAGTGGCACCCTGTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
196 ACCCTTTCAAAGCCCACAACTCAGTGGCACCCTGTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
4165476 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCC
261 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCC
4165541 ACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCA
326 ACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCA
4165606 GTGGCACCCCTTTCAAAGCCCACAACTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
391 GTGGCACCCCTTTCAAAGCCCACAACTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
4165671 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACAAATCAGTGGCACTCTTTTCA
456 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACAAATCAGTGGCACTCTTTTCA
4165736 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
521 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
4165801 AAGTCAGTGGCACTCT
586 AAGTCAGTGGCACTCT
4165817 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
4165882 CCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAGAGCCCACAAGT
66 CCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGT
* * * * * * * *
4165947 CAGTGGCAC-CCTTTCGAGGCCCACAAGTCAGTGGCAC-CATTGCGAAGCCCACAATTCAGTGGC
131 CAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC
* * * *
4166010 ACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACT-CTTTC
196 ACCCTTTCAAAGCCCACAACTCAGTGGCACCCTGTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
* * * *
4166074 AAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGAGTTAGTGGCATTC-TTTCAAAGCCC
261 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCC
* * * *
4166137 ACGCAAGTCAGTGGCACCCTTTT-AAAGCCCATGCAAGTCAATGGCAACCCTTTTCAAA
326 A--CAAATCAGTGGCACTCTTTTCAAAGCCCA--CAAGTTAGTGGC-ACCC-TTTCAAA
4166195 TCACCACTGT
Statistics
Matches: 944, Mismatches: 29, Indels: 14
0.96 0.03 0.01
Matches are distributed among these distances:
596 12 0.01
597 35 0.04
598 44 0.05
599 87 0.09
600 28 0.03
601 661 0.70
602 26 0.03
603 51 0.05
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (601 bp):
TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGT
CAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC
ACCCTTTCAAAGCCCACAACTCAGTGGCACCCTGTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCC
ACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCA
GTGGCACCCCTTTCAAAGCCCACAACTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACAAATCAGTGGCACTCTTTTCA
AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
AAGTCAGTGGCACTCT
Found at i:4166736 original size:20 final size:20
Alignment explanation
Indices: 4166708--4166782 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
4166698 TCATACCCTG
4166708 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
4166728 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
4166748 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
4166768 ATGTATCGATACATT
1 ATGTATCGATACATT
4166783 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4166775 original size:40 final size:39
Alignment explanation
Indices: 4166708--4166785 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
4166698 TCATACCCTG
* *
4166708 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
4166748 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
4166786 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:4167720 original size:23 final size:23
Alignment explanation
Indices: 4167693--4167744 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
4167683 AGCCTTTGAC
4167693 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
4167716 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
4167738 CATGCAT
1 CATGCAT
4167745 ATTTAACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:4178396 original size:8 final size:8
Alignment explanation
Indices: 4178378--4178433 Score: 71
Period size: 8 Copynumber: 7.0 Consensus size: 8
4178368 CATTCTTTTT
4178378 CAAAAAGAA
1 CAAAAA-AA
4178387 CAAAAAAA
1 CAAAAAAA
4178395 C-AAAAAA
1 CAAAAAAA
4178402 CAAAAAAA
1 CAAAAAAA
4178410 CAAAAAAA
1 CAAAAAAA
*
4178418 -AACAAAA
1 CAAAAAAA
4178425 CAAAGAAAA
1 CAAA-AAAA
4178434 AGAGAGAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 13 0.31
8 19 0.45
9 10 0.24
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:4178401 original size:7 final size:7
Alignment explanation
Indices: 4178389--4178428 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
4178379 AAAAAGAACA
4178389 AAAAAAC
1 AAAAAAC
4178396 AAAAAAC
1 AAAAAAC
4178403 AAAAAAAC
1 -AAAAAAC
*
4178411 AAAAAAA
1 AAAAAAC
4178418 AACAAAAC
1 AA-AAAAC
4178426 AAA
1 AAA
4178429 GAAAAAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:4178405 original size:15 final size:15
Alignment explanation
Indices: 4178380--4178428 Score: 73
Period size: 15 Copynumber: 3.2 Consensus size: 15
4178370 TTCTTTTTCA
4178380 AAAAGAACAAAAAAAC
1 AAAA-AACAAAAAAAC
4178396 AAAAAACAAAAAAAC
1 AAAAAACAAAAAAAC
4178411 AAAAAA-AAACAAAAC
1 AAAAAACAAA-AAAAC
4178426 AAA
1 AAA
4178429 GAAAAAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.09
15 25 0.78
16 4 0.12
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAAAC
Found at i:4178411 original size:23 final size:23
Alignment explanation
Indices: 4178378--4178433 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 23
4178368 CATTCTTTTT
4178378 CAAAAAGAACAAAAAAACAA-AAAA
1 CAAAAA-AACAAAAAAA-AACAAAA
4178402 CAAAAAAACAAAAAAAAACAAAA
1 CAAAAAAACAAAAAAAAACAAAA
4178425 CAAAGAAAA
1 CAAA-AAAA
4178434 AGAGAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.07
23 18 0.60
24 10 0.33
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (23 bp):
CAAAAAAACAAAAAAAAACAAAA
Found at i:4178433 original size:18 final size:18
Alignment explanation
Indices: 4178379--4178434 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 18
4178369 ATTCTTTTTC
*
4178379 AAAAAGAACAAAAAAAC-
1 AAAAAAAACAAAAAAACA
4178396 --AAAAAACAAAAAAACA
1 AAAAAAAACAAAAAAACA
*
4178412 AAAAAAAACAAAACAAAGA
1 AAAAAAAACAAAA-AAACA
4178431 AAAA
1 AAAA
4178435 GAGAGAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 14 0.42
18 11 0.33
19 8 0.24
ACGTcount: A:0.86, C:0.11, G:0.04, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAAAAAACA
Found at i:4179571 original size:55 final size:55
Alignment explanation
Indices: 4179501--4180092 Score: 602
Period size: 55 Copynumber: 10.3 Consensus size: 55
4179491 TTCACCCTTT
* *
4179501 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCACATTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * * ** *
4179556 AGTCTTCAAAGAGCAGGATGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
*
4179611 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-
1 AGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
4179670 AGTCCTCAAAGAGCAAGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * *
4179731 AGTCCTCAAAAAGCATGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
4179786 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGTCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-C
*
4179841 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCACTTTT-C
* * * *
4179902 AATCTTCAAAGAGCATGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
4179956 TAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGAAC-CTTC
1 -AGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
4180017 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTC
1 AGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACTTTTC
4180077 TAGTCCTCAAAGAGCA
1 -AGTCCTCAAAGAGCA
4180093 AGACACTCTC
Statistics
Matches: 466, Mismatches: 37, Indels: 62
0.82 0.07 0.11
Matches are distributed among these distances:
54 7 0.02
55 219 0.47
56 5 0.01
59 19 0.04
60 99 0.21
61 112 0.24
64 3 0.01
65 2 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:4179728 original size:27 final size:27
Alignment explanation
Indices: 4179698--4179783 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
4179688 CGCTTTCTCC
4179698 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * ** *
4179725 TTTTTCAGTCCTCA-AAAAGCAT-GACGCC
1 TTTTAAAG-CC-CACACAAG-TTGGTGGCA
4179753 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
4179780 TTTT
1 TTTT
4179784 TCAGTCCTCA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 3 0.08
27 19 0.47
28 15 0.38
29 3 0.08
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:4179865 original size:27 final size:27
Alignment explanation
Indices: 4179780--4179865 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
4179770 GTTGGTGGCA
*
4179780 TTTTTCAGTCCTCAAAGAGCAGGATGC
1 TTTTCCAGTCCTCAAAGAGCAGGATGC
* * * * **
4179807 CTTTCAAAGTCCACACA-AGTTGG-TGGC
1 TTTTC-CAGTCCTCAAAGAGCAGGAT-GC
4179834 ATTTTCCAGTCCTCAAAGAGCAGGATGC
1 -TTTTCCAGTCCTCAAAGAGCAGGATGC
4179862 TTTT
1 TTTT
4179866 TCTTTTCAAA
Statistics
Matches: 41, Mismatches: 13, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
26 1 0.02
27 21 0.51
28 18 0.44
29 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (27 bp):
TTTTCCAGTCCTCAAAGAGCAGGATGC
Found at i:4179895 original size:116 final size:116
Alignment explanation
Indices: 4179501--4180092 Score: 694
Period size: 116 Copynumber: 5.1 Consensus size: 116
4179491 TTCACCCTTT
* *
4179501 AGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACATAAGTTGGTGGCACATTTCAGTC
1 AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * ***
4179560 TTCAAAGAGCAGGATGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCC
66 CTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
4179611 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT-AGTC
1 AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * *
4179674 CTCAAAGAGCAAGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTC
66 CTCAAAGAGC-AG--G--AT-GCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * **
4179731 AGTCCTCAAAAAGCATGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCATTTTTCAGTC
1 AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
4179790 CTCAAAGAGCAGGATGCCTTTCAAAGTCCACACAAGTTGGTGGCATTTTCC
66 CTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
4179841 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAAT
1 AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
* * *
4179905 CTTCAAAGAGCATGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCT
65 CCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
4179957 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGAACC-TTCAGTC
1 AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * *
4180021 CTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCT
66 CTCAAAGAGCAGGATGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCC
4180078 AGTCCTCAAAGAGCA
1 AGTCCTCAAAGAGCA
4180093 AGACACTCTC
Statistics
Matches: 421, Mismatches: 34, Indels: 43
0.85 0.07 0.09
Matches are distributed among these distances:
110 71 0.17
111 1 0.00
113 1 0.00
114 13 0.03
115 92 0.22
116 148 0.35
117 2 0.00
119 1 0.00
120 49 0.12
121 43 0.10
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (116 bp):
AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:4179919 original size:171 final size:169
Alignment explanation
Indices: 4179497--4180372 Score: 807
Period size: 171 Copynumber: 5.1 Consensus size: 169
4179487 TCCTTTCACC
* * *
4179497 CTTT-AGTCCTCAAAGAGCAGGACG-----CCTTTCAAAGCCCACATAAGTTGGTGGCACATTT-
1 CTTTCAGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTC
* * * ** *
4179555 CAGTCTTCAAAGAGCAGGATGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTCAA
65 CAGTCCTCAAAGAGCATGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAA
*
4179620 AGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
129 AGAGCAGGATGCCTTTTC----AAAGCCCACACAAGTTGGTGGCA
*
4179665 CCTTT-AGTCCTCAAAGAGCAAGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
1 -CTTTCAGTCCTCAAAGAGCAGGACGCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* * *
4179729 TCAGTCCTCAAAAAGCATGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCA
64 CCAGTCCTCAAAGAGCATGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCA
*
4179794 AAGAGCAGGATGCC-TTTCAAAGTCCACACAAGTTGGTGGCA
128 AAGAGCAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
4179835 TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CTTT-CAGTCCTCAAAGAGCAGGACGCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCATTTT
* * *
4179900 CCAATCTTCAAAGAGCATGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCA
64 CCAGTCCTCAAAGAGCATGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCA
*
4179965 AAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGAA
128 AAGAGCAGGATGC-----CTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
4180012 CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
1 CTTTCAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
* * * * ** * *
4180077 TAGTCCTCAAAGAGCAAGA--CAC---T----CTCTC-C---TT--TCACCTTTTTA-TCCTCAA
65 CAGTCCTCAAAGAGCATGATGC-CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAA
*
4180126 AGAGCAGGATGCCTTTT-AAAGCCCACACAAGCTGGTGGCA
129 AGAGCAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* ** * *
4180166 CCTTCAGTCCTCAAAGAGTTGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGACACTTTT
1 CTTTCAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTT
* * * *
4180231 -CAGTCCTCAAAGGGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAG
64 CCAGTCCTCAAAGAGCATGATGC---C-TTTT--AAAGCCCACACAAGTTGGTGGCA-TTTTCAG
* * * *
4180295 TCCTCAAAGGGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
122 TCCTCAAAGAGCAGGATG-C----CTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
4180348 CTTTTCAGCCCTTAAAGAGTAGGAC
1 C-TTTCAGTCCTCAAAGAGCAGGAC
4180373 ACACTTCCTT
Statistics
Matches: 587, Mismatches: 71, Indels: 84
0.79 0.10 0.11
Matches are distributed among these distances:
154 94 0.16
155 8 0.01
156 1 0.00
158 1 0.00
160 19 0.03
161 1 0.00
162 7 0.01
164 2 0.00
167 1 0.00
168 6 0.01
169 27 0.05
170 33 0.06
171 115 0.20
172 2 0.00
174 10 0.02
175 99 0.17
176 78 0.13
177 37 0.06
181 5 0.01
182 22 0.04
183 19 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (169 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
AGTCCTCAAAGAGCATGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAG
AGCAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:4180209 original size:60 final size:61
Alignment explanation
Indices: 4180137--4180372 Score: 284
Period size: 61 Copynumber: 3.9 Consensus size: 61
4180127 GAGCAGGATG
* *
4180137 CCTTTT-AAAGCCCACACAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGTTGGACGCCTTCT
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCAGTCCTCAAAGAGTAGGACGCCTT-T
* * * * *
4180197 CCTTTT-AAAGCCCACACAAGTTGGTGACACTTTTCAGTCCTCAAAGGGCAGGATG-CTTT
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCAGTCCTCAAAGAGTAGGACGCCTTT
* *
4180256 CTTTTTGCAAAGCCCACACAAGTTGGTGGCAC-CTTCCAGTCCTCAAAGGGTAGGACGCCTTT
1 CCTTTT-CAAAGCCCACACAAGTTGGTGGCACTCTT-CAGTCCTCAAAGAGTAGGACGCCTTT
* * * * *
4180318 TCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCAGCCCTTAAAGAGTAGGAC
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCAGTCCTCAAAGAGTAGGAC
4180373 ACACTTCCTT
Statistics
Matches: 151, Mismatches: 19, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
59 6 0.04
60 33 0.22
61 102 0.68
62 10 0.07
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (61 bp):
CCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCAGTCCTCAAAGAGTAGGACGCCTTT
Found at i:4180275 original size:121 final size:122
Alignment explanation
Indices: 4180143--4180364 Score: 349
Period size: 122 Copynumber: 1.8 Consensus size: 122
4180133 GATGCCTTTT
*
4180143 AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGTTGGACGCCTTCTCCTTTT-AAA
1 AAAGCCCACACAAGCTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCCTT-TCCTTTTCAAA
*
4180206 GCCCACACAAGTTGGTGACACTTTTCAGTCCTCAAAGGGCAGGATGCTTTCTTTTTGC
65 GCCCACACAAGTTGGTGACACTTTTCAGCCCTCAAAGGGCAGGATGCTTTCTTTTTGC
* * *
4180264 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGTAGGACGCCTTTTCTTTTCAAAG
1 AAAGCCCACACAAGCTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCCTTTCCTTTTCAAAG
* * *
4180329 CCCACACGAGTTGGTGGCACTTTTCAGCCCTTAAAG
66 CCCACACAAGTTGGTGACACTTTTCAGCCCTCAAAG
4180365 AGTAGGACAC
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
121 32 0.35
122 59 0.65
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (122 bp):
AAAGCCCACACAAGCTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCCTTTCCTTTTCAAAG
CCCACACAAGTTGGTGACACTTTTCAGCCCTCAAAGGGCAGGATGCTTTCTTTTTGC
Found at i:4180278 original size:215 final size:215
Alignment explanation
Indices: 4179907--4180303 Score: 570
Period size: 215 Copynumber: 1.8 Consensus size: 215
4179897 TTTCCAATCT
* * **
4179907 TCAAAGAGCATGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCA
1 TCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCTAGTCCTCAAAGAGCA
* * *
4179972 GGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGAACCTTCAGTCCTCAAAGAGCAGGACG
66 GGACGCTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGAACCTTCAGTCCTCAAAGAGCAGGACG
* *
4180037 CCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAAGACACTCT
131 CCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGACACTCT
4180102 CTCCTTTCACCTTTTTATCC
196 CTCCTTTCACCTTTTTATCC
* **
4180122 TCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGTT
1 TCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCTAGTCCTCAAAGAGCA
* *
4180186 GGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGT-GACACTTTTCAGTCCTCAAAGGGCAGG
66 GGACG-CTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGA-AC-CTTCAGTCCTCAAAGAGCAGG
* *
4180249 ATG-CTT-TCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
128 ACGCCTTCTCCTTTT--AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
4180304 GGTAGGACGC
Statistics
Matches: 161, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
213 8 0.05
214 41 0.25
215 112 0.70
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (215 bp):
TCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCTAGTCCTCAAAGAGCA
GGACGCTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGAACCTTCAGTCCTCAAAGAGCAGGACG
CCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGACACTCT
CTCCTTTCACCTTTTTATCC
Found at i:4181262 original size:19 final size:21
Alignment explanation
Indices: 4181217--4181266 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
4181207 CAATAATTTG
* *
4181217 TATCGATACATTCAGTAAATG
1 TATCGATACATTAAGTAAATA
4181238 TATCGATACA-TAAGT-AATA
1 TATCGATACATTAAGTAAATA
4181257 TATCGATACA
1 TATCGATACA
4181267 GTGTATCGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 13 0.48
20 4 0.15
21 10 0.37
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (21 bp):
TATCGATACATTAAGTAAATA
Found at i:4181322 original size:21 final size:21
Alignment explanation
Indices: 4181296--4181353 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
4181286 CTGCCAAGGA
4181296 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
4181317 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
4181338 AATGTATCGATACATT
1 AATGTATCGATACATT
4181354 GTATCGATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:4181358 original size:13 final size:13
Alignment explanation
Indices: 4181340--4181365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4181330 ATTTGTAGAA
4181340 TGTATCGATACAT
1 TGTATCGATACAT
4181353 TGTATCGATACAT
1 TGTATCGATACAT
4181366 CGGTCTTTGT
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:4183921 original size:79 final size:79
Alignment explanation
Indices: 4183777--4184154 Score: 378
Period size: 79 Copynumber: 4.8 Consensus size: 79
4183767 TTTCTTAATC
* ** * * *
4183777 AGGA-ATACTCCAACTCCGATTTTATTTCTAAAACATCAATTT-T--TCATCGGGGATACTCCAG
1 AGGAGATACTCCAACCCCGGCTTTATTTCCAAAACATCAATTTCTCATAATCGGGGATACTCCAA
4183838 CCCCGTTATTTTCG
66 CCCCGTTATTTTCG
* * * *
4183852 AGGAGTTACTCTAACCCCGGCTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAA
1 AGGAGATACTCCAACCCCGGCTTTATTTCCAAAACATCAATTTCTCATAATCGGGGATACTCCAA
4183917 CCCCGTTATTTTCG
66 CCCCGTTATTTTCG
* * * * * *
4183931 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATTGGGAATACTCCAA
1 AGGAGATACTCCAACCCCGGCTTTATTTCCAAAACATCAATTTCTCATAATCGGGGATACTCCAA
* *
4183996 TCCCGTTA-TTTCC
66 CCCCGTTATTTTCG
* ** * *
4184009 AAGAGAATACTCCAACCCCGATTTTATTTCTAAAACACCAA-TTCTCCATAATCGGGGATACTCC
1 AGGAG-ATACTCCAACCCCGGCTTTATTTCCAAAACATCAATTTCT-CATAATCGGGGATACTCC
* *
4184073 AACTCTGATTA-TTTC-
64 AACCCCG-TTATTTTCG
* ** * *
4184088 ATCGG-GATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTTC
1 A--GGAGATACTCCAACCCCGGCTTTATTTCCAAAACATCAATTTCTCATAATCGGGGATACTCC
4184152 AAC
64 AAC
4184155 TCTGGCCTTA
Statistics
Matches: 251, Mismatches: 42, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
75 4 0.02
76 30 0.12
77 1 0.00
78 10 0.04
79 193 0.77
80 12 0.05
81 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
AGGAGATACTCCAACCCCGGCTTTATTTCCAAAACATCAATTTCTCATAATCGGGGATACTCCAA
CCCCGTTATTTTCG
Found at i:4184147 original size:51 final size:51
Alignment explanation
Indices: 4184091--4184260 Score: 268
Period size: 51 Copynumber: 3.3 Consensus size: 51
4184081 TTATTTCATC
* *
4184091 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCG
1 GGGATACTCCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCG
* * *
4184142 GGGATACTTCAACTCTGGCCTTATTTCTAAAATATTGATTTCTCACAATCG
1 GGGATACTCCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCG
* * *
4184193 GGGATACTTCAACTCCGGCCTAATTTCTAAAATATTGATTTCTCACAATCG
1 GGGATACTCCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCG
4184244 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
4184261 TTATTTCATC
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 110 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCG
Found at i:4184304 original size:28 final size:27
Alignment explanation
Indices: 4184242--4184314 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
4184232 TTCTCACAAT
* *
4184242 CGGGGATACTCCAACCCCGTTATTTCA
1 CGGGGATACTCTAACCCCGTTACTTCA
4184269 TCGGGGATACTCTAACCCCGTTACTTC-
1 -CGGGGATACTCTAACCCCGTTACTTCA
4184296 CGAGAGGATACTCTAACCC
1 CG-G-GGATACTCTAACCC
4184315 TGGCTTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 38 0.93
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (27 bp):
CGGGGATACTCTAACCCCGTTACTTCA
Found at i:4186083 original size:52 final size:52
Alignment explanation
Indices: 4186027--4186125 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
4186017 AATGTTCTAC
** *
4186027 CGTGCTATTCTTTGGTCATTTTTCATGCTTG-CTTGCTTGTTGGAGCTGCTGT
1 CGTGCTATTCTTTCATCATTGTTCATGCTTGTC-TGCTTGTTGGAGCTGCTGT
* **
4186079 CGTGCTATTGTTTCATTGTTGTTCATGCTTGTCTGCTTGTTGGAGCT
1 CGTGCTATTCTTTCATCATTGTTCATGCTTGTCTGCTTGTTGGAGCT
4186126 ATTGTTGTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
52 39 0.98
53 1 0.03
ACGTcount: A:0.08, C:0.18, G:0.25, T:0.48
Consensus pattern (52 bp):
CGTGCTATTCTTTCATCATTGTTCATGCTTGTCTGCTTGTTGGAGCTGCTGT
Found at i:4186146 original size:61 final size:61
Alignment explanation
Indices: 4186073--4186315 Score: 272
Period size: 61 Copynumber: 4.0 Consensus size: 61
4186063 TTGTTGGAGC
* * * *
4186073 TGCTGTCGTGCTATTGTTTCATTGTTGTTCATGCTTGTCTGCTTGTTGGAGCTATTGTTGT
1 TGCTGTCATGCTATTGTTTCATTATTGTTCATGCTTGCCTGCTTGTTGGAGCTACTGTTGT
* * * **
4186134 TGCTGTCATGCTATTGTTTCATTGTTGTTCGTGCTTGCCTGCTTGTTAGAGCTGTTGTTGT
1 TGCTGTCATGCTATTGTTTCATTATTGTTCATGCTTGCCTGCTTGTTGGAGCTACTGTTGT
* * * *
4186195 TGCTGTCATGCTGTTGTTT-AGTTATTTTTCGTGCTTGCCTGCTTGTTGGAGCTGCTGTTGT
1 TGCTGTCATGCTATTGTTTCA-TTATTGTTCATGCTTGCCTGCTTGTTGGAGCTACTGTTGT
*** * * *** *
4186256 TGCCACCGTGCTGTTGTTTGGCTACTGTTCATGCTTGCCTGCTTGTTGGAGCTACTGTTG
1 TGCTGTCATGCTATTGTTTCATTATTGTTCATGCTTGCCTGCTTGTTGGAGCTACTGTTG
4186316 CCGTGTTGTT
Statistics
Matches: 160, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
60 1 0.01
61 159 0.99
ACGTcount: A:0.08, C:0.18, G:0.27, T:0.47
Consensus pattern (61 bp):
TGCTGTCATGCTATTGTTTCATTATTGTTCATGCTTGCCTGCTTGTTGGAGCTACTGTTGT
Found at i:4186326 original size:55 final size:57
Alignment explanation
Indices: 4186226--4186340 Score: 144
Period size: 61 Copynumber: 2.0 Consensus size: 57
4186216 TTATTTTTCG
* *
4186226 TGCTTGCCTGCTTGTTGGAGCTGCTGTTGTTGCCACCGTGCTGTTGTTTGGCTACTGTTCA
1 TGCTTGCCTGCTTGTTGGAGCTAC--TTGTTG-C-CCGTGCTGTTGGTTGGCTACTGTTCA
* *
4186287 TGCTTGCCTGCTTGTTGGAGCTAC-TGTTG-CCGTGTTGTTGGTTGGCTGCTGTTC
1 TGCTTGCCTGCTTGTTGGAGCTACTTGTTGCCCGTGCTGTTGGTTGGCTACTGTTC
4186341 GTGTTGGAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
55 22 0.44
58 5 0.10
61 23 0.46
ACGTcount: A:0.05, C:0.22, G:0.31, T:0.42
Consensus pattern (57 bp):
TGCTTGCCTGCTTGTTGGAGCTACTTGTTGCCCGTGCTGTTGGTTGGCTACTGTTCA
Found at i:4186573 original size:36 final size:35
Alignment explanation
Indices: 4186533--4186604 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
4186523 TGCTTGCTGG
* * *
4186533 AGTTTCTTGGTCGTGGACTGAAGGTTGCTGGAAGCT
1 AGTTTCTTGATCGTGGACTG-AGGCTGCTAGAAGCT
* * *
4186569 AGTTTTTTTATCGTGGATTGAGGCTGCTAGAAGCT
1 AGTTTCTTGATCGTGGACTGAGGCTGCTAGAAGCT
4186604 A
1 A
4186605 TTTTTTCCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
35 14 0.47
36 16 0.53
ACGTcount: A:0.19, C:0.12, G:0.32, T:0.36
Consensus pattern (35 bp):
AGTTTCTTGATCGTGGACTGAGGCTGCTAGAAGCT
Found at i:4186610 original size:35 final size:36
Alignment explanation
Indices: 4186543--4186610 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
4186533 AGTTTCTTGG
* *
4186543 TCGTGGACTGAAGGTTGCTGGAAGCTAGTTTTTTTA
1 TCGTGGACTGAAGGCTGCTAGAAGCTAGTTTTTTTA
*
4186579 TCGTGGATTG-AGGCTGCTAGAAGCTA-TTTTTT
1 TCGTGGACTGAAGGCTGCTAGAAGCTAGTTTTTT
4186611 CCTTTGATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 6 0.21
35 14 0.48
36 9 0.31
ACGTcount: A:0.19, C:0.12, G:0.29, T:0.40
Consensus pattern (36 bp):
TCGTGGACTGAAGGCTGCTAGAAGCTAGTTTTTTTA
Found at i:4187012 original size:7 final size:7
Alignment explanation
Indices: 4187000--4187075 Score: 55
Period size: 7 Copynumber: 10.4 Consensus size: 7
4186990 TTTCATGATT
4187000 TTTTTTA
1 TTTTTTA
4187007 TTTTTTA
1 TTTTTTA
*
4187014 TTTTTCA
1 TTTTTTA
4187021 TTGTTATTA
1 TT-TT-TTA
4187030 TTTTATTA
1 TTTT-TTA
*
4187038 TTTGATT-
1 TTT-TTTA
*
4187045 TTTATTA
1 TTTTTTA
4187052 TTTTTTA
1 TTTTTTA
* *
4187059 CTTTTAA
1 TTTTTTA
*
4187066 TTTTTGA
1 TTTTTTA
4187073 TTT
1 TTT
4187076 CTACTTACTA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
6 3 0.05
7 37 0.65
8 13 0.23
9 4 0.07
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (7 bp):
TTTTTTA
Found at i:4187049 original size:22 final size:21
Alignment explanation
Indices: 4187001--4187055 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
4186991 TTCATGATTT
4187001 TTTTTATT-TTTTATTTTTCA
1 TTTTTATTATTTTATTTTTCA
* *
4187021 TTGTTATTATTTTATTATTTGA
1 TTTTTATTATTTTATT-TTTCA
4187043 TTTTTATTATTTT
1 TTTTTATTATTTT
4187056 TTACTTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 7 0.23
21 7 0.23
22 16 0.53
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTTATTATTTTATTTTTCA
Found at i:4187601 original size:42 final size:41
Alignment explanation
Indices: 4187551--4188040 Score: 303
Period size: 42 Copynumber: 11.6 Consensus size: 41
4187541 AGATTTTTCC
* *
4187551 GGGTCAAAGTCAACAGGTAGACTTTAGATGAGGCAGTCTCCA
1 GGGTCAAAGTCGACAGGCAGACTTTAGAT-AGGCAGTCTCCA
* * * ** * **
4187593 AGATCAAAG-CTGACAGGTAGACTGAGAGATAGGAAGGTCTTTA
1 GGGTCAAAGTC-GACAGGCAGACT-TTAGATAGGCA-GTCTCCA
* *
4187636 GGGTCAAAGTCGACAAGCAGACTTTAGATGAGGCAGTTTCCA
1 GGGTCAAAGTCGACAGGCAGACTTTAGAT-AGGCAGTCTCCA
* * * *
4187678 GGGTCAAAG-CTGAGAGGTAGAC-TGAGGGATAGGAAAGTCTCCA
1 GGGTCAAAGTC-GACAGGCAGACTTTA--GATAGG-CAGTCTCCA
* * * *
4187721 AGGTCAAAGCCGACAGACACACTTTAGATAAGGCAGTCTCCA
1 GGGTCAAAGTCGACAGGCAGACTTTAGAT-AGGCAGTCTCCA
* * *
4187763 GGGTCAAAGTCGATAGGTAGACTTTAAAATGAGGCAGTCTCCA
1 GGGTCAAAGTCGACAGGCAGACTTT-AGAT-AGGCAGTCTCCA
* * * **
4187806 GGATCAAAGCCGACAGGCAGAC-TAAGGATAGAAAGGTCTCCA
1 GGGTCAAAGTCGACAGGCAGACTTTA-GATAGGCA-GTCTCCA
* *
4187848 AGGTCAAAGTCGACAGGCAGAC-TTAGGGATAGGAAAGTCTCCA
1 GGGTCAAAGTCGACAGGCAGACTTTA--GATAGG-CAGTCTCCA
* * * * *
4187891 AGGTCAAAG-CTGACAAGTAGAC-TAAGGGATAGGAAAGTCTCCA
1 GGGTCAAAGTC-GACAGGCAGACTTTA--GATAGG-CAGTCTCCA
* * * * *
4187934 GGGTCAAAGCCGACAGGCAAAC-TTAGGGTAGGAAAGTCTCTA
1 GGGTCAAAGTCGACAGGCAGACTTTA-GATAGG-CAGTCTCCA
* * *
4187976 GGGTCAAAGCCGACAAGCAGACTTTAGATGAAGCAGTCTCCA
1 GGGTCAAAGTCGACAGGCAGACTTTAGAT-AGGCAGTCTCCA
* *
4188018 AGGTCAAAGTCGACAAGCAGACT
1 GGGTCAAAGTCGACAGGCAGACT
4188041 AAGGGTAGAA
Statistics
Matches: 357, Mismatches: 70, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
41 8 0.02
42 177 0.50
43 165 0.46
44 7 0.02
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.18
Consensus pattern (41 bp):
GGGTCAAAGTCGACAGGCAGACTTTAGATAGGCAGTCTCCA
Found at i:4187696 original size:85 final size:85
Alignment explanation
Indices: 4187551--4188129 Score: 430
Period size: 85 Copynumber: 6.8 Consensus size: 85
4187541 AGATTTTTCC
* * * * *
4187551 GGGTCAAAGTCAACAGGTAGACTTTAGATGAGGCAGTCTCCAAGATCAAAGCTGACAGGTAGACT
1 GGGTCAAAGCCGACAAGCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCTGACAGGTAGACT
* * **
4187616 GAGAGATAGGAAGGTCTTTA
66 TAGAGATAGGAAAGTCTCCA
* * * *
4187636 GGGTCAAAGTCGACAAGCAGACTTTAGATGAGGCAGTTTCCAGGGTCAAAGCTGAGAGGTAGACT
1 GGGTCAAAGCCGACAAGCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCTGACAGGTAGACT
* *
4187701 GAGGGATAGGAAAGTCTCCA
66 TAGAGATAGGAAAGTCTCCA
* * * * *
4187721 AGGTCAAAGCCGAC-AGACACACTTTAGATAAGGCAGTCTCCAGGGTCAAAG-TCGATAGGTAGA
1 GGGTCAAAGCCGACAAG-CAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCT-GACAGGTAGA
* *
4187784 CTTTA-AAATGAGG-CAGTCTCCA
64 C-TTAGAGAT-AGGAAAGTCTCCA
* * * ** *
4187806 GGATCAAAGCCGACAGGCAGAC-TAAGGAT-AGAAAGGTCTCCAAGGTCAAAG-TCGACAGGCAG
1 GGGTCAAAGCCGACAAGCAGACTTTA-GATGAGGCA-GTCTCCAAGGTCAAAGCT-GACAGGTAG
*
4187868 ACTTAGGGATAGGAAAGTCTCCA
63 ACTTAGAGATAGGAAAGTCTCCA
* * * * * * * * *
4187891 AGGTCAAAGCTGACAAGTAGAC-TAAGGGAT-AGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAA
1 GGGTCAAAGCCGACAAGCAGACTTTA--GATGAGG-CAGTCTCCAAGGTCAAAGCTGACAGGTAG
* *
4187954 ACTTAG-GGTAGGAAAGTCTCTA
63 ACTTAGAGATAGGAAAGTCTCCA
* * *
4187976 GGGTCAAAGCCGACAAGCAGACTTTAGATGAAGCAGTCTCCAAGGTCAAAG-TCGACAAGCAGAC
1 GGGTCAAAGCCGACAAGCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCT-GACAGGTAGAC
* * * *
4188040 TAAG-GGTA-GAAAGGTTTCTA
65 TTAGAGATAGGAAA-GTCTCCA
* ** * ** * * *
4188060 GGGTCAAAGCTGACGGGCAGAC-TTAGGGATAAGAAAGTCTCCAAAGTCAAAGCCGACAGGCAGA
1 GGGTCAAAGCCGACAAGCAGACTTTA--GATGAGGCAGTCTCCAAGGTCAAAGCTGACAGGTAGA
4188124 CTTAGA
64 CTTAGA
4188130 ATGAGAAATT
Statistics
Matches: 406, Mismatches: 68, Indels: 39
0.79 0.13 0.08
Matches are distributed among these distances:
83 7 0.02
84 74 0.18
85 280 0.69
86 43 0.11
87 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (85 bp):
GGGTCAAAGCCGACAAGCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCTGACAGGTAGACT
TAGAGATAGGAAAGTCTCCA
Found at i:4187985 original size:170 final size:168
Alignment explanation
Indices: 4187585--4188128 Score: 514
Period size: 170 Copynumber: 3.2 Consensus size: 168
4187575 TAGATGAGGC
* * * * * * *
4187585 AGTCTCCAAGATCAAAGCTGACAGGTAGACTGAGAGATAGGAAGGTCTTTAGGGTCAAAGTCGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAG-GATAGGAAAGTCTCTAGGGTCAAAGCCGAC
* * * * * *
4187650 AAGCAGACTTTAGAT-GAGGCAGTTTCCAGGGTCAAAG-CTGAGAGGTAGACTGAGGGATAGGAA
65 AAGCAGACTTTAGATAGAAG--GTCTCCAAGGTCAAAGTC-GACAGGCAGACTAAGGGATAGGAA
* * *
4187713 AGTCTCCAAGGTCAAAGCCGACAGACACACTTTA--GATAAGG-C
127 AGTCTCCAAGGTCAAAGCTGACAG-CAGAC-TTAGGGAT-AGGAA
* * * * ** * * *
4187755 AGTCTCCAGGGTCAAAGTCGATAGGTAGACTTTAAAATGAGG-CAGTCTCCAGGATCAAAGCCGA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TTAGGAT-AGGAAAGTCTCTAGGGTCAAAGCCGA
* * *
4187819 CAGGCAGAC-TAAGGATAGAAAGGTCTCCAAGGTCAAAGTCGACAGGCAGACTTAGGGATAGGAA
64 CAAGCAGACTTTA-GATAG-AAGGTCTCCAAGGTCAAAGTCGACAGGCAGACTAAGGGATAGGAA
* *
4187883 AGTCTCCAAGGTCAAAGCTGACAAGTAGACTAAGGGATAGGAA
127 AGTCTCCAAGGTCAAAGCTGAC-AGCAGACTTAGGGATAGGAA
* * *
4187926 AGTCTCCAGGGTCAAAGCCGACAGGCAAACTTAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGATAGGAAAGTCTCTAGGGTCAAAGCCGACA
*
4187991 AGCAGACTTTAGAT-GAAGCAGTCTCCAAGGTCAAAGTCGACAAGCAGACTAAGGG-TA-GAAAG
66 AGCAGACTTTAGATAGAAG--GTCTCCAAGGTCAAAGTCGACAGGCAGACTAAGGGATAGGAAA-
* * * * *
4188053 GTTTCTAGGGTCAAAGCTGACGGGCAGACTTAGGGATAAGAA
128 GTCTCCAAGGTCAAAGCTGAC-AGCAGACTTAGGGATAGGAA
*
4188095 AGTCTCCAAAGTCAAAGCCGACAGGCAGACTTAG
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAG
4188129 AATGAGAAAT
Statistics
Matches: 307, Mismatches: 52, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
168 7 0.02
169 75 0.24
170 183 0.60
171 40 0.13
172 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (168 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGATAGGAAAGTCTCTAGGGTCAAAGCCGACA
AGCAGACTTTAGATAGAAGGTCTCCAAGGTCAAAGTCGACAGGCAGACTAAGGGATAGGAAAGTC
TCCAAGGTCAAAGCTGACAGCAGACTTAGGGATAGGAA
Found at i:4188065 original size:42 final size:42
Alignment explanation
Indices: 4187798--4188125 Score: 299
Period size: 42 Copynumber: 7.7 Consensus size: 42
4187788 AAAATGAGGC
* *
4187798 AGTCTCC-AGGATCAAAGCCGACAGGCAGACTAAGGATA-GAA
1 AGTCTCCAAGG-TCAAAGCCGACAAGCAGACTAAGGGTAGGAA
* * *
4187839 AGGTCTCCAAGGTCAAAGTCGACAGGCAGACTTAGGGATAGGAA
1 A-GTCTCCAAGGTCAAAGCCGACAAGCAGACTAAGGG-TAGGAA
* *
4187883 AGTCTCCAAGGTCAAAGCTGACAAGTAGACTAAGGGATAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAAGCAGACTAAGGG-TAGGAA
* * * *
4187926 AGTCTCCAGGGTCAAAGCCGACAGGCAAACTTAGGGTAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAAGCAGACTAAGGGTAGGAA
* * * *
4187968 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTTTA--G-ATGAA
1 AGTCTCCAAGGTCAAAGCCGACAAGCAGAC-TAAGGGTAGGAA
*
4188008 GCAGTCTCCAAGGTCAAAGTCGACAAGCAGACTAAGGGTA-GAA
1 --AGTCTCCAAGGTCAAAGCCGACAAGCAGACTAAGGGTAGGAA
* * * * ** * *
4188051 AGGTTTCTAGGGTCAAAGCTGACGGGCAGACTTAGGGATAAGAA
1 A-GTCTCCAAGGTCAAAGCCGACAAGCAGACTAAGGG-TAGGAA
* *
4188095 AGTCTCCAAAGTCAAAGCCGACAGGCAGACT
1 AGTCTCCAAGGTCAAAGCCGACAAGCAGACT
4188126 TAGAATGAGA
Statistics
Matches: 238, Mismatches: 36, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
40 4 0.02
41 5 0.02
42 115 0.48
43 105 0.44
44 9 0.04
ACGTcount: A:0.36, C:0.20, G:0.29, T:0.16
Consensus pattern (42 bp):
AGTCTCCAAGGTCAAAGCCGACAAGCAGACTAAGGGTAGGAA
Found at i:4188111 original size:43 final size:43
Alignment explanation
Indices: 4187585--4188128 Score: 387
Period size: 43 Copynumber: 12.8 Consensus size: 43
4187575 TAGATGAGGC
* * * * * *
4187585 AGTCTCCAAGATCAAAGCTGACAGGTAGACTGAGAGATAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAAGAA
* ** * * * * **
4187628 GGTCTTTAGGGTCAAAGTCGACAAGCAGACTTTA--GATGAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TTAGGGATAAGAA
* * * * * * *
4187670 AGTTTCCAGGGTCAAAGCTGAGAGGTAGACTGAGGGATAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAAGAA
* * **
4187713 AGTCTCCAAGGTCAAAGCCGACAGACACACTTTA--GATAAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TTAGGGATAAGAA
* * * * ** * **
4187755 AGTCTCCAGGGTCAAAGTCGATAGGTAGACTTTA-AAATGAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TTAGGGATAAGAA
*
4187798 AGTCTCC-AGGATCAAAGCCGACAGGCAGAC-TAAGGAT-AGAA
1 AGTCTCCAAGG-TCAAAGCCGACAGGCAGACTTAGGGATAAGAA
* *
4187839 AGGTCTCCAAGGTCAAAGTCGACAGGCAGACTTAGGGATAGGAA
1 A-GTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAAGAA
* * * * *
4187883 AGTCTCCAAGGTCAAAGCTGACAAGTAGACTAAGGGATAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAAGAA
* * *
4187926 AGTCTCCAGGGTCAAAGCCGACAGGCAAACTTAGGG-TAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAAGAA
* * * *
4187968 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTTTA--GATGAAG-C
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TTAGGGAT-AAGAA
* * *
4188010 AGTCTCCAAGGTCAAAGTCGACAAGCAGACTAAGGG-T-AGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAAGAA
* * * * *
4188051 AGGTTTCTAGGGTCAAAGCTGACGGGCAGACTTAGGGATAAGAA
1 A-GTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAAGAA
*
4188095 AGTCTCCAAAGTCAAAGCCGACAGGCAGACTTAG
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAG
4188129 AATGAGAAAT
Statistics
Matches: 388, Mismatches: 93, Indels: 40
0.74 0.18 0.08
Matches are distributed among these distances:
40 2 0.01
41 11 0.03
42 175 0.45
43 187 0.48
44 13 0.03
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (43 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAAGAA
Found at i:4192646 original size:61 final size:61
Alignment explanation
Indices: 4192551--4192849 Score: 278
Period size: 61 Copynumber: 4.8 Consensus size: 61
4192541 GTTATTTTTT
*
4192551 GTGCTTGCCTGCTTGTTGGAGTTGCTGTTGCTGTTGCTGCTGCCGTGCTGTTGTTTCATTACTGT
1 GTGCTTGCCTGCTTGTTGGA---GC---TGCTGTTGCTGCTGTCGTGCTGTTGTTTCATTACTGT
4192616 TC
60 TC
* * * * *
4192618 GTGCTTGCCTGCTTGTTAGAGCTGCTGTTGCTACTATCGTGCTATTGTTTCATTACTATTC
1 GTGCTTGCCTGCTTGTTGGAGCTGCTGTTGCTGCTGTCGTGCTGTTGTTTCATTACTGTTC
* * * * *
4192679 GTGCTTACCTGCCTGTTGGAGCTGCTGTT-CTTGCTGACGTGCTGTTGTTTC-TTGCTGGTC
1 GTGCTTGCCTGCTTGTTGGAGCTGCTGTTGC-TGCTGTCGTGCTGTTGTTTCATTACTGTTC
* ** * * * * ** **
4192739 CTGCTTGTTTACTTGTTGGAGCTGCTGCTGTTGCTGTCATGCTGTTGTTTGGTTGTTGTTC
1 GTGCTTGCCTGCTTGTTGGAGCTGCTGTTGCTGCTGTCGTGCTGTTGTTTCATTACTGTTC
* * * * *
4192800 GTGCTTGCCTGCTTGTTGGAGCTACTGTTGTTTCTGTTGTGCTATTGTTT
1 GTGCTTGCCTGCTTGTTGGAGCTGCTGTTGCTGCTGTCGTGCTGTTGTTT
4192850 GGGTGTTGTT
Statistics
Matches: 190, Mismatches: 39, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
60 46 0.24
61 123 0.65
64 2 0.01
67 19 0.10
ACGTcount: A:0.07, C:0.20, G:0.28, T:0.46
Consensus pattern (61 bp):
GTGCTTGCCTGCTTGTTGGAGCTGCTGTTGCTGCTGTCGTGCTGTTGTTTCATTACTGTTC
Found at i:4193060 original size:36 final size:35
Alignment explanation
Indices: 4193020--4193088 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
4193010 AGTTTCTTAG
* *
4193020 TCGTGGACTAGAGGTTGCTGGAAGCTAGTTTTTTTA
1 TCGTGGACTAGAGGCTGCTAGAAGCTA-TTTTTTTA
* *
4193056 TCGTGGATTGGAGGCTGCTAGAAGCTATTTTTT
1 TCGTGGACTAGAGGCTGCTAGAAGCTATTTTTT
4193089 CCTTTGAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 6 0.21
36 23 0.79
ACGTcount: A:0.19, C:0.12, G:0.30, T:0.39
Consensus pattern (35 bp):
TCGTGGACTAGAGGCTGCTAGAAGCTATTTTTTTA
Found at i:4193548 original size:22 final size:21
Alignment explanation
Indices: 4193489--4193550 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 21
4193479 TCTTGATTTT
*
4193489 TTTTTATTTTTCATTGTTATTA
1 TTTTTATTTTTAATT-TTATTA
4193511 -TTTTATTATTTGAATTTTATTAA
1 TTTTTATT-TTT-AATTTTATT-A
4193534 TTTTTATTTTTAATTTT
1 TTTTTATTTTTAATTTT
4193551 TGATTTCTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 7 0.20
22 14 0.40
23 7 0.20
24 7 0.20
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.73
Consensus pattern (21 bp):
TTTTTATTTTTAATTTTATTA
Found at i:4196569 original size:28 final size:29
Alignment explanation
Indices: 4196510--4196572 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
4196500 TATTTAACGG
** *
4196510 ATAATATTTTACGAGTTTTTATTTTTTAA
1 ATAATATTTTACGAAATTATATTTTTTAA
4196539 ATAATATTTTAC-AAATTATATTTTATT-A
1 ATAATATTTTACGAAATTATATTTT-TTAA
4196567 ATAATA
1 ATAATA
4196573 ATTCATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (29 bp):
ATAATATTTTACGAAATTATATTTTTTAA
Found at i:4196865 original size:17 final size:18
Alignment explanation
Indices: 4196839--4196876 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
4196829 ATTATTATTA
*
4196839 TTATTGCTTTTGT-CTCT
1 TTATTGCTTTCGTGCTCT
*
4196856 TTATTTCTTTCGTGCTCT
1 TTATTGCTTTCGTGCTCT
4196874 TTA
1 TTA
4196877 CTTAATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.08, C:0.18, G:0.11, T:0.63
Consensus pattern (18 bp):
TTATTGCTTTCGTGCTCT
Found at i:4200498 original size:16 final size:16
Alignment explanation
Indices: 4200439--4200525 Score: 76
Period size: 15 Copynumber: 5.6 Consensus size: 16
4200429 TACAATTAGC
4200439 ACTTTTTGATAAAAAT
1 ACTTTTTGATAAAAAT
* *
4200455 A-TTTTTAAT-ATAAT
1 ACTTTTTGATAAAAAT
*
4200469 --TTAATTTAATAAAAAT
1 ACTT--TTTGATAAAAAT
4200485 ACTTTTTGATAAAAA-
1 ACTTTTTGATAAAAAT
*
4200500 ACTTTTTGACAAAAAT
1 ACTTTTTGATAAAAAT
*
4200516 ACTCTTTGAT
1 ACTTTTTGAT
4200526 TCAAAAAGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
13 2 0.03
14 4 0.07
15 27 0.47
16 23 0.40
18 2 0.03
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.45
Consensus pattern (16 bp):
ACTTTTTGATAAAAAT
Found at i:4200554 original size:15 final size:15
Alignment explanation
Indices: 4200530--4200561 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4200520 TTTGATTCAA
*
4200530 AAAGATTTTTTTGAC
1 AAAGAATTTTTTGAC
4200545 AAAGAATTTTTTGAC
1 AAAGAATTTTTTGAC
4200560 AA
1 AA
4200562 TAACGTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (15 bp):
AAAGAATTTTTTGAC
Found at i:4202849 original size:115 final size:114
Alignment explanation
Indices: 4202631--4202859 Score: 395
Period size: 115 Copynumber: 2.0 Consensus size: 114
4202621 CAATTGTTTG
* *
4202631 GTCTAGATGTTGTTTGGACTTTGCAACCTATGAACCCTCAATCATGAACCATACTCCGTTCATCT
1 GTCTAGATGTTGTTTAGACTTTGCAACCTATGAACCCTCAAACATGAACCATACTCCGTTCATCT
4202696 CATCTATTTATCAAAAAGAAAACATAACGTCTAAATTAAACCACATCCC
66 CATCTATTTATCAAAAAGAAAACATAACGTCTAAATTAAACCACATCCC
* *
4202745 GTCTAGATTTTGTTTTAGACTTTGCAACCTATGAACCCTCAAACATGAACCATACTCGGTTCATC
1 GTCTAGATGTTG-TTTAGACTTTGCAACCTATGAACCCTCAAACATGAACCATACTCCGTTCATC
* *
4202810 TCATCTATTTATCAAAAAGAAAACGTAACGTTTAAATTAAACCACATCCC
65 TCATCTATTTATCAAAAAGAAAACATAACGTCTAAATTAAACCACATCCC
4202860 TCTGCTTTGG
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
114 11 0.10
115 97 0.90
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (114 bp):
GTCTAGATGTTGTTTAGACTTTGCAACCTATGAACCCTCAAACATGAACCATACTCCGTTCATCT
CATCTATTTATCAAAAAGAAAACATAACGTCTAAATTAAACCACATCCC
Done.